FR2807446A1 - LACTOCOCCUS LACTIS GENOMES, POLYPEPTIDES AND USES - Google Patents

Abstract

The invention concerns the genome sequence and nucleotide sequences of <i>Lactococcus lactis</i> IL1403. The invention also concerns polypeptides of said organism, in particular cell envelope polypeptides, polypeptides involved in different metabolism cycles, resistance to phages or stress, or still secreted polypeptides. The invention further concerns the use of said sequences, and different tools for identifying <i>L. lactis </i>or associated species. Finally the invention concerns <i>L. lactis</i> strains modified so as to increase their industrial properties.

Description

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The present invention relates to the genomic sequence and nucleotide sequences encoding polypeptides of Lactococcus lactis IL1403. The polypeptides described in the present invention are, without limitation, cell envelope polypeptides, polypeptides involved in the different cycles of Lactococcus lactis metabolism or in the processes of replication and sensitivity or resistance to phages, or secreted. .

The invention also relates to the use of the genomic sequence and / or of the nucleotide and / or polypeptide sequences described in the present invention for the analysis of the expression of genes, and the identification of homologous genes in species close to Lactococcus lactis.

The invention also relates to various tools which make it possible to identify the presence of Lactococcus lactis or neighboring species in biological samples.

Furthermore, the invention also relates to strains of Lactococcus lactis or of species close to Lactococcus lactis, modified by mutagenesis and / or introduction of specific genes of L. lactis, in order to increase the industrial properties of said strains.

Lactococcus lactis is a low GC%, catalase negative, asporogenic and facultative anaerobic gram positive bacterium. It is a member of the Streptococceae group to which also belongs, among others, bacteria of the genera Enterococcus, Streptococcus, Leuconostoc, Pediococcus. Many strains of these genera are used in the food industry, but also in specialized manufacturing. Lactococcus is one of the best characterized bacteria of this group, both metabolically and genetically. These bacteria produce

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mainly lactate from sugars during food fermentation and are therefore commonly called "lactic acid bacteria". Lactic acid bacteria are generally non-pathogenic and are added as ferments for the production of fermented foods. In particular, L. lactis is used as a ferment for the production of cheese, butter and many other dairy products. Strains of L. lactis are generally able to grow rapidly in milk.

This property is conferred among other things by their ability to use lactose as a source of sugar and milk proteins as a source of amino acids. These genes are carried by plasmids, the loss of which causes a drop in the growth rate of the strains in milk.

The importance of L. lactis for the industry has given rise to numerous studies, in particular during the last 15 years. This has led to the construction of numerous study and genetic modification tools for this bacterium. These studies have also made it possible to accumulate a great deal of knowledge on its genetics and physiology. Most of these studies were conducted on two groups of strains, the best known laboratory representatives of which are strains IL1403 and MG1363. These two strains are genetically representative of the two main subspecies used in industry, L. lactis subsp. lactis and subsp. cremoris.

A study describing the genetic variability within the species L. lactis has been published (Tailliez et al, System. Appl. Microbiol., 21: 530-538,1998). It reveals that industrial strains can be divided into 3 groups. The IL1403 strain (deposited at the CNCM under number 1-2438), the sequence of which is an object of the present invention, belongs to the group of strains most represented.

Numerous studies have been carried out to understand the metabolism and physiology of lactococci with the aim of improving their use in industry and developing new applications. These studies have made it possible, among other things, to develop applications allowing the acceleration of refining, production

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aroma or phage resistance. Biotechnological processes have also been developed making it possible to advantageously produce products such as Lalanine.

Current research therefore seeks to control and improve the performance of lactic acid bacteria in order to optimize food processing, in particular the manufacture of yogurts and cheeses.

For example, the nutty taste of butter, the fresh taste of fromage blanc is provided by diacetyl, a molecule produced by lactic acid bacteria. However, the addition of diacetyl is prohibited in France. It would therefore be advantageous to use strains naturally or artificially overproducing diacetyl to obtain products having a more distinctive taste.

Lactic bacteria secrete enzymes and other proteins which contribute to the organoleptic qualities (texture and aroma) of cheeses. Knowledge of the mechanisms facilitating secretion should make it possible to accelerate the refining or cause bacteria to produce interesting molecules: digestive enzymes, antigens for the manufacture of vaccines, etc.

It is estimated that 10% of cheese production is lost or greatly downgraded due to attack by phages. If we understood the reasons for the resistance of certain bacteria, we could improve the survival of the ferments used by industry.

All the studies carried out on L. lactis led to the publication of 420 sequences in GenBank corresponding to 1317 translated peptides. These sequences are largely redundant in that many genes have been sequenced several times in different strains. In addition, many sequences correspond to plasmid information. It follows that these sequences correspond to approximately 500 chromosomal genes in L. lactis, which represents between a fifth and a quarter of the genome.

A number of approaches have been used to identify genes from L. lactis. A first approach consists in isolating first mutants

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affected in a function, and subsequently to search for DNA fragments that make it possible to restore this function (Renault, P et al. 1989. Product of the Lactococcus lactis gene required for malolactic fermentation is homologous to a family of positive regulators. J. Bacteriol., No. 171: 3108-14). A second approach is to complement mutants of other bacteria such as E. coli or B. subtilis for a gene of known function (Bardowski, J., S. D. Ehrlich, and A.

Chopin. 1992. Tryptophan biosynthesis genes in Lactococcus lactis subsp. lactis.

J. Bacteriol, 174: 6563-70.). A third approach is to search for mutants obtained by inserting transposons or plasmids carrying short homologous sequences, which then makes it possible to characterize the inactivated gene (s) by cloning adjacent fragments (Rallu, F., A. Gruss, and E . Maguin. 1996.

Lactococcus lactis and stress. Antonie Van Leeuwenhoek 70, no. 2-4: 243-51). Genomic approaches also make it possible to define segments of genes which are conserved in different organisms, and to deduce therefrom primers whose use in PCR makes it possible to amplify and isolate a fragment of a gene known elsewhere (Duwat , P., SD Ehrlich, and A. Gruss. 1995. The recA gene of Lactococcus lactis: characterization and involvement in oxidative and thermal stress. Molecular Microbiology 17: 1121-31). Different variants of these techniques exist and can be used advantageously.

The study of Lactococcus lactis requires new approaches, in particular genetic, in order to improve the understanding of the different metabolic pathways of this organism.

Thus, it is an object of the present invention to disclose the complete sequence of the genome of Lactococcus lactis IL1403 as well as of all the genes contained in said genome.

Indeed, knowledge of the genome of this organism makes it possible to better define the interactions between the various genes, the various proteins, and therefore the various metabolic pathways. Indeed, and unlike the disclosure of isolated sequences, the complete genomic sequence of an organism forms a whole, making it possible to immediately obtain all the

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information necessary for this organism to grow and function.

The present invention therefore relates to a nucleotide sequence of Lactococcus lactis characterized in that it corresponds to SEQ ID N 1.

The present invention also relates to a nucleotide sequence of Lactococcus lactis characterized in that it is chosen from: a) a nucleotide sequence comprising at least 80%, 85%, 90%, 95% or 98% identity with SEQ ID N 1; b) a nucleotide sequence hybridizing under high stringency conditions with SEQ ID N 1; c) a nucleotide sequence complementary to SEQ ID
N 1 or complementary to a nucleotide sequence as defined in a), or b), or a nucleotide sequence of the corresponding RNA; d) a nucleotide sequence of fragment representative of SEQ ID N
1, or of a fragment representative of a nucleotide sequence as defined in a), b) or c); e) a nucleotide sequence comprising a sequence as defined in a), b), c) or d); andf) a nucleotide sequence modified from a nucleotide sequence as defined in a), b), c), d) or e).

More particularly, the present invention also relates to the nucleotide sequences characterized in that they are derived from SEQ ID
N 1 and in that they encode a polypeptide chosen from the sequences
SEQ ID N 2 to SEQ ID N 2323.

In addition, the nucleotide sequences characterized in that they comprise a nucleotide sequence chosen from: a) a nucleotide sequence encoding a polypeptide chosen from the sequences SEQ ID N 2 to SEQ ID N 2323; b) a nucleotide sequence comprising at least 80%, 85%, 90%,

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95% or 98% identity with a nucleotide sequence encoding a polypeptide chosen from the sequences SEQ ID N 2 to SEQ
ID N 2323; c) a nucleotide sequence hybridizing under high stringency conditions with a nucleotide sequence encoding a polypetide chosen from the sequences SEQ ID N 2 to SEQ ID N
2323; d) a complementary nucleotide or RNA sequence corresponding to a sequence as defined in a), b) or c); e) a nucleotide sequence of a fragment representative of a sequence as defined in a), b), c) or d); andf) a nucleotide sequence modified from a sequence as defined in a), b), c), d) or e), are also subjects of the invention.

By nucleic acid, nucleic acid or nucleic acid sequence, polynucleotide, oligonucleotide, polynucleotide sequence, nucleotide sequence, terms which will be used interchangeably in the present description, is meant to denote a precise sequence of nucleotides, modified or not, making it possible to define a fragment or a region of a nucleic acid, comprising or not comprising unnatural nucleotides, and which may correspond equally well to a double-stranded DNA, a single-stranded DNA and to transcription products of said DNAs. Thus, the nucleic sequences according to the invention also encompass PNAs (Peptid Nucleic Acids), or the like.

It should be understood that the present invention does not relate to the nucleotide sequences in their natural chromosomal environment, that is to say in the natural state. These are sequences which have been isolated and / or purified, that is to say they have been removed directly or indirectly, for example by copying, their environment having been at least partially modified. It is thus also meant to denote the nucleic acids obtained by chemical synthesis.

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By percentage identity between two sequences of nucleic acids or amino acids within the meaning of the present invention, is meant a percentage of nucleotides or identical amino acid residues between the two sequences to be compared, obtained after the best alignment, this percentage being purely statistical and the differences between the two sequences being distributed at random and over their entire length. The term “best alignment” or “optimal alignment” is intended to denote the alignment for which the percentage identity determined as below is the highest. Sequence comparisons between two nucleic acid or amino acid sequences are traditionally carried out by comparing these sequences after having optimally aligned them, said comparison being carried out by segment or by comparison window to identify and compare the local regions of sequence similarity. Optimal alignment of sequences for comparison can be achieved, in addition to manually, using the local homology algorithm of Smith and Waterman (1981, Ad. App.

Math. 2: using the local homology algorithm of Neddleman and Wunsch (1970, J. Mol. Biol. 48: using the similarity search method of Pearson and Lipman (1988, Proc Natl. Acad. Sci. USA 85: Using computer software using these algorithms (GAP, BESTFIT, BLAST P, BLAST N, FASTA and TFASTA in the Wisconsin Genetics Software Package, Genetics Computer Group, 575 Science Dr., Madison, WI). optimal alignment, the BLAST program is preferably used, with the BLOSUM 62 matrix. The PAM or PAM250 matrices can also be used.

The percentage identity between two nucleic acid or amino acid sequences is determined by comparing these two optimally aligned sequences in which the nucleic acid or amino acid sequence to be compared may include additions or deletions relative to the reference sequence for optimal alignment between these two sequences. Percent identity is calculated by determining the number of identical positions for which the nucleotide or amino acid residue is identical between the two

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sequences, by dividing this number of identical positions by the total number of positions compared and by multiplying the result obtained by 100 to obtain the percentage identity between these two sequences.

By nucleic acid sequences exhibiting a percentage identity of at least 80%, preferably 85% or 90%, more preferably 95% or even 98%, after optimal alignment with a reference sequence, is meant to denote the nucleic acid sequences exhibiting , relative to the reference nucleic acid sequence, certain modifications such as in particular a deletion, a truncation, an extension, a chimeric fusion and / or a substitution, in particular point, and of which the nucleic sequence presents at least 80%, preferably 85 %, 90%, 95% or 98%, identity after optimal alignment with the reference nucleic acid sequence. They are preferably sequences whose complementary sequences are capable of hybridizing specifically with the reference sequences. Preferably, the specific hybridization conditions or of high stringency will be such as to ensure at least 80%, preferably 85%, 90%, 95% or 98% identity after optimal alignment between one of the two sequences. and the sequence complementary to the other.

Hybridization under high stringency conditions means that the temperature and ionic strength conditions are chosen such that they allow hybridization to be maintained between two complementary DNA fragments. By way of illustration, the conditions of high stringency of the hybridization step for the purposes of defining the polynucleotide fragments described above are advantageously the following.

The DNA-DNA or DNA-RNA hybridization is carried out in two steps: (1) prehybridization at 42 C for 3 hours in phosphate buffer (20 mM, pH 7.5) containing 5 x SSC (1 x SSC corresponds to a solution 0.15 M NaCl + 0.015 M sodium citrate), 50% formamide, 7% sodium dodecyl sulfate (SDS), 10 x Denhardt's, 5% dextran sulfate and 1% salmon sperm DNA; (2) actual hybridization for 20 hours at a temperature depending on the

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probe size (ie: 42 C, for a probe size> 100 nucleotides) followed by 2 washes of 20 minutes at 20 C in 2 x SSC + 2% SDS, 1 wash of 20 minutes at 20 C in 0.1 x SSC + 0.1% SDS. The last wash is carried out in 0.1 × SSC + 0.1% SDS for 30 minutes at 60 ° C. for a probe of size> 100 nucleotides.

The high stringency hybridization conditions described above for a polynucleotide of defined size can be adapted by those skilled in the art for oligonucleotides of larger or smaller size, according to the teaching of Sambrook et al., ( 1989, Molecular cloning: laboratory manual. 2nd Ed. Cold Spring Harbor).

Moreover, by representative fragment of sequences according to the invention, is meant any nucleotide fragment having at least 15 nucleotides, preferably at least 30.75, 150,300 and 450 consecutive nucleotides of the sequence from which it is derived.

By representative fragment is meant in particular a nucleic acid sequence encoding a biologically active fragment of a polypeptide, as defined below.

By representative fragment is also meant the intergenic sequences, and in particular the nucleotide sequences carrying the regulatory signals (promoters, terminators, or even enhancers, etc.).

Among said representative fragments, preference is given to those having nucleotide sequences corresponding to open reading frames, called ORFs sequences (ORFs for Open Reading Frame), generally comprised between an initiation codon and a stop codon, or between two stop codons. , and encoding polypeptides, preferably of at least 100 amino acids, such as, for example, without being limited thereto, the ORFs sequences which will be described below.

The numbering of the ORFs nucleotide sequences which will be used subsequently in the present description corresponds to the numbering of the amino acid sequences of the proteins encoded by said ORFs.

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Thus, the nucleotide sequences ORF2, ORF3 ..., ORF2322 and ORF2323 code respectively for the proteins of amino acid sequences SEQ ID N 2, SEQ ID N 3 ..., SEQ ID N 2322 and SEQ ID N 2323 appearing in the sequence listing of the present invention. The detailed nucleotide sequences of the ORF2, ORF3 ..., ORF2322 and ORF2323 sequences are determined by their respective position on the genomic sequence SEQ ID N 1. Table I provides the coordinates of the different ORFs relative to the nucleotide sequence SEQ ID N 1 , giving the starting nucleotide, the end nucleotide of ORF, as well as the estimated nucleotide for which the protein starts.

Thus, ORF N 2 extends from nucleotide 349 to nucleotide 1722, the protein SEQ ID N 2 for its part extending from nucleotide 358 to nucleotide 1722. Likewise, OFR N 6 extends from nucleotide 10283 to nucleotide 10846, the protein starting at nucleotide 10837, because it is located on the complementary strand. Thus, on reading Table I, it can be clearly seen that ORF N 6 is the complementary sequence extending between nucleotides 10283 and 10846, ends included, of the sequence SEQ ID N 1.

The representative fragments according to the invention can be obtained for example by specific amplification such as PCR or after digestion with appropriate restriction enzymes of nucleotide sequences according to the invention, this method being described in particular in the work by Sambrook et al. ..

Said representative fragments can also be obtained by chemical synthesis when their size is not too large, according to methods well known to those skilled in the art.

Among the sequences containing sequences of the invention, or representative fragments, is also meant the sequences which are naturally flanked by sequences which exhibit at least 80%, 85%, 90%, 95% or 98% identity with the sequences according to the invention.

By modified nucleotide sequence is meant any sequence

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nucleotide obtained by mutagenesis according to techniques well known to those skilled in the art, and comprising modifications compared to normal sequences, for example mutations in the regulatory and / or promoter sequences of the expression of the polypeptide, in particular leading to a modification the level of expression or the activity of said polypeptide.

By modified nucleotide sequence is also meant any nucleotide sequence encoding a modified polypeptide as defined below.

The representative fragments according to the invention can also be probes or primers, which can be used in methods for the detection, identification, assay or amplification of nucleic sequences.

A probe or primer is defined, within the meaning of the invention, as being a fragment of single-stranded nucleic acids or a denatured double-stranded fragment comprising, for example, from 12 bases to a few kb, in particular from 15 to a few hundred bases, of preferably 15 to 50 or 100 bases, and possessing hybridization specificity under conditions determined to form a hybridization complex with a target nucleic acid.

The probes and primers according to the invention can be labeled directly or indirectly with a radioactive or non-radioactive compound by methods well known to those skilled in the art, in order to obtain a detectable and / or quantifiable signal.

The unlabeled polynucleotide sequences according to the invention can be used directly as a probe or a primer.

The sequences are generally marked to obtain sequences which can be used for numerous applications. The labeling of the primers or probes according to the invention is carried out by radioactive elements or by non-radioactive molecules.

Among the radioactive isotopes used, there may be mentioned 32P, 33P, 35S, 3H or 125I. Non-radioactive entities are selected from ligands such as

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biotin, avidin, streptavidin, dioxygenin, haptens, dyes, luminescent agents such as radioluminescent, chemoluminescent, bioluminescent, fluorescent, phosphorescent agents.

The polynucleotides according to the invention can thus be used as a primer and / or probe in processes implementing in particular the PCR (polymerase chain reaction) technique (Rolfs et al., 1991, Berlin: Springer-Verlag). This technique requires the choice of pairs of oligonucleotide primers flanking the fragment which must be amplified. Reference may, for example, be made to the technique described in U.S. Patent No. 4,683,202. The amplified fragments can be identified, for example after agarose or polyacrylamide gel electrophoresis, or after a chromatographic technique such as gel filtration or ion exchange chromatography, then sequenced. The specificity of the amplification can be controlled by using as primer the nucleotide sequences of polynucleotides of the invention as a template, plasmids containing these sequences or else the derived amplification products. The amplified nucleotide fragments can be used as reagents in hybridization reactions in order to demonstrate the presence, in a biological sample, of a target nucleic acid of sequence complementary to that of said amplified nucleotide fragments.

The invention also relates to the nucleic acids capable of being obtained by amplification using primers according to the invention.

Other techniques for amplifying the target nucleic acid can be advantageously used as an alternative to PCR (PCR-like) using a pair of primers of nucleotide sequences according to the invention. By PCR-like is meant all the methods implementing direct or indirect reproductions of nucleic acid sequences, or in which the labeling systems have been amplified, these techniques are of course known, in general it is necessary to acts of amplification of DNA by a polymerase; when the original sample is an RNA, reverse transcription should first be carried out.

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There are currently a large number of methods allowing this amplification, such as for example the SDA technique (Strand Displacement Amplification) or the strand displacement amplification technique (Walker et al., 1992, Nucleic Acids Res. 20: the TAS technique (Transcription). -based Amplification System) described by Kwoh et al. (1989, Proc. Natl. Acad. Sci. USA, 86,1173), the 3SR (Self-Sustained Sequence Replication) technique described by Guatelli et al. (1990, Proc.

Natl. Acad. Sci. USA 87: 1874), the NASBA (Nucleic Acid Sequence Based Amplification) technique described by Kievitis et al. (1991, J. Virol. Methods, 35,273), the TMA (Transcription Mediated Amplification) technique, the LCR (Ligase Chain Reaction) technique described by Landegren et al. (1988, Science 241, 1077), the RCR (Repair Chain Reaction) technique described by Segev (1992, Kessler C.

Springer Verlag, Berlin, New York, 197-205), the CPR (Cycling Probe Reaction) technique described by Duck et al. (1990, Biotechniques, 9,142), the Q-beta-replicase amplification technique described by Miele et al. (1983, J. Mol. Biol., 171,281). Some of these techniques have since been perfected.

In the case where the target polynucleotide to be detected is an mRNA, it is advantageously used, prior to the implementation of an amplification reaction using the primers according to the invention or to the implementation of a method of detecting using the probes of the invention, an enzyme of reverse transcriptase type in order to obtain a cDNA from the mRNA contained in the biological sample. The cDNA obtained will then serve as a target for the primers or the probes used in the amplification or detection method according to the invention.

The technique of hybridization of probes can be carried out in various ways (Matthews et al., 1988, Anal. Biochem., 169,1-25). The most general method is to immobilize the nucleic acid extracted from cells of different tissues or cells in culture on a support (such as nitrocellulose, nylon, polystyrene) and incubate, under well-defined conditions, the target nucleic acid immobilized with the probe. After hybridization, the excess probe is removed and the hybrid molecules formed are detected by the appropriate method (measurement of the

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radioactivity, fluorescence or enzyme activity linked to the probe).

According to another embodiment of the nucleic acid probes according to the invention, the latter can be used as capture probes. In this case, a probe, called a capture probe, is immobilized on a support and is used to capture by specific hybridization the target nucleic acid obtained from the biological sample to be tested and the target nucleic acid is then detected using a second probe, called a detection probe, marked by an easily detectable element.

Among the nucleic acid fragments of interest, it is thus necessary to cite in particular the antisense oligonucleotides, that is to say the structure of which ensures, by hybridization with the target sequence, an inhibition of the expression of the corresponding product. Mention should also be made of sense oligonucleotides which, by interaction with proteins involved in the regulation of the expression of the corresponding product, will induce either an inhibition or an activation of this expression.

Preferably, the probes or primers according to the invention are immobilized on a support, covalently or non-covalently. In particular, the support can be a DNA chip or a high density filter, also subjects of the present invention.

The term “DNA chip or high density filter” is intended to denote a support on which DNA sequences are attached, each of them being able to be identified by its geographical location. These chips or filters differ mainly in their size, the material of the support, and possibly the number of DNA sequences attached to them.

The probes or primers according to the first invention can be fixed on solid supports, in particular DNA chips, by various manufacturing methods. In particular, a synthesis can be carried out in situ by photochemical addressing or by inkjet. Other techniques consist in carrying out an ex situ synthesis and in fixing the probes on the support of the DNA chip by mechanical, electronic or inkjet addressing. These different processes

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are well known to those skilled in the art.

A nucleotide sequence (probe or primer) according to the invention therefore allows the detection and / or amplification of specific nucleic sequences. In particular, the detection of said sequences is facilitated when the probe is attached to a DNA chip, or to a high density filter.

The use of DNA chips or high density filters makes it possible to determine the expression of genes in an organism exhibiting a genomic sequence close to L. lactis IL1403.

The genomic sequence of L. lactis IL1403, completed by the identification of all the genes of this organism, as presented in the present invention, serves as a basis for the construction of these DNA chips or filters.

The preparation of these filters or chips consists in synthesizing oligonucleotides, corresponding to the 5 'and 3' ends of the genes. These oligonucleotides are selected using the genomic sequence and its annotations disclosed by the present invention. The pairing temperature of these oligonucleotides at the corresponding places on the DNA should be approximately the same for each oligonucleotide. This allows DNA fragments corresponding to each gene to be prepared by the use of appropriate PCR conditions in a highly automated environment. The amplified fragments are then immobilized on filters or supports made of glass, silicon or synthetic polymers and these media are used for hybridization.

The availability of such filters and / or chips and of the corresponding annotated genomic sequence makes it possible to study the expression of large groups, or even all of the genes in the microorganisms associated with Lactococcus lactis, by preparing the complementary DNAs, and by hybridizing them to the DNA or to the oligonucleotides immobilized on the filters or the chips. Also, the filters and / or the chips make it possible to study the variability of the strains or the species, by preparing the DNA of these organisms and by hybridizing them to the DNA or to the oligonucleotides immobilized on the filters or the chips.

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Differences between the genomic sequences of different strains or species can greatly affect the intensity of hybridization and, therefore, interfere with the interpretation of results. It may therefore be necessary to have the precise sequence of the genes of the strain that one wishes to study. The method of gene detection described later in detail, involving the determination of the sequence of random fragments of a genome, and organizing them according to the sequence of the complete genome of Lactococcus lactis IL 1403 disclosed in the present invention, can be very useful.

The use of high density filters and / or chips thus makes it possible to obtain new knowledge on the regulation of genes in organisms of industrial importance, and in particular lactic acid bacteria propagated under various conditions. It also allows rapid identification of differences between the genomes of strains used in multiple industrial applications.

In addition, a DNA chip or filter can be an extremely valuable tool for the determination, detection and / or identification of a microorganism. Thus, the DNA chips according to the invention are also preferred, which additionally contain at least one nucleotide sequence of a microorganism other than Lactococcus lactis, immobilized on the support of said chip. Preferably, the microorganism chosen is from microorganisms associated with Lactococcus lactis, bacteria of the genus Lactococcus, or variants of Lactococcus lactis. By bacteria associated with Lactococcus lactis is meant, as has already been defined above, bacteria members of the Streptococcus group.

A DNA chip or a filter according to the invention is a very useful element of certain kits or necessary for the detection and / or identification of microorganisms, in particular bacteria belonging to the species Lactococcus lactis or associated microorganisms, also objects of the invention.

Furthermore, the DNA chips or the filters according to the invention, containing

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probes or primers specific for Lactococcus lactis are very advantageous elements of kits or necessary for the detection and / or quantification of the expression of genes of Lactococcus lactis (or associated microorganisms).

Indeed, the control of gene expression is a critical point for optimizing the growth and yield of a strain, either by allowing the expression of one or more new genes, or by modifying the expression of genes already present in the cell. The present invention provides all of the sequences naturally active in L. lactis allowing the expression of genes. It thus makes it possible to determine all of the sequences expressed in L. lactis. It also provides a tool for identifying genes whose expression follows a given pattern. To achieve this, the DNA of all or part of the genes of L. lactis can be amplified using primers according to the invention, then fixed to a support such as for example glass or nylon or a DNA chip, in order to construct a tool to follow the expression profile of these genes. This tool, consisting of this support containing the coding sequences, serves as a hybridization matrix for a mixture of labeled molecules reflecting the messenger RNAs expressed in the cell (in particular the labeled probes according to the invention). By repeating this experiment at different times and by combining all of these data by appropriate processing, the expression profiles of all of these genes are then obtained. Knowledge of the sequences which follow a given regulatory scheme can also be used to seek in a directed manner, for example by homology, other sequences following overall, but in a slightly different manner, the same regulatory scheme. In addition, it is possible to isolate each control sequence present upstream from the segments serving as probes and to monitor its activity using appropriate means such as a reporter gene (luciferase, ss-galactosidase, GFP). These isolated sequences can then be modified and assembled by metabolic engineering with sequences of interest for their optimal expression.

The present invention lists numerous genes encoding

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proteins regulating the transcription of L. lactis genes (Table Et). Modifying the structure or integrity of these genes may make it possible to modify the expression of the target genes controlled by target promoters of these regulators. The indications given in Table II also allow those skilled in the art to choose the relevant regulator (s) for the desired application as well as their target, which allows optimization of the expression of genes of interest. For example, the inactivation of the kdgR gene increases the transcription of the genes of the Entner Dodouroff pathway, encoded by the genes which are contiguous to it, and transcribed in the opposite direction (ORF 1674 and
1675). The use of the tools described above, such as DNA chips, also makes it possible to identify all the genes whose regulation is modified by this inactivation. It is thus possible to select a set of control sequences responding, with some nuances, to the same type of regulation. These sequences can then be used to control the expression of genes of interest.

The invention also relates to the polypeptides encoded by a nucleotide sequence according to the invention, preferably by a fragment representative of the sequence SEQ ID N 1 and corresponding to an ORF sequence. In particular, the Lactococcus lactis polypeptides characterized in that they are chosen from the sequences SEQ ID N 2 to SEQ ID N 2323 are subject of the invention.

The invention also comprises the polypeptides characterized in that they comprise a polypeptide chosen from: a) a polypeptide according to the invention; b) a polypeptide exhibiting at least 80%, preferably 85%, 90%,
95% and 98% identity with a polypeptide according to the invention; c) a fragment of at least 5 amino acids of a polypeptide according to the invention, or as defined in b); d) a biologically active fragment of a polypeptide according to the invention, or as defined in b) or c); e) a modified polypeptide of a polypeptide according to the invention, or as defined in b), c) or d).

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The nucleotide sequences encoding the polypeptides described above are also the subject of the invention.

In the present description, the terms polypeptides, polypeptide sequences, peptides and proteins are interchangeable.

It should be understood that the invention does not relate to the polypeptides in natural form, that is to say that they are not taken in their natural environment but that they could be isolated or obtained by purification from natural sources, or else obtained by genetic recombination, or by chemical synthesis, and that they can then contain non-natural amino acids as will be described below.

By polypeptide exhibiting a certain percentage of identity with another, which will also be denoted by homologous polypeptide, is meant polypeptides exhibiting, with respect to natural polypeptides, certain modifications, in particular a deletion, addition or substitution of at least an amino acid, a truncation, an extension, a chimeric solution and / or a mutation, or the polypeptides exhibiting post-translational modifications. Among the homologous polypeptides, preference is given to those whose amino acid sequence exhibit at least 80%, preferably 85%, 90%, 95% and 98% homology with the amino acid sequences of the polypeptides according to the invention. . In the case of a substitution, one or more consecutive or non-consecutive amino acid (s) are replaced by equivalent amino acids. The expression equivalent amino acids is intended here to denote any amino acid capable of being substituted for one of the amino acids of the basic structure without, however, essentially modifying the biological activities of the corresponding peptides and as they will be defined below. .

These equivalent amino acids can be determined either by relying on their structural homology with the amino acids for which they are substituted, or on the results of comparative tests of biological activity.

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between the different polypeptides likely to be made.

By way of example, mention is made of the substitution possibilities capable of being carried out without resulting in a thorough modification of the biological activity of the corresponding modified polypeptide. Leucine can thus be replaced by valine or isoleucine, aspartic acid by glutamine acid, glutamine by asparagine, arginine by lysine, etc. same conditions.

The homologous polypeptides also correspond to the polypeptides encoded by the homologous or identical nucleotide sequences, as defined above and thus include in the present definition polypeptides which are mutated or corresponding to inter or intra species variations, which may exist in Lactococcus, and which correspond in particular to truncations, substitutions, deletions and / or additions, of at least one amino acid residue.

It is understood that the percentage identity between two polypeptides is calculated in the same way as between two nucleic acid sequences.

Thus, the percentage identity between two polypeptides is calculated after optimal alignment of these two sequences, over a window of maximum homology. To define said maximum homology window, the same algorithms can be used as for the nucleic acid sequences.

The term “biologically active fragment of a polypeptide according to the invention” is intended to denote in particular a fragment of a polypeptide, as defined below, exhibiting at least one of the biological characteristics of the polypeptides according to the invention, in particular in that it is capable of to exercise in general an activity, even partial, such as for example: an enzymatic (metabolic) activity or an activity which can be involved in the biosynthesis or biodegradation of organic or inorganic compounds;

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- structural activity (cell envelope, chaperone molecule, ribosome); - a transport activity (energy, ion); in protein secretion; - an activity in the process of replication, amplification, preparation, transcription, translation or maturation, in particular of DNA, RNA or proteins.

The term “polypeptide fragment according to the invention” is intended to denote a polypeptide comprising at least 5 amino acids, preferably 10,15, 25, 50,100 and 150 amino acids.

The polypeptide fragments can correspond to isolated or purified fragments naturally present in the strains of Lactococcus, or to fragments which can be obtained by cleavage of said polypeptide by a proteolytic enzyme such as trypsin or chymotrypsin or collagenase, by a reagent. chemical (cyanogen bromide, CNBr) or by placing said polypeptide in a very acidic environment (for example at pH = 2.5). Polypeptide fragments can also be prepared by chemical synthesis, from hosts transformed by an expression vector according to the invention which contain a nucleic acid allowing the expression of said fragment, and placed under the control of regulatory elements and / or appropriate expression.

The term “modified polypeptide of a polypeptide according to the invention” is intended to denote a polypeptide obtained by genetic recombination or by chemical synthesis as described below, which exhibits at least one modification with respect to the normal sequence. These modifications can in particular be carried out on amino acids necessary for the specificity or the effectiveness of the activity, or at the origin of the structural conformation, the charge, or the hydrophobicity of the polypeptide according to the invention. It is thus possible to create polypeptides of equivalent, increased or decreased activity, or of

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equivalent, narrower or wider specificity. Among the modified polypeptides, mention should be made of polypeptides in which up to five amino acids can be modified, truncated at the N or C-terminus, or else deleted, or added.

As indicated, the objective of the modifications of a polypeptide is in particular: - to allow its use in processes of biosynthesis or biodegradation of organic or inorganic compounds, - to allow its use in processes of replication, amplification, repair and rule of transcription, translation, or maturation in particular of DNA, RNA, or proteins, - to allow its improved secretion, - to modify its solubility, efficiency or specificity of its activity, or to facilitate its purification.

Chemical synthesis also has the advantage of being able to use unnatural amino acids or non-peptide bonds. Thus, it may be advantageous to use unnatural amino acids, for example in D form, or amino acid analogs, in particular withdrawn forms.

The present invention provides all the nucleotide and polypeptide sequences of the genome of Lactococcus lactis IL 1403. Furthermore, it is an object of the present invention to disclose the functions of these genes and proteins (Table II).

Thus, each open reading frame presented in Table 1 is assigned a description of its role (Table II). The genes were then classified into categories according to an adapted classification of the genes of E. coli (Riley, Functions of the gene products of Escherichia coli, Microbiology Reviews 57: 862,1993). This allows a person skilled in the art to identify the genes used in a given metabolic function, then to isolate this or these genes for application purposes in relation to his problem, by including applications therein.

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direct industrial (modification of strains) or indirect (diagnostic tool and its applications). The genes described in the invention were isolated from DNA fragments using primers deduced from the sequence of L. lactis IL 1403. Table III gives the names of the genes corresponding to the ORFs, as well as the corresponding proteins of other organizations after comparison with the Swiss prot database.

Amino acid biosynthesis enzymes
In this part are grouped the open reading frames corresponding to the proteins involved in the catalytic reactions of the pathways of primary, intermediate and secondary metabolism, the manufacture of complex or simpler molecules. The pathways identified were determined based on knowledge of the nutritional needs of these bacteria and their metabolic possibilities. All the genes involved in the biosynthetic pathways of amino acids are disclosed. Some of these pathways have been identified previously such as the pathways for the biosynthesis of histidine, tryptophan, branched amino acids as well as some genes involved in different other pathways.

Synthesis of vitamins
The synthesis of vitamins can have a certain interest for a food bacterium like L. lactis. This bacterium is capable of naturally synthesizing a certain number of vitamins, and knowledge of the genes leading to their synthesis enables those skilled in the art to optimize the expression of these genes or to modify them in order to increase the production of these vitamins. The bacteria thus modified can be used either in manufacturing processes for vitamin concentrate, or directly in the diet in order to obtain a product enriched in vitamin. As indicated in Table II, the genes necessary for the synthesis of four cofactors, folic acid, menaquinone, riboflavin and thioredoxin have been identified.

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Genes with peptidolytic activity
The genes encoding proteolytic enzymes have been systematically sought. A number of them had already been characterized and their function described such as pepN, pepC, pepF, pepO, pepA, pepP, pep V, pepX clpP and clpY and others were still unknown to the public such as pepQ, pepM, pepDAI , pepDA2, ycjE, htrA. These enzymes play a crucial role in the nitrogen nutrition of lactic acid bacteria and participate in the degradation of peptides in fermented products, in particular cheeses. This enzyme also participates in other cellular processes such as the degradation of proteins allowing the renewal of proteins or even heterologous proteins thus limiting their production. Other proteins participate in the formation of the wall like vanY or in more general processes like the degradation of proteins entering in various cellular processes for pi136, yudC, yudDyujB and yufD.

The genes of glycolysis
The enzymes involved in glycolysis have been more particularly studied. The genes involved in glycolysis have been detected in different parts of the chromosome of strain IL1403. These are enoA (633 kb) and enoB (274 kb) encoding the enolase, pgk (242 kb) encoding the phosphoglycerate kinase, pgm (332 kb) encoding the phosphoglycerate mutase, pgmB (442 kb) encoding the betta -phosphoglycomutase, gapA (554 kb) and gapB (2315 kb) encoding glyceraldehyde 3-phosphate dehydrogenase, tpiA (1148 kb) encoding triosephosphate isomerase, pyk (1370 kb) encoding pyruvate kinase, fbaA (1963 kb) encoding fructose-bisphosphate aldolase, pgiA (2228 kb) encoding glucose-6-phosphate isomerase. By synthesizing oligonucleotides homologous to the sequences of contigs close to the areas where these genes have been detected in IL1403, and by carrying out LR PCR-type amplifications on the chromosomal DNA of MG1363, products

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amplification containing the genes for glycolysis were obtained. These genes represent the complete set of genes for glycolysis that could be found in L. lactis. This method can be applied to other strains of L.

Lactis for the detection of glycolysis genes in the most suitable genetic environment for industry. The modification of these genes by mutagenesis has allowed the construction of new so-called food-grade strains, which have numerous applications in the food industry and agriculture.

In particular, it has shown that there are 2 copies of the gap genes encoding glyceraldehyde 3 phosphate dehydrogenase and eno encoding enolase. It was also shown that the previously isolated gap gene was not significantly expressed during growth in different media, and therefore did not code for the gene actually involved in glycolysis. A detailed analysis of the sequence shows that the second gap gene identified has properties which strongly suggest that it is the gene actually active during glycolysis. First, its codon bias is very strong and similar to other glycolysis genes such as those of the las, pgi, fdp and tpi operon. Second, it has a regulatory sequence (CRE box) upstream of the -35 box of its promoter, allowing its activation during rapid sugar uptake. Finally, it has been demonstrated experimentally that this gene was strongly expressed during exponential growth, and that it was essential for cell growth (its inactivation is lethal). The glycolysis gap gene was isolated on an E. coli plasmid (pGEM) and its expression in E. coli restores the growth of gap mutants in the appropriate media. This gene could therefore be used to increase GAPDH activity in strains where this activity is limiting for the rate of acidification. Such a construction will lead to obtaining a strain which acidifies the milk more quickly, a property which is sought after in certain industrial processes. Comparable work can be done on the other enzymes in this pathway.

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Secondary sugars assimilation routes
L. lactis is able to use a large number of carbohydrates (without limitation: L-arabinose, ribose, D-xylose, galactose, glucose, fiuctose, mannose, mannitol, N-acetyl glucoseamine, amygdalin, arbutin, esculin, salicin, cellobiose, maltose, lactose, melibiose, sucrose, trehalose, raffinose, starch, gentiobiose, gluconate). The genes involved in the entry of these sugars and their transformation to join one of the steps of glycolysis are presented in Table II. To illustrate, two genes involved in the pentose phosphate pathway have been identified: transketolase (YqgF) and phosphoketolase (YpdE). An internal fragment was used to inactivate one or the other of these genes in the strain of L. lactis NCD02118. The mutants thus obtained are affected in the metabolism of sugars and show growth delays, in particular in the presence of xylose for the ypdE strain. The activity of these genes can also be amplified by placing one or the other of these genes under the control of a promoter regulated differently. Similar work with the other genes of these pathways will allow the construction of strains of L. lactis with new fermentation capacities. In particular, the additional modification of the expression of the genes encoding (i) for glucose 6-phosphate dehydrogenase (zwf), gluconate dehydrogenase (gnd), ribulose phosphate isomerase (rpiA) or for (ii) genes of Entner-Dodouroff pathway (kdg, uxu and yqhA present upstream of transketolase) and gluconate phosphate dehydrogenase should make it possible to produce true heterofermentative strains of L. lactis from sugar metabolized to glucose 6-phosphate.

The genes involved in the formation and regulation of all of the fermentation products
Fermentation products are most important for the formation of cheese aroma by Lactococcus lactis. Under the conditions usually applied for cheese production, 95% of the sugar used is converted into lactic acid. Other important products for fermentation are

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ethanol, fumarate and acetate. A small part, usually less than 1%, of the pyruvate produced during glycolysis is converted into alpha-acetolactate, which is distributed between branched amino acids and the products of the acetoin formation branch: diacetyl, acetoin or 2,3- butanediol. The interaction of these genes and their regulation are important for the formation of all fermentation products. The present invention provides the tools for detecting all the chromosomal genes of bacteria of the lactococci genus, involved in the formation of fermentation products. These products are important for the flavor of the final cheese product. Several genes have already been detected before. These include lactate dehydrogenase, pyruvate formate lyase, α-acetolactate synthase, aacetolactate decarboxylase. New potential genes involved in this pathway are provided by this invention, detected during annotation. These are other putative alpha-acetolactate decarboxylase (aldC gene), diacetyl reductase (butB), acetoin reductase (butA), pyruvate dehydrogenase (pdhABCD), acetate kinase (acdAl, acdA2), alcohol dehydrogenase (adhA, adhE). By manipulating these genes by genetic engineering or genetic methods, one skilled in the art can influence the flavor of the final cheese product as desired. Other enzymes, which can be used to change all of the fermentation products, are NADH oxidases. These genes are encoded by ndhA, yieA, yieB, yphA, ydjE, yhjd, yrfB, nox. The present invention provides the tools for detecting these genes in the different strains of L. lactis and for creating food-grade bacteria capable of producing these important metabolites for flavors, such as diacetyl.

Genes linked to the activity of bacteriophages
Bacteriophages are one of the major problems in the dairy industry. They are the source of major disturbances in fermentations and, through this, of economic losses. Much effort has been devoted to the development of methods to control their development during cheese manufacturing processes. We can

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consider in particular to clone on a plasmid or in the chromosome of strains for industrial use, bacterial genes and / or bacteriophages whose products limit the development of infecting phages.Artificial resistance systems can also be developed mimicking the natural mechanisms called d abortive infection, in which infected cells die without multiplying phages. For this purpose, a toxic gene for the bacterium, placed under the control of a phage promoter whose expression is induced after infection by a similar phage is cloned on a plasmid (Djordjevic, GM, and Klaenhammer, TR (1997) Bacteriophage-triggered defense systems: phage adaptation and design improvements. Appl Environ Microbiol 63: 4370-4376; Walker, SA, and Klaenhammer, TR (1998) Molecular characterization of a phage-inducible middle promoter and its transcriptional activator from the lactococcal bacteriophage # 31. J Bacteriol
180: 921-931) or on the bacterial chromosome. The present invention describes the genes of the IL 1403 strain and of six prophages identified on its chromosome. Five of these prophages were identified experimentally by induction of their lytic growth cycle after exposure to a DNA damaging agent (Ultra-Violet or Mitomycin C). The present invention therefore provides the possibility of identifying bacterial or phage genes corresponding to one or other of the properties mentioned above. Namely: genes which disrupt the development of an infecting phage, genes toxic to the bacterium, regulatory circuits induced after infection by a phage.

It should be noted that the phage transcription and translation signals as well as their regulatory circuits can also be used to develop conditional expression systems (WO95 / 31563) or overexpression systems (O'Sullivan, DJ, Walker, SA, West, G., and Klaenhammer, TR (1996)
Development of an expression strategy using a lytic phage to trigger explosive plasmid amplification and gene expression. Biotechnology 14: 82-87) of proteins of interest. The present invention can therefore also be used in this

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goal.

The genes involved in the regulatory systems correspond to ORFs 38,41, 448,452, 518,1461 and 1472.

Stress response genes
Lactococci are subject to many environmental changes in industrial processes, among others, changes in temperature (heat, cold), osmolarity (salinity, water activity), pH, oxygenation, redox conditions etc. Optimal survival of L. lactis to these environmental changes, sometimes abrupt, is sought in order to improve the reproducibility and the yield of the processes for the manufacture and use of these lactic ferments. Lactococci have inducible responses to stress including UV, heat, cold, NaCl, the presence of H2O2, sugar deficiency, bile, acidity. It should be noted that certain results (Kim et al., 1999, FEMS Microbiol Lett., 171,57) highlight differences in the capacities of resistance and adaptation to stress of 2 subspecies of lactococci: L. lactis ssp. lactis and L. lactis ssp. cremoris. Proteomic studies show that a number of proteins are induced under several stress conditions. However, the proteins involved in resistance to one or more stresses have so far been rarely identified, in particular due to the absence of the invention, which limited the possibilities of identifying protein spots. It is important to stress, however, that certain stress conditions seem to modify the expression of metabolic enzymes involved in particular in glycolysis. Other less comprehensive biochemical studies correlate the increase in certain enzymatic activities with better survival and / or the adaptation of lactococci to certain stresses. Thus, the H ± ATPase, the de-elimination of arginine, the transport of citrate in the subspecies diacetylactis, the transport of compatible solutes, the NADH-peroxidase and NADH-oxidase are probably

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involved in mechanisms of adaptation to stress and for some, in survival at the end of fermentation.

Genetic studies (search for conserved genes or mutagenesis) have enabled the characterization of certain genes involved in resistance to stress.

However, these remain few in number and the link with biochemical studies has rarely been established. Among the genes identified, we can in particular cite: - oxidative stress: recA, fpg, sodA, nox, pox (NADH peroxidase), flpA and flpB, - mutagenic stress: recA, polA, hexB, deoB, gerC, dltD, arcD, bglA , gidA, hgrP, metB, proA and seven orfs not identified by homology search with the databases, - heat stress, protein denaturation: recA, groES, groEL, dnaK, dnaJ, ftsH, grpE, hrcA, ctsR, clpP , clpB, clpE, htrA, - cold stress: cspABCDE, - osmotic stress: busA, gadBCR, - acid stress: gadBCR, clpP, groES, groEL, dnaK.

In addition, two genetic studies (Duwat et al., 1999, Mol Microbiol.,
31.845; Rallu et al., 2000, Mol Microbiol., 35, 517; FR27 53201) made it possible to isolate mutants that are more resistant than the initial strain (MG1363) to one or more stress conditions and strongly suggest that intracellular pools, in particular of purine compounds and of phosphate, constitute intracellular stress detectors.

The annotated sequence of L. lactis IL1403 provides a molecular basis for the systematic study of lactococcal stress responses. The genes detected during the annotation of the genome of 111403 are provided in the
Tables II and III of the present application. The method of detecting equivalent genes in other bacteria close to L. lactis IL 1403 is provided in the present invention and makes it possible to exploit the results obtained during the study.

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responses to stress from other strains of L. lactis. Indeed, the responses to stress have preferably been studied with L. lactis MG1363 which, unlike IL 1403, does not contain inducible prophage under stress conditions.

Genes for proteins that are secreted or whose activity is linked to the secretion of proteins
L. lactis is able to secrete a number of proteins in the external environment and on the surface of the cell. This capacity can be used to secrete molecules of interest such as enzymes of technological interest or molecules of medical or pharmaceutical interest. The present invention makes it possible to rapidly isolate various export signals of L. lactis in order to test the one or those which give the best results with the gene of interest to be exported. The list of proteins and genes capable of providing such signals is given in Table II. These proteins were extracted by a computer method with the PSORT software (Nakai & Horton, PSORT: aprogram for detecting sorting signais in proteins and predicting their subcellular localization, Trends Biochem Sci, 24: 34-6,
1999). Other methods could be used to complete this table by using part of the data of the invention, such as the list of proteins potentially translated in L. lactis or directly the nucleotide sequence translated in all the phases.

In addition, the tool provided in the invention gives all the basic information on the genes which can limit certain stages of secretion. A list of these genes is presented in Table IV. For example, the entire gene encoding a lipoprotein which makes it possible to accelerate the correct folding of the secreted proteins has been isolated thanks to the teachings of the invention. Homologues of this protein have been characterized previously in other organisms such as B. subtilis.

However, there can be several genes of this type in an organism, which complicates the task of the experimenter confronted either with an exhaustive research.

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of all the homologous proteins in order to make the most judicious choice, ie to develop a heavy experiment in order to isolate the relevant factor in his process. The present invention therefore allows a person skilled in the art to choose, according to his expertise, the gene or genes necessary for the accomplishment of his work. In the case of L. lactis, it was possible to isolate the gene encoding the true prsA homolog of B. subtilis and express it more strongly in cells overproducing an enzyme of industrial interest from the gene. lip from Staphylococcus hyicus. Under normal conditions, a large part of the lipase is degraded by limiting the type protein prsA. Its overproduction preserves the lipase from any degradation of this enzyme during or after its export.

The genes involved in the competence of genetic transformations
Natural genetic competence is the ability of bacteria to transport foreign DNA into the cell, process it and integrate it into the chromosome or establish autonomously replicating elements. The genes, which allow the bacteria to develop this ability, are divided into what are called early genes, which are regulatory genes, and late genes, representing the skill system itself. The study of the sequences of the late competence genes shows that they are strongly similar in the different gram-positive AT-rich bacteria, such as B. subtilis or Streptococci. A big difference exists in the molecular mechanisms that regulate the development of this process in Streptococci and Bacilli.

In B. subtilis, the ComK regulator exists, which assembles the signals of the early stages of skill development. A functional counterpart of this regulator has been found in Streptococci. It encodes the sigma factor of RNA polymerase. The conditions of natural competence are not known for the species L. lactis. However, homology searches in the genome of L. lactis revealed 4 operons (comE, comF, comC and comG) containing 8 genes having a strong similarity with the late genes of

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competence of B. subtilis in S. pneumoniae. As L. lactis appears to be able to possess a full set of late competence genes, it may acquire competence naturally. One way to discover the conditions for acquiring the skill may be to study the regulation of late genes. The gene, corresponding to the competence regulator, ywcA, also exists in L.lactis IL 1403. The overproduction of this protein in L. lactis will allow the induction of late competence genes in these cells. The present invention provides the manner of detecting the complete system of competence genes in the several strains of L. lactis other than of IL1403. Knowledge of the structures of the regulatory regions in these bacteria and of the corresponding regulators will give the possibility of inducing competence in these strains. This method can be used for strains that cannot be manipulated by other genetic engineering methods.

Preferably, the invention relates to a nucleotide sequence according to the invention, characterized in that it for a polypeptide of Lactococcus lactis or one of its fragments involved in the biosynthesis of amino acids and in that it comprises a nucleotide sequence chosen from the following sequences: ORF 1507 1508 1511 1512 1513 1514 1515 796 1178 1179 1275 1881 1251 1252 1254 1255 1257 1258 1259 1260 1261 683 1238 1240 1241 1243 1245 1246 1247 1248 1249 860 797, preferably 500 120 1291 1690 1793 1794 1795 1796 1803 1807 1808 166 361 755 1292 1293 1323 1609 1668 1670 1972 1973 2159 2285 128 129 575 812 813 814 815 1324 1325 1656 1657 1935 2257 75 551 613 615 616 617 1904 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a polypeptide of Lactococcus lactis or one of its fragments involved in the biosynthesis of cofactors, prosthetic groups and transporters and in that 'it is chosen from the following sequences: ORF 1169 1383 398 1405, from

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preference 871 953 1172 1173 1174 1176 1353 1354 610 1157 1615 187 743 744 745 746 747 875 584 585 1362 1487 1011 1012 1013 1014 1123 1145 1871 862 958 1692 1695 497 1130 1300 1301 1302 1526 1120 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a polypeptide of the cell envelope of Lactococcus lactis or one of its fragments, and in that it comprises a nucleotide sequence chosen from the following sequences: ORF 328 329 2288 2320 1296, preferably 326 327 631 978 1105 1193 1481 2025 2185 280 320 348 350 351 395 552 554 560 885 886 968 1181 1321 1406 1637 1638 1857 1934 1960 2096 2164 2283 2287 153 206 207 212 213 217 218 219 220 221 222 223 224 693 695 697 754 894 930 936 937 939 940 942 944 945 973 1297 1298 1299 1304 1380 1499 1500 1618 1845 2218 2279 2280 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a Lactococcus lactis polypeptide or one of its fragments involved in the cellular machinery, and in that it comprises a sequence nucleotide chosen from the following sequences: ORF 20 22 681 1898 1920 1921 402 403 972 417 1015 2134 1779 2206, preferably 100 818 828 902 914 990 991 1267 1384 1636 1704 2207 508 126 119 562 959 1664 2161 2315 1107 1108 1265 1823 1824 1859 2084 2120 2176 2177 2178 2179 and a representative fragment thereof.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a polypeptide of Lactococcus lactis or one of its fragments involved in the central intermediate metabolism, and in that it comprises a nucleotide sequence chosen from the following sequences: ORF 728 155, preferably 434 1024 1162 1376 1537 1621 291 716 1289 1538 1539 1728

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1729 1732 2005 1663 215 586 712 713 714 715 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a Lactococcus lactis polypeptide or one of its fragments involved in energy metabolism, and in that it comprises a sequence nucleotide chosen from the following sequences: ORF 1785 2042 59 1329 1814 1815 1816 1817 1818 1819 1820 994 995 677 918 1205 1262 2211 284 345 439 570 656 682 1152 1372 1373 1374 634 1552 1553 1554 2034 2035 2036 2037 2038 2039 684, preferably 76 136 151 186 242 273 276 342 347 400 643 768 801 843 844 1281 1348 1572 1574 1583 1596 1601 1604 1746 1784 1925 2100 2182 2307 290 502 548 742 751 816 845 846 974 1327 1343 1747 1751 1971 1985 2088 2089 2090 2092 2093 254 256 257 1127 1283 1379 431 609 620 719 720 732 1756 2167 1674 1675 915 916 1125 1142 1207 1290 1707 1858 1864 2068 2069 265 253 385 967 1146 1792 1962 2224 2303 1673 1723 1979 2277 2290 61 62 63 64 26 181 426 440 711 784 834 976 1326 1504 1532 1533 15 34 1543 1546 1549 1550 1676 1679 1680 1687 1721 1730 1731 2079 2241 2242 685 1212 1213 1214 1215 1216 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a polypeptide of Lactococcus lactis or one of its fragments involved in the metabolism of fatty acids and phospholipids and in that it comprises a nucleotide sequence chosen from the following sequences: ORF 65 72 118 390 413 414 415 576 577 675 786 787 788 789 790 791 792 793 794 795 859 1284 1834 1837 1955 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a polypeptide of Lactococcus lactis or one of its fragments involved in the

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metabolism of nucleotides, purines, pyrimidines or nucleosides and in that it comprises a nucleotide sequence chosen from the following sequences: ORF 2066 1531 1556 1557 1558 1569 1573 1575 1576 1578 501 1386 1387 1404 1586 1599 21 281 282 947 949 1969 2133 200, preferably 182 506 992 993 1159 1177 311 1112 1754 226 1164 1563 1564 1568 1689 2007 407 1086 1087 1388 1649 1650 295 605 645 829 854 1165 1482 1483 1485 1708 1908 1950 202 204 205 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a polypeptide of Lactococcus lactis or one of its fragments involved in the regulatory functions, and in that it comprises a nucleotide sequence chosen from the following sequences: ORF 1263 1331 1559 2041 2316 405 406 908 909 1022 1478 1641 1725 1696 1726 890 1555 1506 7, preferably 6 8 110 131 137 154 167 243 245 261 324 335 421 424 429 445 541 565 622 674 771 832 847 877 905 929 946 982 1084 1151 1186 1197 1233 1294 1310 1349 1490 1494 1521 1524 1566 1624 1639 1652 1654 1717 1745 1753 1766 1830 1831 1846 1852 1853 1928 1956 2001 2032 2043 2059 2095 2216 2243 2258 2262 2270 2291 2296 2296 1020 1477 1642 1724 1752 1797 1798 740 1545 1688 2200 2205 24 340 383 386 1274 1345 1603 1927 543 435 1480 1498 1681 804 975 1211 1336 117 603 723 757 785 926 1344 1517 1527 1585 2172 227 229 360 770 1171 1333 1635 2071 2299 and one of their fragments repr informative.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a polypeptide of Lactococcus lactis or one of its fragments involved in the replication process, and in that it comprises a nucleotide sequence chosen from the following sequences: ORF 4 5 2 3 362 363 563 600 663 664 665 2030 2180 2198 2265 2281, preferably 573 644 806 856 872 873 1089
1360 1361 1869 101 102 240 349 401 408 428 507 513 542 572 657 761 766

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767 857 878 898 923 997 1000 1002 1025 1088 1129 1138 1139 1140 1266 1270 1693 1791 1883 1948 2098 2247 2251 2263 2264 2267 2301 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a Lactococcus lactis polypeptide or one of its fragments involved in the transcription process, and in that it comprises a nucleotide sequence chosen from the following sequences: ORF 1237 1332 564, preferably 817 960 1906 2314 14 619 646 648 709 779 1314 1367 1368 1607 1612 1623 1850 1851 2124 2160 2222 2297 359 419 1613 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a Lactococcus lactis polypeptide or one of its fragments involved in the translation process, and in that it comprises a nucleotide sequence chosen from the following sequences: ORF 1239 313 396 706 858 1778 1854 1861 1929 2105 571 1776 97 98 680 2127 782 783 2128, preferably 68 382 394 807 831 1113 1114 1763 1775 1879 1902 1914 1964 1983 1984 2020 2022 2094 2109 2183 2229 260 303 624 1606 1697 2027 2028 2045 2047 2192 374 911 1600 2062 107 135 198 246 292 301 302 748 760 781 805 853 892 906 1097 1099 1307 1308 1617 1644 1790 1893 1894 1937 2056 2057 2123 2125 2126 2135 2136 2137 2138 2139 2140 2142 2143 2144 2145 2146 2147 2148 2149 2150 2151 2152 2153 2154 2155 2156 2162 2209 2246 2248 2310 2311 2318 2319 13 132 158 168 169 171 496 638 705 852 1144 1923 1944 358 607 707 989 1126 1895 1912 2065 2208 2317 and one their fragments represent native.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a polypeptide of Lactococcus lactis or one of its fragments involved in the

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protein transport and binding process, and in that it comprises a nucleotide sequence chosen from the following sequences: ORF 1256 1787 330 550 699 717 1330 1496 1497 1810 1888 1889 1890 1891 1892 2091 1771 566 919 1551 2040 2104 635 676 1970 121 122 437 81 82 726 927 2221, preferably 11 74 104 262 263 269 270 271 285 286 287 318 319 333 334 544 545 579 580 672 673 729 855 881 888 889 917 983 984 1080 1121 1122 1203 1311 1312 1366 1567 1602 1667 1800 1801 1825 1826 1844 1926 2051 2052 2074 2157 2260 2261 2313 2321 70 115 331 352 353 354 355 356 357 364 365 375 574 698 824 863 864 955 956 957 1128 1182 1183 1184 1185 1750 1811 1847 1848 1873 2087 2107 2250 52 308 309 310 1767 1768 1769 1770 1772 208 209 259 430 933 934 1282 1369 1370 1371 1530 1540 1541 1542 1548 1671 1678 1683 1684 1685 1686 1733 1734 1735 2239 99 193 194 316 336 337 338 339 341 392 587 636 691 848 849 869 932 1194 1195 1295 1341 1355 1356 1357 1407 1528 1640 1655 2058 2169 2170 2171 2305 896 1166 1651 23 25 180 422 423 425 630 833 977 1149 1150 1505 1757 1758 1759 127 130 160 244 314 389 621 679 721 722 1389 1561 1584 1682 2220 2292 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a polypeptide of Lactococcus lactis or one of its fragments involved in the adaptation to atypical conditions, and in that it comprises a nucleotide sequence chosen from the following sequences: ORF 174 540 568 654 686 970 1570, preferably 69 173 195 312 346 418 653 912 971 1102 1170 1414 2085 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a polypeptide of Lactococcus lactis or one of its fragments in the sensitivity to drugs and analogues, and in that it comprises a sequence

<Desc / Clms Page number 39>

nucleotide chosen from the following sequences: ORF 1244, preferably 1860 2249 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a polypeptide of Lactococcus lactis or one of its fragments involved in the functions relating to phages and prophages, and in that it comprises a nucleotide sequence chosen from the following sequences: ORF 448 449 452 455 465 471 493 494 1026 1027 1028 1029 1030 1031 1032 1033 1034 1035 1036 1037 1038 1039 1040 1041 1046 1051 1075 1076 1077 1420 1422 1423 1424 1425 1426 1448 1450 1455 1456 1458 1465 1466 1467 1468 1470 1720, preferably 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 446 447 450 451 453 454 456 457 458 459 460 461 462 463 464 466 467 468 469 470 472 473 474 475 476 477 478 479 480 481 482 483 484 485 486 487 488 489 490 491 492 514 515 516 517 518 519 520 521 522 523 524 525 526 527 528 529 531 532 533 534 1042 1043 1044 1045 1047 1048 1049 1050 1052 1053 1054 1055 1056 1057 1058 1059 1060 1061 1062 1063 1064 1065 1066 1067 1068 1069 1070 1071 1072 1073 1074 1200 1217 1416 1417 1418 1419 1421 1427 1428 1429 1430 1431 1432 1433 1434 1435 1436 1437 1438 1439 1440 1441 1442 1443 1444 1445 1446 1447 1449 1451 1452 1453 1454 1457 1459 1460 1461 1461 1464 1469 1471 1472 1473 1474 1475 1647 1998 2003 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a polypeptide of Lactococcus lactis or one of its fragments involved in the functions relating to transposons and in that it comprises a nucleotide sequence chosen from the following sequences: ORF 53 54 55 56 90 91 93 94 141 142 143 144 145 146 378 379 380 381 649 650 651 652 662 670 737 738 837 838 839 841 842 1224 1225 1231 1232 1236 1286 1287 1591 1741 1742 2082 2083 2129 2130 2131 2132 2201 2202 2203 2204, preferably

<Desc / Clms Page number 40>

614 694 718 950 1268 1342 1400 1560 1749 1936 1961 1986 1992 2060 2118 2191 2240 and one of their representative fragments.

Preferably, the invention relates to a nucleotide sequence according to the invention characterized in that it codes for a specific polypeptide of Lactococcus lactis or one of its fragments, and in that it comprises a nucleotide sequence chosen from among following sequences: ORF 416 1727 1822 87 88 279 332 569 671 700 701 727 840 850 884 891 900 1204 1242 1277 1382 1592 1605 1718 1719 1762 1777 1780 1907 1917 1918 1919 1930 1938 1939 1940 2102 2106 2174 2210 1250 1328 2199 666 948 1381 1990, preferably 591 618 710 835 1153 1910 1931 1953 2031 17 18 50 57 58 60 78 79 80 84 92 113 114 116 124 125 133 134 139 140 148 149 150 157 159 161 162 170 172 175 176 179 183 184 185 188 189 196 197 214 230 231 232 233 234 235 236 238 247 255 258 264 266 267 268 274 277 283 288 289 293 294 298 299 300 315 317 321 323 325 343 344 366 367 369 370 371 372 373 376 377 384 387 388 399 404 409 410 411 420 433 436 438 443 444 498 499 503 510 512 546 549 553 555 556 557 558 582 583 588 589 592 594 597 599 611 625 637 655 678 688 703 704 708 725 730 735 741 749 756 759 762 763 764 765 769 774 780 798 799 800 803 809 810 811 819 827 830 861 865 880 882 883 899 913 920 924 951 962 883 899 913 920 924 951 965 986 987 999 1001 1004 1016 1019 1023 1078 1079 1090 1091 1094 1098 1100 1103 1104 1106 1109 1110 1115 1116 1117 1119 1124 1131 1137 1141 1147 1148 1155 1156 1160 1161 1168 1175 1187 1188 1201 1202 1208 1209 1223 1276 1278 1280 1303 1313 1315 1316 1318 1319 1322 1340 1352 1358 1359 1363 1391 1392 1393 1408 1409 1411 1412 1476 1486 1489 1491 1492 1493 1501 1518 1519 1520 1522 1523 1525 1529 1544 1547 1565 1577 1579 1581 1595 1597 1614 1619 1620 1622 1648 1658 1661 1662 1666 1669 1699 1701 1702 1709 1710 1711 1712 1722 1748 1760 1761 1764 1765 1773 1774 1781 1782 1786 1788 1789 1802 1805 1809 1827 1828 1829 1832 1833 1838 1839 1840 1842 1843 1849 1855 1856 1863 1865 1866 1867 1868 1872

<Desc / Clms Page number 41>

1874 1875 1876 1885 1886 1887 1900 1901 1903 1915 1916 1924 1933 1941 1946 1951 1952 1954 1958 1959 1963 1966 1967 1968 1976 1977 1978 1981 1982 2004 2006 2008 2011 2014 2015 2016 2017 2018 2019 2026 2029 2033 2044 2049 2050 2054 2061 2063 2070 2080 2081 2101 2108 2110 2115 2158 2163 2165 2168 2173 2175 2184 2186 2190 2193 2194 2197 2217 2219 2226 2227 2232 2235 2238 2245 2253 2254 2259 2272 2275 2278 2282 2284 2286 2289 2294 2295 2298 2302 2304 2308 2312 2322 2323 16 66 67 73 77 108 109 111 112 252 391 432 505 509 511 559 581 593 598 604 612 640 642 647 702 733 734 736 739 750 752 758 776 777 778 802 820 826 874 876 897 901 910 922 952 954 961 979 980 981 996 1017 1093 1111 1118 1135 1196 1199 1273 1320 1377 1413 1562 1610 1705 1783 1804 1884 1897 1909 1922 2117 2293 9 10 12 15 19 51 71 83 85 86 89 95 96 103 105 106 123 138 147 152 156 163 164 165 177 178 190 191 192 199 201 203 210 211 216 225 228 237 239 241 248 249 250 251 272 275 278 296 297 304 305 306 307 322 368 393 397 412 427 441 442 495 504 530 535 536 537 538 539 547 561 567 578 590 595 596 601 602 606 608 623 626 627 628 629 632 633 639 641 658 659 660 661 667 668 669 687 689 690 692 696 724 731 753 772 773 775 80 822 823 825 836 851 866 867 868 870 879 887 893 895 903 904 907 921 925 928 931 935 938 941 943 962 966 969 985 988 998 1003 1005 1006 1007 1008 1009 1010 1018 1021 1081 1082 1083 1085 1092 1095 1096 1134 1132 1133 1136 1143 1154 1158 1163 1167 1180 1189 1190 1191 1192 1198 1206 1210 1218 1219 1220 1221 1222 1226 1227 1228 1229 1230 1234 1235 1253 1264 1269 1271 1272 1279 1285 1288 1305 1306 1309 1317 1334 1335 1337 1338 1339 1346 1347 1365 1350 1351 1364 1378 1385 1390 1394 1395 1396 1397 1398 1399 1401 1402 1403 1410 1415 1479 1484 1488 1495 1502 1503 1509 1510 1516 1535 1536 1571 1580 1582 1587 1588 1589 1590 1593 1594 1598 1608 1611 1616 1625 1626 1627 1628 1629 1630 1631 1632 1633
1634 1643 1645 1646 1653 1659 1660 1665 1672 1691 1698 1700 1703 1706
1713 1714 1715 1716 1736 1737 1738 1739 1740 1743 1744 1755 1799 1806

<Desc / Clms Page number 42>

1812 1813 1821 1835 1836 1841 1862 1870 1877 1878 1880 1882 1896 1899 1905 1911 1913 1932 1942 1943 1945 1947 1949 1957 1965 1974 1975 1980 1987 1988 1989 1991 1993 1994 1995 1996 1997 1999 2000 2002 2009 2010 2012 2013 2021 2023 2024 2046 2048 2053 2055 2064 2067 2072 2073 2075 2076 2077 2078 2086 2097 2099 2103 2111 2112 2113 2114 2116 2119 2121 2122 2141 2166 2181 2187 2188 2189 2195 2196 2212 2213 2214 2215 2223 2225 2228 2230 2231 2233 2234 2236 2237 2244 2252 2255 2256 2266 2268 2271 2273 2274 and one of their representative fragments.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the biosynthesis of amino acids , and in that it is chosen from the polypeptides of the following sequences: SEQ ID N 1507 1508 1511 1512 1513 1514 1515 796 1178 1179 1275 1881 1251 1252 1254 1255 1257 1258 1259 1260 1261 683 1238 1240 1241 1243 1245 1246 1247 1248 1249 860 797, preferably 500 120 1291 1690 1793 1794 1795 1796 1803 1807 1808 166 361 755 1292 1293 1323 1609 1668 1670 1972 1973 2159 2285 128 129 575 812 813 814 815 1324 1325 1656 1657 1935 2257 75 551 613 615 616 617 1904 and one of their fragments.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the biosynthesis of cofactors, prosthetic groups and transporters, and in that it is chosen from polypeptides of the following sequences: SEQ ID N 1169 1383 398
1405, preferably 871 953 1172 1173 1174 1176 1353 1354 610 1157 1615
187 743 744 745 746 747 875 584 585 1362 1487 1011 1012 1013 1014 1123
1145 1871 862 958 1692 1695 497 1130 1300 1301 1302 1526 1120 and a fragment thereof.

In another aspect, preferably, the invention relates to a

<Desc / Clms Page number 43>

polypeptide according to the invention, characterized in that it is a polypeptide of the cell envelope of Lactococcus lactis or one of its fragments, and in that it is chosen from the polypeptides of the following sequences: SEQ ID N 328 329 2288 2320 1296, preferably 326 327 631 978 1105 1193 1481 2025 2185 280 320 348 350 351 395 552 554 560 885 886 968 1181 1321 1406 1637 1638 1857 1934 1960 2096 2164 2283 2287 153 206 207 212 213 217 218 219 220 221 222 223 224 693 695 697 754 894 930 936 937 939 940 942 944 945 973 1297 1298 1299 1304 1380 1499 1500 1618 1845 2218 2279 2280 and a fragment thereof.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the cellular machinery, and in that it is chosen from the polypeptides of the following sequences: SEQ ID N 20 22 681 1898 1920 1921 402 403 972 417 1015 2134 1779 2206, preferably 100 818 828 902 914 990 991 1267 1384 1636 1704 2207 508 126 119 562 959 1664 2161 2315 1107 1108 1265 1823 1824 1859 2084 2120 2176 2177 2178 2179 and a fragment thereof.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the central intermediate metabolism, and in that it is chosen from the polypeptides of the following sequences: SEQ ID N 728 155, preferably 434 1024 1162 1376 1537 1621 291 716 1289 1538 1539 1728 1729 1732 2005 1663 215 586 712 713 714 715 and one of their fragments .

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in energy metabolism, and in that it is chosen from the polypeptides of the following sequences: SEQ ID N 1785 2042 59 1329 1814 1815 1816 1817 1818 1819

<Desc / Clms Page number 44>

1820 994 995 677 918 1205 1262 2211 284 345 439 570 656 682 1152 1372 1373 1374 634 1552 1553 1554 2034 2035 2036 2037 2038 2039 684, preferably 76 136 151 186 242 273 276 342 347 400 643 768 801 843 844 1281 1348 1572 1574 1583 1596 1601 1604 1746 1784 1925 2100 2182 2307 290 502 548 742 751 816 845 846 974 1327 1343 1747 1751 1971 1985 2088 2089 2090 2092 2093 254 256 257 1127 1283 1379 431 609 620 719 720 732 1756 2167 1674 1675 915 916 1125 1142 1207 1290 1707 1858 1864 2068 2069 265 253 385 967 1146 1792 1962 2224 2303 1673 1723 1979 2277 2290 61 62 63 64 26 181 426 440 711 784 834 976 1326 1504 1532 1533 1534 1543 1546 1549 1550 1676 1679 1680 1687 1721 1730 1731 2079 2241 2242 685 1212 1213 1214 1215 1216 and a fragment thereof.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the metabolism of fatty acids and phospholipids, and in that it is chosen from polypeptides of the following sequences: SEQ ID N 65 72 118 390 413 414 415 576 577 675 786 787 788 789 790 791 792 793 794 795 859 1284 1834 1837 1955 and one of their fragments.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the metabolism of nucleotides, purines, pyrimidines or nucleosides, and in that it is chosen from polypeptides of the following sequences: SEQ ID N 2066 1531 1556 1557 1558 1569 1573 1575 1576 1578 501 1386 1387 1404 1586 1599 21 281 282 947 949 1969 2133 200 , preferably 182 506 992 993 1159 1177 311 1112 1754 226 1164 1563 1564 1568 1689 2007 407 1086 1087 1388 1649 1650 295 605 645 829 854 1165 1482 1483 1485 1708 1908 1950 202 204 205 and one of their fragments.

In another aspect, preferably, the invention relates to a

<Desc / Clms Page number 45>

polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the regulatory functions, and in that it is chosen from the polypeptides of the following sequences: SEQ ID N 1263 1331 1559 2041 2316 405 406 908 909 1022 1478 1641 1725 1696 1726 890 1555 1506 7, preferably 6 8 110 131 137 154 167 243 245 261 324 335 421 424 429 445 541 565 622 674 771 832 847 877 905 929 946 982 1084 1151 1186 1197 1233 1294 1310 1349 1490 1494 1521 1524 1566 1624 1639 1652 1654 1717 1745 1753 1766 1830 1831 1846 1852 1853 1928 1956 2001 2032 2043 2059 2095 2216 2243 2258 2262 2270 2291 2296 2306 1020 1477 1642 1724 1752 1797 1797 1797 1766 740 1545 1688 2200 2205 24 340 383 386 1274 1345 1603 1927 543 435 1480 1498 1681 804 975 1211 1336 117 603 723 757 785 926 1344 1517 1527 1585 2172 227 229 360 770 1171 1333 1635 2071 2299 and one of their fragments.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the replication process, and in that it is chosen from the polypeptides of the following sequences: SEQ ID N 4 5 2 3 362 363 563 600 663 664 665 2030 2180 2198 2265 2281, preferably 573 644 806 856 872 873 1089 1360 1361 1869 101 102 240 349 401 408 428 507 513 542 572 657 761 766 767 857 878 898 923 997 1000 1002 1025 1088 1129 1138 1139 1140 1266 1270 1693 1791 1883
1948 2098 2247 2251 2263 2264 2267 2301 and a fragment thereof.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the transcription process, and in that it is chosen from the polypeptides of the following sequences: SEQ ID N 1237 1332 564, preferably 817 960 1906 2314 14 619 646 648 709 779 1314 1367 1368 1607 1612 1623 1850 1851 2124 2160 2222 2297 359 419 1613 and one of their fragments.

<Desc / Clms Page number 46>

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the translation process, and in that it is chosen from the polypeptides of the following sequences: SEQ ID N 1239 313 396 706 858 1778 1854 1861 1929 2105 571 1776 97 98 680 2127 782 783 2128, preferably 68 382 394 807 831 1113 1114 1763 1775 1879 1902 1914 1964 1983 1984 2020 2022 2094 2109 2183 2229 260 303 624 1606 1697 2027 2028 2045 2047 2192 374 911 1600 2062 107 135 198 246 292 301 302 748 760 781 805 853 892 906 1097 1099 1307 1308 1617 1644 1790 1893 1894 1937 2056 2057 2123 2125 2126 2135 2136 213721382139214021422143 21442145214621472148214921502151 2152 2153 2154 2155 2156 2162 2209 2246 2248 2310 2311 2318 2319 13
132 158 168 169 171 496 638 705 852 1144 1923 1944 358 607 707 989 1126 1895 1912 2065 2208 2317 and a fragment thereof.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the transport process and binding of proteins, and in that it is chosen from the polypeptides of the following sequences: SEQ ID N 1256 1787 330 550 699 717
1330 1496 1497 1810 1888 1889 1890 1891 1892 2091 1771 566 919 1551 2040 2104 635676 1970 121 122 437 81 82 726 927 2221, preferably 11 74 104 262 263 269 270 271 285 286 287 318 319 333 334 544 545 579 580 672 673 729 855 881 888 889 917 983 984 1080 1121 1122 1203 1311 1312
1366 1567 1602 1667 1800 1801 1825 1826 1844 1926 2051 2052 2074 2157 2260 2261 2313 2321 70 115 331 352 353 354 355 356 357 364 365 375 574 698 824 863 864 955 956 957 1128 1182 1183 1184 1185 1750 1811 1847
1848 1873 2087 2107 2250 52 308 309 310 1767 1768 1769 1770 1772 208 209 259 430 933 934 1282 1369 1370 1371 1530 1540 1541 1542 1548 1671
1678 1683 1684 1685 1686 1733 1734 1735 2239 99 193 194 316 336 337 338

<Desc / Clms Page number 47>

339 341 392 587 636 691 848 849 869 932 1194 1195 1295 1341 1355 1356 1357 1407 1528 1640 1655 2058 2169 2170 2171 2305 896 1166 1651 23 25 180 422 423 425 630 833 977 1149 1150 1505 1757 1758 1759 127 130 160 244 314 389 621 679 721 722 1389 1561 1584 1682 2220 2292 and a fragment thereof.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the adaptation to the conditions. atypical, and in that it is chosen from polypeptides of the following sequences: SEQ ID N 174 540 568 654 686 970 1570, preferably 69 173 195 312 346 418 653 912 971 1102 1170 1414 2085 and one of their fragments.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments in the sensitivity to drugs and the like. , and in that it is chosen from the polypeptides of the following sequences: SEQ ID N 1244, preferably 1860 2249 and one of their fragments.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the functions relating to phages and prophages, and in that it is chosen from polypeptides of the following sequences: SEQ ID N 448 449 452 455 465 471 493 494 1026 1027
1028 1029 1030 1031 1032 1033 1034 1035 1036 1037 1038 1039 1040 1041
1046 1051 1075 1076 1077 1420 1422 1423 1424 1425 1426 1448 1450 1455
1456 1458 1465 1466 1467 1468 1470 1720, preferably 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 446 447 450 451 453 454 456 457 458 459 460 461 462 463 464 466 467 468 469 470 472 473 474 475 476 477 478 479 480 481 482 483 484 485 486 487 488 489 490 491 492 514 515 516 517 518 519 520 521 522 523 524 525 526 527 528 529 531 532 533

<Desc / Clms Page number 48>

534 1042 1043 1044 1045 1047 1048 1049 1050 1052 1053 1054 1055 1056 1057 1058 1059 1060 1061 1062 1063 1064 1065 1066 1067 1068 1069 1070 1071 1072 1073 1074 1200 1217 1416 1417 1418 1419 1421 1427 1428 1429 1430 1431 1432 1433 1434 1435 1436 1438 1439 1440 1441 1442 1443 1444 1445 1446 1447 1449 1451 1452 1453 1454 1457 1459 1460 1461 1462 1463 1464 1469 1471 1472 1473 1474 1475 1647 1998 2003 and a fragment thereof.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a polypeptide of Lactococcus lactis or one of its fragments involved in the functions relating to transposons , and in that it is chosen from the polypeptides of the following sequences: SEQ ID N 53 54 55 56 90 91 93 94 141 142 143 144 145 146 378 379 380 381 649 650 651 652 662 670 737 738 837 838 839 841 842 1224 1225 1231 1232 1236 1286 1287 1591 1741 1742 2082 2083 2129 2130 2131 2132 2201 2202 2203 2204, preferably 614 694 718 950 1268 1342 1400 1560 1749 1936 1961 1986 1992 2060 2118 2191 2240 and one of their fragments.

In another aspect, preferably, the invention relates to a polypeptide according to the invention, characterized in that it is a specific polypeptide of Lactococcus lactis or one of its fragments, and in that it is chosen from the polypeptides of the following sequences: SEQ ID N 416 1727 1822 87 88 279 332 569 671 700 701 727 840 850 884 891 900 1204 1242 1277 1382 1592 1605 1718 1719 1762 1777 1780 1907 1917 1918 1919 1930 1938 1939 1940 2102 2106 2174 2210 1250 1328 2199 666 948 1381 1990, preferably 591 618 710 835 1153 1910 1931 1953 2031 17 18 50 57 58 60 78 79 80 84 92 113 114 116 124 125 133 134 139 140 148 149 150 157 159 161 162 170 172 175 176 179 183 184 185 188 189 196 197 214 230 231 232 233 234 235 236 238 247 255 258 264 266 267 268 274 277 283 288 289 293 294 298 299 300 315 317 321 323 325 343 344 366 367 369 370 371 372 373 376 377 384

<Desc / Clms Page number 49>

387 388 399 404 409 410 411 420 433 436 438 443 444 498 499 503 510 512 546 549 553 555 556 557 558 582 583 588 589 592 594 597 599 611 625 637 655 678 688 703 704 708 725 730 735 741 749 756 759 762 763 764 765 769 774 780 798 799 800 803 809 810 811 819 827 830 861 865 880 882 883 899 913 920 924 951 963 964 965 986 987 999 1001 1004 1016 1019 1023 1078 1079 1090 1091 1094 1098 1100 1103 1104 1106 1109 1110 1115 1116 1117 1119 1124 1131 1137 1141 1147 1148 1155 1156 1160 1161 1168 1175 1187 1188 1201 1202 1208 1209 1223 1276 1278 1280 1303 1313 1315 1316 1318 1319 1322 1340 1352 1358 1359 1363 1391 1392 1393 1408 1409 1411 1412 1476 1486 1489 1491 1492 1501 1518 1519 1520 1522 1523 1525 1529 1544 1547 1565 1577 1579 1581 1595 1597 1614 1619 1620 1622 1648 1658 1661 1662 1666 1669 1677 1694 1699 1701 1702 1709 1710 1711 1712 1722 1748 1760 1761 1764 1765 1773 1774 1781 1782 1786 1788 1789 1809 1827 1828 1829 1832 1833 1838 1839 1840 1842 1843 1849 1855 1856 1863 1865 1 866 1867 1868 1872 1874 1875 1876 1885 1886 1887 1900 1901 1903 1915 1916 1924 1933 1941 1946 1951 1952 1954 1958 1959 1963 1966 1967 1968 1976 1977 1978 1981 1982 2004 2006 2008 2011 2014 2015 2016 2017 2018 2019 2026 2029 2033 2044 2049 2050 2054 2061 2063 2070 2080 2081 2101 2108 2110 2115 2158 2163 2165 2168 2173 2175 2184 2186 2190 2193 2194 2197 2217 2219 2226 2227 2232 2235 2238 2245 2253 2254 2259 2272 2275 2278 2282 2284 2286 2289 2294 2295 2298 2302 2304 2308 2312 2322 2323 67 73 77 108 109 111 112 252 391 432 505 509 511 559 581 593 598 604 612 640 642 647 702 733 734 736 739 750 752 758 776 777 778 802 820 826 874 876 897 901 910 922 952 954 961 979 980 981 996 1017 1093 1111 1118 1135 1196 1199 1273 1320 1377 1413 1562 1610 1705 1783 1804 1884 1897 1909 1922 2117 2293 9 10 12 15 19 51 71 83 85 86 89 95 96 103 105 106 123 138 147 152 156 163 164 165 177 178 190 191 192 199 201 203 210 211 216 225 228 237 239 241 248 249 250 251 272 275 278 296 297 304 305 306 307 322 368 393 397 412 427 441 442 495 504 530 535 536 537

<Desc / Clms Page number 50>

538 539 547 561 567 578 590 595 596 601 602 606 608 623 626 627 628 629 632 633 639 641 658 659 660 661 667 668 669 687 689 690 692 696 724 731 753 772 773 775 808 821 822 823 825 836 868 866 870 879 887 893 895 903 904 907 921 925 928 931 935 938 941 943 962 966 969 985 988 998 1003 1005 1006 1007 1008 1009 1010 1018 1021 1081 1082 1083 1085 1092 1095 1096 1101 1132 1133 1134 1136 1143 1154 1158 1163 1167 1180 1190 1191 1192 1198 1206 1210 1218 1219 1220 1221 1222 1226 1227 1228 1229 1230 1234 1235 1253 1264 1269 1271 1272 1279 1285 1288 1305 1306 1309 1317 1334 1335 1337 1338 1339 1346 1347 1350 1351 1364 1365 1375 1378 1385 1390 1394 1395 1396 1399 1401 1402 1403 1410 1415 1479 1484 1488 1495 1502 1503 1509 1510 1516 1535 1536 1571 1580 1582 1587 1588 1589 1590 1593 1594 1598 1608 1611 1616 1625 1626 1627 1628 1629 1630 1631 1632 1633 1634 1643 1645 1646 1653 1659 1660 1665 1672 1700 1703 1706 1713 1714 1715 1716 1736 1737 1738 1739 1740 1743 1744 17 55 1799 1806 1812 1813 1821 1835 1836 1841 1862 1870 1877 1878 1880 1882 1896 1899 1905 1911 1913 1932 1942 1943 1945 1947 1949 1957 1965 1974 1975 1980 1987 1988 1989 1991 1993 1994 1995 1996 1997 1999 2000 2002 2009 2010 2012 2013 2021 2023 2024 2046 2048 2053 2055 2064 2067 2072 2073 2075 2076 2077 2078 2086 2097 2099 2103 2111 2112 2113 2114 2116 2119 2121 2122 2141 2166 2181 2187 2188 2189 2195 2196 2212 2213 2214 2215 2223 2225 2228 2230 2231 2233 2234 2236 2237 22446 225662 2255 2268 2269 2271 2273 2274 and a fragment thereof.

It is important to note, however, that a living organism is a whole and should be taken as such. Thus, in order to be able to develop and exhibit its properties, any organism needs interactions between the different metabolic pathways. Thus, the classification stated above should not be considered as limiting, a gene being able to be involved in two distinct metabolic pathways.

A subject of the present invention is also the sequences

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nucleotides and / or polypeptides according to the invention, characterized in that said sequences are recorded on a recording medium, the form and nature of which facilitate the reading, analysis and / or use of said sequence or sequences ( s). supports may also contain other information extracted from the present invention, in particular analogies with already known sequences, as mentioned in Table III and / or information concerning the nucleotide and / or polypeptide sequences of other microorganisms in order to facilitate comparative analysis and exploitation of the results obtained.

Among said recording media, preference is given in particular to media readable by a computer, such as magnetic, optical, electric or hybrid media, in particular computer diskettes, CDROMs, computer servers. Such recording media are also the subject of the invention.

The recording media according to the invention, with the information provided, are very useful for the choice of primers or nucleotide probes for the determination of genes in Lactococcus lactis or strains close to this organism. Likewise, the use of these supports for the study of the genetic polymorphism of a strain close to Lactococcus lactis, in particular by the determination of the regions of collinearity, is very useful insofar as these supports not only provide the nucleotide sequence of the genome. of Lactococcus lactis IL 1403, but also the genomic organization in said sequence. Thus, the uses of recording media according to the invention are also subjects of the invention.

A method of studying the genetic polymorphism between strains close to Lactococcus lactis, by determining the regions of collinearity, can comprise the steps of fragmentation of the chromosomal DNA of said other strain (sonication, digestion),

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sequence of DNA fragments, - homology analysis with the genome of Lactococcus lactis IL 1043 (SEQ ID N 1).

This method, which comprises a step of analyzing homology with the genome of Lactococcus lactis IL1403, in particular by means of a recording medium, is also the subject of the invention.

The analysis of homology between different sequences is in fact advantageously carried out using sequence comparison software, such as the Blast software, or the software of the GCG kit, described above.

The invention is also aimed at the cloning and / or expression vectors, which contain a nucleotide sequence according to the invention. Particularly preferred are nucleotide sequences encoding polypeptides involved in cellular machinery, in particular secretion, central intermediate metabolism, in particular sugar production, energy metabolism, amino acid synthesis, transcription and process. translation, polypeptide synthesis, or nucleic acid sequences involved in functions relating to phages and prophages.

The vectors according to the invention are advantageously used for the generation of bacterial strains which exhibit improved fermentation properties and / or increased stability. In particular, the search is for bacterial strains, preferably of Lactococcus lactis, which exhibit increased resistance to phages, or improved secretion capacities.

The vectors according to the invention preferably comprise elements which allow the expression and / or the secretion of the nucleotide sequences in a given host cell.

The vector must then comprise a promoter, signals for initiation and termination of translation, as well as appropriate regions for the regulation of transcription. It must be able to be maintained stably in the host cell and may possibly have specific signals which

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specify the secretion of the translated protein. These different elements are chosen and optimized by those skilled in the art depending on the cellular host used. For this purpose, the nucleotide sequences according to the invention can be inserted into vectors which replicate autonomously within the chosen host, or be vectors integrating the chosen host.

Such vectors are prepared by methods commonly used by those skilled in the art, and the resulting clones can be introduced into a suitable host by standard methods, such as lipofection, electroporation, heat shock, or chemical methods. .

The vectors according to the invention are, for example, vectors of plasmid or viral origin. They are useful for transforming host cells in order to clone or express the nucleotide sequences according to the invention.

The invention also comprises the host cells transformed with a vector according to the invention.

The cellular host can be chosen from prokaryotic or eukaryotic systems, for example bacterial cells but also yeast cells or animal cells, in particular mammalian cells. Insect cells or plant cells can also be used. The preferred host cells according to the invention are in particular prokaryotic cells, preferably bacteria belonging to the genus Lactococcus, to the species Lactococcus lactis, or the microorganisms associated with the species Lactococcus lactis. The invention also relates to animals and plants, except man, which comprise a transformed cell according to the invention.

The cells transformed according to the invention can be used in processes for preparing recombinant polypeptides according to the invention. The processes for preparing a polypeptide according to the invention in recombinant form, characterized in that they use a vector and / or a cell transformed with a vector according to the invention are themselves included in the present invention. . Preferably, a cell transformed with a

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vector according to the invention under conditions which allow expression of said polypeptide and said recombinant peptide is recovered. The host cells according to the invention can also be used for the preparation of food compositions, which are themselves the subject of the present invention.

As has been said, the cellular host can be chosen from among prokaryotic or eukaryotic systems. In particular, it is possible to identify nucleotide sequences according to the invention, facilitating secretion in such a prokaryotic or eukaryotic system. A vector according to the invention carrying such a sequence can therefore be advantageously used for the production of recombinant proteins, intended to be secreted. Indeed, the purification of these recombinant proteins of interest will be facilitated by the fact that they are present in the supernatant of the cell culture rather than inside the host cells.

The polypeptides according to the invention can also be prepared by chemical synthesis. Such a preparation process is also an object of the invention. Those skilled in the art are familiar with chemical synthesis processes, for example techniques using solid phases (see in particular Steward et al., 1984, Solid phase peptides synthesis, Pierce Chem. Company, Rockford, 111.2nd ed. , (1984)) or techniques using partial solid phases, by condensation of fragments or by conventional solution synthesis. The polypeptides obtained by chemical synthesis and which may contain corresponding unnatural amino acids are also included in the invention.

The invention also comprises hybrid polypeptides which comprise at least the sequence of a polypeptide according to the invention, and the sequence of a polypeptide capable of inducing an immune response in humans or animals. The invention also includes the nucleotide sequences which encode such hybrid polypeptides, or the vectors which contain these nucleotide sequences. This coupling between a polypeptide

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according to the invention and an immunogenic polypeptide, can be carried out chemically or biologically. Thus, according to the invention, it is possible to introduce one or more binding element (s), in particular amino acids to facilitate the coupling reactions between the polypeptide according to the invention, and the immunostimulatory polypeptide, the covalent coupling of the immunostimulatory antigen which can be produced at the N or C-terminus of the polypeptide according to the invention. The bifunctional reagents allowing this coupling are determined as a function of the end chosen to carry out this coupling, and the coupling techniques are well known to those skilled in the art.

The conjugates resulting from a coupling of peptides can also be prepared by genetic recombination. The hybrid (conjugated) peptide can in fact be produced by recombinant DNA techniques, by insertion or addition to the DNA sequence encoding the polypeptide according to the invention, of a sequence encoding the peptide (s) (s). ) antigen (s), immunogen (s) or hapten (s). These techniques for preparing hybrid peptides by genetic recombination are well known to those skilled in the art (see for example Makrides, 1996, Microbiological Reviews 60, 512-538).

Preferably, said immune polypeptide is chosen from the group of peptides containing toxoids, in particular diphtheria toxoid or tetanus toxoid, proteins derived from Streptococcus (such as the human sereralbumin binding protein), OMPA membrane proteins and complexes. outer membrane proteins, outer membrane vesicles or thermal shock proteins.

The nucleotide and vector sequences encoding a hybrid polypeptide according to the invention are also subject of the invention.

The hybrid polypeptides according to the invention are very useful for obtaining monoclonal or polyclonal antibodies, capable of specifically recognizing the polypeptides according to the invention. Indeed, a hybrid polypeptide according to the invention allows the potentiation of the immune response,

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against the polypeptide according to the invention coupled to the immunogenic molecule. Such monoclonal or polyclonal antibodies, their fragments, or chimeric antibodies, recognizing the polypeptides according to the invention, are also subjects of the invention.

The specific monoclonal antibodies can be obtained according to the conventional hybridoma culture method described by Köhler and Milstein (1975, Nature 256, 495).

The antibodies according to the invention are, for example, chimeric antibodies, humanized antibodies, Fab or F (ab ') 2 fragments. It can also be in the form of an immunoconjugate or a labeled antibody in order to obtain a detectable and / or quantifiable signal.

Thus, the antibodies according to the invention can be used in a method for the detection and / or identification of bacteria belonging to the species Lactococcus lactis or to an associated microorganism in a biological sample, characterized in that it comprises the following steps: a) bringing the biological sample into contact with an antibody according to the invention; b) demonstration of the antigen-antibody complex possibly formed.

The antibodies according to the present invention can also be used in order to detect an expression of a gene of Lactococcus lactis or of associated microorganisms. Indeed, the presence of the expression product of a gene recognized by an antibody specific for said expression product can be detected by the presence of an antigen-antibody complex formed after bringing the strain of Lactococcus lactis or the microorganism into contact. associated with an antibody according to the invention. The bacterial strain used may have been prepared, that is to say centrifuged, lysed, placed in a reagent suitable for constituting the medium suitable for the immunological reaction. In particular, a method of detecting expression in the gene is preferred,

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corresponding to a Western blot, which can be carried out after electrophoresis on polyacrylamide gel of a lysate of the bacterial strain, in the presence or in the absence of reducing conditions (SDS-PAGE). After migration and separation of the proteins on the polyacrylamide gel, said proteins are transferred to an appropriate membrane (for example nylon) and the presence of the protein or polypeptide of interest is detected, by bringing said membrane into contact with a antibody according to the invention.

Thus, the present invention also comprises the kits or necessary for the implementation of a method as described (for detecting the expression of a Lactococcus lactis gene or of an associated microorganism, or for the detection and / or the identification of bacteria belonging to the species Lactococcus lactis or an associated microorganism), comprising the following elements: a) a polyclonal or monoclonal antibody according to the invention; b) optionally, the reagents for constituting the medium suitable for the immunological reaction; c) optionally, the reagents allowing the detection of the antigen-antibody complexes produced by the immunological reaction.

The polypeptides and the antibodies according to the invention can advantageously be immobilized on a support, in particular a protein chip. Such a protein chip is an object of the invention, and can also contain at least one polypeptide of a microorganism other than Lactococcus lactis or an antibody directed against a compound of a microorganism other than Lactococcus lactis.

The protein arrays or high density filters containing proteins according to the invention can be constructed in the same way as the DNA arrays according to the invention. In practice, it is possible to synthesize the polypeptides fixed directly to the protein chip, or to carry out an ex situ synthesis followed by a step of fixing the polypeptide synthesized on said chip.

The latter method is preferable, when it is desired to fix proteins of

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large size on the support, which are advantageously prepared by genetic engineering. However, if it is desired to fix only peptides on the support of said chip, it may be more advantageous to proceed with the synthesis of said peptides directly in situ.

The protein chips according to the invention can be advantageously used in kits or necessary for the detection and / or identification of bacteria associated with the species Lactococcus lactis or with a microorganism, or more generally in kits or necessary for the detection and / or identification of microorganisms. When the polypeptides according to the invention are fixed on the DNA chips, the presence of antibodies is sought in the samples tested, the fixing of an antibody according to the invention on the support of the protein chip allowing the identification of the protein for which said antibody is specific.

Preferably, an antibody according to the invention is fixed on the support of the protein chip, and the presence of the corresponding antigen, specific for Lactococcus lactis or an associated microorganism, is detected.

A protein chip described above can be used for the detection of gene products, to establish an expression profile of said genes, in addition to a DNA chip according to the invention.

The protein chips according to the invention are also extremely useful for proteomics experiments, which studies the interactions between the different proteins of a given microorganism. In a simplified manner, peptides representative of the various proteins of an organism are fixed on a support. Then, said support is brought into contact with labeled proteins, and after an optional rinsing step, interactions between said labeled proteins and the peptides attached to the protein chip are detected.

Thus, the protein chips comprising a polypeptide sequence according to the invention or an antibody according to the invention are the subject of the invention, as well as the kits or kits containing them.

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The present invention also covers a method for detecting and / or identifying bacteria belonging to the species Lactococcus lactis or to an associated microorganism in a biological sample, which uses a nucleotide sequence according to the invention.

It should be understood that the term biological sample relates in the present invention to samples taken from a living organism (in particular blood, tissues, organs or other taken from a mammal) or a sample containing biological material, that is, DNA. Such a biological sample therefore encompasses food compositions containing bacteria (for example cheeses, dairy products), but also food compositions containing yeasts (beers, breads) or others.

* The detection and / or identification method using the nucleotide sequences according to the invention can be of various nature.

A method comprising the following steps is preferred: a) optionally, isolating DNA from the biological sample to be analyzed, or obtaining a cDNA from the RNA of the biological sample; b) specific amplification of the DNA of bacteria belonging to the species Lactococcus lactis or to an associated microorganism using at least one primer according to the invention; c) demonstration of amplification products.

This method is based on the specific amplification of DNA, in particular by an amplification chain reaction.

A method comprising the following steps is also preferred: a) bringing a nucleotide probe according to the invention into contact with a biological sample, the nucleic acid contained in the biological sample having, where appropriate, been made previously accessible to hybridization, under conditions allowing hybridization of the probe to the nucleic acid of a bacterium

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belonging to the species Lactococcus lactis or to an associated microorganism; b) demonstration of the hybrid possibly formed between the nucleotide probe and the DNA of the biological sample.

Such a method should not be limited to detecting the presence of the DNA contained in the certified biological sample, it can also be used to detect the RNA contained in said sample. This process encompasses in particular the Southern and Northern blotting.

Another preferred method according to the invention comprises the following steps: a) bringing a nucleotide probe immobilized on a support according to the invention into contact with a biological sample, the nucleic acid of the sample having, where appropriate , been made accessible beforehand for hybridization, under conditions allowing hybridization of the probe to the nucleic acid of a bacterium belonging to the species Lactococcus lactis or to an associated microorganism; b) bringing the hybrid formed into contact between the nucleotide probe immobilized on a support and the nucleic acid contained in the biological sample, where appropriate after removing the DNA from the biological sample which has not hybridized with the probe, with a labeled nucleotide probe according to the invention; c) demonstration of the new hybrid formed in step b).

This method is advantageously used with a DNA chip according to the invention, the desired nucleic acid hybridizing with a probe present on the surface of said chip, and being detected by the use of a labeled probe. This method is advantageously implemented by combining a preliminary step of amplifying the DNA or the complementary DNA optionally obtained by reverse transcription, using primers according to the invention.

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Thus, the present invention also encompasses the kits or necessary for the detection and / or identification of bacteria belonging to the species Lactococcus lactis or to an associated microorganism, characterized in that it comprises the following elements: a) a nucleotide probe according to the invention; b) optionally, the reagents necessary for carrying out a hybridization reaction; c) optionally, at least one primer according to the invention as well as the reagents necessary for a DNA amplification reaction.

Likewise, the present invention also encompasses the kits or necessary for the detection and / or identification of bacteria belonging to the species Lactococcus lactis or to an associated microorganism, characterized in that it comprises the following elements: a ) a nucleotide probe, called a capture probe, according to the invention; b) an oligonucleotide probe, called a revelation probe, according to the invention; c) optionally, at least one primer according to the invention as well as the reagents necessary for a DNA amplification reaction.

Finally, the kits or necessary for the detection and / or identification of bacteria belonging to the species Lactococcus lactis or to an associated microorganism, characterized in that it comprises the following elements: a) at least one primer according to invention; b) optionally, the reagents necessary to carry out a DNA amplification reaction; c) optionally, a component making it possible to verify the sequence of the amplified fragment, more particularly an oligonucleotide probe according to the invention. are also objects of the present invention.

Preferably, said primers and / or probes and / or polypeptides and / or

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antibodies according to the present invention used in the methods and / or kits or necessary according to the present invention are chosen from primers and / or probes and / or polypeptides and / or antibodies specific for the species Lactococcus lactis. Preferably, these elements are chosen from the nucleotide sequences leading to a secreted protein, from the secreted polypeptides, or from the antibodies directed against secreted polypeptides of Lactococcus lactis.

A subject of the present invention is also the strains of Lactococcus lactis and / or associated microorganisms containing one or more mutation (s), a nucleotide sequence according to the invention, in particular an ORF sequence, or their regulatory elements (in particular promoters).

Preference is given, according to the present invention, to strains of Lactococcus lactis exhibiting one or more mutation (s) in the nucleotide sequences encoding polypeptides involved in the cellular machine, in particular the secretion, the central intermediate metabolism, in particular the production of sugars. , energy metabolism, the processes of amino acid synthesis, transcription and translation, synthesis of polypeptides, or in resistance and / or adaptation to stress or nucleic acid sequences involved in functions relating to phages and prophages.

Said mutations can lead to inactivation of the gene, or in particular when they are located in the regulatory elements of said gene, to overexpression thereof.

Thus, we are looking in particular for strains of Lactococcus lactis exhibiting increased resistance to infection and / or propagation of phages, over-expressing or under-expressing (in particular no longer expressing at all) a polypeptide according to the invention. , involved in functions relating to phages and prophages. A strain of Lactococcus lactis which exhibits increased resistance to infection and / or spread of phages, containing a toxic gene under the control of an agent regulating the expression of genes encoding them.

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functions relating to phages and prophages, is also an object of the invention.

Such modified strains of Lactococcus lactis are very useful in increasing the biosynthesis or biodegradation of compounds of interest. In particular, an improvement in the biosynthesis of diacetyl is sought when it is desired to manufacture butter or cottage cheese. It may also be of interest to improve the biodegradation of sugars, in particular lactoses, present in the food compositions to which the strains according to the invention are added.

It is also possible to use a polypeptide according to the invention, a transformed cell according to the invention, and / or an animal according to the invention in a process for the biosynthesis or biodegradation of a compound of interest, itself also a subject of the present invention.

Finally, a method of diagnosing the presence of phages in lactic starters and in dairy products, by studying the presence of the nucleic acid which codes for a polypeptide involved in functions relating to phages and prophages, is also an object of the invention.

MATERIALS AND METHODS
1. Sequencing of the L. lactis IL1403 genome.

The L. lactis IL1403 genome sequencing strategy involved two main steps. First, the diagnostic sequence was established, with a sequencing redundancy of only 2. Second, the quality of the sequence was improved by sequencing random templates to achieve a redundancy of 6. Any part of the genome that did not been sequenced only on one strand was re-sequenced, using matrices generated by long-range PCR (Long Range or LR PCR), in order to obtain an error rate

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less than 0.01% (less than one error per 10,000 bases).

The low redundancy sequencing strategy of the L. lactis genome is presented in Table 2. This strategy is a compromise between a direct sequencing approach and a random sequencing approach. The objective is to reduce the time and effort required to obtain the organization of the genome and to know the genes that compose it. First, a limited number of randomly selected clones are sequenced, so the rate of accumulation of new sequences remains approximately constant. This condition ends when the genome has been covered roughly once. In a second step, clones chosen at random, and carrying a large insert, are sequenced by primer walking. Low redundancy can then be kept by choosing the oligonucleotides corresponding to the ends of the extended contigs, for the next step of primer walking.

This step is continued until obtaining a new sequence is greater than obtaining @ new base for 3 bases sequenced. The final step in sequencing ends with the use of another direct method, which is called multiplex long accurate PCR (MLA PCR) (Sorokin et al, 1996, A new approach using multiplex long accurate PCR and yeast artificial chromosomes for bacterial chromosome mapping and sequencing, Genome Res, 6: 448-53). This involves the mixing of a large number of oligonucleotides corresponding to the ends of the contigs. A product will be obtained each time the distance between 2 sites on the genome, corresponding to the ends of two contigs, is less than the maximum size that can be synthesized by LR PCR. For the size of the genome of L. lactis, the probability of obtaining this type of product is between 0.5 and 1, if 20 oligonucleotides are mixed (at least half of the PCR reactions containing 20 oligonucleotides chosen at random, will give a amplification product). The statistical data of the application of this strategy for the sequencing of L. lactis are presented in table 3. A library containing 2854 clones with inserts of a size included

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between 1 and 2 Kb, was constructed using the vectors pBluescript II KS + (Stratagene) or pSGMU2 (Errington J, 1986, A general method for fusion of the Escherichia coli lacZ gene to chromosomal genes in Bacillus subtilis, J Gen Microbiol, 132 : 2953-66). 2625 clones were sequenced with the direct oligonucleotide (M13-21) and 2168 with the reverse oligonucleotide (M13RP1), with a success rate of approximately 90%. After obtaining approximately 2100 kb of sequences, 2357 oligonucleotides were synthesized to close the spaces between the direct and reverse sequences. A total of about 3.3 Mb of sequences was thus obtained.

The # -FIXII vector (Stratagene) was used to construct a library of large inserts. The L. lactis chromosome was partially digested with Sau3A, fractionated by sucrose gradient centrifugation, treated with Klenow polymerase in the presence of dGTP and dATP, and ligated with the vector # -FIXII itself digested with XhoI and treated. with Klenow polymerase in the presence of dCTP and dTTP. 262 phages were chosen at random and the ends of the inserts were sequenced with the oligonucleotide T7 (Stratagene). Among these 262 sequenced phages, 122 phages which made it possible to obtain a unique sequence with the T7 oligonucleotide, were then sequenced with the T3 oligonucleotide (Stratagene). About 250 kb of sequences were thus obtained in this way.

MLA PCR was used to obtain products for new sequences. The critical step of the method was to determine which mixtures of 2 oligonucleotides gave a product which can be used for sequencing. The protocol developed previously and which required two steps for identification (Sorokin et al, 1996, A new approach using multiplex long accurate PCR and yeast artificial chromosomes for bacterial chromosome mapping and sequencing, Genome Res, 6: 448-53), a been modified here so that only one step is required. In total, 1641 sequencing reactions on products of sizes varying between 1 and 20 kb were obtained, and approximately 0.77 Mb of sequences were read. This step made it possible to

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complete the complete assembly of the chromosome, resulting in a contig of 2.34 Mb. The total redundancy is close to 2. To verify that the assembly is correct, the inventors carried out amplifications of the LR PCR type on the entire genome, using 266 oligonucleotides, separated by predicted distances between 10 and 20 kb.

The expected products have been obtained, indicating that the assembly is correct.

To improve the quality of the final sequence, and thus facilitate the following annotation step, another library of plasmids containing small inserts (1-2 kb) of the genome of L. lactis IL1403, was constructed and the inserts obtained. sequences with the direct (M13-21) and reverse (M13RP1) oligonucleotides. A total of 7665 plasmids were successfully sequenced, resulting in 15,310 read gels, containing 9,671,085 characters. These sequences cover 93% of the contiguous sequence obtained during the low-redundancy sequencing step, and are distributed in 358 groups along the contiguous sequence. 978 oligonucleotides were then synthesized to sequence the LR PCR products generated using the known sequence of IL1403. The final sequence database contains 26,036 read gels, containing 14,842,630 characters. The average size of the gels read is therefore 570 bases. The length of the IL1403 genomic sequence is 2,365,589 bases, the redundancy of the final sequence is 6.27.

2. The annotation of the IL1403 genome
2. 1. Prediction of genes encoding proteins in L. lactis
IL1403.

The predicted open reading windows were first identified using TGA, TAA and TAG as stop codons and using the standard bacterial genetic code. The coding region capable of encoding a protein was considered to be greater than 60 amino acids in size.

The sequences homologous to the 3 'end of the 16S rRNA of L. lactis (3' UCUUUCCUCCA ... 5 ') upstream of the potential initiation codons, which are

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ATG, GTG, or TTG, have been systematically researched to ensure the functionality of the putative gene found. Several genes in L. lactis IL1403 have thus been found, they have been called leaderless mRNA and start at the ATG codon of the 5 'end. This is particularly applicable to genes involved in the process of genetic transformation. This may explain that L. lactis is protected in this way from occasional gene expression due to mutation or insertion of a sequence having promoter activity.

The predicted proteins are then systematically tested for their homology with the known proteins contained in the databases. Finally, this revealed 2323 genes with or without assigned functions, presented in Table 1. The genes are classified according to a classification scheme proposed by M. Riley (Riley M, 1993, Functions of the gene products of Escherichia coli, Microbiol Rev , 57: Several categories of genes of L. lactis IL1403 are described below.

2. 2 IS elements and prophages in L. lactis IL1403.

Three IS elements were already known in the genome of L. lactis IL1403, designated IS981, IS982 and IS1076. Their number of copies (respectively ten, one and seven) and their approximate location are reported. The inventors' sequencing data reveal that in all the chromosomal locations where IS1076 has been mapped, the nucleotide sequence identical to IS904 is present. The last name is kept on the card. Another element, called IS1077, was present in each of these seven sites. Fifteen copies of an element, which had not previously been described for the Lactococcus species and called IS983, were detected in the genome of IL1403. The relatively closest member to another lactic acid bacterium, which is IS1070, was found in the plasmid pNZ63 from Leuconostoc lactis NZ6009.

To identify the potential prophages present in the chromosome, the inventors used the search for homologies in the databases.

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containing protein sequences of known phages. The database consists of 1219 protein sequences, comprising the complete set of 50 putative proteins derived from the sequence of the temperate phage rit of L. lactis (Van Sinderen, D., Karsens, H., Kok, J., Terpstra , P., Ruiters, MH, Venema, G., & Nauta, A., 1996, Sequence analysis and molecular characterization of the temperate lactococcal bacteriophage rit, Mol Microbiol 19: 1343-1355). A distribution of non-redundant homologies launched on the genome of L. lactis was generated. This distribution indicates the presence of three regions, around 470.1060 and 1430 Kb, which contain the prophages previously identified by biological tests. Two sites, around 45 and 2020 Kb, indicate a fourth and a fifth prophages.

2. 3. GC bias, origin of replication and terminus.

To predict the sites of the origin of replication and the terminus, the Inventors used the GC and AT biases in similar schemes (Lobry, JR, 1996, Asymmetric substitution patterns in the two DNA strands of bacteria, Mol Biol Evol, 13: 660-665). The distributions of (CG) / (C + G) and (A-T) / (A + T) values along the chromosomal region show a very sharp transition between positive and negative values, and indicate the presence of the origin of replication in the vicinity of dnaA gene. This region contains four DnaA boxes, which also indicate the presence of the origin of replication. The inventors have chosen the starting point for the circular presentation of the L. lactis genome in the middle of the HindIII site near the origin of replication and the map is oriented so with the direction of transcription of the dnaA and dnaN genes.

The GC and AT biases also indicate the location of the replication terminus. The transition between positive and negative values occurs near the 1260 K position. This correlates with the location of the replication terminus based on the orientation of potential transcription genes and the distribution of chi sites along the genome.

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3 Description of gene categories
3. 1. Biosynthesis of amino acids, vitamins and nucleotides.

The inventors' analyzes have shown that L. lactis has a genetic potential for synthesizing the 20 standard amino acids and at least 4 co-factors (folic acid, menaquinone, riboflavin and thioredoxin). However, this bacterium is delicate from a nutritional point of view and requires many metabolites which must be added to the synthetic medium (Jensen & Hammer, 1993, Minimal requirements for exponential growth of lactococcus lactis, Appl Env Microbiol, 59: 4363- 4366). The problem of the delicate nutritional requirements of L. lactis strains has recently been addressed through the application of the simple omission technique (Cocaign-Bousquet, M., Garrigues, C., Novak, L., Lindley, ND, & Loubiere, P., 1995, Rational development of a simple synthetic medium for the sustained growth of Lactococcus lactis, J Appl Bacteriol, 79-108-116) and genetic approaches. The auxotrophy of IL1403, used as a dairy strain, for histidine and branched chain amino acids has also been shown to be due to recently acquired mutations. Providing the full complement of the biosynthetic genes present in L. lactis will provide many elements for the understanding and efficient use of biosynthetic metabolism in these bacteria.

The inventors have detected 60 genes involved in the biosynthesis and preservation of nucleotides and nucleosides. Most of the genes for purine biosynthesis are clustered near the purDEK operon, which has been recently characterized. A copy of IS983 has been detected between the purDEK operon and other genes involved in purine biosynthesis.

3. 2. Energy metabolism and transporters.

The genetic potential of L. lactis to grow on different carbon sources can be estimated from the presence of biodegradation genes and suitable transporters. IL1403 has genes that can be used to

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growth on different carbon sources: glucose (the glycolysis genes), fructose (positions 1519 and 2230 kb, fructokinase and glucoso-6P-isomerase, scrK and pgiA), N-acetyl glucosamine (1032 kb, gene coding for glucosaminefructoso-6P aminotransferase, glmS), xylose (1550 kb, xyl operon), ribose (1685 kb, rbs operon), mannose (779 kb, mannose-6P isomerase, pmi), gluconate (608.2254 and 2254 kb, 6P gluconate dehydrogenases and gluconate kinase, gnd, gntZ and gntK), maltose (692,700 and 1526 kb, maltodextrin glucosidases and 4- [alpha] -glucanotransferase, malQ), lactose (2041 kb, p-galactosidase, lacZ) , galactose (2045 kb, operon gal), mannitol (33 kb, mannitol-lP 5-dehydrogenase, mtlD), the various p-glucosides (186,419, 830, 1490 and 1520 kb, glucosidases, 6P p-glucosidases, bglS , bglA, yidC, bglH, dexB).

The glucuronate or galacturonate catabolic operon (1670 kb, uxu- kdg operon) can be used for utilizing the degradation products of pectin as an additional source of energy and carbon. The components of the sugar-specific enzyme II-dependent transport systems of phosphoenolpyruvate have been found for mannitol (30 kb, mtlAF), sucrose or trehalose (435 kb, yedF), fructose (984, fruA), mannose (1748 kb, operon ptn) and p-glucosides (175,416, 830,1144 and 1489 kb, celB, operon ptc, yidB, yleDE, ptbA).

Analysis of the chromosome sequence of IL 1403 revealed that genes encoding the PTS-dependent pathway of lactose utilization were absent in this strain. The chromosome, however, contains another system for the utilization of lactose dependent on transport by the product of the lacS gene, encoding an H + symporter or an anti-galactose-lactose carrier. The inventors' analysis detected 19 genes involved in glycolysis, completing the description of this system and revealed a second glyceraldhyde-phosphate dehydrogenase gene.

This also confirmed the absence of a full cycle of citric acid. A gene involved in gluconeogenesis has been identified; this is the gene encoding fructose 1,6 bisphosphatase. No gene encoding phosphoenolpyruvate carboxykinase or phosphoenolpyruvate synthetase was found.

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Importers and exporters of different metabolites are widely represented in bacteria by ABC transporters. Importers are involved in the transport into the cell of various sugars as well as oligosacharides, oligopeptides and amino acids, anions and cations. Exporters are involved in the excretion of metabolites that are dangerous for the cell and are therefore often involved in the cell's resistance to different antibiotics or other drugs. The complete inventory of such transporters was made from the complete sequencing of several microorganisms, including yeasts such as Sacharomyces cerevisiae, Escherichia coli and Bacillus subtilis.

In L. lactis several systems encoding ABC transporters have been characterized. One of these, oppDFBCA, encodes an oligopeptide transporter and appears to be important for growth in medium containing oligopeptides. The system encoded by the lcnCD operon is involved in the secretion and maturation of lactococcin A and is important in the development of resistance to this antibiotic. It has been shown that the lmrA gene, involved in multidrug resistance, is capable of complementing the human MDR1 gene, responsible for resistance to chemotherapy in several forms of cancer. The busAA and busAB genes responsible for betaine transport have been shown to be important for resistance to osmotic shock. The complete inventory of ABC transporter in the L. lactis IL1403 chromosome is presented in Table ABC. The present invention provides the means for detecting the corresponding genes in different strains of L. lactis and closely related to Streptococci. In the latter, the corresponding transporters may be involved in the development of pathogenicity.

3. 4. Cellular envelope.

The inventors' analysis revealed 81 genes involved in the functions of the cell envelope, including 10 membrane proteins, 28 genes for the biosynthesis of peptidoglycans and murein succulus and 43 genes for the biosynthesis of surface polysaccharides.

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3. 5. Cellular machinery.

Among the genes involved in the functioning of the cellular machinery, listed in Table 1, the most important for portal applications are those involved in protein secretion and the development of genetic competence. The complete list of relevant detected genes is presented in Table 1. Their presentation is detailed in part above.

The corresponding example of isolation of such genes by practicing the present invention is provided below.

3. 6. Regulatory functions.

The analysis revealed 126 genes potentially involved in regulation, which represent approximately 5.6% of the total number of ORFs identified.

3.7. Replication, transcription and translation.

65,27 and 128 genes have been assigned to the functional categories of replication, transcription and translation respectively. It appears that the L. lactis replication system is very similar to that of B. subtilis. The counterpart of the dnaB and dnaD genes, essential for DNA replication in B. subtilis and not present in gram-negative bacteria, were detected. Two α-chain DNA polymerase III genes, one corresponding to polC and another to dnaE from B. subtilis, were also detected in L. lactis. E. coli has only the latter gene. The transcriptional and translational machinery does not seem to present any remarkable difference from that of B. subtilis. It appears that B. subtilis, with its well-developed genetic tools, may be a suitable host organism to study gene regulation in L. lactis systems.

EXAMPLES
1. Detection of regions of long collinearity and establishment of the corresponding organization of genes in the strain L. lactis

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MG1363 closely related to L lactis IL1403.

As a basis for the detection of genes in a bacterium which is close to L. lactis IL1403, the present invention provides for the sequencing of a limited number of DNA fragments taken at random. Their number must be defined so as to allow a sufficiently high density of distribution of their site of homology with respect to the genome of L. lactis IL1403. In this example, for the L. lactis MG1363 strain, there are 513 sequences which have an average of one site on every 5 kb.

The sequences of the DNA fragments corresponding to 2 sites closest to the gene of interest on the genome of IL1403 are used to choose the oligonucleotides for the amplification by PCR of the corresponding zone from the genome of MG1363 In the regions of genomes considered to be collinear, the amplified fragment must contain the MG1363 gene of interest, due to the collinearity of the genomes.

The chromosomal DNA of strain MG1363 is digested with the restriction enzyme AluI or by randomized sonication. After separation in a 0.8% agarose gel, a fraction containing fragments having a size of 500 bp to 1 kb is isolated. This DNA is ligated to the plasmid pSGMU2, digested with SmaI and dephosphorylated with alkaline phosphatase from E. coli. Dephosphorylation of the DNA vector was necessary to prevent self-ligation and thereby increase the number of colonies which carry the MG1363 chromosomal DNA inserted into the vector. The ligated DNA was transformed into E. coli TG1 cells, which were made competent by treatment with 50 mM CaCl2 solution The cells were plated on agar medium, which contained 50 g / ml of ampicillin, 20 g / ml of X-gal and 20 g / ml of IPTG. The white colonies were taken for the sequencing of the inserts by forward (M13-21) and reverse (M13RP1) primers. A total of 665 plasmids were sequenced and yielded 882 read gels containing 258,919 characters. These sequences were distributed into 539 linker groups, each corresponding to a unique sequence of the genomic DNA of MG1363 with an average size of 348 bp and a total length of 185292 bp.

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Homology analysis with the L. lactis IL1403 genome was performed using the FASTA and BLASTx algorithms. The results of this analysis were used to detect areas of strong homology between the two genomes and to detect regions of potential collinearity in genome organizations.

The estimate of a statistically significant level of homology was given by calculating the distribution of contigs (tags or labels) sequenced with a given percentage of homology with respect to the genome of strain IL1403. The level of homology between the different parts of the genomes of MG1363 and IL1403 which can be considered as counterparts is between 65 and 100%, with a maximum number of homologous regions close to 85%.

240 oligonucleotides (SEQ ID N 2324 to 2563) were synthesized and used in Long Range PCR reactions, with the aim of confirming the collinearity of the regions detected. The areas corresponding to the areas of collinearity can be easily amplified by LR PCR using the corresponding oligonucleotides as primers. The organization of genes in these areas of collinearity is conserved in these two strains. This fact can therefore be used to amplify desired genes from other strains of Lactococci and use them for genetic engineering. Certain particular genetic systems, amplified from strain MG1363 by use of the genomic information for IL1403 and the approach described in this example, are described in Examples 2 and 3.

The present invention therefore provides the sequences for the genome of L. lactis MG1363, which allows the detection of any gene existing in the two strains: IL1403 and MG1363. Since the homology and collinearity of the two genomes are estimated at 65%, there are 65% of all genes listed in Tables 1 and II, representing a functional annotation of the IL1403 genome.

The invention relates to a method for estimating the collinearity between the chromosomal organization of two genomes. The parts of two genomes are collinear if the homologous regions are located equidistant in both

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genomes. This means in the first place that in the collinear regions for two given genomes, the organization of the genes is conserved. This means secondly that the homologous oligonucleotides of the collinear regions should give, by PCR amplification, fragments of similar size for the two genomes. Thus, for collinear regions, the similarity of the PCR amplification should indicate the similarity of the organization of the genes. In the parts of the genomes considered to be collinear, estimated by PCR amplification, the amplified fragments should contain similar genes for the two genomes, due to the collinearity of the genomes.

The present invention therefore provides the means of determining the sequences of the genome of L. lactis MG1363 and allows the detection of any gene which exists in the two strains: IL1403 and MG1363. The homology of the two genomes is estimated at 85%. The inventors have estimated that the non-collinearity regions, which are part of the genome and whose sequence tag distribution density is lower than that expected from a randomized distribution, is approximately 800 kb. These regions cannot be amplified by PCR using the method based on the estimation of the collinearity between the two genomes, provided by the present invention. Other regions can be amplified using this method. Thus, using this method, 65% of all L. lactis genes can be detected in another strain of L. lactis than IL1403. This also means that the preparation of all representative fragments from the DNA of strain IL, 1403, or from any other strain of interest, using the methods described above, will give a minimum of 65 % of all genes from any strain of L. lactis. This representative set of fragments can be used to detect differences between the entire genomes of strains of L. lactis or to study gene expression by hybridization to extracted RNA. This detection of 65% of the genes or their expression in L. lactis is also based on the genomic sequence of IL 1403 presented in Figure 1, on the functional annotation of this genome provided in Table 1 and on the method of detection.

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of genes according to the present invention.

2. Detection of the genes involved in the biosynthesis of arginine in the L lactis MG1363 strain.

An operon encoding five genes necessary for the biosynthesis of arginine was detected around 805 kb of the genome of L. lactis IL1403. Although the sequencing generated from the genomic DNA of L. lactis MG1363 did not reveal a sequence tag homologous to any gene of arginine biosynthesis, one would expect that such genes would be located in the MG1363 genome in the region from 800 to 850 kb, which is collinear between the two strains. The inventors have chosen two sequence tags, the closest to the zone, which must contain genes for the biosynthesis of arginine in the genome of MG1363. These are sequenced contigs which have revealed homology with the yhjD and yibC genes. By synthesizing the oligonucleotide homologs of the sequences from these two contigs, ma86 (SEQ ID N 2564) and ma87 (SEQ ID N 2565), and by carrying out an amplification by LR PCR on the chromosomal DNA of MG1363, a product of amplification of or near 19 kb in size containing genes for arginine biosynthesis was expected. Amplification resulted in a fragment the size of 19 kb. Sequencing of the ends of this fragment showed that the fragment did indeed correspond to the expected area and that the genes for arginine biosynthesis were contained in this area of the MG1363 genome. This method can be applied to other strains of L. lactis to detect arginine genes in most of the genetic environments sought. The argG and argH genes, encoding arginosuccinate synthase and lyase respectively, can also be detected similarly. They were detected in the genome of strain IL, 1403 close to 130 kb. Genetic manipulations with these genes can be used to increase or decrease the level of arginine production, which has many applications in the food industry, agriculture or medicine.

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3. Detection of the pyruvate dehydrogenase genes in the strain of
L. lactis MG1363.

Pyruvate dehydrogenase is one of the important enzymes in the regulation of pyruvate metabolism fluxes in microorganisms. By manipulating the activity levels of this enzyme in the cell, it is possible to switch a bacteria from homolactic fermentation to mixed acid fermentation and thus influence the yields of the different fermentation products, which can influence the flavor of the final food product. . An operon encoding four genes necessary for the biosynthesis of pyruvate dehydrogenase was detected at around 60 kb in the genome of L. lactis IL1403. The sequencing generated from the genomic DNA of L. lactis MG1363 revealed a contig, homologous to the pdhD gene, encoding a subunit of pyruvate dehydrogenase. Another sequence tag that can be used to amplify these genes has been detected as a homologue of the yahG gene in the annotated genome of IL1403. By synthesis of the oligonucleotides homologous to the sequences from these two contigs, ma08 (SEQ ID N 2566) and ma09 (SEQ ID N 2567), and by carrying out an amplification by LR PCR on the chromosomal DNA of MG1363, an amplification product of or near the size of 15 kb containing the genes for pyruvate dehydrogenase biosynthesis was observed. Amplification did give a fragment the size of 15 kb. Sequencing of the ends of this fragment showed that this fragment corresponded well to the expected area and that the genes for the biosynthesis of pyruvate dehydrogenase were contained in this area of the MG1363 genome. This method can be applied to other strains of L. lactis for the detection of pyruvate dehydrogenase genes in the most sought after genetic environments. Other genes also involved in glycolysis have been detected in different parts of the chromosome of strain IL1403. These are enoA (633 kb) and enoB (274 kb), both encoding an enolase, pgk (242 kb) encoding a phosphoglycerate kinase, pgm

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(332 kb) encoding a phosphoglycerate mutase, pgmB (442 kb) encoding a betta-phosphoglycomutase, gapA (554 kb) and gapB (2315 kb) both encoding a glyceraldehyde 3-phosphate dehydrogenase, tpiA (1148 kb) encoding a triosephosphate isomerase, pyk (1370 kb) encoding a pyruvate kinase, fbaA (1963 kb) encoding a fiuctose-bisphosphate aldolase, depgiA (2228 kb) encoding a glucose-6-phosphate isomerase . By the synthesis of the homologous oligonucleotides of the sequences from the contigs close to the areas where these genes were detected in IL1403, and the implementation of an amplification by LR PCR on the chromosomal DNA of MG1363, an amplification product containing genes for glycolysis was expected. These genes represent the full set of genes for glycolysis and can be found in Lactococcus lactis.

This method can be applied to other strains of L. lactis for the detection of glycolysis genes in most of the genetic environments sought. The modification of these genes by mutagenesis could give rise to the construction of new food-grade strains which would have many applications in the food industry and agriculture.

4. Isolation and overproduction of an extracytoplasmic chaperone
Secreted proteins are often degraded during or after their secretion by proteases present on the surface of cells. This degradation is often all the more important when the secreted protein is of foreign origin, and this probably because their folding is either too slow or poorly synchronized with synthesis and / or secretion. The amplified expression of certain enzymes whose role is to facilitate their folding sometimes makes it possible to protect these proteins from this degradation. In the following example, the inventors have isolated the complete sequence of a gene whose best homolog in the databases is prsA from B. subtilis and whose activity seems to be that of helping the secreted proteins to better fold. .

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Two PCR primers (SEQ ID N 2568 and SEQ ID N 2569) were deduced from the sequence of L. lactis IL1403 and made it possible to amplify the gene corresponding to prsA in L. lactis. This gene was cloned into the vector pGEMT (Promega) and its sequence verified. The obtained plasmid was then fused at the Ncol site to the plasmid pNZ8037 containing the promoter of the nisin operon of L. lactis. The pGEMT part of this hybrid was then deleted by PstI cleavage and recircularization with T4-ligase. This plasmid was then transformed into the strain NZ9000, a derivative of L. lactis subsp. cremoris MG1363 containing the system making it possible to induce the promoter placed upstream of the homologous prsA gene of L. lactis.

This strain was then tested for the production of Staphylococcus hyicus lipase which is degraded into several truncated forms during its secretion in L. lactis (Drouault et al. 2000, Appl Environ Microbiol., 66, 588). In this strain, no degraded form of the lipase could be visualized showing that the production on the plasmid of the prsA homolog of L. lactis IL 1403 makes it possible to avoid the accumulation of degraded form of a secreted heterologous enzyme. by a strain of L. lactis subsp. cremoris
5. Control of sugar metabolism
Most of the galactose metabolized by L. lactis and in general lactic acid bacteria is transformed in the glycolysis pathway via the Leloir pathway.

Indeed, due to the fermentative metabolism of lactic acid bacteria, these reactions are more active than those relating to the synthesis of nucleotide sugars, precursor of glycogen, of lipotechoic acid and of exopolysaccharides. One of the steps limiting the synthesis of EPS, in particular in Streptococcus thermophilus, yoghurt bacteria, is the reaction glucose-6-phosphate towards glucose 1-phosphate by phosphoglucomutase (aPGM). Its amplification is therefore desirable to make it possible to increase the production of EPS.

The gene encoding [alpha] PGM, pgm, has been characterized to obtain a

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overexpression. No [alpha] PGM gene from gram-positive bacteria, and in particular from lactic acid bacteria, had yet been genetically characterized. The inventors therefore searched for potential sequences encoding such genes in L. lactis on the basis of short motifs of the active site of proteins of this family comprising phosphoglucomutases, phosphomannomutases, phosphoNacetylglucosamine-mutases and genes of unknown function including mrsA from E coli (Swissprot p31120). The inventors then carried out multiple alignments of the proteins homologous to the homologous genes in L. lactis and defined for each of the conserved regions in order to synthesize degenerate oligonucleotides making it possible to amplify the corresponding regions of the genome of different bacteria such as for example Streptococcus thermophilus. Degenerate PCR was carried out with these oligonucleotides SEQ ID N 2570 and SEQ ID N 2571 on the total DNA of a strain of Streptococcus thermophilus. They made it possible to amplify a 1.2 kb fragment, the sequence of which showed that it contained a gene homologous to that of L. lactis.

The rest of the gene was then obtained by reverse PCR (Ochman et al., 1990, Biotechnology, 8,759). The chromosomal DNA is digested with restriction enzymes then the cleavage products are circularized by ligation with ligase and then amplified by “Long Range” PCR using primers complementary to the opposite strand. The bands obtained are extracted from the gel and sequenced. The size of the pgm gene of Streptococcus thermophilus is 1350 bp.

The inventors have subsequently shown that this gene corresponds well to the α-PGM of S. thermophilus although it was isolated from a sequence supposed to be coding for mannomutases.

To show that this gene coded for α-PGM, the inventors adopted an inactivation strategy by inserting a vector into the gene by homologous recombination. First, plasmids whose replication is thermosensitive containing fragments internal to the pgm gene (Biswas et al., 1993, J Bacteriol., 175,3628) were constructed. A strain of Streptococcus

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thermophilus containing the plasmid pG + host containing the internal insert a pgm was grown at 42 ° C. on M17 lactose dishes containing erythromycin in order to detect the integration events. The chromosomal DNA prepared from a strain thus obtained was digested with KpnI and then analyzed by Southern using a PCR probe covering the pgm gene. The band corresponding to hybridization with the pgm gene of the chromosome is transformed into two bands corresponding to the integration of the vector into the pgm gene. This plasmid is therefore well integrated by homologous recombination. A strain containing a mutation in the pgm gene is expected to grow normally on medium containing glucose and galactose but not on medium containing galactose or glucose alone.

The clone obtained after integration does not grow on glucose or galactose alone, but normally on lactose or on a mixture of glucose and galactose. This shows that the metabolism of glucose and galactose has indeed been decoupled in this strain and that the gene whose activity has been affected is indeed pgm. The work carried out in the present invention makes it possible to show that the inactivated gene does indeed code for the enzyme connecting the EPS pathway and glycolysis. It therefore probably codes for α-PGM, the sequence of which was not yet characterized experimentally in lactic acid bacteria. These experiments also show that it is possible, by relying on the sequences of the genome of L. lactis, to isolate genes from other bacteria and in particular from Streptococcus.

6. Stress resistance
The annotation of IL1403 by comparison with other bacteria such as B. subtilis or E. coli, makes it possible to identify the genes coding for activities listed as important under stress conditions following biochemical studies. Thus, the invention allows the identification of proteins demonstrated by proteomic analysis regardless of the strain of L. lactis studied.
For example, the comparison of certain N-terminal sequences reported by Kilstrup et al. (1997, Appl Environ Microbiol., 63,1826, strain MG1363)

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and Frees and Ingmer (1999, Mol Microbiol., 31,79, strain MG1363) with the orfs detected in the sequence of IL1403 makes it possible to confirm the assigned functions or to attribute them. This type of analysis should make it possible to identify genes belonging to the various stress regulons. It will become possible to search for common regulatory sequences between the genes of a regulon and then in the whole of the genomic sequence in order to identify all its elements. The genes encoding the H ± ATPase or the de-elimination of arginine, the activities of which increase under stress conditions, are now identified in IL 1403. It is possible to envisage modifying them to reinforce or reduce the resistance of the strains to acid conditions.

This comparative annotation also makes it possible to benefit from the knowledge acquired in other microorganisms on responses to stress. As an example, there may be mentioned the identification in IL1403 of a homologue of the pexB gene of B. subtilis also called dps in B. subtilis and E. coli. In these two bacteria, this gene plays a major role in protecting against oxidative damage to DNA. It is extremely likely, in view of its storage, that it fulfills the same function in L. lactis and is important for oxidative stress and stationary phase survival. This annotation also reveals genes for glycogen, polyphosphate and trehalose metabolism which are well established to have important roles in survival in stationary phase and deficiency conditions. But the annotation also reveals major differences between IL1403 and B. subtilis: the sigma-B factor controls in B. subtilis around a hundred stress genes, the sequence of IL 1403 does not reveal any homolog of this sigma factor.

The identification of stress regulators must therefore be based on other avenues than strict comparison. Here again, the sequence makes it possible to consider several solutions on the one hand, it reveals a certain number of regulators whose involvement in stress resistance phenomena can now be determined, on the other hand, it allows the development of tools

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(especially DNA chips) which will facilitate this study. The identification of the regulators is very important for the development of applications since the modification of a single gene (the regulator) will affect the expression of all the genes belonging to 1 stress regulon.

The present invention makes it possible to identify the networks of stress resistance genes of L. lactis, their regulators and their interactions. Potential applications are i) to find relevant stress markers, ii) to modify these genes and / or their expression to change the capacity of resistance / sensitivity to stress of Lactococci and iii) to complement in a relevant way the absence of certain systems in Lactococci possibly by implementing new functions.

Finally, this invention constitutes a diagnostic tool i) the stresses actually perceived by Lactococci during a given process, ii) the resistance / sensitivity potential of a new strain and its suitability for a process, iii) for choose between the use of GMOs or natural or chemical mutants more resistant to stress and, if necessary, identify and control the mutation (s).

7. Phase cycle
Analysis of the chromosome sequence of strain IL 1403 made it possible to identify 6 prophages and to characterize the regions of the genome into which they are inserted. A total of 256 orfs were identified, as well as the putative regions regulating their expression. Of the 256 proteins encoded by these orfs, 186 are homologous to proteins of bacteriophages or bacteria present in the databases, but 70 are new, without homology with proteins already described. In addition, the inventors' analysis has made it possible to establish that certain proteins have a modular structure. This implies that these proteins, although homologous over part of their length to proteins already described, can nevertheless present specificities.

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different actions. This is the case in particular for DNA replication initiation proteins (Orfl6, Orfl5 and Orfl4 respectively for the phages bIL285, bIL286 and bIL309) which, although having homologous domains, probably recognize the origins of different replication on DNA.

Analysis of the chromosome sequence of strain IL1403 made it possible to identify genes encoding proteins involved in key stages of phage multiplication such as the regulation of the choice between lytic cycle and temperate cycle, replication of the DNA, recombination, morphogenesis and cell lysis. By disrupting the expression or function of some of these proteins, it would be possible to develop phage resistance systems. Two strategies could be used:
1) the development of infectious phages could be seriously disturbed by changing the concentration of one or more of these proteins; this could be done by overproducing, or on the contrary by titrating, these proteins and / or their regulators;
2) phage gene expression temporal control systems could be used; by placing toxic genes under the control of such expression systems, it would be possible to develop suicide systems in which infection with a phage results in the death of infected cells before they can release new phages.

The present invention has also made it possible to better describe the variety of genomes existing among the phages of the P335 group. This knowledge could be used to develop better diagnostic systems for phages present in lactic acid starter and dairy products.

8. Gene expression and strain identification medium.

One of the direct applications of the information arising from the sequence

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genomics is the construction of high density filters or chips, which can be used to study whole cell gene expression or to compare genomes from different strains. The basis for the construction of such gene expression and strain identification media is the genomic sequence and its annotation. Thus, the information necessary for the construction of high density filters and chips for L. lactis IL1403 is the genomic sequence (SEQ ID N 1) and its annotation presented in Table II. The preparation of such filters or chips consists in synthesizing oligonucleotides which correspond to the 5 ′ and 3 ′ end parts of the genes. These oligonucleotides are selected using the genomic sequence and its annotation as provided by the present invention. The annealing temperature of the oligonucleotides at the corresponding locations on the DNA should be approximately the same for each nucleotide. This allows the preparation of the corresponding DNA fragments for each gene using standard PCR conditions in high throughput automated PCR experiments. The amplified fragments are then immobilized on filters or glass supports and these media are used for hybridization.

The availability of such filters and the corresponding annotated sequence makes it possible to study the expression of all the genes in the microorganism by preparing the corresponding cDNA and by hybridizing it to DNA immobilized on the filter. Hybridization of the DNA immobilized on the filter with the total DNA of different strains also makes it possible to study the divergence of the genomic organization in different strains.

Differences in gene sequences in different strains can greatly influence the intensity of hybridization and thus influence the precision of data interpretation. It is therefore necessary to have exactly the DNA of the strain which is being studied in order to immobilize it on the filter. For this purpose, the method of gene detection as provided by the present invention is useful. The procedure in this case consists in amplifying the DNA of the strain of interest using the information on the mapping of the collinear regions and the detection method.

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genes according to the invention.

The use of gene expression and the strain identification medium will provide a body of new knowledge on the regulation of genes of strains of L. lactis of industrial interest and under different growth conditions. This will also allow rapid identification of genomic differences in strains used for multiple industrial applications.

The strain of Lactococcus lactis IL 1403 was deposited on April 7, 2000 at the National Collection of Cultures of Microorganisms, Institut Pasteur, 25 rue du Dr Roux, 75724 PARIS Cedex 15, France, according to the provisions of the Budapest Treaty, and was registered under order number 1-2438.

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TABLE I Coordinates of the ORFs with respect to SEQ ID N 1

<tb>
<tb> ORF <SEP> Start <SEP> End <SEP> Start <SEP> of
<tb> protein
<tb> 2 <SEP> 349 <SEP> 1722 <SEP> 358
<tb> 3 <SEP> 1873 <SEP> 3021 <SEP> 1882
<tb> 4 <SEP> 3109 <SEP> 6426 <SEP> 3130
<tb> 5 <SEP> 6407 <SEP> 10030 <SEP> 6422
<tb> 6 <SEP> 10283 <SEP> 10846 <SEP> 10837
<tb> 7 <SEP> 11116 <SEP> 12231 <SEP> 11119
<tb> 8 <SEP> 12334 <SEP> 12666 <SEP> 12346
<tb> 9 <SEP> 12912 <SEP> 13265 <SEP> 12924
<tb> 10 <SEP> 13272 <SEP> 15269 <SEP> 13281
<tb> 11 <SEP> 15262 <SEP> 15906 <SEP> 15274
<tb> 12 <SEP> 16101 <SEP> 16577 <SEP> 16110
<tb> 13 <SEP> 16595 <SEP> 17161 <SEP> 16598
<tb> 14 <SEP> 17165 <SEP> 20647 <SEP> 17165
<tb> 15 <SEP> 20795 <SEP> 21277 <SEP> 20810
<tb> 16 <SEP> 21336 <SEP> 21665 <SEP> 21351
<tb> 17 <SEP> 21634 <SEP> 22068 <SEP> 21697
<tb> 18 <SEP> 22059 <SEP> 22391 <SEP> 22071
<tb> 19 <SEP> 22496 <SEP> 23878 <SEP> 22532
<tb> 20 <SEP> 23839 <SEP> 25146 <SEP> 23878
<tb> 21 <SEP> 25115 <SEP> 25678 <SEP> 25130
<tb> 22 <SEP> 25869 <SEP> 27971 <SEP> 25887
<tb> 23 <SEP> 28996 <SEP> 30860 <SEP> 29041
<tb> 24 <SEP> 30901 <SEP> 32856 <SEP> 30922
<tb> 25 <SEP> 32907 <SEP> 33335 <SEP> 32907
<tb> 26 <SEP> 33416 <SEP> 34630 <SEP> 33476
<tb> 27 <SEP> 35519 <SEP> 35863 <SEP> 35839
<tb> 28 <SEP> 35867 <SEP> 36301 <SEP> 36274
<tb> 29 <SEP> 36274 <SEP> 36774 <SEP> 36714
<tb> 30 <SEP> 36850 <SEP> 37494 <SEP> 37428
<tb> 31 <SEP> 37667 <SEP> 39307 <SEP> 39292
<tb> 32 <SEP> 39306 <SEP> 40100 <SEP> 40097
<tb> 33 <SEP> 40104 <SEP> 40460 <SEP> 40430
<tb> 34 <SEP> 40611 <SEP> 40871 <SEP> 40862
<tb> 35 <SEP> 40862 <SEP> 41110 <SEP> 41098
<tb> 36 <SEP> 41144 <SEP> 41452 <SEP> 41422
<tb> 37 <SEP> 41422 <SEP> 41691 <SEP> 41670
<tb> 38 <SEP> 41670 <SEP> 42191 <SEP> 42188
<tb> 39 <SEP> 42195 <SEP> 42449 <SEP> 42386
<tb> 40 <SEP> 42465 <SEP> 43220 <SEP> 43202
<tb> 41 <SEP> 43680 <SEP> 44072 <SEP> 43689
<tb> 42 <SEP> 44085 <SEP> 44636 <SEP> 44085
<tb> 43 <SEP> 44747 <SEP> 44977 <SEP> 44750
<tb> 44 <SEP> 45035 <SEP> 45244 <SEP> 45053
<tb> 45 <SEP> 45351 <SEP> 45638 <SEP> 45399
<tb> 46 <SEP> 45702 <SEP> 45998 <SEP> 45777
<tb> 47 <SEP> 47364 <SEP> 47582 <SEP> 47370
<tb> 48 <SEP> 47979 <SEP> 48290 <SEP> 47988
<tb> 49 <SEP> 48477 <SEP> 49724 <SEP> 48543
<tb> 50 <SEP> 50174 <SEP> 50626 <SEP> 50180
<tb>

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<tb>
<tb> 51 <SEP> 50682 <SEP> 50945 <SEP> 50706
<tb> 52 <SEP> 51032 <SEP> 52489 <SEP> 52411
<tb> 53 <SEP> 52494 <SEP> 53024 <SEP> 52656
<tb> 54 <SEP> 53122 <SEP> 53841 <SEP> 53161
<tb> 55 <SEP> 53903 <SEP> 54799 <SEP> 54661
<tb> 56 <SEP> 54760 <SEP> 55125 <SEP> 55047
<tb> 57 <SEP> 55129 <SEP> 55407 <SEP> 55389
<tb> 58 <SEP> 55587 <SEP> 56117 <SEP> 55599
<tb> 59 <SEP> 56488 <SEP> 57756 <SEP> 56584
<tb> 60 <SEP> 57825 <SEP> 58610 <SEP> 57858
<tb> 61 <SEP> 58974 <SEP> 60413 <SEP> 60389
<tb> 62 <SEP> 60586 <SEP> 62205 <SEP> 62181
<tb> 63 <SEP> 62177 <SEP> 63172 <SEP> 63154
<tb> 64 <SEP> 63160 <SEP> 64308 <SEP> 64281
<tb> 65 <SEP> 64373 <SEP> 65440 <SEP> 65371
<tb> 66 <SEP> 65574 <SEP> 66419 <SEP> 66416
<tb> 67 <SEP> 66500 <SEP> 67222 <SEP> 67147
<tb> 68 <SEP> 67267 <SEP> 68382 <SEP> 68289
<tb> 69 <SEP> 68758 <SEP> 69225 <SEP> 68791
<tb> 70 <SEP> 69353 <SEP> 70699 <SEP> 69389
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<Desc / Clms Page number 113>

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<Desc / Clms Page number 116>

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<Desc / Clms Page number 117>

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<Desc / Clms Page number 118>

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<Desc / Clms Page number 119>

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<Desc / Clms Page number 120>

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<Desc / Clms Page number 121>

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<tb> 2139 <SEP> 2161463 <SEP> 2162008 <SEP> 2161996
<tb> 2140 <SEP> 2162216 <SEP> 2162659 <SEP> 2162611
<tb> 2141 <SEP> 2162830 <SEP> 2163453 <SEP> 2163411
<tb> 2142 <SEP> 2163565 <SEP> 2163747 <SEP> 2163747
<tb> 2143 <SEP> 2163769 <SEP> 2164332 <SEP> 2164308
<tb> 2144 <SEP> 2164331 <SEP> 2164687 <SEP> 2164633
<tb> 2145 <SEP> 2164770 <SEP> 2165147 <SEP> 2165135
<tb> 2146 <SEP> 2165161 <SEP> 2165418 <SEP> 2165418
<tb> 2147 <SEP> 2165442 <SEP> 2165654 <SEP> 2165648
<tb> 2148 <SEP> 2165651 <SEP> 2166064 <SEP> 2166061
<tb> 2149 <SEP> 2166068 <SEP> 2166730 <SEP> 2166718
<tb> 2150 <SEP> 2166734 <SEP> 2167090 <SEP> 2167078
<tb> 2151 <SEP> 2167097 <SEP> 2167456 <SEP> 2167372
<tb> 2152 <SEP> 2167535 <SEP> 2168374 <SEP> 2168362
<tb> 2153 <SEP> 2168381 <SEP> 2168686 <SEP> 2168671
<tb> 2154 <SEP> 2168674 <SEP> 2169306 <SEP> 2169297
<tb> 2155 <SEP> 2169326 <SEP> 2169964 <SEP> 2169946
<tb> 2156 <SEP> 2169968 <SEP> 2170288 <SEP> 2170273
<tb>

<Desc / Clms Page number 127>

<tb>
<tb> 2157 <SEP> 2170532 <SEP> 2170951 <SEP> 2170586
<tb> 2158 <SEP> 2170997 <SEP> 2172319 <SEP> 2172196
<tb> 2159 <SEP> 2172283 <SEP> 2173887 <SEP> 2173770
<tb> 2160 <SEP> 2173875 <SEP> 2174459 <SEP> 2174429
<tb> 2161 <SEP> 2174630 <SEP> 2174830 <SEP> 2174821
<tb> 2162 <SEP> 2174935 <SEP> 2175108 <SEP> 2175081
<tb> 2163 <SEP> 2175125 <SEP> 2176954 <SEP> 2176939
<tb> 2164 <SEP> 2177044 <SEP> 2179293 <SEP> 2179272
<tb> 2165 <SEP> 2179584 <SEP> 2180249 <SEP> 2180216
<tb> 2166 <SEP> 2180236 <SEP> 2180676 <SEP> 2180664
<tb> 2167 <SEP> 2180781 <SEP> 2181167 <SEP> 2181155
<tb> 2168 <SEP> 2181348 <SEP> 2182223 <SEP> 2181360
<tb> 2169 <SEP> 2182268 <SEP> 2183086 <SEP> 2183074
<tb> 2170 <SEP> 2183070 <SEP> 2183813 <SEP> 2183804
<tb> 2171 <SEP> 2183984 <SEP> 2184853 <SEP> 2184823
<tb> 2172 <SEP> 2184823 <SEP> 2185281 <SEP>

* 2185257
<tb> 2173 <SEP> 2185341 <SEP> 2185697 <SEP> 2185622
<tb> 2174 <SEP> 2185664 <SEP> 2186119 <SEP> 2186047
<tb> 2175 <SEP> 2186073 <SEP> 2186369 <SEP> 2186366
<tb> 2176 <SEP> 2186341 <SEP> 2186805 <SEP> 2186769
<tb> 2177 <SEP> 2186732 <SEP> 2187187 <SEP> 2187112
<tb> 2178 <SEP> 2187129 <SEP> 2188217 <SEP> 2188199
<tb> 2179 <SEP> 2188096 <SEP> 2189037 <SEP> 2189031
<tb> 2180 <SEP> 2189154 <SEP> 2194151 <SEP> 2194127
<tb> 2181 <SEP> 2194243 <SEP> 2194788 <SEP> 2194776
<tb> 2182 <SEP> 2194785 <SEP> 2196125 <SEP> 2196113
<tb> 2183 <SEP> 2196132 <SEP> 2198048 <SEP> 2197979
<tb> 2184 <SEP> 2198052 <SEP> 2199347 <SEP> 2199335
<tb> 2185 <SEP> 2199357 <SEP> 2200181 <SEP> 2200157
<tb> 2186 <SEP> 2200160 <SEP> 2200897 <SEP> 2200891
<tb> 2187 <SEP> 2201266 <SEP> 2201619 <SEP> 2201595
<tb> 2188 <SEP> 2201693 <SEP> 2202301 <SEP> 2202145
<tb> 2189 <SEP> 2202163 <SEP> 2202405 <SEP> 2202387
<tb> 2190 <SEP> 2202409 <SEP> 2202942 <SEP> 2202909
<tb> 2191 <SEP> 2202927 <SEP> 2203889 <SEP> 2203871
<tb> 2192 <SEP> 2204329 <SEP> 2205564 <SEP> 2204341
<tb> 2193 <SEP> 2205648 <SEP> 2206688 <SEP> 2205693
<tb> 2194 <SEP> 2206784 <SEP> 2208154 <SEP> 2206817
<tb> 2195 <SEP> 2208262 <SEP> 2208486 <SEP> 2208265
<tb> 2196 <SEP> 2208601 <SEP> 2209632 <SEP> 2208631
<tb> 2197 <SEP> 2209679 <SEP> 2210491 <SEP> 2210428
<tb> 2198 <SEP> 2210778 <SEP> 2213441 <SEP> 2213408
<tb> 2199 <SEP> 2213613 <SEP> 2214452 <SEP> 2213646
<tb> 2200 <SEP> 2214440 <SEP> 2214862 <SEP> 2214455
<tb> 2201 <SEP> 2214948 <SEP> 2215844 <SEP> 2215706
<tb> 2202 <SEP> 2215805 <SEP> 2216164 <SEP> 2216092
<tb> 2203 <SEP> 2216168 <SEP> 2217088 <SEP> 2216983
<tb> 2204 <SEP> 2216983 <SEP> 2217585 <SEP> 2217537
<tb> 2205 <SEP> 2217567 <SEP> 2218109 <SEP> 2217579
<tb> 2206 <SEP> 2223531 <SEP> 2224034 <SEP> 2223956
<tb> 2207 <SEP> 2224280 <SEP> 2226010 <SEP> 2226007
<tb> 2208 <SEP> 2226196 <SEP> 2227233 <SEP> 2227221
<tb> 2209 <SEP> 2227346 <SEP> 2228179 <SEP> 2228110
<tb> 2210 <SEP> 2228409 <SEP> 2229491 <SEP> 2228469
<tb>

<Desc / Clms Page number 128>

<tb>
<tb> 2211 <SEP> 2229703 <SEP> 2232435 <SEP> 2229727
<tb> 2212 <SEP> 2232779 <SEP> 2233288 <SEP> 2233273
<tb> 2213 <SEP> 2233263 <SEP> 2233469 <SEP> 2233469
<tb> 2214 <SEP> 2233469 <SEP> 2234317 <SEP> 2234293
<tb> 2215 <SEP> 2234289 <SEP> 2236460 <SEP> 2236409
<tb> 2216 <SEP> 2236515 <SEP> 2237384 <SEP> 2237369
<tb> 2217 <SEP> 2237493 <SEP> 2238518 <SEP> 2238518
<tb> 2218 <SEP> 2238508 <SEP> 2239056 <SEP> 2239002
<tb> 2219 <SEP> 2239053 <SEP> 2239706 <SEP> 2239616
<tb> 2220 <SEP> 2239763 <SEP> 2241001 <SEP> 2240980
<tb> 2221 <SEP> 2241067 <SEP> 2242308 <SEP> 2242290
<tb> 2222 <SEP> 2242451 <SEP> 2242969 <SEP> 2242478
<tb> 2223 <SEP> 2242984 <SEP> 2244099 <SEP> 2242996
<tb> 2224 <SEP> 2244201 <SEP> 2245580 <SEP> 2245544
<tb> 2225 <SEP> 2245870 <SEP> 2246391 <SEP> 2245888
<tb> 2226 <SEP> 2246431 <SEP> 2247291 <SEP> 2247273
<tb> 2227 <SEP> 2247434 <SEP> 2247775 <SEP> 2247500
<tb> 2228 <SEP> 2247825 <SEP> 2248220 <SEP> 2247891
<tb> 2229 <SEP> 2248270 <SEP> 2250945 <SEP> 2250909
<tb> 2230 <SEP> 2251168 <SEP> 2251860 <SEP> 2251821
<tb> 2231 <SEP> 2252101 <SEP> 2252364 <SEP> 2252346
<tb> 2232 <SEP> 2252388 <SEP> 2252729 <SEP> 2252729
<tb> 2233 <SEP> 2252733 <SEP> 2253263 <SEP> 2253239
<tb> 2234 <SEP> 2253397 <SEP> 2254110 <SEP> 2254101
<tb> 2235 <SEP> 2254436 <SEP> 2255977 <SEP> 2255974
<tb> 2236 <SEP> 2256206 <SEP> 2259145 <SEP> 2258983
<tb> 2237 <SEP> 2259055 <SEP> 2259558 <SEP> 2259525
<tb> 2238 <SEP> 2259778 <SEP> 2260620 <SEP> 2259811
<tb> 2239 <SEP> 2265994 <SEP> 2267475 <SEP> 2267406
<tb> 2240 <SEP> 2267579 <SEP> 2268541 <SEP> 2268523
<tb> 2241 <SEP> 2268575 <SEP> 2270131 <SEP> 2270131
<tb> 2242 <SEP> 2270255 <SEP> 2271187 <SEP> 2271160
<tb> 2243 <SEP> 2271500 <SEP> 2272366 <SEP> 2271521
<tb> 2244 <SEP> 2272392 <SEP> 2272712 <SEP> 2272407
<tb> 2245 <SEP> 2272792 <SEP> 2273571 <SEP> 2273562
<tb> 2246 <SEP> 2273765 <SEP> 2274052 <SEP> 2274007
<tb> 2247 <SEP> 2274184 <SEP> 2274717 <SEP> 2274681
<tb> 2248 <SEP> 2274714 <SEP> 2275094 <SEP> 2275004
<tb> 2249 <SEP> 2275199 <SEP> 2276059 <SEP> 2276050
<tb> 2250 <SEP> 2276506 <SEP> 2278035 <SEP> 2276518
<tb> 2251 <SEP> 2278076 <SEP> 2279752 <SEP> 2279731
<tb> 2252 <SEP> 2279783 <SEP> 2280439 <SEP> 2280421
<tb> 2253 <SEP> 2280456 <SEP> 2280971 <SEP> 2280941
<tb> 2254 <SEP> 2281001 <SEP> 2281294 <SEP> 2281025
<tb> 2255 <SEP> 2281389 <SEP> 2281838 <SEP> 2281832
<tb> 2256 <SEP> 2281996 <SEP> 2282247 <SEP> 2282050
<tb> 2257 <SEP> 2282312 <SEP> 2283652 <SEP> 2283649
<tb> 2258 <SEP> 2283714 <SEP> 2284097 <SEP> 2284079
<tb> 2259 <SEP> 2284180 <SEP> 2284626 <SEP> 2284614
<tb> 2260 <SEP> 2285030 <SEP> 2285668 <SEP> 2285644
<tb> 2261 <SEP> 2285644 <SEP> 2286825 <SEP> 2286825
<tb> 2262 <SEP> 2287405 <SEP> 2288322 <SEP> 2288286
<tb> 2263 <SEP> 2288426 <SEP> 2289478 <SEP> 2289397
<tb> 2264 <SEP> 2289553 <SEP> 2290155 <SEP> 2290143
<tb>

<Desc / Clms Page number 129>

<tb>
<tb> 2265 <SEP> 2290259 <SEP> 2292382 <SEP> 2292343
<tb> 2266 <SEP> 2292358 <SEP> 2293068 <SEP> 2293050
<tb> 2267 <SEP> 2293168 <SEP> 2295696 <SEP> 2295687
<tb> 2268 <SEP> 2295884 <SEP> 2296261 <SEP> 2296228
<tb> 2269 <SEP> 2296389 <SEP> 2296589 <SEP> 2296484
<tb> 2270 <SEP> 2296600 <SEP> 2296905 <SEP> 2296905
<tb> 2271 <SEP> 2296870 <SEP> 2297982 <SEP> 2297032
<tb> 2272 <SEP> 2298171 <SEP> 2299103 <SEP> 2299049
<tb> 2273 <SEP> 2299094 <SEP> 2299450 <SEP> 2299411
<tb> 2274 <SEP> 2299659 <SEP> 2300054 <SEP> 2300033
<tb> 2275 <SEP> 2300036 <SEP> 2300911 <SEP> 2300884
<tb> 2276 <SEP> 2301049 <SEP> 2301246 <SEP> 2301070
<tb> 2277 <SEP> 2301293 <SEP> 2302828 <SEP> 2301320
<tb> 2278 <SEP> 2303026 <SEP> 2303631 <SEP> 2303550
<tb> 2279 <SEP> 2303662 <SEP> 2305137 <SEP> 2303692
<tb> 2280 <SEP> 2305198 <SEP> 2306664 <SEP> 2306646
<tb> 2281 <SEP> 2307234 <SEP> 2308406 <SEP> 2308370
<tb> 2282 <SEP> 2308553 <SEP> 2309227 <SEP> 2309227
<tb> 2283 <SEP> 2309220 <SEP> 2309957 <SEP> 2309939
<tb> 2284 <SEP> 2309974 <SEP> 2311215 <SEP> 2311197
<tb> 2285 <SEP> 2311212 <SEP> 2313092 <SEP> 2313086
<tb> 2286 <SEP> 2313212 <SEP> 2314591 <SEP> 2314579
<tb> 2287 <SEP> 2314686 <SEP> 2315213 <SEP> 2315210
<tb> 2288 <SEP> 2315303 <SEP> 2316217 <SEP> 2316175
<tb> 2289 <SEP> 2316423 <SEP> 2316905 <SEP> 2316468
<tb> 2290 <SEP> 2316939 <SEP> 2317634 <SEP> 2317610
<tb> 2291 <SEP> 2317697 <SEP> 2318380 <SEP> 2318380
<tb> 2292 <SEP> 2318466 <SEP> 2319722 <SEP> 2319683
<tb> 2293 <SEP> 2319749 <SEP> 2320198 <SEP> 2320183
<tb> 2294 <SEP> 2320206 <SEP> 2320421 <SEP> 2320406
<tb> 2295 <SEP> 2320669 <SEP> 2324985 <SEP> 2324976
<tb> 2296 <SEP> 2325355 <SEP> 2325996 <SEP> 2325385
<tb> 2297 <SEP> 2326081 <SEP> 2326932 <SEP> 2326899
<tb> 2298 <SEP> 2326905 <SEP> 2327630 <SEP> 2327624
<tb> 2299 <SEP> 2327716 <SEP> 2329113 <SEP> 2327749
<tb> 2300 <SEP> 2329170 <SEP> 2329916 <SEP> 2329913
<tb> 2301 <SEP> 2329916 <SEP> 2332012 <SEP> 2331913
<tb> 2302 <SEP> 2332054 <SEP> 2332413 <SEP> 2332395
<tb> 2303 <SEP> 2332469 <SEP> 2333506 <SEP> 2333476
<tb> 2304 <SEP> 2333759 <SEP> 2334343 <SEP> 2334277
<tb> 2305 <SEP> 2334375 <SEP> 2337095 <SEP> 2334405
<tb> 2306 <SEP> 2337143 <SEP> 2337691 <SEP> 2337613
<tb> 2307 <SEP> 2337729 <SEP> 2338808 <SEP> 2337792
<tb> 2308 <SEP> 2339123 <SEP> 2339815 <SEP> 2339285
<tb> 2309 <SEP> 2339803 <SEP> 2340294 <SEP> 2339842
<tb> 2310 <SEP> 2346318 <SEP> 2346731 <SEP> 2346707
<tb> 2311 <SEP> 2346730 <SEP> 2347203 <SEP> 2347173
<tb> 2312 <SEP> 2347498 <SEP> 2348610 <SEP> 2347540
<tb> 2313 <SEP> 2348592 <SEP> 2349290 <SEP> 2348622
<tb> 2314 <SEP> 2349429 <SEP> 2350313 <SEP> 2349438
<tb> 2315 <SEP> 2350301 <SEP> 2350951 <SEP> 2350328
<tb> 2316 <SEP> 2351007 <SEP> 2351819 <SEP> 2351819
<tb> 2317 <SEP> 2352173 <SEP> 2354308 <SEP> 2354299
<tb> 2318 <SEP> 2354567 <SEP> 2355037 <SEP> 2355031
<tb>

<Desc / Clms Page number 130>

<tb>
<tb> 2319 <SEP> 2355053 <SEP> 2355496 <SEP> 2355463 <SEP>
<tb> 2320 <SEP> 2355722 <SEP> 2357095 <SEP> 2355791
<tb> 2321 <SEP> 2357175 <SEP> 2358092 <SEP> 2358059
<tb> 2322 <SEP> 2358188 <SEP> 2358775 <SEP> 2358775
<tb> 2323 <SEP> 2358909 <SEP> 2359853 <SEP> 2359847
<tb>

<Desc / Clms Page number 131>

<tb>
<tb> TABLE <SEP> II. <SEP> Classification <SEP> of <SEP> proteins <SEP> of <SEP> L. <SEP> lactis <SEP> (SEQ <SEP> IDs) <SEP> in
<tb> functional <SEP> groups
<tb> BIOSYNTHESIS <SEP> DES <SEP> ACIDS <SEP> AMINES
<tb> General
<tb> SEQ <SEP> ID <SEP>:
<tb> Family <SEP> Amino acids <SEP><SEP> Aromatic
<tb> SEQ <SEP> IDs: <SEP> 120 <SEP> 1291 <SEP> 1507 <SEP> 1508 <SEP> 1511 <SEP> 1512 <SEP> 1513 <SEP> 1514 <SEP> 1515 <SEP> 1690
<tb> SEQ <SEP> IDs: <SEP> 1793 <SEP> 1794 <SEP> 1795 <SEP> 1796 <SEP> 1803 <SEP> 1807 <SEP> 1808
<tb><SEP> Aspartate family
<tb> SEQ <SEP> IDs: <SEP> 166 <SEP> 361 <SEP> 755 <SEP> 796 <SEP> 1178 <SEP> 1179 <SEP> 1275 <SEP> 1292 <SEP> 1293 <SEP> 1323
<tb> SEQ <SEP> IDs: <SEP> 1609 <SEP> 1668 <SEP> 1670 <SEP> 1881 <SEP> 1972 <SEP> 1973 <SEP> 2159 <SEP> 2285
<tb> Family <SEP> Branched <SEP> string
<tb> SEQ <SEP> IDs: <SEP> 1251 <SEP> 1252 <SEP> 1254 <SEP> 1255 <SEP> 1257 <SEP> 1258 <SEP> 1259 <SEP> 1260 <SEP> 1261
<tb> Family <SEP> Glutamate
<tb> SEQ <SEP> IDs: <SEP> 128 <SEP> 129 <SEP> 575 <SEP> 683 <SEP> 812 <SEP> 813 <SEP> 814 <SEP> 815 <SEP> 1324 <SEP> 1325
<tb> SEQ <SEP> IDs: <SEP> 1656 <SEP> 1657 <SEP> 1935 <SEP> 2257
<tb><SEP> Histidine family
<tb> SEQ <SEP> IDs: <SEP> 1238 <SEP> 1240 <SEP> 1241 <SEP> 1243 <SEP> 1245 <SEP> 1246 <SEP> 1247 <SEP> 1248 <SEP> 1249
<tb> Family <SEP> Pyruvate
<tb> SEQ <SEP> IDs: <SEP> 860
<tb> Family <SEP> Serine
<tb> SEQ <SEP> IDs: <SEP> 75 <SEP> 551 <SEP> 613 <SEP> 615 <SEP> 616 <SEP> 617 <SEP> 797 <SEP> 1904
<tb> BIOSYNTHESIS <SEP> of <SEP> COFACTORS, <SEP> GROUPS <SEP> PROSTHETICS, <SEP> and <SEP> TRANSPORTERS
<tb> folic <SEP> acid
<tb> SEQ <SEP> IDs: <SEP> 871 <SEP> 953 <SEP> 1169 <SEP> 1172 <SEP> 1173 <SEP> 1174 <SEP> 1176 <SEP> 1353 <SEP> 1354
<tb> Heme <SEP> and <SEP> porphyrin
<tb> SEQ <SEP> IDs: <SEP> 610 <SEP> 1157 <SEP> 1615
<tb> Menaquinone <SEP> and <SEP> ubiquinone
<tb> SEQ <SEP> IDs: <SEP> 187 <SEP> 743 <SEP> 744 <SEP> 745 <SEP> 746 <SEP> 747 <SEP> 875 <SEP> 1383
<tb> Pantothenate
<tb> SEQ <SEP> IDs: <SEP> 584 <SEP> 585 <SEP> 1362 <SEP> 1487
<tb> Riboflavin <SEP> and <SEP> cobalamin
<tb> SEQ <SEP> IDs: <SEP> 1011 <SEP> 1012 <SEP> 1013 <SEP> 1014 <SEP> 1123 <SEP> 1145 <SEP> 1871
<tb> Thioredoxin, <SEP> glutaredoxin, <SEP> and <SEP> glutathione
<tb> SEQ <SEP> IDs: <SEP> 398 <SEP> 862 <SEP> 958 <SEP> 1405 <SEP> 1692 <SEP> 1695
<tb> Thiamine
<tb> SEQ <SEP> IDs: <SEP> 497 <SEP> 1130 <SEP> 1300 <SEP> 1301 <SEP> 1302 <SEP> 1526
<tb> Nucleotides <SEP> Pyridine
<tb> SEQ <SEP> IDs: <SEP> 1120
<tb>

<Desc / Clms Page number 132>

<tb>
<tb> CELLULAR <SEP> ENVELOPE
<tb> Membranes, <SEP> lipoproteins, <SEP> and <SEP> porins
<tb> SEQ <SEP> IDs: <SEP> 326 <SEP> 327 <SEP> 328 <SEP> 329 <SEP> 631 <SEP> 978 <SEP> 1105 <SEP> 1193 <SEP> 1481 <SEP> 2025
<tb> SEQ <SEP> IDs: <SEP> 2185
<tb> Murein <SEP> sacculus <SEP> and <SEP> peptidoglycan
<tb> SEQ <SEP> IDs: <SEP> 280 <SEP> 320 <SEP> 348 <SEP> 350 <SEP> 351 <SEP> 395 <SEP> 552 <SEP> 554 <SEP> 560 <SEP> 885
<tb> SEQ <SEP> IDs: <SEP> 886 <SEP> 968 <SEP> 1181 <SEP> 1321 <SEP> 1406 <SEP> 1637 <SEP> 1638 <SEP> 1857 <SEP> 1934 <SEP> 1960
<tb> SEQ <SEP> IDs: <SEP> 2096 <SEP> 2164 <SEP> 2283 <SEP> 2287 <SEP> 2288 <SEP> 2320
<tb> Polysaccharides <SEP> of <SEP> Surface, <SEP> lipopolysaccharides <SEP> and
<tb> antigens
<tb> SEQ <SEP> IDs: <SEP> 153 <SEP> 206 <SEP> 207 <SEP> 212 <SEP> 213 <SEP> 217 <SEP> 218 <SEP> 219 <SEP> 220 <SEP> 221
<tb> SEQ <SEP> IDs: <SEP> 222 <SEP> 223 <SEP> 224 <SEP> 693 <SEP> 695 <SEP> 697 <SEP> 754 <SEP> 894 <SEP> 930 <SEP> 936
<tb> SEQ <SEP> IDs: <SEP> 937 <SEP> 939 <SEP> 940 <SEP> 942 <SEP> 944 <SEP> 945 <SEP> 973 <SEP> 1296 <SEP> 1297 <SEP> 1298
<tb> SEQ <SEP> IDs: <SEP> 1299 <SEP> 1304 <SEP> 1380 <SEP> 1499 <SEP> 1500 <SEP> 1618 <SEP> 1845 <SEP> 2218 <SEP> 2279 <SEP> 2280
<tb> CELLULAR <SEP> MACHINERY
<tb> Cell <SEP> Division
<tb> SEQ <SEP> IDs: <SEP> 20 <SEP> 22 <SEP> 100 <SEP> 681 <SEP> 818 <SEP> 828 <SEP> 902 <SEP> 914 <SEP> 990 <SEP> 991
<tb> SEQ <SEP> IDs: <SEP> 1267 <SEP> 1384 <SEP> 1636 <SEP> 1704 <SEP> 1898 <SEP> 1920 <SEP> 1921 <SEP> 2207
Cell <tb> Death <SEP>
<tb> SEQ <SEP> IDs: <SEP> 508
<tb> Chaperones
<tb> SEQ <SEP> IDs: <SEP> 126 <SEP> 402 <SEP> 403 <SEP> 972
<tb> Detoxification
<tb> SEQ <SEP> IDs: <SEP> 417
<tb> Secretion <SEP> of <SEP> Proteins <SEP> and <SEP> peptides
<tb> SEQ <SEP> IDs: <SEP> 119 <SEP> 562 <SEP> 959 <SEP> 1015 <SEP> 1664 <SEP> 2134 <SEP> 2161 <SEP> 2315
<tb> Transformation
<tb> SEQ <SEP> IDs: <SEP> 1107 <SEP> 1108 <SEP> 1265 <SEP> 1779 <SEP> 1823 <SEP> 1824 <SEP> 1859 <SEP> 2084 <SEP> 2120 <SEP> 2176
<tb> SEQ <SEP> IDs: <SEP> 2177 <SEP> 2178 <SEP> 2179 <SEP> 2206
<tb> METABOLISM <SEP> INTERMEDIATE <SEP> CENTRAL
<tb> Amino <SEP> sugars
<tb> SEQ <SEP> IDs: <SEP> 434 <SEP> 1024 <SEP> 1162 <SEP> 1376 <SEP> 1537 <SEP> 1621
<tb><SEP> degradation of <SEP> polysaccharides
<tb> SEQ <SEP> IDs: <SEP> 291 <SEP> 716 <SEP> 1289 <SEP> 1538 <SEP> 1539 <SEP> 1728 <SEP> 1729 <SEP> 1732 <SEP> 2005
<tb> Phosphorus <SEP> compounds
<tb> SEQ <SEP> IDs: <SEP> 728
<tb> Biosynthesis <SEP> of <SEP> the <SEP> Polyamine
<tb> SEQ <SEP> IDs: <SEP> 1663
<tb> Others
<tb> SEQ <SEP> IDs: <SEP> 155 <SEP> 215 <SEP> 586 <SEP> 712 <SEP> 713 <SEP> 714 <SEP> 715
<tb>

<Desc / Clms Page number 133>

<tb>
<tb> METABOLISM <SEP> ENERGY
<tb> Aerobic
<tb> SEQ <SEP> IDs: <SEP> 76 <SEP> 136 <SEP> 151 <SEP> 186 <SEP> 242 <SEP> 273 <SEP> 276 <SEP> 342 <SEP> 347 <SEP> 400
<tb> SEQ <SEP> IDs: <SEP> 643 <SEP> 768 <SEP> 801 <SEP> 843 <SEP> 844 <SEP> 1281 <SEP> 1348 <SEP> 1572 <SEP> 1574 <SEP> 1583
<tb> SEQ <SEP> IDs: <SEP> 1596 <SEP> 1601 <SEP> 1604 <SEP> 1746 <SEP> 1784 <SEP> 1785 <SEP> 1925 <SEP> 2042 <SEP> 2100 <SEP> 2182
<tb> SEQ <SEP> IDs: <SEP> 2307
<tb> Amino <SEP><SEP> and <SEP> amine acids
<tb> SEQ <SEP> IDs: <SEP> 59 <SEP> 290 <SEP> 502 <SEP> 548 <SEP> 742 <SEP> 751 <SEP> 816 <SEP> 845 <SEP> 846 <SEP> 974
<tb> SEQ <SEP> IDs: <SEP> 1327 <SEP> 1329 <SEP> 1343 <SEP> 1747 <SEP> 1751 <SEP> 1971 <SEP> 1985 <SEP> 2088 <SEP> 2089 <SEP> 2090
<tb> SEQ <SEP> IDs: <SEP> 2092 <SEP> 2093
<tb> Anaerobic
<tb> SEQ <SEP> IDs: <SEP> 254 <SEP> 256 <SEP> 257 <SEP> 1127 <SEP> 1283 <SEP> 1379
<tb> Interconversion <SEP> driving force <SEP><SEP> ATP-proton
<tb> SEQ <SEP> IDs: <SEP> 1814 <SEP> 1815 <SEP> 1816 <SEP> 1817 <SEP> 1818 <SEP> 1819 <SEP> 1820
Electron <tb> Transport <SEP>
<tb> SEQ <SEP> IDs: <SEP> 431 <SEP> 609 <SEP> 620 <SEP> 719 <SEP> 720 <SEP> 732 <SEP> 994 <SEP> 995 <SEP> 1756 <SEP> 2167
<tb> Entner-Doudoroff
<tb> SEQ <SEP> IDs: <SEP> 1674 <SEP> 1675
<tb> Fermentation
<tb> SEQ <SEP> IDs: <SEP> 677 <SEP> 915 <SEP> 916 <SEP> 918 <SEP> 1125 <SEP> 1142 <SEP> 1205 <SEP> 1207 <SEP> 1262 <SEP> 1290
<tb> SEQ <SEP> IDs: <SEP> 1707 <SEP> 1858 <SEP> 1864 <SEP> 2068 <SEP> 2069 <SEP> 2211
<tb> Gluconeogenesis
<tb> SEQ <SEP> IDs: <SEP> 265
<tb> Glycolysis
<tb> SEQ <SEP> IDs: <SEP> 253 <SEP> 284 <SEP> 345 <SEP> 385 <SEP> 439 <SEP> 570 <SEP> 656 <SEP> 682 <SEP> 967 <SEP> 1146
<tb> SEQ <SEP> IDs: <SEP> 1152 <SEP> 1372 <SEP> 1373 <SEP> 1374 <SEP> 1792 <SEP> 1962 <SEP> 2224 <SEP> 2303
<tb> Channel <SEP> Pentose <SEP> phosphate
<tb> SEQ <SEP> IDs: <SEP> 634 <SEP> 1673 <SEP> 1723 <SEP> 1979 <SEP> 2277 <SEP> 2290
<tb> Pyruvate <SEP> dehydrogenase
<tb> SEQ <SEP> IDs: <SEP> 61 <SEP> 62 <SEP> 63 <SEP> 64
<tb> Sugars
<tb> SEQ <SEP> IDs: <SEP> 26 <SEP> 181 <SEP> 426 <SEP> 440 <SEP> 711 <SEP> 784 <SEP> 834 <SEP> 976 <SEP> 1326 <SEP> 1504
<tb> SEQ <SEP> IDs: <SEP> 1532 <SEP> 1533 <SEP> 1534 <SEP> 1543 <SEP> 1546 <SEP> 1549 <SEP> 1550 <SEP> 1552 <SEP> 1553 <SEP> 1554
<tb> SEQ <SEP> IDs: <SEP> 1676 <SEP> 1679 <SEP> 1680 <SEP> 1687 <SEP> 1721 <SEP> 1730 <SEP> 1731 <SEP> 2034 <SEP> 2035 <SEP> 2036
<tb> SEQ <SEP> IDs: <SEP> 2037 <SEP> 2038 <SEP> 2039 <SEP> 2079 <SEP> 2241 <SEP> 2242
<tb> TCA <SEP> cycle
<tb> SEQ <SEP> IDs: <SEP> 684 <SEP> 685 <SEP> 1212 <SEP> 1213 <SEP> 1214 <SEP> 1215 <SEP> 1216
<tb> METABOLISM <SEP> OF <SEP> FATTY ACIDS <SEP><SEP> AND <SEP> PHOSPHOLIPIDS
<tb> General
<tb> SEQ <SEP> IDs: <SEP> 65 <SEP> 72 <SEP> 118 <SEP> 390 <SEP> 413 <SEP> 414 <SEP> 415 <SEP> 576 <SEP> 577 <SEP> 675
<tb> SEQ <SEP> IDs: <SEP> 786 <SEP> 787 <SEP> 788 <SEP> 789 <SEP> 790 <SEP> 791 <SEP> 792 <SEP> 793 <SEP> 794 <SEP> 795
<tb> SEQ <SEP> IDs: <SEP> 859 <SEP> 1284 <SEP> 1834 <SEP> 1837 <SEP> 1955
<tb>

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<tb>
<tb> PURINES, <SEP> PYRIMIDINES, <SEP> NUCLEOSIDES <SEP> AND <SEP> NUCLEOTIDES
<tb> metabolism <SEP>2'-deoxyribonucleotide
<tb> SEQ <SEP> IDs: <SEP> 182 <SEP> 506 <SEP> 992 <SEP> 993 <SEP> 1159 <SEP> 1177
<tb> Interconversions <SEP> Nucleotide <SEP> and <SEP> nucleoside
<tb> SEQ <SEP> IDs: <SEP> 311 <SEP> 1112 <SEP> 1754 <SEP> 2066
<tb> Biosynthesis <SEP> of <SEP> ribonucleotides <SEP> Purine
<tb> SEQ <SEP> IDs: <SEP> 226 <SEP> 1164 <SEP> 1531 <SEP> 1556 <SEP> 1557 <SEP> 1558 <SEP> 1563 <SEP> 1564 <SEP> 1568 <SEP> 1569
<tb> SEQ <SEP> IDs: <SEP> 1573 <SEP> 1575 <SEP> 1576 <SEP> 1578 <SEP> 1689 <SEP> 2007
<tb><SEP> biosynthesis of <SEP> ribonucleotides <SEP> Pyrimidine
<tb> SEQ <SEP> IDs: <SEP> 407 <SEP> 501 <SEP> 1086 <SEP> 1087 <SEP> 1386 <SEP> 1387 <SEP> 1388 <SEP> 1404 <SEP> 1586 <SEP> 1599
<tb> SEQ <SEP> IDs: <SEP> 1649 <SEP> 1650
<tb> Recovery <SEP> of <SEP> nucleosides <SEP> and <SEP> nucleotides
<tb> SEQ <SEP> IDs: <SEP> 21 <SEP> 281 <SEP> 282 <SEP> 295 <SEP> 605 <SEP> 645 <SEP> 829 <SEP> 854 <SEP> 947 <SEP> 949
<tb> SEQ <SEP> IDs: <SEP> 1165 <SEP> 1482 <SEP> 1483 <SEP> 1485 <SEP> 1708 <SEP> 1908 <SEP> 1950 <SEP> 1969 <SEP> 2133
<tb> biosynthesis <SEP> Sugar-nucleotide <SEP> and <SEP> interconversions
<tb> SEQ <SEP> IDs: <SEP> 200 <SEP> 202 <SEP> 204 <SEP> 205
<tb><SEP> REGULATION <SEP> FUNCTIONS
<tb> General
<tb> SEQ <SEP> IDs: <SEP> 6 <SEP> 8 <SEP> 110 <SEP> 131 <SEP> 137 <SEP> 154 <SEP> 167 <SEP> 243 <SEP> 245 <SEP> 261
<tb> SEQ <SEP> IDs: <SEP> 324 <SEP> 335 <SEP> 421 <SEP> 424 <SEP> 429 <SEP> 445 <SEP> 541 <SEP> 565 <SEP> 622 <SEP> 674
<tb> SEQ <SEP> IDs: <SEP> 771 <SEP> 832 <SEP> 847 <SEP> 877 <SEP> 905 <SEP> 929 <SEP> 946 <SEP> 982 <SEP> 1084 <SEP> 1151
<tb> SEQ <SEP> IDs: <SEP> 1186 <SEP> 1197 <SEP> 1233 <SEP> 1263 <SEP> 1294 <SEP> 1310 <SEP> 1331 <SEP> 1349 <SEP> 1490 <SEP> 1494
<tb> SEQ <SEP> IDs: <SEP> 1521 <SEP> 1524 <SEP> 1559 <SEP> 1566 <SEP> 1624 <SEP> 1639 <SEP> 1652 <SEP> 1654 <SEP> 1717 <SEP> 1745
<tb> SEQ <SEP> IDs: <SEP> 1753 <SEP> 1766 <SEP> 1830 <SEP> 1831 <SEP> 1846 <SEP> 1852 <SEP> 1853 <SEP> 1928 <SEP> 1956 <SEP> 2001
<tb> SEQ <SEP> IDs: <SEP> 2032 <SEP> 2041 <SEP> 2043 <SEP> 2059 <SEP> 2095 <SEP> 2216 <SEP> 2243 <SEP> 2258 <SEP> 2262 <SEP> 2270
<tb> SEQ <SEP> IDs: <SEP> 2291 <SEP> 2296 <SEP> 2306 <SEP> 2316
<tb> Two-component <SEP> systems
<tb> SEQ <SEP> IDs: <SEP> 405 <SEP> 406 <SEP> 908 <SEP> 909 <SEP> 1020 <SEP> 1022 <SEP> 1477 <SEP> 1478 <SEP> 1641 <SEP> 1642
<tb> SEQ <SEP> IDs: <SEP> 1724 <SEP> 1725 <SEP> 1752 <SEP> 1797 <SEP> 1798
<tb> Regulators <SEP> of <SEP> the <SEP> family <SEP> LacI
<tb> SEQ <SEP> IDs: <SEP> 740 <SEP> 1545 <SEP> 1688 <SEP> 1696 <SEP> 1726 <SEP> 2200 <SEP> 2205
<tb> Regulators <SEP> of <SEP> the <SEP> family <SEP> LysR
<tb> SEQ <SEP> IDs: <SEP> 24 <SEP> 340 <SEP> 383 <SEP> 386 <SEP> 890 <SEP> 1274 <SEP> 1345 <SEP> 1603 <SEP> 1927
<tb> Regulators <SEP> of <SEP> the <SEP> family <SEP> AraC
<tb> SEQ <SEP> IDs: <SEP> 543 <SEP> 1555
<tb> Regulators <SEP> of <SEP> the <SEP> family <SEP> GntR
<tb> SEQ <SEP> IDs: <SEP> 435 <SEP> 1480 <SEP> 1498 <SEP> 1681
<tb> Regulators <SEP> of <SEP> the <SEP> family <SEP> DeoR
<tb> SEQ <SEP> IDs: <SEP> 804 <SEP> 975 <SEP> 1211 <SEP> 1336
<tb> Regulators <SEP> of <SEP> the <SEP> family <SEP> MarR
<tb> SEQ <SEP> IDs: <SEP> 117 <SEP> 603 <SEP> 723 <SEP> 757 <SEP> 785 <SEP> 926 <SEP> 1344 <SEP> 1517 <SEP> 1527 <SEP> 1585
<tb> SEQ <SEP> IDs: <SEP> 2172
<tb> Regulators <SEP> of <SEP> the <SEP> family <SEP> BglG
<tb> SEQ <SEP> IDs: <SEP> 1506
<tb>

<Desc / Clms Page number 135>

<tb>
<tb> Proteins <SEP> binding <SEP> the <SEP> GTP
<tb> SEQ <SEP> IDs: <SEP> 7 <SEP> 227 <SEP> 229 <SEP> 360 <SEP> 770 <SEP> 1171 <SEP> 1333 <SEP> 1635 <SEP> 2071 <SEP> 2299
<tb> REPLICATION
<tb><SEP> degradation of <SEP> DNA
<tb> SEQ <SEP> IDs: <SEP> 4 <SEP> 5 <SEP> 573 <SEP> 644 <SEP> 806 <SEP> 856 <SEP> 872 <SEP> 873 <SEP> 1089 <SEP> 1360
<tb> SEQ <SEP> IDs: <SEP> 1361 <SEP> 1869
<tb> Replication, <SEP> Restriction, <SEP> modification, <SEP> recombination,
<tb> and <SEP> repair <SEP> of <SEP> DNA
<tb> SEQ <SEP> IDs: <SEP> 2 <SEP> 3 <SEP> 101 <SEP> 102 <SEP> 240 <SEP> 349 <SEP> 362 <SEP> 363 <SEP> 401 <SEP> 408
<tb> SEQ <SEP> IDs: <SEP> 428 <SEP> 507 <SEP> 513 <SEP> 542 <SEP> 563 <SEP> 572 <SEP> 600 <SEP> 657 <SEP> 663 <SEP> 664
<tb> SEQ <SEP> IDs: <SEP> 665 <SEP> 761 <SEP> 766 <SEP> 767 <SEP> 857 <SEP> 878 <SEP> 898 <SEP> 923 <SEP> 997 <SEP> 1000
<tb> SEQ <SEP> IDs: <SEP> 1002 <SEP> 1025 <SEP> 1088 <SEP> 1129 <SEP> 1138 <SEP> 1139 <SEP> 1140 <SEP> 1266 <SEP> 1270 <SEP> 1693
<tb> SEQ <SEP> IDs: <SEP> 1791 <SEP> 1883 <SEP> 1948 <SEP> 2030 <SEP> 2098 <SEP> 2180 <SEP> 2198 <SEP> 2247 <SEP> 2251 <SEP> 2263
<tb> SEQ <SEP> IDs: <SEP> 2264 <SEP> 2265 <SEP> 2267 <SEP> 2281 <SEP> 2301
<tb> TRANSCRIPTION
<tb><SEP> degradation of <SEP> the RNA
<tb> SEQ <SEP> IDs: <SEP> 817 <SEP> 960 <SEP> 1237 <SEP> 1332 <SEP> 1906 <SEP> 2314
<tb> Synthesis, <SEP> modification <SEP> of <SEP> RNA, <SEP> and <SEP> transcription <SEP> of
<tb> DNA
<tb> SEQ <SEP> IDs: <SEP> 14 <SEP> 564 <SEP> 619 <SEP> 646 <SEP> 648 <SEP> 709 <SEP> 779 <SEP> 1314 <SEP> 1367 <SEP> 1368
<tb> SEQ <SEP> IDs: <SEP> 1607 <SEP> 1612 <SEP> 1623 <SEP> 1850 <SEP> 1851 <SEP> 2124 <SEP> 2160 <SEP> 2222 <SEP> 2297
<tb><SEP> molecular <SEP> maturation of <SEP> RNA
<tb> SEQ <SEP> IDs: <SEP> 359 <SEP> 419 <SEP> 1613
<tb> TRANSLATION
tRNA <SEP> amino <SEP> acyl <tb> synthetases <SEP>
<tb> SEQ <SEP> IDs: <SEP> 68 <SEP> 382 <SEP> 394 <SEP> 807 <SEP> 831 <SEP> 1113 <SEP> 1114 <SEP> 1239 <SEP> 1763 <SEP> 1775
<tb> SEQ <SEP> IDs: <SEP> 1879 <SEP> 1902 <SEP> 1914 <SEP> 1964 <SEP> 1983 <SEP> 1984 <SEP> 2020 <SEP> 2022 <SEP> 2094 <SEP> 2109
<tb> SEQ <SEP> IDs: <SEP> 2183 <SEP> 2229
<tb><SEP> degradation of <SEP> proteins, <SEP> peptides, <SEP> and <SEP> glycopeptides
<tb> SEQ <SEP> IDs: <SEP> 260 <SEP> 303 <SEP> 313 <SEP> 396 <SEP> 624 <SEP> 706 <SEP> 858 <SEP> 1606 <SEP> 1697 <SEP> 1778
<tb> SEQ <SEP> IDs <SEP>: <SEP> 1861 <SEP> 1929 <SEP> 2027 <SEP> 2028 <SEP> 2045 <SEP> 2047 <SEP> 2105 <SEP> 2192
<tb> Modification <SEP> of the <SEP> proteins
<tb> SEQ <SEP> IDs: <SEP> 374 <SEP> 571 <SEP> 911 <SEP> 1600 <SEP> 1776 <SEP> 2062
<tb> Ribosomal <SEP> proteins <SEP>: <SEP> and <SEP> modification
<tb> SEQ <SEP> IDs: <SEP> 97 <SEP> 98 <SEP> 107 <SEP> 135 <SEP> 198 <SEP> 246 <SEP> 292 <SEP> 301 <SEP> 302 <SEP> 680
<tb> SEQ <SEP> IDs: <SEP> 748 <SEP> 760 <SEP> 781 <SEP> 805 <SEP> 853 <SEP> 892 <SEP> 906 <SEP> 1097 <SEP> 1099 <SEP> 1307
<tb> SEQ <SEP> IDs: <SEP> 1308 <SEP> 1617 <SEP> 1644 <SEP> 1790 <SEP> 1893 <SEP> 1894 <SEP> 1937 <SEP> 2056 <SEP> 2057 <SEP> 2123
<tb> SEQ <SEP> IDs: <SEP> 2125 <SEP> 2126 <SEP> 2127 <SEP> 2135 <SEP> 2136 <SEP> 2137 <SEP> 2138 <SEP> 2139 <SEP> 2140 <SEP> 2142
<tb> SEQ <SEP> IDs: <SEP> 2143 <SEP> 2144 <SEP> 2145 <SEP> 2146 <SEP> 2147 <SEP> 2148 <SEP> 2149 <SEP> 2150 <SEP> 2151 <SEP> 2152
<tb> SEQ <SEP> IDs: <SEP> 2153 <SEP> 2154 <SEP> 2155 <SEP> 2156 <SEP> 2162 <SEP> 2209 <SEP> 2246 <SEP> 2248 <SEP> 2310 <SEP> 2311
<tb> SEQ <SEP> IDs: <SEP> 2318 <SEP> 2319
<tb> Modification <SEP> of <SEP> tRNA
<tb> SEQ <SEP> IDs: <SEP> 13 <SEP> 132 <SEP> 158 <SEP> 168 <SEP> 169 <SEP> 171 <SEP> 496 <SEP> 638 <SEP> 705 <SEP> 852
<tb>

<Desc / Clms Page number 136>

<tb>
<tb> SEQ <SEP> IDs: <SEP> 1144 <SEP> 1923 <SEP> 1944
<tb> Translation <SEP> factors
<tb> SEQ <SEP> IDs: <SEP> 358 <SEP> 607 <SEP> 707 <SEP> 782 <SEP> 783 <SEP> 989 <SEP> 1126 <SEP> 1895 <SEP> 1912 <SEP> 2065
<tb> SEQ <SEP> IDs: <SEP> 2128 <SEP> 2208 <SEP> 2317
<tb> TRANSPORT <SEP> AND <SEP> LINK <SEP> OF <SEP> PROTEINS
<tb> General
<tb> SEQ <SEP> IDs: <SEP> 11 <SEP> 74 <SEP> 104 <SEP> 262 <SEP> 263 <SEP> 269 <SEP> 270 <SEP> 271 <SEP> 285 <SEP> 286
<tb> SEQ <SEP> IDs: <SEP> 287 <SEP> 318 <SEP> 319 <SEP> 333 <SEP> 334 <SEP> 544 <SEP> 545 <SEP> 579 <SEP> 580 <SEP> 672
<tb> SEQ <SEP> IDs: <SEP> 673 <SEP> 729 <SEP> 855 <SEP> 881 <SEP> 888 <SEP> 889 <SEP> 917 <SEP> 983 <SEP> 984 <SEP> 1080
<tb> SEQ <SEP> IDs: <SEP> 1121 <SEP> 1122 <SEP> 1203 <SEP> 1256 <SEP> 1311 <SEP> 1312 <SEP> 1366 <SEP> 1567 <SEP> 1602 <SEP> 1667
<tb> SEQ <SEP> IDs: <SEP> 1787 <SEP> 1800 <SEP> 1801 <SEP> 1825 <SEP> 1826 <SEP> 1844 <SEP> 1926 <SEP> 2051 <SEP> 2052 <SEP> 2074
<tb> SEQ <SEP> IDs: <SEP> 2157 <SEP> 2260 <SEP> 2261 <SEP> 2313 <SEP> 2321
<tb><SEP> amino acids, <SEP> peptides <SEP> and <SEP> amines
<tb> SEQ <SEP> IDs: <SEP> 70 <SEP> 115 <SEP> 330 <SEP> 331 <SEP> 352 <SEP> 353 <SEP> 354 <SEP> 355 <SEP> 356 <SEP> 357
<tb> SEQ <SEP> IDs: <SEP> 364 <SEP> 365 <SEP> 375 <SEP> 550 <SEP> 574 <SEP> 698 <SEP> 699 <SEP> 717 <SEP> 824 <SEP> 863
<tb> SEQ <SEP> IDs: <SEP> 864 <SEP> 955 <SEP> 956 <SEP> 957 <SEP> 1128 <SEP> 1182 <SEP> 1183 <SEP> 1184 <SEP> 1185 <SEP> 1330
<tb> SEQ <SEP> IDs: <SEP> 1496 <SEP> 1497 <SEP> 1750 <SEP> 1810 <SEP> 1811 <SEP> 1847 <SEP> 1848 <SEP> 1873 <SEP> 1888 <SEP> 1889
<tb> SEQ <SEP> IDs: <SEP> 1890 <SEP> 1891 <SEP> 1892 <SEP> 2087 <SEP> 2091 <SEP> 2107 <SEP> 2250
<tb> Anions
<tb> SEQ <SEP> IDs: <SEP> 52 <SEP> 308 <SEP> 309 <SEP> 310 <SEP> 1767 <SEP> 1768 <SEP> 1769 <SEP> 1770 <SEP> 1771 <SEP> 1772
<tb> Hydrates <SEP> of <SEP> Carbon, <SEP> organic <SEP> alcohols <SEP> and <SEP> acids
<tb> SEQ <SEP> IDs: <SEP> 208 <SEP> 209 <SEP> 259 <SEP> 430 <SEP> 566 <SEP> 919 <SEP> 933 <SEP> 934 <SEP> 1282 <SEP> 1369
<tb> SEQ <SEP> IDs: <SEP> 1370 <SEP> 1371 <SEP> 1530 <SEP> 1540 <SEP> 1541 <SEP> 1542 <SEP> 1548 <SEP> 1551 <SEP> 1671 <SEP> 1678
<tb> SEQ <SEP> IDs: <SEP> 1683 <SEP> 1684 <SEP> 1685 <SEP> 1686 <SEP> 1733 <SEP> 1734 <SEP> 1735 <SEP> 2040 <SEP> 2104 <SEP> 2239
<tb> Cations
<tb> SEQ <SEP> IDs: <SEP> 99 <SEP> 193 <SEP> 194 <SEP> 316 <SEP> 336 <SEP> 337 <SEP> 338 <SEP> 339 <SEP> 341 <SEP> 392
<tb> SEQ <SEP> IDs: <SEP> 587 <SEP> 635 <SEP> 636 <SEP> 676 <SEP> 691 <SEP> 848 <SEP> 849 <SEP> 869 <SEP> 932 <SEP> 1194
<tb> SEQ <SEP> IDs <SEP>: <SEP> 1295 <SEP> 1341 <SEP> 1355 <SEP> 1356 <SEP> 1357 <SEP> 1407 <SEP> 1528 <SEP> 1640 <SEP> 1655
<tb> SEQ <SEP> IDs <SEP>: <SEP> 2058 <SEP> 2169 <SEP> 2170 <SEP> 2171 <SEP> 2305
<tb> Nucleosides, <SEP> purines <SEP> and <SEP> pyrimidines
<tb> SEQ <SEP> IDs: <SEP> 896 <SEP> 1166 <SEP> 1651
<tb> System <SEP> PTS
<tb> SEQ <SEP> IDs: <SEP> 23 <SEP> 25 <SEP> 121 <SEP> 122 <SEP> 180 <SEP> 422 <SEP> 423 <SEP> 425 <SEP> 437 <SEP> 630
<tb> SEQ <SEP> IDs: <SEP> 833 <SEP> 977 <SEP> 1149 <SEP> 1150 <SEP> 1505 <SEP> 1757 <SEP> 1758 <SEP> 1759
<tb> Resistance <SEP> Multi-drug
<tb> SEQ <SEP> IDs: <SEP> 81 <SEP> 82 <SEP> 127 <SEP> 130 <SEP> 160 <SEP> 244 <SEP> 314 <SEP> 389 <SEP> 621 <SEP> 679
<tb> SEQ <SEP> IDs: <SEP> 721 <SEP> 722 <SEP> 726 <SEP> 927 <SEP> 1389 <SEP> 1561 <SEP> 1584 <SEP> 1682 <SEP> 2220 <SEP> 2221
<tb> SEQ <SEP> IDs: <SEP> 2292
<tb> OTHERS <SEP> CATEGORIES
<tb> Adaptations <SEP> to <SEP> atypical <SEP> conditions
<tb> SEQ <SEP> IDs: <SEP> 69 <SEP> 173 <SEP> 174 <SEP> 195 <SEP> 312 <SEP> 346 <SEP> 418 <SEP> 540 <SEP> 568 <SEP> 653
<tb> SEQ <SEP> IDs: <SEP> 654 <SEP> 686 <SEP> 912 <SEP> 970 <SEP> 971 <SEP> 1102 <SEP> 1170 <SEP> 1414 <SEP> 1570 <SEP> 2085
<tb> Sensitivity <SEP> to <SEP> drugs <SEP> and <SEP> analogues
<tb>

<Desc / Clms Page number 137>

<tb>
<tb> SEQ <SEP> IDs: <SEP> 1244 <SEP> 1860 <SEP> 2249
<tb><SEP> functions relating <SEP> to <SEP> phages <SEP> and <SEP> prophages
<tb> SEQ <SEP> IDs: <SEP> 27 <SEP> 28 <SEP> 29 <SEP> 30 <SEP> 31 <SEP> 32 <SEP> 33 <SEP> 34 <SEP> 35 <SEP> 36
<tb> SEQ <SEP> IDs: <SEP> 37 <SEP> 38 <SEP> 39 <SEP> 40 <SEP> 41 <SEP> 42 <SEP> 43 <SEP> 44 <SEP> 45 <SEP> 46
<tb> SEQ <SEP> IDs: <SEP> 47 <SEP> 48 <SEP> 49 <SEP> 446 <SEP> 447 <SEP> 448 <SEP> 449 <SEP> 450 <SEP> 451 <SEP> 452
<tb> SEQ <SEP> IDs: <SEP> 453 <SEP> 454 <SEP> 455 <SEP> 456 <SEP> 457 <SEP> 458 <SEP> 459 <SEP> 460 <SEP> 461 <SEP> 462
<tb> SEQ <SEP> IDs: <SEP> 463 <SEP> 464 <SEP> 465 <SEP> 466 <SEP> 467 <SEP> 468 <SEP> 469 <SEP> 470 <SEP> 471 <SEP> 472
<tb> SEQ <SEP> IDs: <SEP> 473 <SEP> 474 <SEP> 475 <SEP> 476 <SEP> 477 <SEP> 478 <SEP> 479 <SEP> 480 <SEP> 481 <SEP> 482
<tb> SEQ <SEP> IDs: <SEP> 483 <SEP> 484 <SEP> 485 <SEP> 486 <SEP> 487 <SEP> 488 <SEP> 489 <SEP> 490 <SEP> 491 <SEP> 492
<tb> SEQ <SEP> IDs: <SEP> 493 <SEP> 494 <SEP> 514 <SEP> 515 <SEP> 516 <SEP> 517 <SEP> 518 <SEP> 519 <SEP> 520 <SEP> 521
<tb> SEQ <SEP> IDs: <SEP> 522 <SEP> 523 <SEP> 524 <SEP> 525 <SEP> 526 <SEP> 527 <SEP> 528 <SEP> 529 <SEP> 531 <SEP> 532
<tb> SEQ <SEP> IDs: <SEP> 533 <SEP> 534 <SEP> 1026 <SEP> 1027 <SEP> 1028 <SEP> 1029 <SEP> 1030 <SEP> 1031 <SEP> 1032 <SEP> 1033
<tb> SEQ <SEP> IDs: <SEP> 1034 <SEP> 1035 <SEP> 1036 <SEP> 1037 <SEP> 1038 <SEP> 1039 <SEP> 1040 <SEP> 1041 <SEP> 1042 <SEP> 1043
<tb> SEQ <SEP> IDs: <SEP> 1044 <SEP> 1045 <SEP> 1046 <SEP> 1047 <SEP> 1048 <SEP> 1049 <SEP> 1050 <SEP> 1051 <SEP> 1052 <SEP> 1053
<tb> SEQ <SEP> IDs: <SEP> 1054 <SEP> 1055 <SEP> 1056 <SEP> 1057 <SEP> 1058 <SEP> 1059 <SEP> 1060 <SEP> 1061 <SEP> 1062 <SEP> 1063
<tb> SEQ <SEP> IDs: <SEP> 1064 <SEP> 1065 <SEP> 1066 <SEP> 1067 <SEP> 1068 <SEP> 1069 <SEP> 1070 <SEP> 1071 <SEP> 1072 <SEP> 1073
<tb> SEQ <SEP> IDs: <SEP> 1074 <SEP> 1075 <SEP> 1076 <SEP> 1077 <SEP> 1200 <SEP> 1217 <SEP> 1416 <SEP> 1417 <SEP> 1418 <SEP> 1419
<tb> SEQ <SEP> IDs: <SEP> 1420 <SEP> 1421 <SEP> 1422 <SEP> 1423 <SEP> 1424 <SEP> 1425 <SEP> 1426 <SEP> 1427 <SEP> 1428 <SEP> 1429
<tb> SEQ <SEP> IDs: <SEP> 1430 <SEP> 1431 <SEP> 1432 <SEP> 1433 <SEP> 1434 <SEP> 1435 <SEP> 1436 <SEP> 1437 <SEP> 1438 <SEP> 1439
<tb> SEQ <SEP> IDs: <SEP> 1440 <SEP> 1441 <SEP> 1442 <SEP> 1443 <SEP> 1444 <SEP> 1445 <SEP> 1446 <SEP> 1447 <SEP> 1448 <SEP> 1449
<tb> SEQ <SEP> IDs: <SEP> 1450 <SEP> 1451 <SEP> 1452 <SEP> 1453 <SEP> 1454 <SEP> 1455 <SEP> 1456 <SEP> 1457 <SEP> 1458 <SEP> 1459
<tb> SEQ <SEP> IDs: <SEP> 1460 <SEP> 1461 <SEP> 1462 <SEP> 1463 <SEP> 1464 <SEP> 1465 <SEP> 1466 <SEP> 1467 <SEP> 1468 <SEP> 1469
<tb> SEQ <SEP> IDs: <SEP> 1470 <SEP> 1471 <SEP> 1472 <SEP> 1473 <SEP> 1474 <SEP> 1475 <SEP> 1647 <SEP> 1720 <SEP> 1998 <SEP> 2003
<tb><SEP> functions relating <SEP> to <SEP> Transposons
<tb> SEQ <SEP> IDs: <SEP> 53 <SEP> 54 <SEP> 55 <SEP> 56 <SEP> 90 <SEP> 91 <SEP> 93 <SEP> 94 <SEP> 141 <SEP> 142
<tb> SEQ <SEP> IDs: <SEP> 143 <SEP> 144 <SEP> 145 <SEP> 146 <SEP> 378 <SEP> 379 <SEP> 380 <SEP> 381 <SEP> 614 <SEP> 649
<tb> SEQ <SEP> IDs: <SEP> 650 <SEP> 651 <SEP> 652 <SEP> 662 <SEP> 670 <SEP> 694 <SEP> 718 <SEP> 737 <SEP> 738 <SEP> 837
<tb> SEQ <SEP> IDs: <SEP> 838 <SEP> 839 <SEP> 841 <SEP> 842 <SEP> 950 <SEP> 1224 <SEP> 1225 <SEP> 1231 <SEP> 1232 <SEP> 1236
<tb> SEQ <SEP> IDs: <SEP> 1268 <SEP> 1286 <SEP> 1287 <SEP> 1342 <SEP> 1400 <SEP> 1560 <SEP> 1591 <SEP> 1741 <SEP> 1742 <SEP> 1749
<tb> SEQ <SEP> IDs: <SEP> 1936 <SEP> 1961 <SEP> 1986 <SEP> 1992 <SEP> 2060 <SEP> 2082 <SEP> 2083 <SEP> 2118 <SEP> 2129 <SEP> 2130
<tb> SEQ <SEP> IDs: <SEP> 2131 <SEP> 2132 <SEP> 2191 <SEP> 2201 <SEP> 2202 <SEP> 2203 <SEP> 2204 <SEP> 2240
<tb> Others
<tb> SEQ <SEP> IDs: <SEP> 416 <SEP> 591 <SEP> 618 <SEP> 710 <SEP> 835 <SEP> 1153 <SEP> 1727 <SEP> 1822 <SEP> 1910 <SEP> 1931
<tb> SEQ <SEP> IDs: <SEP> 1953 <SEP> 2031 <SEP>
<tb> HYPOTHETICS
<tb> General
<tb> SEQ <SEP> IDs: <SEP> 17 <SEP> 18 <SEP> 50 <SEP> 57 <SEP> 58 <SEP> 60 <SEP> 78 <SEP> 79 <SEP> 80 <SEP> 84
<tb> SEQ <SEP> IDs: <SEP> 87 <SEP> 88 <SEP> 92 <SEP> 113 <SEP> 114 <SEP> 116 <SEP> 124 <SEP> 125 <SEP> 133 <SEP> 134
<tb> SEQ <SEP> IDs: <SEP> 139 <SEP> 140 <SEP> 148 <SEP> 149 <SEP> 150 <SEP> 157 <SEP> 159 <SEP> 161 <SEP> 162 <SEP> 170
<tb> SEQ <SEP> IDs: <SEP> 172 <SEP> 175 <SEP> 176 <SEP> 179 <SEP> 183 <SEP> 184 <SEP> 185 <SEP> 188 <SEP> 189 <SEP> 196
<tb> SEQ <SEP> IDs: <SEP> 197 <SEP> 214 <SEP> 230 <SEP> 231 <SEP> 232 <SEP> 233 <SEP> 234 <SEP> 235 <SEP> 236 <SEP> 238
<tb> SEQ <SEP> IDs: <SEP> 247 <SEP> 255 <SEP> 258 <SEP> 264 <SEP> 266 <SEP> 267 <SEP> 268 <SEP> 274 <SEP> 277 <SEP> 279
<tb> SEQ <SEP> IDs: <SEP> 283 <SEP> 288 <SEP> 289 <SEP> 293 <SEP> 294 <SEP> 298 <SEP> 299 <SEP> 300 <SEP> 315 <SEP> 317
<tb> SEQ <SEP> IDs: <SEP> 321 <SEP> 323 <SEP> 325 <SEP> 332 <SEP> 343 <SEP> 344 <SEP> 366 <SEP> 367 <SEP> 369 <SEP> 370
<tb> SEQ <SEP> IDs: <SEP> 371 <SEP> 372 <SEP> 373 <SEP> 376 <SEP> 377 <SEP> 384 <SEP> 387 <SEP> 388 <SEP> 399 <SEP> 404
<tb> SEQ <SEP> IDs: <SEP> 409 <SEP> 410 <SEP> 411 <SEP> 420 <SEP> 433 <SEP> 436 <SEP> 438 <SEP> 443 <SEP> 444 <SEP> 498
<tb> SEQ <SEP> IDs: <SEP> 499 <SEP> 503 <SEP> 510 <SEP> 512 <SEP> 546 <SEP> 549 <SEP> 553 <SEP> 555 <SEP> 556 <SEP> 557
<tb> SEQ <SEP> IDs: <SEP> 558 <SEP> 569 <SEP> 582 <SEP> 583 <SEP> 588 <SEP> 589 <SEP> 592 <SEP> 594 <SEP> 597 <SEP> 599
<tb> SEQ <SEP> IDs: <SEP> 611 <SEP> 625 <SEP> 637 <SEP> 655 <SEP> 671 <SEP> 678 <SEP> 688 <SEP> 700 <SEP> 701 <SEP> 703
<tb> SEQ <SEP> IDs: <SEP> 704 <SEP> 708 <SEP> 725 <SEP> 727 <SEP> 730 <SEP> 735 <SEP> 741 <SEP> 749 <SEP> 756 <SEP> 759
<tb> SEQ <SEP> IDs: <SEP> 762 <SEP> 763 <SEP> 764 <SEP> 765 <SEP> 769 <SEP> 774 <SEP> 780 <SEP> 798 <SEP> 799 <SEP> 800
<tb> SEQ <SEP> IDs: <SEP> 803 <SEP> 809 <SEP> 810 <SEP> 811 <SEP> 819 <SEP> 827 <SEP> 830 <SEP> 840 <SEP> 850 <SEP> 861
<tb> SEQ <SEP> IDs: <SEP> 865 <SEP> 880 <SEP> 882 <SEP> 883 <SEP> 884 <SEP> 891 <SEP> 899 <SEP> 900 <SEP> 913 <SEP> 920
<tb> SEQ <SEP> IDs: <SEP> 924 <SEP> 951 <SEP> 963 <SEP> 964 <SEP> 965 <SEP> 986 <SEP> 987 <SEP> 999 <SEP> 1001 <SEP> 1004
<tb>

<Desc / Clms Page number 138>

<tb>
<tb> SEQ <SEP> IDs: <SEP> 1016 <SEP> 1019 <SEP> 1023 <SEP> 1078 <SEP> 1079 <SEP> 1090 <SEP> 1091 <SEP> 1094 <SEP> 1098 <SEP> 1100
<tb> SEQ <SEP> IDs: <SEP> 1103 <SEP> 1104 <SEP> 1106 <SEP> 1109 <SEP> 1110 <SEP> 1115 <SEP> 1116 <SEP> 1117 <SEP> 1119 <SEP> 1124
<tb> SEQ <SEP> IDs: <SEP> 1131 <SEP> 1137 <SEP> 1141 <SEP> 1147 <SEP> 1148 <SEP> 1155 <SEP> 1156 <SEP> 1160 <SEP> 1161 <SEP> 1168
<tb> SEQ <SEP> IDs: <SEP> 1175 <SEP> 1187 <SEP> 1188 <SEP> 1201 <SEP> 1202 <SEP> 1204 <SEP> 1208 <SEP> 1209 <SEP> 1223 <SEP> 1242
<tb> SEQ <SEP> IDs: <SEP> 1276 <SEP> 1277 <SEP> 1278 <SEP> 1280 <SEP> 1303 <SEP> 1313 <SEP> 1315 <SEP> 1316 <SEP> 1318 <SEP> 1319
<tb> SEQ <SEP> IDs: <SEP> 1322 <SEP> 1340 <SEP> 1352 <SEP> 1358 <SEP> 1359 <SEP> 1363 <SEP> 1382 <SEP> 1391 <SEP> 1392 <SEP> 1393
<tb> SEQ <SEP> IDs: <SEP> 1408 <SEP> 1409 <SEP> 1411 <SEP> 1412 <SEP> 1476 <SEP> 1486 <SEP> 1489 <SEP> 1491 <SEP> 1492 <SEP> 1493
<tb> SEQ <SEP> IDs: <SEP> 1501 <SEP> 1518 <SEP> 1519 <SEP> 1520 <SEP> 1522 <SEP> 1523 <SEP> 1525 <SEP> 1529 <SEP> 1544 <SEP> 1547
<tb> SEQ <SEP> IDs: <SEP> 1565 <SEP> 1577 <SEP> 1579 <SEP> 1581 <SEP> 1592 <SEP> 1595 <SEP> 1597 <SEP> 1605 <SEP> 1614 <SEP> 1619
<tb> SEQ <SEP> IDs: <SEP> 1620 <SEP> 1622 <SEP> 1648 <SEP> 1658 <SEP> 1661 <SEP> 1662 <SEP> 1666 <SEP> 1669 <SEP> 1677 <SEP> 1694
<tb> SEQ <SEP> IDs: <SEP> 1699 <SEP> 1701 <SEP> 1702 <SEP> 1709 <SEP> 1710 <SEP> 1711 <SEP> 1712 <SEP> 1718 <SEP> 1719 <SEP> 1722
<tb> SEQ <SEP> IDs: <SEP> 1748 <SEP> 1760 <SEP> 1761 <SEP> 1762 <SEP> 1764 <SEP> 1765 <SEP> 1773 <SEP> 1774 <SEP> 1777 <SEP> 1780
<tb> SEQ <SEP> IDs: <SEP> 1781 <SEP> 1782 <SEP> 1786 <SEP> 1788 <SEP> 1789 <SEP> 1802 <SEP> 1805 <SEP> 1809 <SEP> 1827 <SEP> 1828
<tb> SEQ <SEP> IDs: <SEP> 1829 <SEP> 1832 <SEP> 1833 <SEP> 1838 <SEP> 1839 <SEP> 1840 <SEP> 1842 <SEP> 1843 <SEP> 1849 <SEP> 1855
<tb> SEQ <SEP> IDs: <SEP> 1856 <SEP> 1863 <SEP> 1865 <SEP> 1866 <SEP> 1867 <SEP> 1868 <SEP> 1872 <SEP> 1874 <SEP> 1875 <SEP> 1876
<tb> SEQ <SEP> IDs: <SEP> 1885 <SEP> 1886 <SEP> 1887 <SEP> 1900 <SEP> 1901 <SEP> 1903 <SEP> 1907 <SEP> 1915 <SEP> 1916 <SEP> 1917
<tb> SEQ <SEP> IDs: <SEP> 1918 <SEP> 1919 <SEP> 1924 <SEP> 1930 <SEP> 1933 <SEP> 1938 <SEP> 1939 <SEP> 1940 <SEP> 1941 <SEP> 1946
<tb> SEQ <SEP> IDs: <SEP> 1951 <SEP> 1952 <SEP> 1954 <SEP> 1958 <SEP> 1959 <SEP> 1963 <SEP> 1966 <SEP> 1967 <SEP> 1968 <SEP> 1976
<tb> SEQ <SEP> IDs: <SEP> 1977 <SEP> 1978 <SEP> 1981 <SEP> 1982 <SEP> 2004 <SEP> 2006 <SEP> 2008 <SEP> 2011 <SEP> 2014 <SEP> 2015
<tb> SEQ <SEP> IDs: <SEP> 2016 <SEP> 2017 <SEP> 2018 <SEP> 2019 <SEP> 2026 <SEP> 2029 <SEP> 2033 <SEP> 2044 <SEP> 2049 <SEP> 2050
<tb> SEQ <SEP> IDs: <SEP> 2054 <SEP> 2061 <SEP> 2063 <SEP> 2070 <SEP> 2080 <SEP> 2081 <SEP> 2101 <SEP> 2102 <SEP> 2106 <SEP> 2108
<tb> SEQ <SEP> IDs: <SEP> 2110 <SEP> 2115 <SEP> 2158 <SEP> 2163 <SEP> 2165 <SEP> 2168 <SEP> 2173 <SEP> 2174 <SEP> 2175 <SEP> 2184
<tb> SEQ <SEP> IDs: <SEP> 2186 <SEP> 2190 <SEP> 2193 <SEP> 2194 <SEP> 2197 <SEP> 2210 <SEP> 2217 <SEP> 2219 <SEP> 2226 <SEP> 2227
<tb> SEQ <SEP> IDs: <SEP> 2232 <SEP> 2235 <SEP> 2238 <SEP> 2245 <SEP> 2253 <SEP> 2254 <SEP> 2259 <SEP> 2272 <SEP> 2275 <SEP> 2278
<tb> SEQ <SEP> IDs: <SEP> 2282 <SEP> 2284 <SEP> 2286 <SEP> 2289 <SEP> 2294 <SEP> 2295 <SEP> 2298 <SEP> 2302 <SEP> 2304 <SEP> 2308
<tb> SEQ <SEP> IDs: <SEP> 2312 <SEP> 2322 <SEP> 2323
<tb> Preserved
<tb> SEQ <SEP> IDs: <SEP> 16 <SEP> 66 <SEP> 67 <SEP> 73 <SEP> 77 <SEP> 108 <SEP> 109 <SEP> 111 <SEP> 112 <SEP> 252
<tb> SEQ <SEP> IDs: <SEP> 391 <SEP> 432 <SEP> 505 <SEP> 509 <SEP> 511 <SEP> 559 <SEP> 581 <SEP> 593 <SEP> 598 <SEP> 604
<tb> SEQ <SEP> IDs: <SEP> 612 <SEP> 640 <SEP> 642 <SEP> 647 <SEP> 702 <SEP> 733 <SEP> 734 <SEP> 736 <SEP> 739 <SEP> 750
<tb> SEQ <SEP> IDs: <SEP> 752 <SEP> 758 <SEP> 776 <SEP> 777 <SEP> 778 <SEP> 802 <SEP> 820 <SEP> 826 <SEP> 874 <SEP> 876
<tb> SEQ <SEP> IDs: <SEP> 897 <SEP> 901 <SEP> 910 <SEP> 922 <SEP> 952 <SEP> 954 <SEP> 961 <SEP> 979 <SEP> 980 <SEP> 981
<tb> SEQ <SEP> IDs: <SEP> 996 <SEP> 1017 <SEP> 1093 <SEP> 1111 <SEP> 1118 <SEP> 1135 <SEP> 1196 <SEP> 1199 <SEP> 1250 <SEP> 1273
<tb> SEQ <SEP> IDs: <SEP> 1320 <SEP> 1328 <SEP> 1377 <SEP> 1413 <SEP> 1562 <SEP> 1610 <SEP> 1705 <SEP> 1783 <SEP> 1804 <SEP> 1884
<tb> SEQ <SEP> IDs: <SEP> 1897 <SEP> 1909 <SEP> 1922 <SEP> 2117 <SEP> 2199 <SEP> 2293
<tb> UNKNOWN
<tb> General
<tb> SEQ <SEP> IDs: <SEP> 9 <SEP> 10 <SEP> 12 <SEP> 15 <SEP> 19 <SEP> 51 <SEP> 71 <SEP> 83 <SEP> 85 <SEP> 86
<tb> SEQ <SEP> IDs: <SEP> 89 <SEP> 95 <SEP> 96 <SEP> 103 <SEP> 105 <SEP> 106 <SEP> 123 <SEP> 138 <SEP> 147 <SEP> 152
<tb> SEQ <SEP> IDs: <SEP> 156 <SEP> 163 <SEP> 164 <SEP> 165 <SEP> 177 <SEP> 178 <SEP> 190 <SEP> 191 <SEP> 192 <SEP> 199
<tb> SEQ <SEP> IDs: <SEP> 201 <SEP> 203 <SEP> 210 <SEP> 211 <SEP> 216 <SEP> 225 <SEP> 228 <SEP> 237 <SEP> 239 <SEP> 241
<tb> SEQ <SEP> IDs: <SEP> 248 <SEP> 249 <SEP> 250 <SEP> 251 <SEP> 272 <SEP> 275 <SEP> 278 <SEP> 296 <SEP> 297 <SEP> 304
<tb> SEQ <SEP> IDs: <SEP> 305 <SEP> 306 <SEP> 307 <SEP> 322 <SEP> 368 <SEP> 393 <SEP> 397 <SEP> 412 <SEP> 427 <SEP> 441
<tb> SEQ <SEP> IDs: <SEP> 442 <SEP> 495 <SEP> 504 <SEP> 530 <SEP> 535 <SEP> 536 <SEP> 537 <SEP> 538 <SEP> 539 <SEP> 547
<tb> SEQ <SEP> IDs: <SEP> 561 <SEP> 567 <SEP> 578 <SEP> 590 <SEP> 595 <SEP> 596 <SEP> 601 <SEP> 602 <SEP> 606 <SEP> 608
<tb> SEQ <SEP> IDs: <SEP> 623 <SEP> 626 <SEP> 627 <SEP> 628 <SEP> 629 <SEP> 632 <SEP> 633 <SEP> 639 <SEP> 641 <SEP> 658
<tb> SEQ <SEP> IDs: <SEP> 659 <SEP> 660 <SEP> 661 <SEP> 666 <SEP> 667 <SEP> 668 <SEP> 669 <SEP> 687 <SEP> 689 <SEP> 690
<tb> SEQ <SEP> IDs: <SEP> 692 <SEP> 696 <SEP> 724 <SEP> 731 <SEP> 753 <SEP> 772 <SEP> 773 <SEP> 775 <SEP> 808 <SEP> 821
<tb> SEQ <SEP> IDs: <SEP> 822 <SEP> 823 <SEP> 825 <SEP> 836 <SEP> 851 <SEP> 866 <SEP> 867 <SEP> 868 <SEP> 870 <SEP> 879
<tb> SEQ <SEP> IDs: <SEP> 887 <SEP> 893 <SEP> 895 <SEP> 903 <SEP> 904 <SEP> 907 <SEP> 921 <SEP> 925 <SEP> 928 <SEP> 931
<tb> SEQ <SEP> IDs: <SEP> 935 <SEP> 938 <SEP> 941 <SEP> 943 <SEP> 948 <SEP> 962 <SEP> 966 <SEP> 969 <SEP> 985 <SEP> 988
<tb> SEQ <SEP> IDs: <SEP> 998 <SEP> 1003 <SEP> 1005 <SEP> 1006 <SEP> 1007 <SEP> 1008 <SEP> 1009 <SEP> 1010 <SEP> 1018 <SEP> 1021
<tb> SEQ <SEP> IDs: <SEP> 1081 <SEP> 1082 <SEP> 1083 <SEP> 1085 <SEP> 1092 <SEP> 1095 <SEP> 1096 <SEP> 1101 <SEP> 1132 <SEP> 1133
<tb> SEQ <SEP> IDs: <SEP> 1134 <SEP> 1136 <SEP> 1143 <SEP> 1154 <SEP> 1158 <SEP> 1163 <SEP> 1167 <SEP> 1180 <SEP> 1189 <SEP> 1190
<tb> SEQ <SEP> IDs: <SEP> 1191 <SEP> 1192 <SEP> 1198 <SEP> 1206 <SEP> 1210 <SEP> 1218 <SEP> 1219 <SEP> 1220 <SEP> 1221 <SEP> 1222
<tb> SEQ <SEP> IDs: <SEP> 1226 <SEP> 1227 <SEP> 1228 <SEP> 1229 <SEP> 1230 <SEP> 1234 <SEP> 1235 <SEP> 1253 <SEP> 1264 <SEP> 1269
<tb> SEQ <SEP> IDs: <SEP> 1271 <SEP> 1272 <SEP> 1279 <SEP> 1285 <SEP> 1288 <SEP> 1305 <SEP> 1306 <SEP> 1309 <SEP> 1317 <SEP> 1334
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<Desc / Clms Page number 139>

<tb>
<tb> SEQ <SEP> IDs: <SEP> 1335 <SEP> 1337 <SEP> 1338 <SEP> 1339 <SEP> 1346 <SEP> 1347 <SEP> 1350 <SEP> 1351 <SEP> 1364 <SEP> 1365
<tb> SEQ <SEP> IDs: <SEP> 1375 <SEP> 1378 <SEP> 1381 <SEP> 1385 <SEP> 1390 <SEP> 1394 <SEP> 1395 <SEP> 1396 <SEP> 1397 <SEP> 1398
<tb> SEQ <SEP> IDs: <SEP> 1399 <SEP> 1401 <SEP> 1402 <SEP> 1403 <SEP> 1410 <SEP> 1415 <SEP> 1479 <SEP> 1484 <SEP> 1488 <SEP> 1495
<tb> SEQ <SEP> IDs: <SEP> 1502 <SEP> 1503 <SEP> 1509 <SEP> 1510 <SEP> 1516 <SEP> 1535 <SEP> 1536 <SEP> 1571 <SEP> 1580 <SEP> 1582
<tb> SEQ <SEP> IDs: <SEP> 1587 <SEP> 1588 <SEP> 1589 <SEP> 1590 <SEP> 1593 <SEP> 1594 <SEP> 1598 <SEP> 1608 <SEP> 1611 <SEP> 1616
<tb> SEQ <SEP> IDs: <SEP> 1625 <SEP> 1626 <SEP> 1627 <SEP> 1628 <SEP> 1629 <SEP> 1630 <SEP> 1631 <SEP> 1632 <SEP> 1633 <SEP> 1634
<tb> SEQ <SEP> IDs: <SEP> 1643 <SEP> 1645 <SEP> 1646 <SEP> 1653 <SEP> 1659 <SEP> 1660 <SEP> 1665 <SEP> 1672 <SEP> 1691 <SEP> 1698
<tb> SEQ <SEP> IDs: <SEP> 1700 <SEP> 1703 <SEP> 1706 <SEP> 1713 <SEP> 1714 <SEP> 1715 <SEP> 1716 <SEP> 1736 <SEP> 1737 <SEP> 1738
<tb> SEQ <SEP> IDs: <SEP> 1739 <SEP> 1740 <SEP> 1743 <SEP> 1744 <SEP> 1755 <SEP> 1799 <SEP> 1806 <SEP> 1812 <SEP> 1813 <SEP> 1821
<tb> SEQ <SEP> IDs: <SEP> 1835 <SEP> 1836 <SEP> 1841 <SEP> 1862 <SEP> 1870 <SEP> 1877 <SEP> 1878 <SEP> 1880 <SEP> 1882 <SEP> 1896
<tb> SEQ <SEP> IDs: <SEP> 1899 <SEP> 1905 <SEP> 1911 <SEP> 1913 <SEP> 1932 <SEP> 1942 <SEP> 1943 <SEP> 1945 <SEP> 1947 <SEP> 1949
<tb> SEQ <SEP> IDs: <SEP> 1957 <SEP> 1965 <SEP> 1974 <SEP> 1975 <SEP> 1980 <SEP> 1987 <SEP> 1988 <SEP> 1989 <SEP> 1990 <SEP> 1991
<tb> SEQ <SEP> IDs: <SEP> 1993 <SEP> 1994 <SEP> 1995 <SEP> 1996 <SEP> 1997 <SEP> 1999 <SEP> 2000 <SEP> 2002 <SEP> 2009 <SEP> 2010
<tb> SEQ <SEP> IDs: <SEP> 2012 <SEP> 2013 <SEP> 2021 <SEP> 2023 <SEP> 2024 <SEP> 2046 <SEP> 2048 <SEP> 2053 <SEP> 2055 <SEP> 2064
<tb> SEQ <SEP> IDs: <SEP> 2067 <SEP> 2072 <SEP> 2073 <SEP> 2075 <SEP> 2076 <SEP> 2077 <SEP> 2078 <SEP> 2086 <SEP> 2097 <SEP> 2099
<tb> SEQ <SEP> IDs: <SEP> 2103 <SEP> 2111 <SEP> 2112 <SEP> 2113 <SEP> 2114 <SEP> 2116 <SEP> 2119 <SEP> 2121 <SEP> 2122 <SEP> 2141
<tb> SEQ <SEP> IDs: <SEP> 2166 <SEP> 2181 <SEP> 2187 <SEP> 2188 <SEP> 2189 <SEP> 2195 <SEP> 2196 <SEP> 2212 <SEP> 2213 <SEP> 2214
<tb> SEQ <SEP> IDs: <SEP> 2215 <SEP> 2223 <SEP> 2225 <SEP> 2228 <SEP> 2230 <SEP> 2231 <SEP> 2233 <SEP> 2234 <SEP> 2236 <SEP> 2237
<tb> SEQ <SEP> IDs: <SEP> 2244 <SEP> 2252 <SEP> 2255 <SEP> 2256 <SEP> 2266 <SEP> 2268 <SEP> 2269 <SEP> 2271 <SEP> 2273 <SEP> 2274
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<Desc / Clms Page number 140>

<tb>
<tb> TABLE <SEP> III. <SEP> Homologies <SEP> of <SEP> proteins <SEP> of <SEP> L.lactis <SEP> IL1403 <SEP> with <SEP> of <SEP> known <SEP> proteins
<tb> SEQID <SEP> Name <SEP> Identity <SEP> Number <SEP> Best <SEP> peer
accession <tb>
<tb> 2 <SEP> dnaA <SEP> 95% <SEP> 054375 <SEP>dnaa;<SEP> Lactococcus <SEP> lactis
<tb> 3 <SEP> dnaN <SEP> 97% <SEP> 054376 <SEP> dna <SEP> polymerase <SEP> iii, <SEP> beta <SEP>chain;<SEP> Lactococcus
<tb> lactis
<tb> 4 <SEP> rexB <SEP> 87% <SEP> 054377 <SEP> exonuclease <SEP>rexb;<SEP> Lactococcus <SEP> lactis
<tb> 5 <SEP> rexA <SEP> 88% <SEP> 054378 <SEP> exonuclease <SEP> rexa <SEP>;<SEP> lactis
<tb> 6 <SEP> yabA <SEP> 68% <SEP> 054379 <SEP> hypothetical <SEP> 21. <SEP> 4 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 7 <SEP> yyaL <SEP> 99% <SEP> 054380 <SEP> putative <SEP> gtp <SEP> binding <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 8 <SEP> yabB <SEP> 39% <SEP> Q46240 <SEP> nanh <SEP> gene <SEP>&<SEP> orfl, 2,3 <SEP>&<SEP>4;<SEP> Clostridium
<tb> perfringens
<tb> 9 <SEP> yabC <SEP> putative
<tb> 10 <SEP> yabD <SEP> putative
<tb> 11 <SEP> yabE <SEP> 36% <SEP> Q9ZHB1 <SEP> hypothetical <SEP> 24. <SEP> 0 <SEP> kd <SEP>protein;<SEP> Streptococcus
<tb> pneumoniae
<tb> 12 <SEP> yabF <SEP> 31% <SEP> Q47838 <SEP> copa, <SEP> copy <SEP> and <SEP> copz <SEP>genes;<SEP> Enterococcus <SEP> hirae
<tb> 13 <SEP> pth <SEP> 52% <SEP> 085235 <SEP> hypothetical <SEP> 19. <SEP> 6 <SEP> kd <SEP>protein;<SEP> Lactobacillus
<tb> sake
<tb> 14 <SEP> mfd <SEP> 47% <SEP> P37474 <SEP> transcription-repair <SEP> coupling <SEP>factor;<SEP> Bacillus
<tb> subtilis
<tb> 15 <SEP> yacI <SEP> putative
<tb> 16 <SEP> yacB <SEP> 62% <SEP> P37557 <SEP> hypothetical <SEP> 9.7 <SEP> kd <SEP> protein <SEP> in <SEP> mfd-divic
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 17 <SEP> yacC <SEP> 30% <SEP> P37471 <SEP> cell <SEP> division <SEP> protein <SEP> divic <SEP>;<SEP> subtilis
<tb> 18 <SEP> yacD <SEP> putative
<tb> 19 <SEP> yacG <SEP> 21% <SEP> 087489 <SEP> beta-lactamase <SEP> cef-1 <SEP>precursor;<SEP> Pseudomonas
<tb> aeruginosa, <SEP> and <SEP> escherichia <SEP> coli
<tb> 20 <SEP> mesJ <SEP> 99% <SEP> Q48646 <SEP> partial <SEP>orf;<SEP> Lactococcus <SEP> lactis
<tb> 21 <SEP> hpt <SEP> 87% <SEP> Q02522 <SEP> hypoxanthine-guanine <SEP>phosphoribosyltransferase;
<tb> Lactococcus <SEP> lactis
<tb> 22 <SEP> ftsH <SEP> 92% <SEP> P46469 <SEP> cell <SEP> division <SEP> protein <SEP> ftsh <SEP> homolog <SEP>;
<tb> lactis
<tb> 23 <SEP> mtlA <SEP> 49% <SEP> P50852 <SEP> pts <SEP> system, <SEP> mannitol-specific <SEP> iibc <SEP> component <SEP> (ec
<tb> 2. <SEP> 7.1.6. <SEP> Bacillus <SEP> stearothermophilus
<tb> 24 <SEP> mtlR <SEP> 36% <SEP> Q02425 <SEP> hypothetical <SEP> protein <SEP> in <SEP> mtlf <SEP>5'region;
<tb> Streptococcus <SEP> mutans
<tb> 25 <SEP> mtlF <SEP> 71% <SEP> Q02420 <SEP> pts <SEP> system, <SEP> mannitol-specific <SEP> iia <SEP> component
<tb> (eiii-mt. <SEP> Streptococcus <SEP> mutans
<tb> 26 <SEP> mtlD <SEP> 61% <SEP> Q02418 <SEP> mannitol-1-phosphate <SEP>5-dehydrogenase;
<tb> Streptococcus <SEP> mutans
<tb> 27 <SEP> ps101 <SEP> putative
<tb> 28 <SEP> psl02 <SEP> 49% <SEP> 053060 <SEP> hypothetical <SEP> 16. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 29 <SEP> psl03 <SEP> 45% <SEP> 003926 <SEP> lactobacillus <SEP> bacteriophage <SEP> phigle <SEP> complete
<tb> genomic <SEP>dna;<SEP> Bacteriophage <SEP> phigle
<tb> 30 <SEP> psl04 <SEP> putative
<tb> 31 <SEP> ps105 <SEP> 45% <SEP> Q9XJC9 <SEP> putative <SEP>primase;<SEP> Streptococcus <SEP> thermophilus
<tb> bacteriophage <SEP> dtl
<tb> 32 <SEP> psl06 <SEP> 25% <SEP> Q38605 <SEP>orfl;<SEP> Streptococcus <SEP> thermophilus <SEP> bacteriophage
<tb> sfil8, <SEP> and <SEP> streptococcus <SEP> thermophilus
<tb> bacteriophage <SEP> sfil9
<tb> 33 <SEP> ps107 <SEP> putative
<tb> 34 <SEP> ps108 <SEP> putative
<tb> 35 <SEP> ps109 <SEP> putative
<tb> 36 <SEP> ps110 <SEP> putative
<tb> 37 <SEP> pslll <SEP> putative
<tb> 38 <SEP> psll2 <SEP> 25% <SEP> P33537 <SEP> probable <SEP> dna <SEP>polymerase;<SEP> Neurospora <SEP> crassa
<tb>

<Desc / Clms Page number 141>

<tb>
<tb> 39 <SEP> psll3 <SEP> putative
<tb> 40 <SEP> psll4 <SEP> 27% <SEP> 034449 <SEP> yoqd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 41 <SEP> psll5 <SEP> 31% <SEP> AAF12710 <SEP> repressor <SEP>protein;<SEP> Bacteriophage <SEP> tpw22
<tb> 42 <SEP> psll6 <SEP> 37% <SEP> AAF12709 <SEP> hypothetical <SEP> 21. <SEP> 8 <SEP> kd <SEP>protein;<SEP> Bacteriophage
<tb> tpw22
<tb> 43 <SEP> psll7 <SEP> putative
<tb> 44 <SEP> psll8 <SEP> putative
<tb> 45 <SEP> psll9 <SEP> putative
<tb> 46 <SEP> psl20 <SEP> putative
<tb> 47 <SEP> psl21 <SEP> putative
<tb> 48 <SEP> psl22 <SEP> 33% <SEP> Q00561 <SEP> lactococcin <SEP> a <SEP> immunity <SEP> protein <SEP>;
<tb> lactis <SEP>, <SEP> and <SEP> lactococcus <SEP> lactis
<tb> 49 <SEP> psl23 <SEP> 27% <SEP> Q38159 <SEP>integrase;<SEP> Bacteriophage <SEP> t2
<tb> 50 <SEP> yafE <SEP> 34% <SEP> BAA77903 <SEP> hypothetical <SEP> 15. <SEP> 5 <SEP> kd <SEP> protein <SEP> in <SEP> dinp-rrfh
<tb> intergenic <SEP>region;<SEP>;<SEP> Escherichia <SEP> coli
<tb> 51 <SEP> yafF <SEP> putative
<tb> 52 <SEP> yafB <SEP> 25% <SEP> P40877 <SEP> hypothetical <SEP> 58. <SEP> 4 <SEP> kd <SEP> protein <SEP> in <SEP> pth-prsa
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 53 <SEP> yafG <SEP> 100% <SEP> 032786 <SEP> hypothetical <SEP> 21. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 54 <SEP> tra1077A <SEP> 96% <SEP> 032787 <SEP>transposase;<SEP> Lactococcus <SEP> lactis
<tb> 55 <SEP> tra904A <SEP> 99% <SEP> CAA55220 <SEP> isl069 <SEP>gene;<SEP> Lactococcus <SEP> lactis
<tb> 56 <SEP> yafI <SEP> 100% <SEP> Q48713 <SEP> dna <SEP> for <SEP> the <SEP> transposon-like <SEP> element <SEP> on <SEP> the
<tb> lactose <SEP>plasmid;<SEP> Lactococcus <SEP> lactis
<tb> 57 <SEP> yafJ <SEP> putative
<tb> 58 <SEP> yafC <SEP> 34% <SEP> CAB62759 <SEP> putative <SEP> acetyltransferase <SEP>;
<tb> coelicolor
<tb> 59 <SEP> araT <SEP> 97% <SEP> AAF06954 <SEP> aromatic <SEP> amino <SEP> acid <SEP>aminotransferase;
<tb> Lactococcus <SEP> lactis
<tb> 60 <SEP> yafD <SEP> 29% <SEP> P42095 <SEP> hypothetical <SEP> 29. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> bex-dnag / dnae
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 61 <SEP> pdhD <SEP> 50% <SEP> P11959 <SEP> dihydrolipoamide <SEP> dehydrogenase <SEP>;
<tb> stearothermophilus
<tb> 62 <SEP> pdhC <SEP> 39% <SEP> P11961 <SEP> dihydrolipoamide <SEP> acetyltransferase <SEP> component <SEP> of
<tb> pyruvate <SEP> dehydrogenase <SEP> complex <SEP>;
<tb> stearothermophilus
<tb> 63 <SEP> pdhB <SEP> 58% <SEP> P21874 <SEP> pyruvate <SEP> dehydrogenase <SEP> el <SEP> component, <SEP> beta
<tb> subunit <SEP>;<SEP> Bacillus <SEP> stearothermophilus
<tb> 64 <SEP> pdhA <SEP> 51% <SEP> P21881 <SEP> pyruvate <SEP> dehydrogenase <SEP> el <SEP> component, <SEP> alpha
<tb>subunit;<SEP> Bacillus <SEP> subtilis
<tb> 65 <SEP> lplL <SEP> 38% <SEP> 007608 <SEP> hypothetical <SEP> 38. <SEP> 0 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 66 <SEP> yagA <SEP> 34% <SEP> 007592 <SEP> hypothetical <SEP> 27. <SEP> 5 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 67 <SEP> yagB <SEP> 32% <SEP> P54168 <SEP> hypothetical <SEP> 23. <SEP> 1 <SEP> kd <SEP> protein <SEP> in <SEP> bsaa-ilvd
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 68 <SEP> trpS <SEP> 66% <SEP> Q46127 <SEP> tryptophanyl-trna <SEP> synthetase <SEP>;
<tb> longisporum
<tb> 69 <SEP> osmC <SEP> 49% <SEP> P23929 <SEP> osmotically <SEP> inducible <SEP> protein <SEP> c <SEP>;
<tb> Escherichiacoli
<tb> 70 <SEP> yagE <SEP> 24% <SEP> 026646 <SEP> cationic <SEP> amino <SEP> acid <SEP> transporter <SEP> related <SEP>protein;
<tb> Methanobacterium <SEP> thermoautotrophicum
<tb> 71 <SEP> yahC <SEP> putative
<tb> 72 <SEP> plsX <SEP> 42% <SEP> P71018 <SEP> fatty <SEP> acid / phospholipid <SEP> synthesis <SEP> protein <SEP> plsx
<tb>homolog;<SEP> Bacillus <SEP> subtilis
<tb> 73 <SEP> yahA <SEP> 30% <SEP> P75792 <SEP> hypothetical <SEP> protein <SEP>1;<SEP> Escherichia <SEP> coli
<tb> 74 <SEP> yahG <SEP> 61% <SEP> 031716 <SEP> ykpa <SEP> protein <SEP>;<SEP> subtilis
<tb> 75 <SEP> cysD <SEP> 55% <SEP> Q9WZY4 <SEP> o-acetylhomoserine <SEP>sulfhydrylase;<SEP> Thermotoga
<tb> maritima
<tb> 76 <SEP> yahI <SEP> 33% <SEP> Q9ZKW1 <SEP> putative <SEP>;<SEP> Helicobacterpylori <SEP> j99
<tb> 77 <SEP> yahB <SEP> 32% <SEP> 026984 <SEP> conserved <SEP>protein;<SEP> Methanobacterium
<tb> thermoautotrophicum
<tb> 78 <SEP> yahD <SEP> 32% <SEP> 034842 <SEP> yolf <SEP>;<SEP> Bacillus <SEP> subtilis
<tb>

<Desc / Clms Page number 142>

<tb>
<tb> 79 <SEP> yaiA <SEP> 32% <SEP> 034689 <SEP> ykca <SEP> protein <SEP>;<SEP> subtilis
<tb> 80 <SEP> yaiB <SEP> 43% <SEP> 005220 <SEP> hypothetical <SEP> protein <SEP> ywrf <SEP>;<SEP> subtilis
<tb> 81 <SEP> lcnC <SEP> 89% <SEP> Q00564 <SEP> lactococcin <SEP> a <SEP> transport <SEP> atp-binding <SEP> protein
<tb>lcnc;<SEP> Lactococcus <SEP> lactis
<tb> 82 <SEP> lcnD <SEP> 93% <SEP> Q00565 <SEP> lactococcin <SEP> a <SEP> secretion <SEP> protein <SEP>lcnd;
<tb> Lactococcus <SEP> lactis <SEP>, <SEP> and <SEP> lactococcus <SEP> lactis
<tb> 83 <SEP> yaiE <SEP> putative
<tb> 84 <SEP> yaiF <SEP> 37% <SEP> Q48724 <SEP> abortive <SEP> infection <SEP> proteins <SEP> genes, <SEP> complete <SEP>cds;
<tb> Lactococcus <SEP> lactis
<tb> 85 <SEP> yaiI <SEP> putative
<tb> 86 <SEP> yaiJ <SEP> putative
<tb> 87 <SEP> yaiG <SEP> 92% <SEP> Q00565 <SEP> lactococcin <SEP> a <SEP> secretion <SEP> protein <SEP>lcnd;
<tb> Lactococcus <SEP> lactis <SEP>, <SEP> and <SEP> lactococcus <SEP> lactis
<tb> 88 <SEP> yaiH <SEP> 76% <SEP> Q48724 <SEP> abortive <SEP> infection <SEP> proteins <SEP> genes, <SEP> complete <SEP>cds;
<tb> Lactococcus <SEP> lactis
<tb> 89 <SEP> yajA <SEP> putative
<tb> 90 <SEP> tra981A <SEP> 92% <SEP> Q48668 <SEP> insertion <SEP> sequence <SEP> is981 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 91 <SEP> yajE <SEP> 100% <SEP> Q48667 <SEP> insertion <SEP> sequence <SEP>is981;<SEP> Lactococcus <SEP> lactis
<tb> 92 <SEP> yajF <SEP> 28% <SEP> Q48724 <SEP> abortive <SEP> infection <SEP> proteins <SEP> genes, <SEP> complete <SEP>cds;
<tb> Lactococcus <SEP> lactis
<tb> 93 <SEP> tra981B <SEP> 92% <SEP> Q48668 <SEP> insertion <SEP> sequence <SEP>is981;<SEP> Lactococcus <SEP> lactis
<tb> 94 <SEP> yajG <SEP> 97% <SEP> Q48667 <SEP> insertion <SEP> sequence <SEP>is981;<SEP> Lactococcus <SEP> lactis
<tb> 95 <SEP> yajB <SEP> putative
<tb> 96 <SEP> yajH <SEP> putative
<tb> 97 <SEP> rpmGB <SEP> 100% <SEP> 034102 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP>133;<SEP> Lactococcus <SEP> lactis
<tb> 98 <SEP> rpmF <SEP> 100% <SEP> 034101 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP>132;<SEP> Lactococcus <SEP> lactis
<tb> 99 <SEP> cadA <SEP> 36% <SEP> CAB53131 <SEP> putative <SEP> cation-transporting <SEP>atpase;
<tb> Streptomyces <SEP> coelicolor
<tb> 100 <SEP> parA <SEP> 50% <SEP> 006671 <SEP>spspoj;<SEP> Streptococcus <SEP> pneumoniae
<tb> 101 <SEP> cshA <SEP> 59% <SEP> 034528 <SEP> yrvn <SEP> protein <SEP>;<SEP> subtilis
<tb> 102 <SEP> ybaH <SEP> 44% <SEP> CAB51273 <SEP> putative <SEP>acetyltransferase;<SEP> Streptomyces
<tb> coelicolor
<tb> 103 <SEP> ybaA <SEP> putative
<tb> 104 <SEP> ybaB <SEP> 58% <SEP> 034512 <SEP> yfmm <SEP> protein <SEP>;<SEP> subtilis
<tb> 105 <SEP> ybaC <SEP> putative
<tb> 106 <SEP> ybaD <SEP> putative
<tb> 107 <SEP> prmA <SEP> 44% <SEP> BAA82791 <SEP> orf35 <SEP>protein;<SEP> Listeria <SEP> monocytogenes
<tb> 108 <SEP> ybaF <SEP> 42% <SEP> P54461 <SEP> hypothetical <SEP> 28. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> dnaj-rpsu
<tb> interegenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 109 <SEP> ybaG <SEP> 37% <SEP> P94361 <SEP> homologous <SEP> to <SEP> swissprot: yade ~ ecoli; <SEP> Bacillus
<tb> subtilis
<tb> 110 <SEP> relA <SEP> 67% <SEP> Q54089 <SEP> putative <SEP> gtp <SEP>pyrophosphokinase;<SEP> Streptococcus
<tb> equisimilis
<tb> 111 <SEP> ybaI <SEP> 37% <SEP> Q45539 <SEP> csbb <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 112 <SEP> ybbA <SEP> 71% <SEP> Q54088 <SEP> dexb, <SEP> abc, <SEP> lrp, <SEP> skc, <SEP> rel <SEP> genes <SEP> and <SEP>orfl;
<tb> Streptococcus <SEP> equisimilis
<tb> 113 <SEP> ybbB <SEP> putative
<tb> 114 <SEP> ybbC <SEP> 27% <SEP> Q9WZA8 <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;
<tb> maritima
<tb> 115 <SEP> ctrA <SEP> 29% <SEP> 007576 <SEP> hypothetical <SEP> 49.7 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 116 <SEP> ybbE <SEP> 35% <SEP> 007584 <SEP> hypothetical <SEP> 21. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 117 <SEP> rmaD <SEP> 26% <SEP> 034692 <SEP>yvna;<SEP> Bacillus <SEP> subtilis
<tb> 118 <SEP> acpD <SEP> 42% <SEP> Q9X4K2 <SEP> nadh <SEP>dehydrogenase;<SEP> Bacillus <SEP> stearothermophilus
<tb> 119 <SEP> secA <SEP> 56% <SEP> P28366 <SEP> preprotein <SEP> translocase <SEP> seca <SEP>subunit;<SEP> Bacillus
<tb> subtilis
<tb> 120 <SEP> aroF <SEP> 41% <SEP> 054459 <SEP> phospho-2-dehydro-3-deoxyheptonate <SEP> aldolase,
<tb> trp-sensitive <SEP> (3-deoxy-d-arabino-he. <SEP> Erwinia
<tb> herbicola
<tb> 121 <SEP> ptsH <SEP> 96% <SEP> Q9ZAD9 <SEP> histidine <SEP> containing <SEP> protein <SEP>;<SEP> lactis
<tb> 122 <SEP> ptsI <SEP> 96% <SEP> Q9zad8 <SEP> phosphoenolpyruvate-protein <SEP>phosphotransferase;
<tb> Lactococcus <SEP> lactis
<tb>

<Desc / Clms Page number 143>

<tb>
<tb> 123 <SEP> ybcC <SEP> putative
<tb> 124 <SEP> ybcG <SEP> 38% <SEP> Q9XAI3 <SEP> hypothetical <SEP> 11.7 <SEP> kd <SEP>protein;<SEP> Streptomyces
<tb> coelicolor
<tb> 125 <SEP> ybcH <SEP> 27% <SEP> CAB49187 <SEP> hypothetical <SEP> 2-acetyl-1-alkylglycerophosph
<tb> ocholine <SEP>esterase;<SEP> Pyrococcus <SEP> abyssi
<tb> 126 <SEP> sugE <SEP> 46% <SEP> P30743 <SEP> suge <SEP> protein <SEP>;<SEP> coli
<tb> 127 <SEP> bit <SEP> 40% <SEP> P39843 <SEP> multidrug <SEP> resistance <SEP> protein <SEP>2;<SEP> Bacillus
<tb> subtilis
<tb> 128 <SEP> argG <SEP> 64% <SEP> 034347 <SEP> argininosuccinate <SEP>synthase;<SEP> Bacillus <SEP> subtilis
<tb> 129 <SEP> argH <SEP> 59% <SEP> 034858 <SEP> arginine <SEP> succinate <SEP>lyase;<SEP> Bacillus <SEP> subtilis
<tb> 130 <SEP> pmrB <SEP> 43% <SEP> BAA35851 <SEP> probable <SEP> integral <SEP> membrane <SEP>protein;<SEP>;<SEP>
<tb> Escherichia <SEP> coli
<tb> 131 <SEP> ybdA <SEP> 35% <SEP> P03039 <SEP> tetracycline <SEP> repressor <SEP> protein <SEP> class <SEP>c;
<tb> Escherichia <SEP> coli
<tb> 132 <SEP> rnpA <SEP> 48% <SEP> BAA82683 <SEP> rnpa <SEP>protein;<SEP> Bacillus <SEP> sp
<tb> 133 <SEP> ybdC <SEP> 40% <SEP> 032298 <SEP> spoiiij <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 134 <SEP> ybdD <SEP> 31% <SEP> Q9X1H1 <SEP> jag <SEP> protein, <SEP> putative <SEP>;<SEP> maritima
<tb> 135 <SEP> rpmH <SEP> 77% <SEP> P45647 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP>134;<SEP> Coxiella <SEP> burnetii
<tb> 136 <SEP> ybdE <SEP> 36% <SEP> P42972 <SEP> hypothetical <SEP> oxidoreductase <SEP> in <SEP> pbpc-lrpc
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 137 <SEP> ybdG <SEP> 35% <SEP> 028481 <SEP> hypothetical <SEP> transcriptional <SEP> regulator <SEP>afl793;
<tb> Archaeoglobus <SEP> fulgidus
<tb> 138 <SEP> ybdH <SEP> putative
<tb> 139 <SEP> ybdI <SEP> 31% <SEP> Q48724 <SEP> abortive <SEP> infection <SEP> proteins <SEP> genes, <SEP> complete <SEP>cds;
<tb> Lactococcus <SEP> lactis
<tb> 140 <SEP> ybdJ <SEP> 33% <SEP> Q48724 <SEP> abortive <SEP> infection <SEP> proteins <SEP> genes, <SEP> complete <SEP>cds;
<tb> Lactococcus <SEP> lactis
<tb> 141 <SEP> ybdK <SEP> 100% <SEP> Q48710 <SEP> span <SEP> gene <SEP> encoding <SEP> nisin <SEP> and <SEP> insertion <SEP> sequence
<tb>is904;<SEP> Lactococcus <SEP> lactis
<tb> 142 <SEP> tra904B <SEP> 100% <SEP> CAA55220 <SEP> isl069 <SEP>gene;<SEP> Lactococcus <SEP> lactis
<tb> 143 <SEP> ybdL <SEP> 99% <SEP> 032786 <SEP> hypothetical <SEP> 21. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 144 <SEP> tral077B <SEP> 97% <SEP> 032787 <SEP>transposase;<SEP> Lactococcus <SEP> lactis
<tb> 145 <SEP> tra904C <SEP> 100% <SEP> CAA55220 <SEP> isl069 <SEP>gene;<SEP> Lactococcus <SEP> lactis
<tb> 146 <SEP> ybeG <SEP> 100% <SEP> Q48710 <SEP> span <SEP> gene <SEP> encoding <SEP> nisin <SEP> and <SEP> insertion <SEP> sequence
<tb>is904;<SEP> Lactococcus <SEP> lactis
<tb> 147 <SEP> ybeA <SEP> putative
<tb> 148 <SEP> ybeB <SEP> 53% <SEP> 034634 <SEP> hypothetical <SEP> 15. <SEP> 2 <SEP> kd <SEP> protein <SEP> in <SEP> udk-alas
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 149 <SEP> ybeC <SEP> 46% <SEP> 034828 <SEP> yrzb <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 150 <SEP> ybeH <SEP> 17% <SEP> AAF10767 <SEP> hypothetical <SEP> 23. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Deinococcus
<tb> radiodurans
<tb> 151 <SEP> cbr <SEP> 28% <SEP> P48758 <SEP> carbonyl <SEP> reductase <SEP>[nadph];<SEP> Mus <SEP> musculus
<tb> 152 <SEP> ybeI <SEP> putative
<tb> 153 <SEP> ybeE <SEP> 32% <SEP> CAB53277 <SEP> putative <SEP>oxidoreductase;<SEP> Streptomyces
<tb> coelicolor
<tb> 154 <SEP> ybeD <SEP> 43% <SEP> 067157 <SEP> transcriptional <SEP> regulator <SEP>;<SEP> aeolicus
<tb> 155 <SEP> glgB <SEP> 47% <SEP> P30924 <SEP> 1,4-alpha-glucan <SEP> branching <SEP> enzyme <SEP>;
<tb> tuberosum
<tb> 156 <SEP> ybeM <SEP> putative
<tb> 157 <SEP> ybeF <SEP> 21% <SEP> Q9X3M7 <SEP> fibronectin-binding <SEP> protein <SEP> i <SEP>;
<tb> pyogenes
<tb> 158 <SEP> tgt <SEP> 71% <SEP> 032053 <SEP> tail <SEP>trna-ribosyltransferase;<SEP> Bacillus
<tb> subtilis
<tb> 159 <SEP> ybfA <SEP> 29% <SEP> Q06073 <SEP> hypothetical <SEP> 25. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> cytochrome
<tb> p450meg <SEP> gene <SEP>5'region;<SEP> Bacillus <SEP> megaterium
<tb> 160 <SEP> ybfD <SEP> 30% <SEP> P94577 <SEP> hypothetical <SEP> 43. <SEP> 1 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 161 <SEP> ybfE <SEP> 47% <SEP> Q45065 <SEP>ynet;<SEP> Bacillus <SEP> subtilis
<tb> 162 <SEP> ybfB <SEP> 25% <SEP> 033735 <SEP>streptodornase;<SEP> Streptococcus <SEP> pyogenes
<tb> 163 <SEP> ybfC <SEP> putative
<tb> 164 <SEP> ybgA <SEP> putative
<tb>

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<tb>
<tb> 165 <SEP> ybgB <SEP> putative
<tb> 166 <SEP> aspC <SEP> 63% <SEP> P71348 <SEP> probable <SEP> aminotransferase <SEP>hi0286;<SEP> Haemophilus
<tb> influenzae
<tb> 167 <SEP> codY <SEP> 48% <SEP> P39779 <SEP> cody <SEP> protein <SEP>;<SEP> subtilis
<tb> 168 <SEP> gatC <SEP> 45% <SEP> 006492 <SEP> glutamyl-trna <SEP> amidotransferase <SEP> subunit <SEP>c;
<tb> Bacillus <SEP> subtilis
<tb> 169 <SEP> gatA <SEP> 58% <SEP> 006491 <SEP> glutamyl-trna <SEP> amidotransferase <SEP> subunit <SEP>a;
<tb> Bacillus <SEP> subtilis
<tb> 170 <SEP> ybgD <SEP> 43% <SEP> Q9ZHC2 <SEP> mutt <SEP>;<SEP> pneumoniae
<tb> 171 <SEP> gatB <SEP> 62% <SEP> Q45486 <SEP> petll2-like <SEP> protein <SEP>;<SEP> Bacillus <SEP> subtilis
<tb> 172 <SEP> ybgE <SEP> 28% <SEP> AAF09821 <SEP> 6-aminohexanoate-cyclic-dimer <SEP>hydrolase;
<tb> Deinococcus <SEP> radiodurans
<tb> 173 <SEP> dinF <SEP> 34% <SEP> 033729 <SEP> dinf <SEP> protein <SEP>;<SEP> pneumoniae
<tb> 174 <SEP> cspE <SEP> 98% <SEP> Q9ZAG9 <SEP> cold <SEP> shock <SEP> protein <SEP> e <SEP>;<SEP> lactis
<tb> 175 <SEP> ybhA <SEP> 41% <SEP> 066124 <SEP> hypothetical <SEP> protein <SEP>;<SEP> mutans
<tb> 176 <SEP> ybhB <SEP> 32% <SEP> 059166 <SEP> 197aa <SEP> long <SEP> hypothetical <SEP> protein <SEP>;
<tb> horikoshii
<tb> 177 <SEP> ybhC <SEP> putative
<tb> 178 <SEP> ybhD <SEP> putative
<tb> 179 <SEP> ybhE <SEP> 40% <SEP> 050983 <SEP> outer <SEP> surface <SEP> protein, <SEP> putative <SEP>;
<tb> burgdorferi
<tb> 180 <SEP> celB <SEP> 30% <SEP> P17334 <SEP> pts <SEP> system, <SEP> cellobiose-specific <SEP> iic <SEP>component;
<tb> Escherichia <SEP> coli
<tb> 181 <SEP> bglS <SEP> 59% <SEP> P42403 <SEP> probable <SEP> beta-glucosidase <SEP>;<SEP> subtilis
<tb> 182 <SEP> dut <SEP> 52% <SEP> Q38106 <SEP> dutpase <SEP>;<SEP> Bacteriophagerlt
<tb> 183 <SEP> ybiB <SEP> 33% <SEP> 032133 <SEP> yund <SEP> protein <SEP>;<SEP> subtilis
<tb> 184 <SEP> ybiC <SEP> 53% <SEP> 032127 <SEP> yutd <SEP> protein <SEP>;<SEP> subtilis
<tb> 185 <SEP> ybiD <SEP> 54% <SEP> 034617 <SEP> hypothetical <SEP> 41. <SEP> 6 <SEP> kd <SEP> protein <SEP> in <SEP> fmt-spovm
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 186 <SEP> ybiE <SEP> 32% <SEP> Q50261 <SEP> this <SEP> orf <SEP> is <SEP> homologous <SEP> to <SEP> nitroreductase <SEP> from
<tb> enterobacter <SEP> cloacae <SEP>;<SEP> sp
<tb> 187 <SEP> preA <SEP> 30% <SEP> P31114 <SEP> probable <SEP> heptaprenyl <SEP> diphosphate <SEP> synthase
<tb> component <SEP> ii <SEP>;<SEP> subtilis
<tb> 188 <SEP> ybiG <SEP> 21% <SEP> P39582 <SEP> probable <SEP> 1,4-dihydroxy-2-naphthoate
<tb>octaprenyltransferase;<SEP> Bacillus <SEP> subtilis
<tb> 189 <SEP> ybiH <SEP> 46% <SEP> P71468 <SEP>plni;<SEP> Lactobacillus <SEP> plantarum
<tb> 190 <SEP> ybiI <SEP> putative
<tb> 191 <SEP> ybiJ <SEP> putative
<tb> 192 <SEP> ybiK <SEP> putative
<tb> 193 <SEP> feoB <SEP> 36% <SEP> 027414 <SEP> ferrous <SEP> iron <SEP> transport <SEP> protein <SEP>b;
<tb> Methanobacterium <SEP> thermoautotrophicum
<tb> 194 <SEP> feoA <SEP> 42% <SEP> 027415 <SEP> hypothetical <SEP> 8. <SEP> 2 <SEP> kd <SEP> protein <SEP>;
<tb> thermoautotrophicum
<tb> 195 <SEP> ybjA <SEP> 65% <SEP> Q9XB39 <SEP> csrl4 <SEP> protein <SEP>;<SEP> Enterococcus <SEP> faecalis
<tb> 196 <SEP> ybjj <SEP> 43% <SEP> 034751 <SEP> ylov <SEP> protein <SEP>;<SEP> subtilis
<tb> 197 <SEP> ybjK <SEP> 41% <SEP> 034318 <SEP> ylou <SEP> protein <SEP>;<SEP> subtilis
<tb> 198 <SEP> rpmB <SEP> 56% <SEP> P37807 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 128 <SEP>;<SEP> subtilis
<tb> 199 <SEP> ybjB <SEP> putative
<tb> 200 <SEP> rmlA <SEP> 90% <SEP> 054574 <SEP> glucose-1-phosphate <SEP> thymidyl <SEP>transferase;
<tb> Streptococcus <SEP> pneumoniae
<tb> 201 <SEP> ybjD <SEP> putative
<tb> 202 <SEP> cpsM <SEP> 88% <SEP> P97005 <SEP>dtdp-4-keto-6-deoxyglucose-3,5-epimerase;
<tb> Streptococcus <SEP> pneumoniae
<tb> 203 <SEP> ybjF <SEP> putative
<tb> 204 <SEP> rmlB <SEP> 75% <SEP> AAC78676 <SEP> dtdp-glucose-4,6-dehydratase <SEP> cpsl9an <SEP>;
<tb> Streptococcus <SEP> pneumoniae
<tb> 205 <SEP> rmlC <SEP> 72% <SEP> AAC78677 <SEP> dtdp-1-rhamnose <SEP> synthase <SEP>cpsl9ao;<SEP> Streptococcus
<tb> pneumoniae
<tb> 206 <SEP> rgpA <SEP> 54% <SEP> 082873 <SEP> rgpac <SEP> protein <SEP>;<SEP> mutans
<tb> 207 <SEP> rgpB <SEP> 53% <SEP> 082874 <SEP>rhamnosyltransferase;<SEP> Streptococcus <SEP> mutans
<tb> 208 <SEP> rgpC <SEP> 46% <SEP> 082875 <SEP>abc-transporter;<SEP> Streptococcus <SEP> mutans
<tb>

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<tb>
<tb> 209 <SEP> rgpD <SEP> 70% <SEP> 082876 <SEP> abc-transporter <SEP>;<SEP> mutans
<tb> 210 <SEP> ycaF <SEP> putative
<tb> 211 <SEP> ycaG <SEP> putative
<tb> 212 <SEP> rgpE <SEP> 34% <SEP> 006035 <SEP> epsg <SEP> protein <SEP>;<SEP> lactis
<tb> 213 <SEP> rgpF <SEP> 52% <SEP> 082878 <SEP> rgpfc <SEP> protein <SEP>;<SEP> mutans
<tb> 214 <SEP> ycbA <SEP> 23% <SEP> 005375 <SEP> unnamed <SEP> protein <SEP> product <SEP>;
<tb> actinomycetemcomitans
<tb> 215 <SEP> ycbB <SEP> 52% <SEP> 088085 <SEP> putative <SEP> glycosyl <SEP>transferase;<SEP> Enterococcus
<tb> faecalis
<tb> 216 <SEP> ycbC <SEP> putative
<tb> 217 <SEP> ycbD <SEP> 40% <SEP> CAB49227 <SEP> udp-glucose <SEP>4-epimerase;<SEP> Pyrococcus <SEP> abyssi
<tb> 218 <SEP> ycbK <SEP> 18% <SEP> 032273 <SEP> tuab <SEP> protein <SEP>;<SEP> subtilis
<tb> 219 <SEP> ycbF <SEP> 25% <SEP> Q08918 <SEP> chromosome <SEP> xvi <SEP> reading <SEP> frame <SEP> orf <SEP>ypll75w;
<tb> Saccharomyces <SEP> cerevisiae
<tb> 220 <SEP> ycbG <SEP> 32% <SEP> Q9X4D4 <SEP>licdl;<SEP> Streptococcus <SEP> pneumoniae
<tb> 221 <SEP> ycbH <SEP> 34% <SEP> 085000 <SEP> galactosyl <SEP> transferase <SEP>;
<tb> pneumoniae
<tb> 222 <SEP> ycbI <SEP> 30% <SEP> Q57022 <SEP> putative <SEP> glycosyl <SEP> transferase <SEP>hi0868;
<tb> Haemophilus <SEP> influenzae
<tb> 223 <SEP> ycbJ <SEP> 30% <SEP> P37965 <SEP> glycerophosphoryl <SEP> diester <SEP>phosphodiesterase;
<tb> Bacillus <SEP> subtilis
<tb> 224 <SEP> tagDl <SEP> 55% <SEP> 005155 <SEP> tagd <SEP>;<SEP> aureus
<tb> 225 <SEP> yccB <SEP> 40% <SEP> 066077 <SEP> putative <SEP> extracellular <SEP> protein <SEP> exp3 <SEP>precursor;
<tb> Lactococcus <SEP> lactis
<tb> 226 <SEP> guaB <SEP> 83% <SEP> P50099 <SEP>inosine-5'-monophosphate<SEP> dehydrogenase <SEP>;
<tb> Streptococcus <SEP> pyogenes
<tb> 227 <SEP> yqeL <SEP> 51% <SEP> P54453 <SEP> hypothetical <SEP> 41. <SEP> 0 <SEP> kd <SEP> protein <SEP> in <SEP> nucb-arod
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 228 <SEP> yccE <SEP> putative
<tb> 229 <SEP> hflX <SEP> 54% <SEP> P94478 <SEP> ynba <SEP>;<SEP> subtilis
<tb> 230 <SEP> yccF <SEP> 44% <SEP> P54454 <SEP> hypothetical <SEP> 10. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> arod-comer
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 231 <SEP> yccG <SEP> 34% <SEP> P54455 <SEP> hypothetical <SEP> 22. <SEP> 2 <SEP> kd <SEP> protein <SEP> in <SEP> arod-comer
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 232 <SEP> yccH <SEP> 37% <SEP> P54456 <SEP> hypothetical <SEP> 21. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> arod-comer
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 233 <SEP> yccI <SEP> 29% <SEP> P16691 <SEP> phno <SEP> protein <SEP>;<SEP> coli
<tb> 234 <SEP> yccJ <SEP> 41% <SEP> P54457 <SEP> hypothetical <SEP> 13. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> arod-comer
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 235 <SEP> yccK <SEP> 40% <SEP> P54458 <SEP> hypothetical <SEP> 28. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> arod-comer
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 236 <SEP> yccL <SEP> 41% <SEP> Q58361 <SEP> hypothetical <SEP> protein <SEP>mj0951;<SEP> Methanococcus
<tb> jannaschii
<tb> 237 <SEP> ycdA <SEP> putative
<tb> 238 <SEP> ycdB <SEP> 94% <SEP> P76351 <SEP> hypothetical <SEP> 25. <SEP> 9 <SEP> kd <SEP> protein <SEP> in <SEP> amn-cbl
<tb> intergenic <SEP> region <SEP>;<SEP> coli
<tb> 239 <SEP> ycdC <SEP> putative
<tb> 240 <SEP> ung <SEP> 54% <SEP> Q9XDS8 <SEP> uracil <SEP> dna <SEP> glycosylase <SEP>;
<tb> agalactiae
<tb> 241 <SEP> ycdE <SEP> putative
<tb> 242 <SEP> ycdG <SEP> putative
<tb> 243 <SEP> ycdF <SEP> 36% <SEP> CAB58281 <SEP> putative <SEP> tetr <SEP> family <SEP> transcriptional <SEP>regulator;
<tb> Streptomyces <SEP> coelicolor
<tb> 244 <SEP> ycdH <SEP> 27% <SEP> 032182 <SEP> yusp <SEP> protein <SEP>;<SEP> subtilis
<tb> 245 <SEP> ycdI <SEP> 38% <SEP> P44617 <SEP> hypothetical <SEP> transcriptional <SEP> regulator <SEP>hi0293;
<tb> Haemophilus <SEP> influenzae
<tb> 246 <SEP> rpsU <SEP> 83% <SEP> BAA82793 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP>s21;<SEP> Listeria
<tb> monocytogenes
<tb> 247 <SEP> ycdJ <SEP> putative
<tb> 248 <SEP> yceA <SEP> putative
<tb> 249 <SEP> yceB <SEP> putative
<tb>

<Desc / Clms Page number 146>

<tb>
<tb> 250 <SEP> yceC <SEP> putative
<tb> 251 <SEP> yceD <SEP> putative
<tb> 252 <SEP> yceE <SEP> 29% <SEP> Q9WZB9 <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;
<tb> maritima
<tb> 253 <SEP> pgk <SEP> 57% <SEP> Q9Z5C4 <SEP> phosphoglycerate <SEP> kinase <SEP>;<SEP> aureus
<tb> 254 <SEP> dhaK <SEP> 37% <SEP> 004059 <SEP> putative <SEP> 3,4-dihydroxy-2-butanone <SEP> kinase <SEP>;
<tb> Lycopersicon <SEP> esculentum
<tb> 255 <SEP> yceG <SEP> 41% <SEP> 053054 <SEP> hypothetical <SEP> transcriptional <SEP> regulator <SEP> in <SEP> inlc
<tb>3'region;<SEP> Listeria <SEP> ivanovii
<tb> 256 <SEP> dhaL <SEP> 41% <SEP> P76015 <SEP> hypothetical <SEP> 24.0k <SEP> protein <SEP>;<SEP> Escherichia <SEP> coli
<tb> 257 <SEP> dhaM <SEP> 37% <SEP> P76014 <SEP> orf <SEP> o246 # 1; <SEP> Escherichia <SEP> coli
<tb> 258 <SEP> yceJ <SEP> 32% <SEP> AAF12590 <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;
<tb> radiodurans
<tb> 259 <SEP> glpF1 <SEP> 47% <SEP> P52281 <SEP> glycerol <SEP> uptake <SEP> facilitator <SEP>protein;
<tb> Streptococcus <SEP> pneumoniae
<tb> 260 <SEP> pepDA <SEP> 55% <SEP> Q48558 <SEP> dipeptidase <SEP>;<SEP> Lactobacillus <SEP> helveticus
<tb> 261 <SEP> ycfA <SEP> 45% <SEP> 008306 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP>s21;<SEP> Nocardioides <SEP> simplex
<tb> 262 <SEP> ycfB <SEP> 39% <SEP> 029256 <SEP> abc <SEP> transporter, <SEP> atp-binding <SEP>protein;
<tb> Archaeoglobus <SEP> fulgidus
<tb> 263 <SEP> ycfC <SEP> 36% <SEP> 033188 <SEP> hypothetical <SEP> 24. <SEP> 4 <SEP> kd <SEP> protein <SEP>;
<tb> tuberculosis
<tb> 264 <SEP> ycfD <SEP> 44% <SEP> P39587 <SEP> hypothetical <SEP> 44. <SEP> 4 <SEP> kd <SEP> protein <SEP> in <SEP> epr-galk
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 265 <SEP> fbp <SEP> 52% <SEP> Q45597 <SEP> function <SEP> unknown <SEP>;<SEP> subtilis
<tb> 266 <SEP> ycfF <SEP> 50% <SEP> 030505 <SEP> ytfp <SEP>;<SEP> subtilis
<tb> 267 <SEP> ycfG <SEP> 43% <SEP> P96051 <SEP> hypothetical <SEP> 29. <SEP> 9 <SEP> kd <SEP> protein <SEP> in <SEP> fold-pbp2b
<tb> intergenic <SEP>region;<SEP> Streptococcus <SEP> thermophilus
<tb> 268 <SEP> ycfH <SEP> 48% <SEP> Q10845 <SEP> hypothetical <SEP> 18. <SEP> 2 <SEP> kd <SEP> protein <SEP>cy39.05c;
<tb> Mycobacterium <SEP> tuberculosis
<tb> 269 <SEP> ycfI <SEP> 34% <SEP> Q11046 <SEP> hypothetical <SEP> abc <SEP> transporter <SEP> atp-binding <SEP> protein
<tb>rvl273c;<SEP> Mycobacterium <SEP> tuberculosis
<tb> 270 <SEP> ycgA <SEP> 26% <SEP> Q9WYC4 <SEP> abc <SEP> transporter, <SEP> atp-binding <SEP>protein;
<tb> Thermotoga <SEP> maritima
<tb> 271 <SEP> ycgB <SEP> 50% <SEP> Q11047 <SEP> hypothetical <SEP> abc <SEP> transporter <SEP> atp-binding <SEP> protein
<tb>cy50.10;<SEP> Mycobacterium <SEP> tuberculosis
<tb> 272 <SEP> ycgC <SEP> 30% <SEP> Q9ZL99 <SEP> putative <SEP>;<SEP> Helicobacterpylori <SEP> j99
<tb> 273 <SEP> ycgD <SEP> 43% <SEP> P46853 <SEP> hypothetical <SEP> oxidoreductase <SEP> in <SEP> gntr-ggt
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 274 <SEP> ycgE <SEP> 47% <SEP> AAF11932 <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;
<tb> radiodurans
<tb> 275 <SEP> ycgF <SEP> putative
<tb> 276 <SEP> ycgG <SEP> 49% <SEP> P22045 <SEP> probable <SEP> reductase <SEP>;<SEP> major
<tb> 277 <SEP> ycgH <SEP> 31% <SEP> Q9ZF59 <SEP> nicotinamidase / pyrazinamidase <SEP>;
<tb> smegmatis
<tb> 278 <SEP> ycgI <SEP> 25% <SEP> 053298 <SEP> hypothetical <SEP> 45.8 <SEP> kd <SEP> protein <SEP>;
<tb> tuberculosis
<tb> 279 <SEP> ycgJ <SEP> 90% <SEP> Q48604 <SEP> hypothetical <SEP> 11.3 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 280 <SEP> acmA <SEP> 65% <SEP> Q48603 <SEP> n-acetylmuramidase <SEP> precursor <SEP>;
<tb> lactis
<tb> 281 <SEP> nrdD <SEP> 95% <SEP> Q9ZAX6 <SEP> anaerobic <SEP> ribonucleotide <SEP> reductase <SEP>;
<tb> lactis
<tb> 282 <SEP> nrdG <SEP> 87% <SEP> Q9ZAX5 <SEP> anaerobic <SEP> ribonucleotide <SEP> reductase <SEP> activator
<tb> protein <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 283 <SEP> ychC <SEP> 45% <SEP> Q9ZAX4 <SEP> hypothetical <SEP> 7.3 <SEP> kd <SEP> protein <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 284 <SEP> enoB <SEP> 91% <SEP> 052191 <SEP> enolase <SEP>;<SEP> thermophilus
<tb> 285 <SEP> ychD <SEP> 57% <SEP> 087533 <SEP> abc <SEP> transporter <SEP> atp-binding <SEP>protein;
<tb> Streptococcus <SEP> pyogenes
<tb> 286 <SEP> ychE <SEP> 53% <SEP> P70970 <SEP> hypothetical <SEP> 30. <SEP> 6 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 287 <SEP> ychF <SEP> 44% <SEP> P70972 <SEP> ybaf <SEP> protein <SEP>;<SEP> subtilis
<tb> 288 <SEP> ychG <SEP> putative
<tb>

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<tb>
<tb> 289 <SEP> ychH <SEP> 43% <SEP> Q9X1K7 <SEP> 2,3,4,5-tetrahydropyridine-2-carboxylate <SEP> nsuccinyltransferase-related <SEP>protein;<SEP> Thermotoga
<tb> maritima
<tb> 290 <SEP> yciA <SEP> 44% <SEP> 034916 <SEP> ykur <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 291 <SEP> xynD <SEP> 40% <SEP> P04339 <SEP> chitooligosaccharide <SEP>deacetylase;<SEP> Rhizobium
<tb> leguminosarum
<tb> 292 <SEP> rpsD <SEP> 66% <SEP> P21466 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP>s4;<SEP> Bacillus <SEP> subtilis
<tb> 293 <SEP> yciC <SEP> 44% <SEP> Q51152 <SEP> hypothetical <SEP> 83. <SEP> 1 <SEP> kd <SEP> protein <SEP> in <SEP> region <SEP> e <SEP>;
<tb> Neisseria <SEP> meningitidis
<tb> 294 <SEP> yciD <SEP> 42% <SEP> P96628 <SEP> ydck <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 295 <SEP> add <SEP> 31% <SEP> Q9X7T2 <SEP> putative <SEP> adenosine <SEP>deaminase;<SEP> Streptomyces
<tb> coelicolor
<tb> 296 <SEP> yciF <SEP> putative
<tb> 297 <SEP> yciG <SEP> putative
<tb> 298 <SEP> yciH <SEP> 60% <SEP> Q45493 <SEP> hypothetical <SEP> 61. <SEP> 5 <SEP> kd <SEP> protein <SEP> in <SEP> adec-pdha
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 299 <SEP> ycjA <SEP> 32% <SEP> 031718 <SEP> ykzg <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 300 <SEP> ycjB <SEP> 32% <SEP> 005516 <SEP> h. <SEP> influenzae <SEP> hypothetical <SEP>protein;<SEP> Bacillus
<tb> subtilis
<tb> 301 <SEP> ycjC <SEP> 36% <SEP> 005517 <SEP> h. <SEP>influenzae;<SEP> Bacillus <SEP> subtilis
<tb> 302 <SEP> ycjD <SEP> 37% <SEP> 005517 <SEP> h. <SEP>influenzae;<SEP> Bacillus <SEP> subtilis
<tb> 303 <SEP> gcp <SEP> 54% <SEP> 005518 <SEP> hypothetical <SEP> 36. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> phob-groes
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 304 <SEP> ycjF <SEP> putative
<tb> 305 <SEP> ycjG <SEP> putative
<tb> 306 <SEP> ycjH <SEP> putative
<tb> 307 <SEP> ycjI <SEP> putative
<tb> 308 <SEP> phnC <SEP> 40% <SEP> 069063 <SEP> atpase <SEP> component <SEP>htxd;<SEP> Pseudomonas <SEP> stutzeri
<tb> 309 <SEP> phnB <SEP> 33% <SEP> 069053 <SEP> ptxc <SEP>;<SEP> stutzeri
<tb> 310 <SEP> phnE <SEP> 37% <SEP> 069053 <SEP>ptxc;<SEP> Pseudomonas <SEP> stutzeri
<tb> 311 <SEP> ycjM <SEP> 26% <SEP> P44764 <SEP> 2 ', 3'-cyclic-nucleotide <SEP>2'-phosphodiesterase
<tb>precursor;<SEP> Haemophilus <SEP> influenzae
<tb> 312 <SEP> tpx <SEP> 40% <SEP> P80864 <SEP> probable <SEP> thiol <SEP>peroxidase;<SEP> Bacillus <SEP> subtilis
<tb> 313 <SEP> pepN <SEP> 96% <SEP> P37897 <SEP> aminopeptidase <SEP>n;<SEP> Lactococcus <SEP> lactis
<tb> 314 <SEP> napC <SEP> 49% <SEP> 032603 <SEP> napc <SEP>protein;<SEP> Enterococcus <SEP> hirae
<tb> 315 <SEP> napB <SEP> 39% <SEP> 032602 <SEP> napb <SEP>protein;<SEP> Enterococcus <SEP> hirae
<tb> 316 <SEP> ydaE <SEP> 43% <SEP> P46348 <SEP> hypothetical <SEP> 31. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> gabp-guaa
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 317 <SEP> ydaF <SEP> 36% <SEP> P39044 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP> sl4 <SEP>homolog;<SEP> Bacillus
<tb> sphaericus
<tb> 318 <SEP> ydaG <SEP> 38% <SEP> Q9WYC3 <SEP> abc <SEP> transporter, <SEP> atp-binding <SEP>protein;
<tb> Thermotoga <SEP> maritima
<tb> 319 <SEP> ydbA <SEP> 58% <SEP> Q9ZIC7 <SEP> abc <SEP> transporter <SEP> homolog <SEP>z;<SEP> Listeria
<tb> monocytogenes
<tb> 320 <SEP> murAl <SEP> 55% <SEP> P19670 <SEP> probable <SEP> udp-n-acetylglucosamine <SEP>1carboxyvinyltransferase;<SEP> Bacillus <SEP> subtilis
<tb> 321 <SEP> ydbC <SEP> 46% <SEP> 083371 <SEP> hypothetical <SEP> protein <SEP>tp0352;<SEP> Treponema <SEP> pallidum
<tb> 322 <SEP> ydbD <SEP> putative
<tb> 323 <SEP> ydbE <SEP> 34% <SEP> 057898 <SEP> 162aa <SEP> long <SEP> hypothetical <SEP>protein;<SEP> Pyrococcus
<tb> horikoshii
<tb> 324 <SEP> ydbF <SEP> 37% <SEP> P36922 <SEP> ebsc <SEP>protein;<SEP> Enterococcus <SEP> faecalis
<tb> 325 <SEP> ydbH <SEP> 34% <SEP> 032074 <SEP> yuaj <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 326 <SEP> plpA <SEP> 56% <SEP> CAB59827 <SEP> hypothetical <SEP> 32. <SEP> 0 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 327 <SEP> plpB <SEP> 61% <SEP> CAB59827 <SEP> hypothetical <SEP> 32. <SEP> 0 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 328 <SEP> plpC <SEP> 89% <SEP> CAB59825 <SEP> hypothetical <SEP> 31. <SEP> 6 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 329 <SEP> plpD <SEP> 94% <SEP> CAB59827 <SEP> hypothetical <SEP> 32. <SEP> 0 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb>

<Desc / Clms Page number 148>

<tb>
<tb> 330 <SEP> ydcB <SEP> 95% <SEP> CAB59828 <SEP> hypothetical <SEP> 41. <SEP> 0 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 331 <SEP> ydcC <SEP> 65% <SEP> CAB59829 <SEP> hypothetical <SEP> 24. <SEP> 8 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 332 <SEP> ydcD <SEP> 90% <SEP> CAB59830 <SEP> hypothetical <SEP> 19. <SEP> 4 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 333 <SEP> ydcE <SEP> 37% <SEP> 059479 <SEP> 284aa <SEP> long <SEP> hypothetical <SEP> cobalt <SEP> transport <SEP> atpbinding <SEP>protein;<SEP> Pyrococcus <SEP> horikoshii
<tb> 334 <SEP> ydcF <SEP> 24% <SEP> Q50292 <SEP> hypothetical <SEP> protein <SEP> mgl81 <SEP>homolog;<SEP> Mycoplasma
<tb> pneumoniae
<tb> 335 <SEP> ydcG <SEP> 50% <SEP> Q57720 <SEP> hypothetical <SEP> transcriptional <SEP> regulator <SEP>mj0272;
<tb> Methanococcus <SEP> jannaschii
<tb> 336 <SEP> fhuC <SEP> 43% <SEP> Q9X665 <SEP>fhua;<SEP> Staphylococcus <SEP> aureus
<tb> 337 <SEP> fhuB <SEP> 25% <SEP> P49936 <SEP> ferrichrome <SEP> transport <SEP> permease <SEP> protein <SEP>fhub;
<tb> Bacillus <SEP> subtilis
<tb> 338 <SEP> fhuG <SEP> 32% <SEP> P49937 <SEP> ferrichrome <SEP> transport <SEP> permease <SEP> protein <SEP>fhug;
<tb> Bacillus <SEP> subtilis
<tb> 339 <SEP> fhuD <SEP> 32% <SEP> P54941 <SEP> probable <SEP> abc <SEP> transporter <SEP> binding <SEP> protein <SEP> in <SEP> idhdeor <SEP> intergenic <SEP> region <SEP>precursor;<SEP> Bacillus
<tb> subtilis
<tb> 340 <SEP> fhuR <SEP> 31% <SEP> CAB36982 <SEP> cpsy <SEP>protein;<SEP> Streptococcus <SEP> agalactiae
<tb> 341 <SEP> yddA <SEP> 45% <SEP> 034367 <SEP> ytbd <SEP>;<SEP> subtilis
<tb> 342 <SEP> yddB <SEP> 54% <SEP> 032210 <SEP> yvgn <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 343 <SEP> yddC <SEP> 61% <SEP> 034533 <SEP> hypothetical <SEP> 14. <SEP> 5 <SEP> kd <SEP> protein <SEP> in <SEP> gapb-mutm
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 344 <SEP> yddD <SEP> 50% <SEP> P45871 <SEP> hypothetical <SEP> 14. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> tdk-prfa
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 345 <SEP> pmg <SEP> 86% <SEP> Q9X9S2 <SEP>phosphoglyceromutase;<SEP> Streptococcus <SEP> pneumoniae
<tb> 346 <SEP> aphC <SEP> 70% <SEP> P80239 <SEP> alkyl <SEP> hydroperoxide <SEP> reductase <SEP> c22 <SEP>protein;
<tb> Bacillus <SEP> subtilis
<tb> 347 <SEP> ahpF <SEP> 61% <SEP> P42974 <SEP> nadh <SEP>dehydrogenase;<SEP> Bacillus <SEP> subtilis
<tb> 348 <SEP> pbp2B <SEP> 45% <SEP> P10524 <SEP> penicillin-binding <SEP> protein <SEP>2b;<SEP> Streptococcus
<tb> pneumoniae
<tb> 349 <SEP> recM <SEP> 78% <SEP> Q9ZHC4 <SEP>recm;<SEP> Streptococcus <SEP> pneumoniae
<tb> 350 <SEP> ddl <SEP> 63% <SEP> 054631 <SEP> d-ala-d-ala <SEP>ligase;<SEP> Streptococcus <SEP> pneumoniae
<tb> 351 <SEP> murF <SEP> 59% <SEP> Q9ZHC3 <SEP> d-ala-d-ala <SEP> adding <SEP> enzyme <SEP>;
<tb> pneumoniae
<tb> 352 <SEP> optS <SEP> 42% <SEP> Q9Z692 <SEP> hyaluronate-associated <SEP> protein <SEP>precursor;
<tb> Streptococcus <SEP> equi
<tb> 353 <SEP> optA <SEP> 45% <SEP> Q9Z692 <SEP> hyaluronate-associated <SEP> protein <SEP>precursor;
<tb> Streptococcus <SEP> equi
<tb> 354 <SEP> optB <SEP> 41% <SEP> 031598 <SEP> oligopeptide <SEP> abc <SEP>transporter;<SEP> Bacillus <SEP> subtilis
<tb> 355 <SEP> optC <SEP> 39% <SEP> P94895 <SEP> transport <SEP> system <SEP> permease <SEP>homolog;<SEP> Listeria
<tb> monocytogenes
<tb> 356 <SEP> optD <SEP> 62% <SEP> P24136 <SEP> oligopeptide <SEP> transport <SEP> atp-binding <SEP> protein <SEP>oppd;
<tb> Bacillus <SEP> subtilis
<tb> 357 <SEP> optF <SEP> 57% <SEP> 031599 <SEP> oligopeptide <SEP> abc <SEP>transporter;<SEP> Bacillus <SEP> subtilis
<tb> 358 <SEP> prfC <SEP> 57% <SEP> 086490 <SEP> peptide <SEP> chain <SEP> release <SEP> factor <SEP> 3 <SEP>;
<tb> aureus
<tb> 359 <SEP> rheA <SEP> 59% <SEP> Q9Z6C9 <SEP> autoaggregation-mediating <SEP>protein;
<tb> Lactobacillus <SEP> reuteri
<tb> 360 <SEP> eraL <SEP> 77% <SEP> Q9XDG9 <SEP> gtpase <SEP> era <SEP>;<SEP> pneumoniae
<tb> 361 <SEP> asnB <SEP> 38% <SEP> Q61024 <SEP> asparagine <SEP> synthetase <SEP>;<SEP> musculus
<tb> 362 <SEP> mutM <SEP> 89% <SEP> P42371 <SEP> formamidopyrimidine-dna <SEP> glycosylase <SEP>;
<tb> lactis
<tb> 363 <SEP> recA <SEP> 93% <SEP> Q01840 <SEP> reca <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 364 <SEP> ydgB <SEP> 39% <SEP> P96704 <SEP> hypothetical <SEP> transport <SEP> protein <SEP> in <SEP> expz-dinb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 365 <SEP> ydgC <SEP> 40% <SEP> 006005 <SEP> amino <SEP> acid <SEP> permease <SEP> aapa <SEP>;<SEP> subtilis
<tb> 366 <SEP> ydgD <SEP> 25% <SEP> 034412 <SEP> ylbf <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 367 <SEP> ydgE <SEP> putative
<tb>

<Desc / Clms Page number 149>

<tb>
<tb> 368 <SEP> ydgG <SEP> putative
<tb> 369 <SEP> ydgF <SEP> 29% <SEP> 031609 <SEP> yjbk <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 370 <SEP> ydgH <SEP> 32% <SEP> 034535 <SEP>yoat;<SEP> Bacillus <SEP> subtilis
<tb> 371 <SEP> ydgI <SEP> 53% <SEP> 031611 <SEP> yjbm <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 372 <SEP> ydgJ <SEP> 43% <SEP> 031612 <SEP> yjbn <SEP> protein <SEP>;<SEP> subtilis
<tb> 373 <SEP> ydgK <SEP> 42% <SEP> 031613 <SEP> hypothetical <SEP> 31.5 <SEP> kd <SEP> protein <SEP> in <SEP> meca-tena
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 374 <SEP> ppiA <SEP> 39% <SEP> 074942 <SEP> peptidyl <SEP> prolyl <SEP> cis / trans <SEP>isomerase;
<tb> Schizosaccharomyces <SEP> pombe
<tb> 375 <SEP> lysQ <SEP> 47% <SEP> P25737 <SEP> lysine-specific <SEP> permease <SEP>;<SEP> Escherichia <SEP> coli
<tb> 376 <SEP> ydhB <SEP> 31% <SEP> P31465 <SEP> hypothetical <SEP> 20. <SEP> 4 <SEP> kd <SEP> protein <SEP> in <SEP> tnab-bglb
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 377 <SEP> ydhC <SEP> 30% <SEP> 083774 <SEP> thiamine <SEP> biosynthesis <SEP> lipoprotein <SEP> apbe
<tb> precursor <SEP>;<SEP> Treponema <SEP> pallidum
<tb> 378 <SEP> ydhD <SEP> 100% <SEP> Q48713 <SEP> dna <SEP> for <SEP> the <SEP> transposon-like <SEP> element <SEP> on <SEP> the
<tb> lactose <SEP> plasmid <SEP>;<SEP> lactis
<tb> 379 <SEP> tra904D <SEP> 99% <SEP> CAA55220 <SEP> isl069 <SEP>gene;<SEP> Lactococcus <SEP> lactis
<tb> 380 <SEP> ydhE <SEP> 99% <SEP> 032786 <SEP> hypothetical <SEP> 21. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 381 <SEP> tral077C <SEP> 98% <SEP> 032787 <SEP> transposase <SEP>;<SEP> lactis
<tb> 382 <SEP> lysS <SEP> 65% <SEP> P37477 <SEP> lysyl-trna <SEP> synthetase <SEP>;<SEP> subtilis
<tb> 383 <SEP> rlrG <SEP> 29% <SEP> 067145 <SEP> transcriptional <SEP> regulator <SEP>;<SEP> aeolicus
<tb> 384 <SEP> ydhF <SEP> 27% <SEP> P33019 <SEP> hypothetical <SEP> 36. <SEP> 9 <SEP> kd <SEP> protein <SEP> in <SEP> lysp-nfo
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 385 <SEP> ldhB <SEP> 53% <SEP> P13714 <SEP> 1-lactate <SEP> dehydrogenase <SEP>;<SEP> Bacillus <SEP> subtilis
<tb> 386 <SEP> rlrD <SEP> 29% <SEP> 067145 <SEP> transcriptional <SEP>regulator;<SEP> Aquifex <SEP> aeolicus
<tb> 387 <SEP> ydiA <SEP> 23% <SEP> Q58172 <SEP> hypothetical <SEP> protein <SEP>mj0762;<SEP> Methanococcus
<tb> jannaschii
<tb> 388 <SEP> ydiB <SEP> 49% <SEP> 034595 <SEP> probable <SEP> thiamine <SEP> biosynthesis <SEP> protein <SEP>thii;
<tb> Bacillus <SEP> subtilis
<tb> 389 <SEP> ydiC <SEP> 27% <SEP> Q00538 <SEP> methylenomycin <SEP> a <SEP> resistance <SEP> protein <SEP>;<SEP> Bacillus
<tb> subtilis
<tb> 390 <SEP> ydiD <SEP> 39% <SEP> Q9X4K2 <SEP> nadh <SEP> dehydrogenase <SEP>;<SEP> stearothermophilus
<tb> 391 <SEP> ydiE <SEP> 56% <SEP> 031790 <SEP> ymad <SEP> protein <SEP>;<SEP> subtilis
<tb> 392 <SEP> ydiF <SEP> 29% <SEP> P32703 <SEP> putative <SEP> na / h <SEP> exchanger <SEP>yjce;<SEP> Escherichia <SEP> coli
<tb> 393 <SEP> ydiG <SEP> putative
<tb> 394 <SEP> tyrS <SEP> 53% <SEP> P22326 <SEP> tyrosyl-trna <SEP> synthetase <SEP> 1 <SEP>;<SEP> subtilis
<tb> 395 <SEP> pbplB <SEP> 48% <SEP> 070038 <SEP> penicillin-binding <SEP> protein <SEP>1b;<SEP> Streptococcus
<tb> pneumoniae
<tb> 396 <SEP> pepA <SEP> 93% <SEP> Q48677 <SEP>glutamyl-aminopeptidase;<SEP> Lactococcus <SEP> lactis
<tb> 397 <SEP> ydjB <SEP> putative
<tb> 398 <SEP> trxH <SEP> 95% <SEP> Q48676 <SEP> pepa <SEP>gene;<SEP> Lactococcus <SEP> lactis
<tb> 399 <SEP> ydjD <SEP> 45% <SEP> 034943 <SEP>ytpr;<SEP> Bacillus <SEP> subtilis
<tb> 400 <SEP> noxE <SEP> 51% <SEP> 083891 <SEP> nadh <SEP>oxidase;<SEP> Treponema <SEP> pallidum
<tb> 401 <SEP> ssbA <SEP> 49% <SEP> Q9XJE5 <SEP> putative <SEP> single <SEP> stranded <SEP> binding <SEP>protein;
<tb> Bacteriophage <SEP> tuc2009
<tb> 402 <SEP> groES <SEP> 84% <SEP> P37283 <SEP> 10 <SEP> kd <SEP> chaperonin <SEP>;<SEP> lactis
<tb> 403 <SEP> groEL <SEP> 94% <SEP> P37282 <SEP> 60 <SEP> kd <SEP> chaperonin <SEP>;<SEP> lactis
<tb> 404 <SEP> yeaA <SEP> 50% <SEP> Q45611 <SEP> function <SEP> unknown <SEP>;<SEP> subtilis
<tb> 405 <SEP> kinC <SEP> 88% <SEP> 007384 <SEP> histidine <SEP> kinase <SEP>;<SEP> lactis
<tb> 406 <SEP> lrrC <SEP> 87% <SEP> 086269 <SEP> arca <SEP> protein <SEP>;<SEP> lactis
<tb> 407 <SEP> yeaB <SEP> 49% <SEP> P37537 <SEP> thymidylate <SEP> kinase <SEP>;<SEP> subtilis
<tb> 408 <SEP> holB <SEP> 34% <SEP> 067707 <SEP> dna <SEP> polymerase <SEP> iii <SEP> gamma <SEP> subunit <SEP>;
<tb> aeolicus
<tb> 409 <SEP> yeaC <SEP> 37% <SEP> P37541 <SEP> hypothetical <SEP> 31. <SEP> 2 <SEP> kd <SEP> protein <SEP> in <SEP> xpac-abrb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 410 <SEP> yeaD <SEP> 29% <SEP> P37542 <SEP> hypothetical <SEP> 14. <SEP> 1 <SEP> kd <SEP> protein <SEP> in <SEP> xpac-abrb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 411 <SEP> yeaE <SEP> 48% <SEP> P37544 <SEP> hypothetical <SEP> 33. <SEP> 0 <SEP> kd <SEP> protein <SEP> in <SEP> xpac-abrb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 412 <SEP> yeaF <SEP> putative
<tb>

<Desc / Clms Page number 150>

<tb>
<tb> 413 <SEP> yeaG <SEP> 32% <SEP> 059291 <SEP> 335aa <SEP> long <SEP> hypothetical <SEP> protein <SEP>;
<tb> horikoshii
<tb> 414 <SEP> yeaH <SEP> 28% <SEP> P32377 <SEP> diphosphomevalonate <SEP> decarboxylase <SEP>;
<tb> cerevisiae
<tb> 415 <SEP> yebA <SEP> 26% <SEP> 027995 <SEP> mevalonate <SEP> kinase <SEP>;<SEP> fulgidus
<tb> 416 <SEP> yebB <SEP> 84% <SEP> Q48601 <SEP> hypothetical <SEP> 15. <SEP> 1 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 417 <SEP> sodA <SEP> 92% <SEP> P50911 <SEP> superoxide <SEP> dismutase <SEP>[mn];<SEP> Lactococcus <SEP> lactis
<tb> 418 <SEP> cstA <SEP> 47% <SEP> P95095 <SEP> carbon <SEP> starvation <SEP> protein <SEP> a <SEP>homolog;
<tb> Mycobacterium <SEP> tuberculosis
<tb> 419 <SEP> rheB <SEP> 48% <SEP> P54475 <SEP> probable <SEP> rna <SEP> helicase <SEP> in <SEP> ccca-soda <SEP> intergenic
<tb>region;<SEP> Bacillus <SEP> subtilis
<tb> 420 <SEP> yebE <SEP> 32% <SEP> 007474 <SEP> gdmh <SEP>;<SEP> Staphylococcus <SEP> gallinarum
<tb> 421 <SEP> yebF <SEP> 29% <SEP> Q9XOV5 <SEP> transcriptional <SEP> regulator, <SEP> rpir <SEP>family;
<tb> Thermotoga <SEP> maritima
<tb> 422 <SEP> ptcB <SEP> 52% <SEP> P46318 <SEP> pts <SEP> system, <SEP> cellobiose-specific <SEP> iib <SEP>component;
<tb> Bacillus <SEP> subtilis
<tb> 423 <SEP> ptcA <SEP> 43% <SEP> P46319 <SEP> pts <SEP> system, <SEP> cellobiose-specific <SEP> iia <SEP> component
<tb> (eiii-c. <SEP> Bacillus <SEP> subtilis
<tb> 424 <SEP> yecA <SEP> 25% <SEP> Q9ZB19 <SEP> hypothetical <SEP> 27. <SEP> 6 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 425 <SEP> ptcC <SEP> 34% <SEP> P39584 <SEP> hypothetical <SEP> 47.6 <SEP> kd <SEP> protein <SEP> in <SEP> epr-galk
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 426 <SEP> bglA <SEP> 63% <SEP> P42973 <SEP> 6-phospho-beta-glucosidase <SEP>;<SEP> Bacillus <SEP> subtilis
<tb> 427 <SEP> yecD <SEP> putative
<tb> 428 <SEP> ligA <SEP> 52% <SEP> 031498 <SEP> yerg <SEP> protein <SEP>;<SEP> subtilis
<tb> 429 <SEP> yecE <SEP> 50% <SEP> 031502 <SEP> yerq <SEP> protein <SEP>;<SEP> subtilis
<tb> 430 <SEP> msmK <SEP> 73% <SEP> Q00752 <SEP> multiple <SEP> sugar-binding <SEP> transport <SEP> atp-binding
<tb> protein <SEP> msmk <SEP>;<SEP> mutans
<tb> 431 <SEP> nifj <SEP> 55% <SEP> Q9X716 <SEP> pyruvate <SEP> ferredoxin <SEP> oxidoreductase <SEP>;
<tb> pasteurianum
<tb> 432 <SEP> yedA <SEP> 48% <SEP> P47351 <SEP> hypothetical <SEP> protein <SEP>mgl05;<SEP> Mycoplasma
<tb> genitalium
<tb> 433 <SEP> yedB <SEP> 28% <SEP> Q9ZAI5 <SEP> hypothetical <SEP> 34. <SEP> 6 <SEP> kd <SEP> protein <SEP>;
<tb> aureus
<tb> 434 <SEP> femD <SEP> 59% <SEP> 034824 <SEP> ybbt <SEP> protein <SEP>;<SEP> subtilis
<tb> 435 <SEP> rgrA <SEP> 40% <SEP> P39796 <SEP> trehalose <SEP> operon <SEP> transcriptional <SEP>repressor;
<tb> Bacillus <SEP> subtilis
<tb> 436 <SEP> yedE <SEP> 43% <SEP> P12655 <SEP> pts <SEP> system, <SEP> sucrose-specific <SEP> iiabc <SEP> component <SEP> (e.
<tb>

Streptococcus <SEP> mutans
<tb> 437 <SEP> yedF <SEP> 90% <SEP> Q9ZAG2 <SEP> hypothetical <SEP> 35. <SEP> 3 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 438 <SEP> yeeA <SEP> 99% <SEP> Q9ZAGO <SEP> hypothetical <SEP> 87.3 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 439 <SEP> pgmB <SEP> 99% <SEP> P71447 <SEP>beta-phosphoglucomutase;<SEP> Lactococcus <SEP> lactis
<tb> 440 <SEP> yeeB <SEP> 27% <SEP> P26223 <SEP> endo-1,4-beta-xylanase <SEP>b;<SEP> Butyrivibrio
<tb> fibrisolvens
<tb> 441 <SEP> yeeC <SEP> putative
<tb> 442 <SEP> yeeD <SEP> putative
<tb> 443 <SEP> yeeE <SEP> 43% <SEP> 005515 <SEP> hypothetical <SEP> 17. <SEP> 9 <SEP> kd <SEP> protein <SEP> in <SEP> phob-groes
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 444 <SEP> yeeF <SEP> 31% <SEP> Q9WZ46 <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;
<tb> maritima
<tb> 445 <SEP> yeeG <SEP> 27% <SEP> P96499 <SEP> putative <SEP> transcriptional <SEP> regulator <SEP>;
<tb> subtilis
<tb> 446 <SEP> pi101 <SEP> 39% <SEP> Q38325 <SEP> integrase <SEP>;<SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 447 <SEP> pil02 <SEP> 66% <SEP> Q38183 <SEP> orf <SEP> 3 <SEP>;<SEP> Bacteriophagetp901-l
<tb> 448 <SEP> pil03 <SEP> 97% <SEP> Q38089 <SEP> repressor <SEP> protein <SEP>;<SEP> Bacteriophagerlt
<tb> 449 <SEP> pil04 <SEP> 94% <SEP> Q38328 <SEP> cro <SEP> repressor <SEP> protein <SEP>;<SEP> lactis <SEP> phage
<tb> bk5-t
<tb> 450 <SEP> pil05 <SEP> putative
<tb>

<Desc / Clms Page number 151>

<tb>
<tb> 451 <SEP> pil06 <SEP> putative
<tb> 452 <SEP> pil07 <SEP> 100% <SEP> Q38090 <SEP> integrase, <SEP> repressor <SEP> protein <SEP>, <SEP> dutpase, <SEP> holin
<tb> and <SEP> lysin <SEP> genes, <SEP> complete <SEP> cds <SEP>;<SEP> Bacteriophage <SEP> rlt
<tb> 453 <SEP> pil08 <SEP> 40% <SEP> P44189 <SEP> hypothetical <SEP> protein <SEP>hil418;<SEP> Haemophilus
<tb> influenzae
<tb> 454 <SEP> pil09 <SEP> 75% <SEP> Q38092 <SEP> orf6 <SEP>;<SEP> Bacteriophagerlt
<tb> 455 <SEP> pillO <SEP> 96% <SEP> Q38094 <SEP> orf8 <SEP>;<SEP> Bacteriophagerlt
<tb> 456 <SEP> pilll <SEP> 45% <SEP> CAB53838 <SEP> putative <SEP> recombinase <SEP>;<SEP> Bacteriophageall8
<tb> 457 <SEP> pill2 <SEP> putative
<tb> 458 <SEP> pill3 <SEP> 52% <SEP> Q9XJE6 <SEP> putative <SEP> replisome <SEP> organize <SEP>protein;
<tb> Bacteriophage <SEP> tuc2009
<tb> 459 <SEP> pill4 <SEP> 36% <SEP> 003914 <SEP> zinc <SEP> finger <SEP> protein <SEP>;<SEP> phigle
<tb> 460 <SEP> pill5 <SEP> putative
<tb> 461 <SEP> pill6 <SEP> 43% <SEP> Q9XJF1 <SEP> hypothetical <SEP> 22. <SEP> 4 <SEP> kd <SEP> protein <SEP>;
<tb> tuc2009
<tb> 462 <SEP> pill7 <SEP> putative
<tb> 463 <SEP> pill8 <SEP> putative
<tb> 464 <SEP> pill9 <SEP> 72% <SEP> Q9XJF3 <SEP> hypothetical <SEP> 14. <SEP> 3 <SEP> kd <SEP> protein <SEP>;
<tb> tuc2009
<tb> 465 <SEP> pil20 <SEP> 97% <SEP> Q38106 <SEP> dutpase <SEP>;<SEP> Bacteriophagerlt
<tb> 466 <SEP> pil21 <SEP> putative
<tb> 467 <SEP> pil22 <SEP> putative
<tb> 468 <SEP> pil23 <SEP> putative
<tb> 469 <SEP> pil24 <SEP> putative
<tb> 470 <SEP> pil25 <SEP> putative
<tb> 471 <SEP> pil26 <SEP> 85% <SEP> 053058 <SEP> hypothetical <SEP> 11. <SEP> 0 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 472 <SEP> pil27 <SEP> 41% <SEP> 034051 <SEP> orf20 <SEP>;<SEP> thermophilus
<tb> 473 <SEP> pil28 <SEP> 32% <SEP> 053058 <SEP> hypothetical <SEP> 11. <SEP> 0 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 474 <SEP> pil29 <SEP> 40% <SEP> Q05277 <SEP> gene <SEP> 64 <SEP> protein <SEP>;<SEP> 15
<tb> 475 <SEP> pil30 <SEP> putative
<tb> 476 <SEP> pil31 <SEP> 68% <SEP> 053060 <SEP> hypothetical <SEP> 16. <SEP> 9 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 477 <SEP> pil32 <SEP> putative
<tb> 478 <SEP> pil33 <SEP> 45% <SEP> Q9XJ95 <SEP> hypothetical <SEP> 17. <SEP> 4 <SEP> kd <SEP> protein <SEP>;
<tb> thermophilus <SEP> bacteriophage <SEP> dtl
<tb> 479 <SEP> pil34 <SEP> 37% <SEP> Q9XJ75 <SEP> orf623 <SEP> gp <SEP>;<SEP> thermophilus
<tb> bacteriophage <SEP> sfi21
<tb> 480 <SEP> pil35 <SEP> 31% <SEP> CAB52519 <SEP> hypothetical <SEP> 43. <SEP> 3 <SEP> kd <SEP> protein <SEP>;
<tb> bacteriophage <SEP> phi <SEP> adh
<tb> 481 <SEP> pil36 <SEP> 36% <SEP> Q9ZXF7 <SEP> orf26 <SEP>;<SEP> Bacteriophagephi-105
<tb> 482 <SEP> pil37 <SEP> 24% <SEP> 080046 <SEP> capsid <SEP> protein <SEP>;<SEP> Bacteriophage <SEP> phi <SEP> pvl
<tb> 483 <SEP> pil38 <SEP> putative
<tb> 484 <SEP> pil39 <SEP> 33% <SEP> 064288 <SEP> hypothetical <SEP> 13. <SEP> 5 <SEP> kd <SEP> protein <SEP>;
<tb> thermophilus <SEP> bacteriophage <SEP> sfil9
<tb> 485 <SEP> pil40 <SEP> 42% <SEP> Q38219 <SEP> orfa <SEP>;<SEP> 110
<tb> 486 <SEP> pil41 <SEP> 31% <SEP> Q38220 <SEP> orfi <SEP>;<SEP> 110
<tb> 487 <SEP> pil42 <SEP> 46% <SEP> 036159 <SEP> small <SEP> major <SEP> structural <SEP> protein <SEP>;
<tb> phage <SEP> phi7201
<tb> 488 <SEP> pil43 <SEP> putative
<tb> 489 <SEP> pil44 <SEP> 40% <SEP> P45931 <SEP> hypothetical <SEP> 171. <SEP> 0 <SEP> kd <SEP> protein <SEP> in <SEP> spoiiic-cwla
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 490 <SEP> pil45 <SEP> 38% <SEP> Q38318 <SEP>orf'410<SEP>;<SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 491 <SEP> pil46 <SEP> 51% <SEP> Q38319 <SEP>orfl904;<SEP> Lactococcus <SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 492 <SEP> pil47 <SEP> putative
<tb> 493 <SEP> pil48 <SEP> 98% <SEP> Q38322 <SEP> orf95 <SEP>;<SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 494 <SEP> pil49 <SEP> 97% <SEP> Q38323 <SEP> orf259 <SEP>;<SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 495 <SEP> yeiD <SEP> putative
<tb> 496 <SEP> truA <SEP> 43% <SEP> Q9Z9JO <SEP> trua <SEP> protein <SEP>;<SEP> sp
<tb>

<Desc / Clms Page number 152>

<tb>
<tb> 497 <SEP> thiD2 <SEP> 37% <SEP> 023128 <SEP> probable <SEP> thiamin <SEP> biosynthetic <SEP>enzyme;
<tb> Arabidopsis <SEP> thaliana
<tb> 498 <SEP> yeiE <SEP> 33% <SEP> P20298 <SEP> hypothetical <SEP> protein <SEP> in <SEP> gapdh <SEP>3'region;
<tb> Pyrococcus <SEP> woesei
<tb> 499 <SEP> yeiF <SEP> 44% <SEP> P39157 <SEP> hypothetical <SEP> 19.4 <SEP> kd <SEP> protein <SEP> in <SEP> spoiir-glyc
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 500 <SEP> yeiG <SEP> 35% <SEP> Q59569 <SEP> aspartate <SEP>aminotransferase;<SEP> Methanobacterium
<tb> thermoformicicum
<tb> 501 <SEP> pyrG <SEP> 94% <SEP> 087761 <SEP> ctp <SEP> synthetase <SEP>;<SEP> lactis
<tb> 502 <SEP> hicD <SEP> 38% <SEP> P14295 <SEP> 1-2-hydroxyisocaproate <SEP> dehydrogenase <SEP>;
<tb> Lactobacillus <SEP> confused
<tb> 503 <SEP> yejC <SEP> 36% <SEP> 086314 <SEP> hypothetical <SEP> 20. <SEP> 4 <SEP> kd <SEP>protein;<SEP> Mycobacterium
<tb> tuberculosis
<tb> 504 <SEP> yejD <SEP> 27% <SEP> G1017854 <SEP> nucleoside <SEP> 2-deoxyribosyltransferase = ntd <SEP> product
<tb> [ec <SEP>2.4.2.6};<SEP> Escherichia <SEP> coli
<tb> 505 <SEP> yejE <SEP> 29% <SEP> 006986 <SEP> hypothetical <SEP> 21. <SEP> 1 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 506 <SEP> dgk <SEP> 62% <SEP> Q59484 <SEP> bifunctional <SEP> deoxy-adenosine / guanosine <SEP> kinase
<tb> subunit <SEP> 2 <SEP> [includes: <SEP> deoxyguanosine <SEP> kinase <SEP>;<SEP>
<tb> deoxyadenosine <SEP> kinase <SEP>];<SEP> Lactobacillus
<tb> acidophilus
<tb> 507 <SEP> dnaE <SEP> 33% <SEP> 034623 <SEP> dna <SEP> polymerase <SEP> iii, <SEP> alpha <SEP>chain;<SEP> Bacillus
<tb> subtilis
<tb> 508 <SEP> hly <SEP> 38% <SEP> P54176 <SEP> hemolysin <SEP>iii;<SEP> Bacillus <SEP> cereus
<tb> 509 <SEP> yejH <SEP> 39% <SEP> Q53667 <SEP> hypothetical <SEP> 21. <SEP> 2 <SEP> kd <SEP>protein;<SEP> Staphylococcus
<tb> aureus
<tb> 510 <SEP> yejI <SEP> 44% <SEP> P96043 <SEP> hypothetical <SEP> 31. <SEP> 7 <SEP> kd <SEP> protein <SEP>;
<tb> thermophilus
<tb> 511 <SEP> yejJ <SEP> 31% <SEP> 082840 <SEP> beta-n-acetylglucosaminidase <SEP>precursor;
<tb> Streptomyces <SEP> thermoviolaceus
<tb> 512 <SEP> yfaA <SEP> 34% <SEP> P54179 <SEP> hypothetical <SEP> 21. <SEP> 1 <SEP> kd <SEP> protein <SEP> in <SEP> ilva <SEP> 3 'region;
<tb> Bacillus <SEP> subtilis
<tb> 513 <SEP> hslA <SEP> 78% <SEP> Q9XB20 <SEP> histone-like <SEP> dna-binding <SEP> protein <SEP>;
<tb> gordonii
<tb> 514 <SEP> ps201 <SEP> 33% <SEP> 054477 <SEP> integrase <SEP>;<SEP> Staphylococcus <SEP> aureus
<tb> 515 <SEP> ps202 <SEP> putative
<tb> 516 <SEP> ps203 <SEP> putative
<tb> 517 <SEP> ps204 <SEP> 36% <SEP> AAF12709 <SEP> hypothetical <SEP> 21. <SEP> 8 <SEP> kd <SEP> protein <SEP>;
<tb> tpw22
<tb> 518 <SEP> ps205 <SEP> 53% <SEP> AAF12710 <SEP> repressor <SEP> protein <SEP>;<SEP> tpw22
<tb> 519 <SEP> ps206 <SEP> 40% <SEP> CAB52490 <SEP> hypothetical <SEP> 7. <SEP> 4 <SEP> kd <SEP> protein <SEP>;
<tb> bacteriophage <SEP> phi <SEP> adh
<tb> 520 <SEP> ps207 <SEP> 50% <SEP> Q54879 <SEP> excisionase <SEP>;<SEP> pneumoniae
<tb> 521 <SEP> ps208 <SEP> putative
<tb> 522 <SEP> ps209 <SEP> putative
<tb> 523 <SEP> ps210 <SEP> putative
<tb> 524 <SEP> ps211 <SEP> putative
<tb> 525 <SEP> ps212 <SEP> putative
<tb> 526 <SEP> ps213 <SEP> putative
<tb> 527 <SEP> ps214 <SEP> putative
<tb> 528 <SEP> ps215 <SEP> 32% <SEP> 054471 <SEP>orfll;<SEP> Staphylococcus <SEP> aureus
<tb> 529 <SEP> ps216 <SEP> putative
<tb> 530 <SEP> yfbB <SEP> putative
<tb> 531 <SEP> ps218 <SEP> putative
<tb> 532 <SEP> ps219 <SEP> 37% <SEP> Q9ZXB1 <SEP> gp35 <SEP>;<SEP> Bacteriophage <SEP> phi-c31
<tb> 533 <SEP> ps220 <SEP> putative
<tb> 534 <SEP> ps221 <SEP> putative
<tb> 535 <SEP> yfbG <SEP> putative
<tb> 536 <SEP> yfbH <SEP> putative
<tb> 537 <SEP> yfbI <SEP> putative
<tb> 538 <SEP> yfbJ <SEP> putative
<tb> 539 <SEP> yfbK <SEP> putative
<tb>

<Desc / Clms Page number 153>

<tb>
<tb> 540 <SEP> cspD <SEP> 93% <SEP> Q9ZAHO <SEP> cold <SEP> shock <SEP> protein <SEP>d;<SEP> Lactococcus <SEP> lactis
<tb> 541 <SEP> yfbM <SEP> 29% <SEP> 032075 <SEP> yuai <SEP> protein <SEP>;<SEP> subtilis
<tb> 542 <SEP> ogt <SEP> 48% <SEP> Q9ZBT7 <SEP> putative <SEP> methylated-dna-protein-cysteine
<tb> methyltransferase <SEP>;<SEP> Streptomyces <SEP> coelicolor
<tb> 543 <SEP> adaA <SEP> 42% <SEP> P19219 <SEP> methylphosphotriester-dna <SEP>alkyltransferase;
<tb> Bacillus <SEP> subtilis
<tb> 544 <SEP> yfcA <SEP> 37% <SEP> P08720 <SEP> nodulation <SEP> atp-binding <SEP> protein <SEP>i;<SEP> Rhizobium
<tb> leguminosarum
<tb> 545 <SEP> yfcB <SEP> putative
<tb> 546 <SEP> yfcC <SEP> 27% <SEP> Q9WWI2 <SEP> alginate <SEP> biosynthesis <SEP> regulatory <SEP>protein;
<tb> Pseudomonas <SEP> syringae
<tb> 547 <SEP> yfcD <SEP> putative
<tb> 548 <SEP> yfcE <SEP> 53% <SEP> P31672 <SEP> nifs <SEP> protein <SEP> homolog <SEP>;<SEP> delbrueckii
<tb> 549 <SEP> yfcF <SEP> 38% <SEP> 006969 <SEP> hypothetical <SEP> 51. <SEP> 0 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 550 <SEP> yfcG <SEP> 93% <SEP> CAB61245 <SEP> lipoprotein <SEP> precursor <SEP>;<SEP> lactis
<tb> 551 <SEP> cysM <SEP> 66% <SEP> BAA88310 <SEP> o-acetylserine <SEP>lyase;<SEP> Streptococcus <SEP> am
<tb> 552 <SEP> yfcH <SEP> 35% <SEP> P37710 <SEP> autolysin <SEP>;<SEP> faecalis
<tb> 553 <SEP> yfcI <SEP> 45% <SEP> P54501 <SEP> hypothetical <SEP> 23. <SEP> 2 <SEP> kd <SEP> protein <SEP> in <SEP> soda-comga
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 554 <SEP> ponA <SEP> 53% <SEP> Q00573 <SEP> penicillin-binding <SEP> protein <SEP> the <SEP>;
<tb> oralis
<tb> 555 <SEP> yfdA <SEP> 72% <SEP> Q00579 <SEP> hypothetical <SEP> 23. <SEP> 1 <SEP> kd <SEP> protein <SEP> in <SEP> pona <SEP> 5 'region;
<tb> Streptococcus <SEP> oralis
<tb> 556 <SEP> yfdB <SEP> 40% <SEP> P50838 <SEP> hypothetical <SEP> 21. <SEP> 1 <SEP> kd <SEP> protein <SEP> in <SEP> cotd-kdud
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 557 <SEP> yfdC <SEP> 57% <SEP> 031602 <SEP> yjbd <SEP> protein <SEP>;<SEP> subtilis
<tb> 558 <SEP> yfdD <SEP> 44% <SEP> Q45497 <SEP> hypothetical <SEP> 10. <SEP> 5 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 559 <SEP> yfdE <SEP> 37% <SEP> Q45499 <SEP> extragenic <SEP> suppressor <SEP> protein <SEP> suhb <SEP>homolog;
<tb> Bacillus <SEP> subtilis
<tb> 560 <SEP> murA2 <SEP> 55% <SEP> P70965 <SEP> udp-n-acetylglucosamine <SEP>1carboxyvinyltransferase;<SEP> Bacillus <SEP> subtilis
<tb> 561 <SEP> yfdG <SEP> putative
<tb> 562 <SEP> tig <SEP> 63% <SEP> 085730 <SEP> ropa <SEP>;<SEP> pyogenes
<tb> 563 <SEP> dnaG <SEP> 96% <SEP> Q04505 <SEP> dna <SEP> primase <SEP>;<SEP> lactis
<tb> 564 <SEP> rpoD <SEP> 96% <SEP> Q04506 <SEP> rna <SEP> polymerase <SEP> sigma <SEP> factor <SEP> rpod <SEP>;
<tb> lactis
<tb> 565 <SEP> yfeA <SEP> 35% <SEP> Q9ZB19 <SEP> hypothetical <SEP> 27. <SEP> 6 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 566 <SEP> glpT <SEP> 91% <SEP> Q48705 <SEP> hexose <SEP> phosphate <SEP>transport;<SEP> Lactococcus <SEP> lactis
<tb> 567 <SEP> yffA <SEP> putative
<tb> 568 <SEP> clpE <SEP> 94% <SEP> AAD01782 <SEP> clpe <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 569 <SEP> yffB <SEP> 96% <SEP> Q48660 <SEP> hypothetical <SEP> 17. <SEP> 4 <SEP> kd <SEP> protein <SEP> in <SEP> clpa-gap
<tb> intergenic <SEP>region;<SEP> Lactococcus <SEP> lactis
<tb> 570 <SEP> gapA <SEP> 97% <SEP> P52987 <SEP> glyceraldehyde <SEP> 3-phosphate <SEP>dehydrogenase;
<tb> Lactococcus <SEP> lactis
<tb> 571 <SEP> def <SEP> 99% <SEP> Q48661 <SEP>orf211;<SEP> Lactococcus <SEP> lactis
<tb> 572 <SEP> yffD <SEP> 45% <SEP> Q9ZJZ8 <SEP> putative <SEP> dgtp <SEP>pyrophosphohydrolase;
<tb> Helicobacter <SEP> pylori <SEP> j99
<tb> 573 <SEP> uvrB <SEP> 80% <SEP> Q54986 <SEP> excinuclease <SEP> abc <SEP> subunit <SEP>b;<SEP> Streptococcus
<tb> pneumoniae
<tb> 574 <SEP> gltS <SEP> 39% <SEP> P54535 <SEP> probable <SEP> amino-acid <SEP> abc <SEP> transporter <SEP> binding
<tb> protein <SEP> in <SEP> bmru-ansr <SEP> intergenic <SEP> region
<tb> precursor <SEP>;<SEP> Bacillus <SEP> subtilis
<tb> 575 <SEP> argE <SEP> 25% <SEP> Q9ZEYO <SEP> succinyl-diaminopimelate <SEP>desuccinylase;
<tb> Listeria <SEP> monocytogenes
<tb> 576 <SEP> fabZl <SEP> 48% <SEP> P94584 <SEP> similar <SEP> to <SEP> hydroxymyristoyl- <SEP>dehydratase;
<tb> Bacillus <SEP> subtilis
<tb> 577 <SEP> fabI <SEP> 44% <SEP> 031621 <SEP> yjbw <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 578 <SEP> yfgC <SEP> 31% <SEP> AAD45617 <SEP> la a; <SEP> Lactococcus <SEP> lactis
<tb> 579 <SEP> yfgE <SEP> 36% <SEP> AAD45618 <SEP>lacf;<SEP> Lactococcus <SEP> lactis
<tb> 580 <SEP> yfgF <SEP> 28% <SEP> AAD45621 <SEP> lacg <SEP>;<SEP> lactis
<tb>

<Desc / Clms Page number 154>

<tb>
<tb> 581 <SEP> yfgG <SEP> 39% <SEP> AAF03934 <SEP> membrane <SEP> protein <SEP> homolog <SEP>;<SEP> monocytogenes
<tb> 582 <SEP> yfgH <SEP> 25% <SEP> Q9Z2M7 <SEP> phosphomannomutase <SEP>;<SEP> musculus
<tb> 583 <SEP> yfgL <SEP> 30% <SEP> Q44655 <SEP> membrane <SEP> protein <SEP>;<SEP> acidopullulyticus
<tb> 584 <SEP> dfpA <SEP> 64% <SEP> Q54433 <SEP> dna / pantothenate <SEP> metabolism <SEP> flavoprotein
<tb> homolog <SEP>;<SEP> Streptococcus <SEP> mutans
<tb> 585 <SEP> dfpB <SEP> 28% <SEP> 027284 <SEP> pantothenate <SEP> metabolism <SEP>flavoprotein;
<tb> Methanobacterium <SEP> thermoautotrophicum
<tb> 586 <SEP> xylH <SEP> 35% <SEP> Q9ZI54 <SEP> 4-oxalocrotonate <SEP> isomerase <SEP>;<SEP> stutzeri
<tb> 587 <SEP> yfgQ <SEP> 35% <SEP> Q9Z4W5 <SEP> putative <SEP> integral <SEP> membrane <SEP> atpase <SEP>;
<tb> coelicolor
<tb> 588 <SEP> yfhA <SEP> 39% <SEP> P09163 <SEP> hypothetical <SEP> 16. <SEP> 4 <SEP> kd <SEP> protein <SEP> in <SEP> rrfe-meta
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 589 <SEP> yfhB <SEP> 35% <SEP> 007859 <SEP> putative <SEP> membrane <SEP> protein <SEP>;
<tb> epidermidis
<tb> 590 <SEP> yfhC <SEP> putative
<tb> 591 <SEP> crtK <SEP> 33% <SEP> AAF01195 <SEP> tspo <SEP>;<SEP> Rhizobium <SEP> meliloti
<tb> 592 <SEP> yfhF <SEP> 28% <SEP> 041106 <SEP> a624r <SEP> protein <SEP>;<SEP> bursaria <SEP> chlorella
<tb> virus <SEP> 1
<tb> 593 <SEP> yfhG <SEP> 30% <SEP> AAF09965 <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;
<tb> radiodurans
<tb> 594 <SEP> yfhH <SEP> 30% <SEP> 053731 <SEP> hypothetical <SEP> 28. <SEP> 3 <SEP> kd <SEP> protein <SEP>;
<tb> tuberculosis
<tb> 595 <SEP> yfhI <SEP> putative
<tb> 596 <SEP> yfhJ <SEP> putative
<tb> 597 <SEP> yfhK <SEP> 34% <SEP> P94425 <SEP> hypothetical <SEP> 10. <SEP> 9 <SEP> kd <SEP> protein <SEP> in <SEP> phrc-gdh
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 598 <SEP> yfhL <SEP> 30% <SEP> CAB49143 <SEP> hypothetical <SEP> 23. <SEP> 5 <SEP> kd <SEP>protein;<SEP> Pyrococcus <SEP> abyssi
<tb> 599 <SEP> yfiA <SEP> 75% <SEP> 087254 <SEP> hypothetical <SEP> 11. <SEP> 0 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 600 <SEP> umuC <SEP> 89% <SEP> 087253 <SEP> conserved <SEP> hypothetical <SEP> protein, <SEP>orfu;
<tb> Lactococcus <SEP> lactis
<tb> 601 <SEP> yfiC <SEP> 32% <SEP> P13018 <SEP> streptothricin <SEP>acetyltransferase;<SEP> Escherichia
<tb> coli
<tb> 602 <SEP> yfiD <SEP> 20% <SEP> 002244 <SEP> unc-54 <SEP> protein <SEP>;<SEP> elegans
<tb> 603 <SEP> yfiB <SEP> 45% <SEP> 034777 <SEP> ykma <SEP>;<SEP> subtilis
<tb> 604 <SEP> yfiE <SEP> 37% <SEP> 034762 <SEP>ykla;<SEP> Bacillus <SEP> subtilis
<tb> 605 <SEP> yfiG <SEP> 78% <SEP> P47848 <SEP> thymidine <SEP> kinase <SEP>;<SEP> gordonii <SEP> challis
<tb> 606 <SEP> yfiH <SEP> putative
<tb> 607 <SEP> prfA <SEP> 56% <SEP> P45872 <SEP> peptide <SEP> chain <SEP> release <SEP> factor <SEP> 1 <SEP>;
<tb> subtilis
<tb> 608 <SEP> yfiI <SEP> putative
<tb> 609 <SEP> yfiJ <SEP> 40% <SEP> P39605 <SEP> hypothetical <SEP> 28. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> qoxd-vpr
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 610 <SEP> hemK <SEP> 37% <SEP> P45873 <SEP> hemk <SEP> protein <SEP> homolog <SEP>;<SEP> subtilis
<tb> 611 <SEP> yfiL <SEP> 29% <SEP> 032248 <SEP> yvbk <SEP> protein <SEP>;<SEP> subtilis
<tb> 612 <SEP> yfjA <SEP> 36% <SEP> 073972 <SEP> 340aa <SEP> long <SEP> hypothetical <SEP> protein <SEP>;
<tb> Pyrococcushorikoshii
<tb> 613 <SEP> glyA <SEP> 61% <SEP> P39148 <SEP> serine <SEP> hydroxymethyltransferase <SEP>;
<tb> subtilis
<tb> 614 <SEP> yfjB <SEP> 39% <SEP> AAF13613 <SEP> pxo2-08 <SEP>;<SEP> anthracis
<tb> 615 <SEP> serC <SEP> 50% <SEP> AAD47359 <SEP> 3-phosphoserine <SEP>aminotransferase;<SEP> Pseudomonas
<tb> stutzeri
<tb> 616 <SEP> serA <SEP> 35% <SEP> AAD51415 <SEP> 3-phosphoglycerate <SEP> dehydrogenase <SEP>;<SEP> sapiens
<tb> 617 <SEP> serB <SEP> 46% <SEP> CAB50876 <SEP> putative <SEP> phosphoserine <SEP>phosphatase;
<tb> Streptomyces <SEP> coelicolor
<tb> 618 <SEP> yfjC <SEP> 47% <SEP> 035031 <SEP> putative <SEP> acylphosphatase <SEP>;<SEP> subtilis
<tb> 619 <SEP> yfjD <SEP> 42% <SEP> P94538 <SEP> hypothetical <SEP> 26. <SEP> 9 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 620 <SEP> yfjE <SEP> 43% <SEP> 034589 <SEP> probable <SEP> flavodoxin <SEP> 2 <SEP>;<SEP> subtilis
<tb> 621 <SEP> yfjF <SEP> 31% <SEP> CAB61606 <SEP> putative <SEP> export <SEP>protein;<SEP> Streptomyces
<tb> coelicolor
<tb>

<Desc / Clms Page number 155>

<tb>
<tb> 622 <SEP> yfjG <SEP> 36% <SEP> 050423 <SEP> transcriptional <SEP> regulator <SEP>;
<tb> tuberculosis
<tb> 623 <SEP> yfjH <SEP> putative
<tb> 624 <SEP> pepM <SEP> 51% <SEP> 088076 <SEP> methionine <SEP> aminopeptidase <SEP> a <SEP>;
<tb> Enterococcusfaecalis
<tb> 625 <SEP> ygaB <SEP> 35% <SEP> 088169 <SEP> orfde2 <SEP>;<SEP> faecalis
<tb> 626 <SEP> ygaC <SEP> 27% <SEP> AAD54224 <SEP>mesh;<SEP> Leuconostoc <SEP> mesenteroides
<tb> 627 <SEP> ygaD <SEP> putative
<tb> 628 <SEP> ygaE <SEP> putative
<tb> 629 <SEP> ygaF <SEP> putative
<tb> 630 <SEP> ptsK <SEP> 65% <SEP> Q9ZA56 <SEP> putative <SEP> hpr <SEP> kinase <SEP>;<SEP> mutans
<tb> 631 <SEP> lgt <SEP> 65% <SEP> P72482 <SEP> prolipoprotein <SEP> diacylglyceryl <SEP>transferase;
<tb> Streptococcus <SEP> mutans
<tb> 632 <SEP> ygaI <SEP> 44% <SEP> Q9ZA55 <SEP> hypothetical <SEP> 14. <SEP> 4 <SEP> kd <SEP>protein;<SEP> Streptococcus
<tb> mutans
<tb> 633 <SEP> ygaJ <SEP> 76% <SEP> P96788 <SEP> hypothetical <SEP> 20. <SEP> 6 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 634 <SEP> gnd <SEP> 98% <SEP> P96789 <SEP> 6-phosphogluconate <SEP>dehydrogenase;<SEP> Lactococcus
<tb> lactis
<tb> 635 <SEP> kupl <SEP> 80% <SEP> P96790 <SEP> potassium <SEP> transporter <SEP>homolog;<SEP> Lactococcus
<tb> lactis
<tb> 636 <SEP> kup2 <SEP> 31% <SEP> P76748 <SEP> from <SEP> bases <SEP> 3920310 <SEP> to <SEP> 3930455 <SEP> of <SEP> the <SEP> complete
<tb>genome;<SEP> Escherichia <SEP> coli
<tb> 637 <SEP> ygbB <SEP> 30% <SEP> P54478 <SEP> hypothetical <SEP> 32. <SEP> 5 <SEP> kd <SEP> protein <SEP> in <SEP> ccca-soda
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 638 <SEP> miaA <SEP> 45% <SEP> 031795 <SEP> trna <SEP> delta-isopentenylpyrophosphate <SEP>transferase;
<tb> Bacillus <SEP> subtilis
<tb> 639 <SEP> ygbD <SEP> putative
<tb> 640 <SEP> ygbE <SEP> 44% <SEP> AAF03497 <SEP> t22n4.8 <SEP>protein;<SEP> Arabidopsis <SEP> thaliana
<tb> 641 <SEP> ygbF <SEP> putative
<tb> 642 <SEP> ygbG <SEP> 50% <SEP> P54548 <SEP> hypothetical <SEP> 34. <SEP> 0 <SEP> kd <SEP> protein <SEP> in <SEP> glnq-ansr
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 643 <SEP> ygcA <SEP> 33% <SEP> P54554 <SEP> hypothetical <SEP> oxidoreductase <SEP> in <SEP> ansr-bmru
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 644 <SEP> recJ <SEP> 36% <SEP> 032044 <SEP> yrve <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 645 <SEP> apt <SEP> 67% <SEP> 034443 <SEP> adenine <SEP>phosphoribosyltransferase;<SEP> Bacillus
<tb> subtilis
<tb> 646 <SEP> rpoE <SEP> 36% <SEP> P12464 <SEP> dna-directed <SEP> rna <SEP> polymerase <SEP> delta <SEP>subunit;
<tb> Bacillus <SEP> subtilis
<tb> 647 <SEP> ygcC <SEP> 36% <SEP> 034758 <SEP> yrrl <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 648 <SEP> greA <SEP> 58% <SEP> P80240 <SEP> transcription <SEP> elongation <SEP> factor <SEP> gr a; <SEP> Bacillus
<tb> subtilis
<tb> 649 <SEP> tra904E <SEP> 100% <SEP> CAA55220 <SEP> is1069 <SEP> g ne; <SEP> Lactococcus <SEP> lactis
<tb> 650 <SEP> ygcD <SEP> 100% <SEP> Q48713 <SEP> dna <SEP> for <SEP> the <SEP> transposon-like <SEP> element <SEP> on <SEP> the
<tb> lactose <SEP>plasmid;<SEP> Lactococcus <SEP> lactis
<tb> 651 <SEP> tral077D <SEP> 98% <SEP> 032787 <SEP>transposase;<SEP> Lactococcus <SEP> lactis
<tb> 652 <SEP> ygcE <SEP> 100% <SEP> 032786 <SEP> hypothetical <SEP> 21. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 653 <SEP> ctsR <SEP> 46% <SEP> Q48757 <SEP> clpc <SEP>atpase;<SEP> Listeria <SEP> monocytogenes
<tb> 654 <SEP> clpC <SEP> 90% <SEP> Q9ZIL9 <SEP>clpc;<SEP> Lactococcus <SEP> lactis
<tb> 655 <SEP> ygdA <SEP> 51% <SEP> P28368 <SEP> hypothetical <SEP> 22. <SEP> 0 <SEP> kd <SEP> protein <SEP> in <SEP> flit-seca
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 656 <SEP> enoA <SEP> 87% <SEP> Q9XDS7 <SEP>enolase;<SEP> Streptococcus <SEP> intermedius
<tb> 657 <SEP> xerD <SEP> 29% <SEP> 026979 <SEP> integrase-recombinase <SEP> protein <SEP>;
<tb> thermoautotrophicum
<tb> 658 <SEP> ygdC <SEP> putative
<tb> 659 <SEP> ygdD <SEP> putative
<tb> 660 <SEP> ygdF <SEP> putative
<tb> 661 <SEP> ygdE <SEP> putative
<tb> 662 <SEP> tra982 <SEP> 92% <SEP> 087349 <SEP> putative <SEP> transposase <SEP>;<SEP> lactis
<tb> 663 <SEP> hsdR <SEP> 98% <SEP> 068167 <SEP>hsdr;<SEP> Lactococcus <SEP> lactis
<tb>

<Desc / Clms Page number 156>

<tb>
<tb> 664 <SEP> hsdM <SEP> 100% <SEP> 068168 <SEP> hsdm <SEP>;<SEP> Lactococcuslactis
<tb> 665 <SEP> hsdS <SEP> 100% <SEP> 068169 <SEP> hsds <SEP>;<SEP> lactis
<tb> 666 <SEP> ygeA <SEP> 90% <SEP> 068170 <SEP> is982 <SEP> transposase <SEP> homolog <SEP>;<SEP> Lactococcuslactis
<tb> 667 <SEP> ygeB <SEP> putative
<tb> 668 <SEP> ygeC <SEP> putative
<tb> 669 <SEP> ygeD <SEP> 27% <SEP> Q9YVT6 <SEP> orf <SEP> msvl56 <SEP> hypothetical <SEP>protein;<SEP> Melanoplus
<tb> sanguinipes <SEP> entomopoxvirus
<tb> 670 <SEP> tra981C <SEP> 86% <SEP> Q48668 <SEP> insertion <SEP> s quence <SEP> is981 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 671 <SEP> ygfF <SEP> 96% <SEP> Q48667 <SEP> insertion <SEP> s quence <SEP> is981 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 672 <SEP> ygfA <SEP> 39% <SEP> Q9WZG4 <SEP> abc <SEP> transporter, <SEP> atp-binding <SEP>protein;
<tb> Thermotoga <SEP> maritima
<tb> 673 <SEP> ygfB <SEP> 23% <SEP> AAF12525 <SEP> hypothetical <SEP> 37. <SEP> 1 <SEP> kd <SEP>protein;<SEP> Deinococcus
<tb> radiodurans
<tb> 674 <SEP> ygfC <SEP> 30% <SEP> P96701 <SEP> ydgc <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 675 <SEP> fadD <SEP> 25% <SEP> P29212 <SEP> long-chain-fatty-acid - coa <SEP>ligase;<SEP> Escherichia
<tb> coli
<tb> 676 <SEP> ygfE <SEP> 96% <SEP> 032796 <SEP> orfa <SEP> protein <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 677 <SEP> pfl <SEP> 100% <SEP> 032797 <SEP> format <SEP>acetyltransferase;<SEP> Lactococcus <SEP> lactis
<tb> 678 <SEP> yggA <SEP> 43% <SEP> 034932 <SEP> hypothetical <SEP> 22. <SEP> 0 <SEP> kd <SEP> protein <SEP> in <SEP> gapb-mutm
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 679 <SEP> pmrA <SEP> 48% <SEP> Q9ZEX9 <SEP> multi-drug <SEP> resistance <SEP> efflux <SEP>pump;
<tb> Streptococcus <SEP> pneumoniae
<tb> 680 <SEP> rpmGA <SEP> 100% <SEP> P27167 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 133 <SEP>;<SEP> lactis
<tb> 681 <SEP> ftsWl <SEP> 95% <SEP> P27174 <SEP> hypothetical <SEP> protein <SEP> in <SEP> rpmg <SEP>3'region;
<tb> Lactococcus <SEP> lactis
<tb> 682 <SEP> pycA <SEP> 96% <SEP> AAF09095 <SEP> pyruvate <SEP> carboxylase <SEP>;<SEP> lactis
<tb> 683 <SEP> gltA <SEP> 90% <SEP> AAF09126 <SEP> citrate <SEP> synthase <SEP>;<SEP> lactis
<tb> 684 <SEP> citB <SEP> 86% <SEP> AAF09127 <SEP> aconitate <SEP> hydratase <SEP>;<SEP> lactis
<tb> 685 <SEP> icd <SEP> 56% <SEP> 006893 <SEP> isocitrate <SEP> dehyrogenase <SEP>;<SEP> israeli
<tb> 686 <SEP> clpP <SEP> 92% <SEP> Q9ZABO <SEP> protease <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 687 <SEP> yghB <SEP> putative
<tb> 688 <SEP> yghC <SEP> 54% <SEP> 031602 <SEP> yjbd <SEP> protein <SEP>;<SEP> subtilis
<tb> 689 <SEP> yghD <SEP> putative
<tb> 690 <SEP> yghE <SEP> putative
<tb> 691 <SEP> yghF <SEP> 39% <SEP> 034431 <SEP> ylob <SEP> protein <SEP>;<SEP> subtilis
<tb> 692 <SEP> yghG <SEP> putative
<tb> 693 <SEP> icaA <SEP> 38% <SEP> Q54066 <SEP> icaa <SEP>;<SEP> epidermidis
<tb> 694 <SEP> tra983A <SEP> 50% <SEP> 087534 <SEP> putative <SEP> transposase <SEP>;<SEP> pyogenes
<tb> 695 <SEP> icaB <SEP> 32% <SEP> Q54067 <SEP> icab <SEP>;<SEP> epidermidis
<tb> 696 <SEP> ygiC <SEP> putative
<tb> 697 <SEP> icaC <SEP> 35% <SEP> Q53971 <SEP> fibronectin <SEP> binding <SEP> protein <SEP>;
<tb> dysgalactiae
<tb> 698 <SEP> ygiE <SEP> 38% <SEP> P54104 <SEP> branched-chain <SEP> amino <SEP> acid <SEP> transport <SEP> system
<tb> carrier <SEP> protein <SEP>;<SEP> delbrueckii
<tb> 699 <SEP> brnQ <SEP> 99% <SEP> 069437 <SEP> homologous <SEP> to <SEP> branched <SEP> chain <SEP> amino <SEP> acid
<tb> transporters <SEP> of <SEP> liv-ii <SEP> class <SEP>;<SEP> lactis
<tb> 700 <SEP> ygiG <SEP> 94% <SEP> 069438 <SEP> yjdj-like <SEP> protein <SEP>;<SEP> lactis
<tb> 701 <SEP> ygiH <SEP> 96% <SEP> 069439 <SEP> yjdi-like <SEP> protein <SEP>;<SEP> lactis
<tb> 702 <SEP> ygiI <SEP> 42% <SEP> P37545 <SEP> hypothetical <SEP> 29. <SEP> 2 <SEP> kd <SEP> protein <SEP> in <SEP> mets-ksga
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 703 <SEP> ygiJ <SEP> 40% <SEP> Q47838 <SEP> copa, <SEP> copy <SEP> and <SEP> copz <SEP>genes;<SEP> Enterococcus <SEP> hirae
<tb> 704 <SEP> ygiK <SEP> 42% <SEP> P37547 <SEP> hypothetical <SEP> 20. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> mets-ksga
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 705 <SEP> ksgA <SEP> 52% <SEP> P37468 <SEP> dimethyladenosine <SEP> transferase <SEP> (sadenosylmethionine-6-n ', <SEP>n'-adenosyl<SEP> (high <SEP > level
<tb> kasugamycin <SEP> re. <SEP> Bacillus <SEP> subtilis
<tb> 706 <SEP> pepP <SEP> 91% <SEP> 008316 <SEP> aminopeptidase <SEP> p <SEP>;<SEP> lactis
<tb> 707 <SEP> efp <SEP> 40% <SEP> P49778 <SEP> elongation <SEP> factor <SEP> p <SEP>;<SEP> subtilis
<tb> 708 <SEP> ygjB <SEP> 39% <SEP> P54519 <SEP> hypothetical <SEP> 14. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> accc-fold
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb>

<Desc / Clms Page number 157>

<tb>
<tb> 709 <SEP> nusB <SEP> 45% <SEP> P54520 <SEP> n <SEP> utilization <SEP> substance <SEP> protein <SEP> b <SEP>homolog;
<tb> Bacillus <SEP> subtilis
<tb> 710 <SEP> ygjD <SEP> 58% <SEP> 022198 <SEP> putative <SEP>4-alpha-glucanotransferase;<SEP> Arabidopsis
<tb> thaliana
<tb> 711 <SEP> malQ <SEP> 40% <SEP> 022198 <SEP> putative <SEP>4-alpha-glucanotransferase;<SEP> Arabidopsis
<tb> thaliana
<tb> 712 <SEP> glgC <SEP> 51% <SEP> 008326 <SEP> glucose-1-phosphate <SEP>adenylyltransferase;
<tb> Bacillus <SEP> stearothermophilus
<tb> 713 <SEP> glgD <SEP> 29% <SEP> 008327 <SEP> glycogen <SEP> biosynthesis <SEP> protein <SEP>glgd;<SEP> Bacillus
<tb> stearothermophilus
<tb> 714 <SEP> glgA <SEP> 46% <SEP> P39125 <SEP> glycogen <SEP> synthase <SEP>;<SEP> subtilis
<tb> 715 <SEP> glgP <SEP> 50% <SEP> P39123 <SEP> glycogen <SEP> phosphorylase <SEP>;<SEP> subtilis
<tb> 716 <SEP> amyX <SEP> 34% <SEP> P36905 <SEP> T <SEP> amylopullulanase <SEP> precursor <SEP> [includes: <SEP> alphaamylase <SEP>;<SEP> pullulanase <SEP> (1,4-alpha-d-glucan ...
<tb>

717 <SEP> dtpT <SEP> 90% <SEP> P36574 <SEP> di- / tripeptide <SEP> transporter <SEP>;<SEP> lactis
<tb> 718 <SEP> tra983B <SEP> 50% <SEP> 087534 <SEP> putative <SEP> transposase <SEP>;<SEP> pyogenes
<tb> 719 <SEP> cydA <SEP> 46% <SEP> P94364 <SEP> cytochrome <SEP> d <SEP> ubiquinol <SEP> oxidase <SEP> subunit <SEP>i;
<tb> Bacillus <SEP> subtilis
<tb> 720 <SEP> cydB <SEP> 36% <SEP> Q9ZBY6 <SEP> putative <SEP> cytochrome <SEP> oxidase <SEP> subunit <SEP>ii;
<tb> Streptomyces <SEP> coelicolor
<tb> 721 <SEP> cydC <SEP> 45% <SEP> P94366 <SEP> transport <SEP> atp-binding <SEP> protein <SEP> cydc <SEP>;
<tb> subtilis
<tb> 722 <SEP> cydD <SEP> 41% <SEP> P94367 <SEP> transport <SEP> atp-binding <SEP> protein <SEP> cydd <SEP>;
<tb> subtilis
<tb> 723 <SEP> rmaB <SEP> 35% <SEP> 050574 <SEP> hypothetical <SEP> 16. <SEP> 1 <SEP> kda <SEP> transcriptional <SEP>regulator;
<tb> Bacillus <SEP> firmus
<tb> 724 <SEP> yhbE <SEP> putative
<tb> 725 <SEP> yhbF <SEP> 22% <SEP> 035264 <SEP> R <SEP> platelet-activating <SEP> factor <SEP> acetylhydrolase <SEP> ib
<tb> beta <SEP> subunit <SEP> (pl ...
<tb>

726 <SEP> lmrA <SEP> 88% <SEP> P97046 <SEP> multidrug <SEP> resistance <SEP> protein <SEP>lmra;<SEP> Lactococcus
<tb> lactis
<tb> 727 <SEP> yhbH <SEP> 90% <SEP> Q48631 <SEP> hypothetical <SEP> 13. <SEP> 6 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 728 <SEP> apl <SEP> 83% <SEP> Q48630 <SEP> alkaline <SEP> phosphatase <SEP> like <SEP> protein <SEP>;
<tb> lactis
<tb> 729 <SEP> yhcA <SEP> 38% <SEP> Q9ZAX8 <SEP> abc <SEP> transporter <SEP> atp <SEP> binding <SEP>subunit;
<tb> Streptococcus <SEP> mutans
<tb> 730 <SEP> yhcC <SEP> 41% <SEP> Q58627 <SEP> hypothetical <SEP> protein <SEP>mjl230;<SEP> Methanococcus
<tb> jannaschii
<tb> 731 <SEP> yhcB <SEP> putative
<tb> 732 <SEP> qor <SEP> 45% <SEP> Q9Z3U5 <SEP> w7. <SEP> alginate <SEP>lyase;<SEP> Pseudomonas <SEP> sp
<tb> 733 <SEP> yhcE <SEP> 41% <SEP> P42319 <SEP> hypothetical <SEP> 38. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> pept-katb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 734 <SEP> yhcG <SEP> 43% <SEP> 007607 <SEP> hypothetical <SEP> 26. <SEP> 5 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 735 <SEP> yhcH <SEP> 25% <SEP> 054390 <SEP> serine / threonine <SEP> protein <SEP> phosphatase <SEP>1;
<tb> Microcystis <SEP> aeruginosa
<tb> 736 <SEP> yhcI <SEP> 49% <SEP> P21335 <SEP> hypothetical <SEP> 17. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> sers-dnah
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 737 <SEP> tra981D <SEP> 92% <SEP> Q48668 <SEP> insertion <SEP> sequence <SEP> is981 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 738 <SEP> yhcJ <SEP> 100% <SEP> Q48667 <SEP> insertion <SEP> sequence <SEP> is981 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 739 <SEP> yhcK <SEP> 26% <SEP> 059645 <SEP>alpha-glucosidase;<SEP> Sulfolobus <SEP> solfataricus
<tb> 740 <SEP> rliC <SEP> 28% <SEP> Q56201 <SEP> maltose <SEP> operon <SEP> transcriptional <SEP>repressor;
<tb> Staphylococcus <SEP> xylosus
<tb> 741 <SEP> yhdA <SEP> 45% <SEP> P14205 <SEP> coma <SEP> operon <SEP> protein <SEP> 2 <SEP>;<SEP> subtilis
<tb> 742 <SEP> yhdB <SEP> 34% <SEP> 034514 <SEP>ytfd;<SEP> Bacillus <SEP> subtilis
<tb> 743 <SEP> menE <SEP> 35% <SEP> 034837 <SEP> osb-coa <SEP>synthase;<SEP> Bacillus <SEP> subtilis
<tb> 744 <SEP> menB <SEP> 76% <SEP> 034567 <SEP> dihydroxynaphthoate <SEP> synthase <SEP>;<SEP> subtilis
<tb> 745 <SEP> menX <SEP> 34% <SEP> 034312 <SEP> ytxm <SEP>;<SEP> subtilis
<tb> 746 <SEP> menD <SEP> 40% <SEP> P23970 <SEP> B <SEP> menaquinone <SEP> biosynthesis <SEP> protein <SEP> mend
<tb> [includes: <SEP> 2-succinyl-6-hydroxy- <SEP> 2,4-
<tb>

<Desc / Clms Page number 158>

<tb>
<tb> cyclohexadiene-1-carboxylate <SEP> synthase <SEP>;<SEP> 2oxoglutarate <SEP> decarboxylase <SEP> (ec ...
<tb>

747 <SEP> menF <SEP> 35% <SEP> P74053 <SEP> isochorismate <SEP> synthase <SEP>;<SEP> Synechocystis <SEP> sp
<tb> 748 <SEP> yhdC <SEP> 31% <SEP> P94482 <SEP>ynad;<SEP> Bacillus <SEP> subtilis
<tb> 749 <SEP> yheA <SEP> 35% <SEP> 034921 <SEP>ytoi;<SEP> Bacillus <SEP> subtilis
<tb> 750 <SEP> yheB <SEP> 48% <SEP> 034600 <SEP>ytqi;<SEP> Bacillus <SEP> subtilis
<tb> 751 <SEP> ansB <SEP> 38% <SEP> AAF11899 <SEP>1-asparaginase;<SEP> Deinococcus <SEP> radiodurans
<tb> 752 <SEP> yheD <SEP> 32% <SEP> Q45494 <SEP> hypothetical <SEP> 28. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 753 <SEP> yheE <SEP> putative
<tb> 754 <SEP> floL <SEP> 33% <SEP> 032076 <SEP> hypothetical <SEP> 56. <SEP> 0 <SEP> kd <SEP> protein <SEP> in <SEP> glgb-gbsb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 755 <SEP> thrA <SEP> 50% <SEP> P94417 <SEP> probable <SEP>aspartokinase;<SEP> Bacillus <SEP> subtilis
<tb> 756 <SEP> yheG <SEP> 33% <SEP> 053410 <SEP> hypothetical <SEP> 29.3 <SEP> kd <SEP>protein;<SEP> Mycobacterium
<tb> tuberculosis
<tb> 757 <SEP> rmaA <SEP> 33% <SEP> P96708 <SEP> ydgj <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 758 <SEP> yhfA <SEP> 30% <SEP> Q9XOY1 <SEP> beta-phosphoglucomutase, putative <SEP>;<SEP> Thermotoga
<tb> maritima
<tb> 759 <SEP> yhfB <SEP> 31% <SEP> P37484 <SEP> hypothetical <SEP> 74. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> rpli-cotf
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 760 <SEP> rplI <SEP> 44% <SEP> P02417 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP>19;<SEP> Bacillus
<tb> stearothermophilus
<tb> 761 <SEP> dnaC <SEP> 52% <SEP> P37469 <SEP> replicative <SEP> dna <SEP>helicase;<SEP> Bacillus <SEP> subtilis
<tb> 762 <SEP> yhfC <SEP> putative
<tb> 763 <SEP> yhfD <SEP> 33% <SEP> 034935 <SEP>ytmp;<SEP> Bacillus <SEP> subtilis
<tb> 764 <SEP> yhfE <SEP> 54% <SEP> 034522 <SEP>ytmq;<SEP> Bacillus <SEP> subtilis
<tb> 765 <SEP> yhfF <SEP> 51% <SEP> P33661 <SEP> hypothetical <SEP> 15. <SEP> 2 <SEP> kd <SEP> protein <SEP> in <SEP> sigg <SEP> 3 'region;
<tb> Clostridium <SEP> acetobutylicum
<tb> 766 <SEP> dnaB <SEP> 20% <SEP> P07908 <SEP> replication <SEP> initiation <SEP> and <SEP> membrane <SEP> attachment
<tb>protein;<SEP> Bacillus <SEP> subtilis
<tb> 767 <SEP> dnaI <SEP> 37% <SEP> P06567 <SEP> primosomal <SEP> protein <SEP>dnai;<SEP> Bacillus <SEP> subtilis
<tb> 768 <SEP> yhgA <SEP> 33% <SEP> P94424 <SEP> hypothetical <SEP> 27. <SEP> 9 <SEP> kd <SEP> protein <SEP> in <SEP> phrc-gdh
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 769 <SEP> yhgB <SEP> 31% <SEP> 006733 <SEP> yisx <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 770 <SEP> yphL <SEP> 65% <SEP> P50743 <SEP> hypothetical <SEP> 48. <SEP> 8 <SEP> kd <SEP> gtp-binding <SEP> protein <SEP> in <SEP > cmkgpsa <SEP> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 771 <SEP> yhgC <SEP> 27% <SEP> 030416 <SEP> positive <SEP> regulator <SEP>gadr;<SEP> Lactococcus <SEP> lactis
<tb> 772 <SEP> yhgD <SEP> 20% <SEP> P28968 <SEP> glycoprotein <SEP> x <SEP>precursor;<SEP> Equine <SEP> herpesvirus
<tb> type <SEP> 1
<tb> 773 <SEP> yhgE <SEP> 27% <SEP> Q48707 <SEP> dna <SEP> for <SEP> orfl <SEP> and <SEP>orf2;<SEP> Lactobacillus
<tb> leichmannii
<tb> 774 <SEP> yhhA <SEP> 34% <SEP> 068213 <SEP> putative <SEP> fimbria-associated <SEP>protein;
<tb> Actinomyces <SEP> naeslundii
<tb> 775 <SEP> yhhB <SEP> putative
<tb> 776 <SEP> yhhC <SEP> 29% <SEP> P39590 <SEP> hypothetical <SEP> 25. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> epr-galk
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 777 <SEP> yhhD <SEP> 50% <SEP> 059465 <SEP> 109aa <SEP> long <SEP> hypothetical <SEP>protein;<SEP> Pyrococcus
<tb> horikoshii
<tb> 778 <SEP> yhhE <SEP> 36% <SEP> P32726 <SEP> hypothetical <SEP> 17. <SEP> 6 <SEP> kd <SEP> protein <SEP> in <SEP> nusa <SEP> 5 'region;
<tb> Bacillus <SEP> subtilis
<tb> 779 <SEP> nusA <SEP> 50% <SEP> 031756 <SEP> nusa <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 780 <SEP> yhhG <SEP> 47% <SEP> P32728 <SEP> hypothetical <SEP> 10. <SEP> 4 <SEP> kd <SEP> protein <SEP> in <SEP> nusa-infb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 781 <SEP> yhhH <SEP> 51% <SEP> P55768 <SEP> probable <SEP> ribosomal <SEP> protein <SEP> in <SEP> infb <SEP>5'region;
<tb> Enterococcus <SEP> faecium
<tb> 782 <SEP> infB <SEP> 79% <SEP> Q9X764 <SEP> initiation <SEP> factor <SEP>2;<SEP> Lactococcus <SEP> lactis
<tb> 783 <SEP> rbfA <SEP> 86% <SEP> Q9X765 <SEP> ribosome <SEP> binding <SEP> factor <SEP> a <SEP>;<SEP> lactis
<tb> 784 <SEP> pmi <SEP> 65% <SEP> Q59935 <SEP> mannose-6-phosphate <SEP>isomerase;<SEP> Streptococcus
<tb> mutans
<tb> 785 <SEP> yhiA <SEP> 34% <SEP> P70993 <SEP> hypothetical <SEP> 15. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 786 <SEP> fabH <SEP> 45% <SEP> 067185 <SEP> 3-oxoacyl- [acyl-carrier-protein] <SEP> synthase <SEP>iii;
<tb> Aquifex <SEP> aeolicus
<tb>

<Desc / Clms Page number 159>

<tb>
<tb> 787 <SEP> acpA <SEP> 47% <SEP> P80643 <SEP> acyl <SEP> carrier <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 788 <SEP> fabD <SEP> 46% <SEP> 034463 <SEP> malonyl <SEP> coa-acyl <SEP> carrier <SEP> protein <SEP>transacylase;
<tb> Bacillus <SEP> subtilis
<tb> 789 <SEP> fabGl <SEP> 47% <SEP> P51831 <SEP> 3-oxoacyl- [acyl-carrier <SEP> protein] <SEP>reductase;
<tb> Bacillus <SEP> subtilis
<tb> 790 <SEP> fabF <SEP> 43% <SEP> 034340 <SEP> yjay <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 791 <SEP> accB <SEP> 50% <SEP> Q06881 <SEP> biotin <SEP> carboxyl <SEP> carrier <SEP> protein <SEP> of <SEP> acetyl-coa
<tb>carboxylase;<SEP> Anabaena <SEP> sp
<tb> 792 <SEP> fabZ2 <SEP> 58% <SEP> P94584 <SEP> similar <SEP> to <SEP> hydroxymyristoyl- <SEP>dehydratase;
<tb> Bacillus <SEP> subtilis
<tb> 793 <SEP> accC <SEP> 57% <SEP> P49787 <SEP> biotin <SEP> carboxylase <SEP> (a <SEP> subunit <SEP> of <SEP> acetyl-coa
<tb>carboxylase;<SEP> Bacillus <SEP> subtilis
<tb> 794 <SEP> accD <SEP> 57% <SEP> 034571 <SEP> acetyl-coa <SEP> carboxylase <SEP>subunit;<SEP> Bacillus
<tb> subtilis
<tb> 795 <SEP> accA <SEP> 54% <SEP> 034847 <SEP> acetyl-coenzyme <SEP> a <SEP> carboxylase <SEP> carboxyl
<tb> transferase <SEP> subunit <SEP>alpha;<SEP> Bacillus <SEP> subtilis
<tb> 796 <SEP> metB2 <SEP> 100% <SEP> AAF14693 <SEP> cystathionine <SEP> beta-lyase <SEP>metc;<SEP> Lactococcus
<tb> lactis
<tb> 797 <SEP> cysK <SEP> 89% <SEP> AAF14694 <SEP> o-acetylserine <SEP> sulfhydrylase <SEP> cysk <SEP>;
<tb> lactis
<tb> 798 <SEP> yhjA <SEP> 32% <SEP> 016527 <SEP> ce-lea <SEP>;<SEP> elegans
<tb> 799 <SEP> yhjB <SEP> 42% <SEP> P54510 <SEP> hypothetical <SEP> 14. <SEP> 6 <SEP> kd <SEP> protein <SEP> in <SEP> gcvt-spoiiiaa
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 800 <SEP> yhjC <SEP> 41% <SEP> P54510 <SEP> hypothetical <SEP> 14. <SEP> 6 <SEP> kd <SEP> protein <SEP> in <SEP> gcvt-spoiiiaa
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 801 <SEP> noxC <SEP> 36% <SEP> 029847 <SEP> nadh <SEP> oxidase <SEP>;<SEP> fulgidus
<tb> 802 <SEP> yhjE <SEP> 48% <SEP> BAA86632 <SEP> hypothetical <SEP> 9.9 <SEP> kd <SEP> protein <SEP>;<SEP> Staphylococcus
<tb> aureus
<tb> 803 <SEP> yhjF <SEP> 51% <SEP> 032175 <SEP> yusi <SEP> protein <SEP>;<SEP> subtilis
<tb> 804 <SEP> rdrA <SEP> 38% <SEP> P76034 <SEP> hypothetical <SEP> transcriptional <SEP> regulator <SEP> in <SEP> osmbrnb <SEP> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 805 <SEP> yhjG <SEP> 32% <SEP> P05332 <SEP> hypothetical <SEP> p20 <SEP> protein <SEP>;
<tb> licheniformis
<tb> 806 <SEP> exoA <SEP> 61% <SEP> P21998 <SEP>exodeoxyribonuclease;<SEP> Streptococcus <SEP> pneumoniae
<tb> 807 <SEP> metS <SEP> 61% <SEP> P37465 <SEP> methionyl-trna <SEP> synthetase <SEP>;<SEP> subtilis
<tb> 808 <SEP> yiaA <SEP> putative
<tb> 809 <SEP> yiaB <SEP> 36% <SEP> Q9X248 <SEP> 3-oxoacyl- <SEP>reductase;<SEP> Thermotoga <SEP> maritima
<tb> 810 <SEP> yiaC <SEP> 31% <SEP> 005109 <SEP> cara <SEP>&<SEP> orf8 <SEP> partial <SEP> cds, <SEP> argc, j, b, d, f <SEP>&<SEP> orf7
<tb> citrulline <SEP> biosynthetic <SEP> operon <SEP>;
<tb> plantarum
<tb> 811 <SEP> yiaD <SEP> 42% <SEP> P71037 <SEP> hypothetical <SEP> 23. <SEP> 2 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 812 <SEP> argC <SEP> 41% <SEP> 008318 <SEP> n-acetyl-gamma-glutamyl-phosphate <SEP>reductase;
<tb> Lactobacillus <SEP> plantarum
<tb> 813 <SEP> argj <SEP> 48% <SEP> Q9ZJ14 <SEP> ornithine <SEP>acetyltransferase;<SEP> Bacillus
<tb> amyloliquefaciens
<tb> 814 <SEP> argD <SEP> 42% <SEP> 066442 <SEP> acetylornithine <SEP>aminotransferase;<SEP> Aquifex
<tb> aeolicus
<tb> 815 <SEP> argB <SEP> 40% <SEP> 028988 <SEP> acetylglutamate <SEP>kinase;<SEP> Archaeoglobus <SEP> fulgidus
<tb> 816 <SEP> argF <SEP> 62% <SEP> 053089 <SEP> ornithine <SEP>transcarbamoylase;<SEP> Lactobacillus <SEP> sake
<tb> 817 <SEP> rnc <SEP> 45% <SEP> 031734 <SEP> ribonuclease <SEP>iii;<SEP> Bacillus <SEP> subtilis
<tb> 818 <SEP> smc <SEP> 32% <SEP> 031735 <SEP> chromosome <SEP> segregation <SEP> smc <SEP> protein <SEP>homolg;
<tb> Bacillus <SEP> subtilis
<tb> 819 <SEP> yibB <SEP> 49% <SEP> 031735 <SEP> chromosome <SEP> segregation <SEP> smc <SEP> protein <SEP>homolg;
<tb> Bacillus <SEP> subtilis
<tb> 820 <SEP> yibC <SEP> 39% <SEP> 006487 <SEP>yfni;<SEP> Bacillus <SEP> subtilis
<tb> 821 <SEP> yibD <SEP> putative
<tb> 822 <SEP> yibE <SEP> putative
<tb> 823 <SEP> yibF <SEP> putative
<tb> 824 <SEP> yibG <SEP> 40% <SEP> 032257 <SEP> yvbw <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 825 <SEP> yicA <SEP> putative
<tb>

<Desc / Clms Page number 160>

<tb>
<tb> 826 <SEP> yicB <SEP> 35% <SEP> P09997 <SEP> hypothetical <SEP> 29. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> ibpa-gyrb
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 827 <SEP> yicC <SEP> 32% <SEP> Q9WX02 <SEP> putative <SEP> membrane <SEP> protein <SEP>;
<tb> coelicolor
<tb> 828 <SEP> ftsY <SEP> 55% <SEP> P51835 <SEP> cell <SEP> division <SEP> protein <SEP> ftsy <SEP> homolog <SEP>;
<tb> subtilis
<tb> 829 <SEP> prsA <SEP> 66% <SEP> Q48793 <SEP> tms <SEP> and <SEP> prs <SEP> genes, <SEP> partial <SEP> cds <SEP>;
<tb> monocytogenes
<tb> 830 <SEP> yicE <SEP> 32% <SEP> 087552 <SEP> leucine-rich <SEP> protein <SEP> transcriptional <SEP>regulator;
<tb> Bacillus <SEP> firmus
<tb> 831 <SEP> leuS <SEP> 67% <SEP> P36430 <SEP> leucyl-trna <SEP>synthetase;<SEP> Bacillus <SEP> subtilis
<tb> 832 <SEP> yidA <SEP> 26% <SEP> Q9XOV5 <SEP> transcriptional <SEP> regulator, <SEP> rpir <SEP>family;
<tb> Thermotoga <SEP> maritima
<tb> 833 <SEP> yidB <SEP> 25% <SEP> P39584 <SEP> hypothetical <SEP> 47. <SEP> 6 <SEP> kd <SEP> protein <SEP> in <SEP> epr-galk
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 834 <SEP> yidC <SEP> 39% <SEP> P42973 <SEP>6-phospho-beta-glucosidase;<SEP> Bacillus <SEP> subtilis
<tb> 835 <SEP> cpo <SEP> 33% <SEP> CAB60045 <SEP> citr <SEP>protein;<SEP> Weissella <SEP> paramesenteroides
<tb> 836 <SEP> yidE <SEP> putative
<tb> 837 <SEP> tra904F <SEP> 100% <SEP> CAA55220 <SEP> isl069 <SEP>gene;<SEP> Lactococcus <SEP> lactis
<tb> 838 <SEP> yidF <SEP> 98% <SEP> Q48710 <SEP> span <SEP> gene <SEP> encoding <SEP> nisin <SEP> and <SEP> insertion <SEP> sequence
<tb> is904 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 839 <SEP> tral077E <SEP> 98% <SEP> 032787 <SEP>transposase;<SEP> Lactococcus <SEP> lactis
<tb> 840 <SEP> yidG <SEP> 99% <SEP> 032786 <SEP> hypothetical <SEP> 21. <SEP> 3 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 841 <SEP> yidH <SEP> 100% <SEP> Q48710 <SEP> span <SEP> gene <SEP> encoding <SEP> nisin <SEP> and <SEP> insertion <SEP> sequence
<tb> is904 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 842 <SEP> tra904G <SEP> 99% <SEP> CAA55220 <SEP> isl069 <SEP>gene;<SEP> Lactococcus <SEP> lactis
<tb> 843 <SEP> noxA <SEP> 33% <SEP> 005267 <SEP> hypothetical <SEP> 44. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 844 <SEP> noxB <SEP> 33% <SEP> P32340 <SEP> rotenone-insensitive <SEP> nadh-ubiquinone
<tb> oxidoreductase <SEP> precursor <SEP>;
<tb> cerevisiae
<tb> 845 <SEP> sdhB <SEP> 47% <SEP> 034635 <SEP> probable <SEP> 1-serine <SEP> dehydratase, <SEP> beta <SEP>chain;
<tb> Bacillus <SEP> subtilis
<tb> 846 <SEP> sdhA <SEP> 55% <SEP> 034607 <SEP> probable <SEP> 1-serine <SEP> dehydratase, <SEP> alpha <SEP>chain;
<tb> Bacillus <SEP> subtilis
<tb> 847 <SEP> copR <SEP> 40% <SEP> Q47839 <SEP> copab <SEP> atpases <SEP> metal-fist <SEP> type <SEP>repressor;
<tb> Enterococcus <SEP> hirae
<tb> 848 <SEP> yieF <SEP> 45% <SEP> AAC33905 <SEP> mera, <SEP> mercuric <SEP> ion <SEP> reductase <SEP>;<SEP> coli
<tb> 849 <SEP> copA <SEP> 45% <SEP> P32113 <SEP> copper / potassium-transporting <SEP> atpase <SEP>a;
<tb> Enterococcus <SEP> hirae
<tb> 850 <SEP> yieH <SEP> 91% <SEP> 066090 <SEP> transmembrane <SEP> protein <SEP> tmp5 <SEP>;<SEP> lactis
<tb> 851 <SEP> yifA <SEP> putative
<tb> 852 <SEP> trmU <SEP> 64% <SEP> 035020 <SEP> probable <SEP>trna-methyltransferase;<SEP> Bacillus
<tb> subtilis
<tb> 853 <SEP> rpsA <SEP> 49% <SEP> P50889 <SEP> 40s <SEP> ribosomal <SEP> protein <SEP>si;<SEP> Leuconostoc <SEP> lactis
<tb> 854 <SEP> udp <SEP> 35% <SEP> 083990 <SEP> uridine <SEP> phosphorylase <SEP>;<SEP> pallidum
<tb> 855 <SEP> yifD <SEP> 29% <SEP> Q9ZJT8 <SEP> nicotinamide <SEP> mononucleotide <SEP>transporter;
<tb> Helicobacter <SEP> pylori <SEP> j99
<tb> 856 <SEP> uvrC <SEP> 50% <SEP> Q9ZEH3 <SEP> excinuclease <SEP> abc, <SEP> subunit <SEP> c <SEP>;
<tb> aureus
<tb> 857 <SEP> mutY <SEP> 43% <SEP> 031584 <SEP> yfhq <SEP> protein <SEP>;<SEP> subtilis
<tb> 858 <SEP> pepV <SEP> 96% <SEP> 007121 <SEP>dipeptidase;<SEP> Lactococcus <SEP> lactis
<tb> 859 <SEP> acpS <SEP> 54% <SEP> 007122 <SEP> hypothetical <SEP> 8. <SEP> 0 <SEP> kd <SEP> protein <SEP>;
<tb> plantarum
<tb> 860 <SEP> dal <SEP> 97% <SEP> CAB56755 <SEP> alanine <SEP> racemase <SEP>;<SEP> lactis
<tb> 861 <SEP> yigC <SEP> 50% <SEP> 031602 <SEP> yjbd <SEP> protein <SEP>;<SEP> subtilis
<tb> 862 <SEP> gshR <SEP> 30% <SEP> 054279 <SEP> orf454 <SEP> protein <SEP>;<SEP> Staphylococcus <SEP> sciuri
<tb> 863 <SEP> choQ <SEP> 60% <SEP> Q9XBN6 <SEP> choline <SEP> transporter <SEP>;<SEP> Streptococcuspneumoniae
<tb> 864 <SEP> choS <SEP> 42% <SEP> Q9XBN5 <SEP> choline <SEP> transporter <SEP>;<SEP> pneumoniae
<tb> 865 <SEP> yigE <SEP> 16% <SEP> AAB82017 <SEP> microfilarial <SEP> sheath <SEP> protein <SEP>shp3;<SEP> Litomosoides
<tb> sigmodontis
<tb>

<Desc / Clms Page number 161>

<tb>
<tb> 866 <SEP> yigF <SEP> putative
<tb> 867 <SEP> yihA <SEP> putative
<tb> 868 <SEP> yihB <SEP> putative
<tb> 869 <SEP> yihC <SEP> 46% <SEP> P05425 <SEP> copper / potassium-transporting <SEP> atpase <SEP>b;
<tb> Enterococcus <SEP> hirae
<tb> 870 <SEP> yihD <SEP> 21% <SEP> 080179 <SEP> putative <SEP> minor <SEP> tail <SEP> protein <SEP>;<SEP> Streptococcus
<tb> thermophilus <SEP> bacteriophage <SEP> sfill
<tb> 871 <SEP> folD <SEP> 65% <SEP> P96050 <SEP> fold <SEP> bifunctional <SEP> protein <SEP> [includes:
<tb> methylenetetrahydrofolate <SEP> dehydrogenase <SEP>;<SEP>
<tb> methenyltetrahydrofolate <SEP> cyclohydrolase <SEP>];
<tb> Streptococcus <SEP> thermophilus
<tb> 872 <SEP> xseA <SEP> 37% <SEP> P54521 <SEP> putative <SEP> exodeoxyribonuclease <SEP> large <SEP>subunit;
<tb> Bacillus <SEP> subtilis
<tb> 873 <SEP> xseB <SEP> 38% <SEP> Q9ZDH8 <SEP> exodeoxyribonuclease <SEP> small <SEP>subunit;<SEP> Rickettsia
<tb> prowazekii
<tb> 874 <SEP> yihF <SEP> 47% <SEP> P44507 <SEP> hypothetical <SEP> protein <SEP> hi0091 <SEP>;
<tb> Haemophilusinfluenzae
<tb> 875 <SEP> ispA <SEP> 49% <SEP> 066126 <SEP>geranyltranstransferase;<SEP> Micrococcus <SEP> luteus
<tb> 876 <SEP> yiiB <SEP> 59% <SEP> P19672 <SEP> hypothetical <SEP> 29. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> fold-ahrc
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 877 <SEP> ahrC <SEP> 38% <SEP> 086130 <SEP> arginine <SEP> repressor <SEP>;<SEP> licheniformis
<tb> 878 <SEP> recN <SEP> 40% <SEP> P17894 <SEP> dna <SEP> repair <SEP> protein <SEP>recn;<SEP> Bacillus <SEP> subtilis
<tb> 879 <SEP> yiiD <SEP> putative
<tb> 880 <SEP> yiiE <SEP> 33% <SEP> 027534 <SEP> hypothetical <SEP> 21. <SEP> 2 <SEP> kd <SEP> protein <SEP>;
<tb> thermoautotrophicum
<tb> 881 <SEP> yiiF <SEP> 35% <SEP> Q56116 <SEP> Streptococcus <SEP> thermophilus
<tb> 882 <SEP> yiiG <SEP> 35% <SEP> Q9ZI22 <SEP> membrane <SEP> protein <SEP>;<SEP> salivarius
<tb> 883 <SEP> yiiH <SEP> 71% <SEP> AAC95454 <SEP> yllc <SEP>;<SEP> pneumoniae
<tb> 884 <SEP> yiiI <SEP> 85% <SEP> 066083 <SEP> putative <SEP> transmembrane <SEP> protein <SEP> tmp2 <SEP>;
<tb> lactis
<tb> 885 <SEP> pbpX <SEP> 41% <SEP> P14677 <SEP> penicillin-binding <SEP> protein <SEP> 2x <SEP>;
<tb> pneumoniae
<tb> 886 <SEP> mraY <SEP> 50% <SEP> Q9zha5 <SEP> phospho-n-acetylmuramoyl-pentapeptidetransferase <SEP>;<SEP> Streptococcus <SEP> pneumoniae
<tb> 887 <SEP> yijB <SEP> putative
<tb> 888 <SEP> yijC <SEP> 29% <SEP> P94412 <SEP> homologous <SEP> of <SEP> hypothetical <SEP> protein <SEP> in <SEP> a <SEP> rapamycin
<tb> synthesis <SEP> gene <SEP> cluster <SEP> of <SEP> streptomyces
<tb>hygroscopicus;<SEP> Bacillus <SEP> subtilis
<tb> 889 <SEP> yijD <SEP> 48% <SEP> P94411 <SEP> homologous <SEP> of <SEP> hypothetical <SEP> protein <SEP> in <SEP> a <SEP> rapamycin
<tb> synthesis <SEP> gene <SEP> cluster <SEP> of <SEP> streptomyces
<tb> hygroscopicus <SEP>;<SEP> Bacillus <SEP> subtilis
<tb> 890 <SEP> mleR <SEP> 93% <SEP> P16400 <SEP> malolactic <SEP> fermentation <SEP> system <SEP> transcriptional
<tb> activator <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 891 <SEP> yijE <SEP> 85% <SEP> Q48663 <SEP> positive <SEP> regulator <SEP>gene;<SEP> Lactococcus <SEP> lactis
<tb> 892 <SEP> rplS <SEP> 77% <SEP> 034031 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 119 <SEP>;
<tb> thermophilus
<tb> 893 <SEP> yijF <SEP> putative
<tb> 894 <SEP> yijG <SEP> 33% <SEP> P75905 <SEP> hypothetical <SEP> 50. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> phoh-csgg
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 895 <SEP> yijH <SEP> putative
<tb> 896 <SEP> pnuC <SEP> 26% <SEP> 025877 <SEP> nicotinamide <SEP> mononucleotide <SEP>transporter;
<tb> Helicobacter <SEP> pylori
<tb> 897 <SEP> yjaB <SEP> 35% <SEP> Q57951 <SEP> hypothetical <SEP> protein <SEP>mj0531;<SEP> Methanococcus
<tb> jannaschii
<tb> 898 <SEP> hslB <SEP> 45% <SEP> Q9XB21 <SEP> histone-like <SEP> dna-binding <SEP> protein <SEP>;
<tb> mutans
<tb> 899 <SEP> yjaD <SEP> 36% <SEP> CAB55667 <SEP> putative <SEP> tetr-family <SEP> transcriptional <SEP>regulator;
<tb> Streptomyces <SEP> coelicolor
<tb> 900 <SEP> yjaE <SEP> 82% <SEP> 066092 <SEP> transmembrane <SEP> protein <SEP> tmp7 <SEP>;<SEP> lactis
<tb> 901 <SEP> yjaF <SEP> 79% <SEP> 033663 <SEP> dna <SEP> for <SEP> sigma <SEP> 42 <SEP> protein, <SEP> dtdp-4-keto-l-rhamnose
<tb> reductase, <SEP> complete <SEP> cds <SEP>;<SEP> Streptococcus <SEP> mutans
<tb>

<Desc / Clms Page number 162>

<tb>
<tb> 902 <SEP> ftsW2 <SEP> 45% <SEP> P27174 <SEP> hypothetical <SEP> protein <SEP> in <SEP> rpmg <SEP>3'region;
<tb> Lactococcus <SEP> lactis
<tb> 903 <SEP> yjaH <SEP> putative
<tb> 904 <SEP> yjaI <SEP> putative
<tb> 905 <SEP> yjaJ <SEP> 38% <SEP> Q56038 <SEP> epsa <SEP>;<SEP> thermophilus
<tb> 906 <SEP> rpsN2 <SEP> 63% <SEP> 031587 <SEP> yhza <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 907 <SEP> yjbB <SEP> putative
<tb> 908 <SEP> kinD <SEP> 92% <SEP> 007385 <SEP> histidine <SEP> kinase <SEP>;<SEP> lactis
<tb> 909 <SEP> lrrD <SEP> 57% <SEP> CAB54571 <SEP> response <SEP> regulator <SEP>;<SEP> pneumoniae
<tb> 910 <SEP> yjbC <SEP> 41% <SEP> P21878 <SEP> hypothetical <SEP> protein <SEP> in <SEP> pdha <SEP>5'region;<SEP> Bacillus
<tb> stearothermophilus
<tb> 911 <SEP> ppiB <SEP> 41% <SEP> P87051 <SEP> probable <SEP> peptidyl-prolyl <SEP> cis-trans <SEP> isomerase
<tb>c57al0.03;<SEP> Schizosaccharomyces <SEP> pombe
<tb> 912 <SEP> yjbE <SEP> 37% <SEP> CAB49760 <SEP> translation <SEP> initiation <SEP> factor <SEP> aif-2, <SEP> subun <SEP> it
<tb> alpha <SEP>;<SEP> Pyrococcus <SEP> abyssi
<tb> 913 <SEP> yjbF <SEP> 26% <SEP> 007559 <SEP> hypothetical <SEP> 23. <SEP> 3 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 914 <SEP> rodA <SEP> 28% <SEP> P39604 <SEP> hypothetical <SEP> 43. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> qoxd-vpr
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 915 <SEP> butB <SEP> 42% <SEP> 034788 <SEP> dehydrogenase <SEP>;<SEP> Bacillus <SEP> subtilis
<tb> 916 <SEP> butA <SEP> 67% <SEP> 002715 <SEP> acetoin <SEP> reductase <SEP>;<SEP> taurus
<tb> 917 <SEP> yjcA <SEP> 26% <SEP> Q9ZE86 <SEP> abc <SEP> transporter <SEP> atp-binding <SEP> protein <SEP>;
<tb> prowazekii
<tb> 918 <SEP> mleS <SEP> 95% <SEP> Q48662 <SEP> malolactic <SEP> enzyme <SEP>;<SEP> lactis
<tb> 919 <SEP> mleP <SEP> 92% <SEP> 007032 <SEP> citrate-sodium <SEP> symport <SEP>;<SEP> lactis
<tb> 920 <SEP> yjcD <SEP> 32% <SEP> Q9ZF46 <SEP> hypothetical <SEP> 32. <SEP> 6 <SEP> kd <SEP> protein <SEP>;
<tb> megaterium
<tb> 921 <SEP> yjcE <SEP> putative
<tb> 922 <SEP> yjcF <SEP> 46% <SEP> Q57064 <SEP>unidentified;<SEP> Streptococcus <SEP> pneumoniae
<tb> 923 <SEP> gyrB <SEP> 78% <SEP> Q59957 <SEP> dna <SEP> gyrase <SEP>;<SEP> pneumoniae
<tb> 924 <SEP> yjdA <SEP> 35% <SEP> P44074 <SEP> hypothetical <SEP> protein <SEP>hi0912;<SEP> Haemophilus
<tb> influenzae
<tb> 925 <SEP> yjdB <SEP> putative
<tb> 926 <SEP> yjdD <SEP> 37% <SEP> P25150 <SEP> hypothetical <SEP> transcriptional <SEP> regulator <SEP> in <SEP> gspatyrz <SEP> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 927 <SEP> yjdE <SEP> 33% <SEP> P94422 <SEP> homologous <SEP> of <SEP> multidrug <SEP> resistance <SEP> protein <SEP> b,
<tb> emrb, <SEP> of <SEP> e. <SEP> coli <SEP>;<SEP> subtilis
<tb> 928 <SEP> yjdF <SEP> putative
<tb> 929 <SEP> tagR <SEP> 38% <SEP> 006027 <SEP> epsr <SEP> protein <SEP>;<SEP> lactis
<tb> 930 <SEP> tagL <SEP> 49% <SEP> CAB52231 <SEP> epsl <SEP> protein <SEP>;<SEP> Streptococcus <SEP> thermophilus
<tb> 931 <SEP> yjdI <SEP> putative
<tb> 932 <SEP> yjdJ <SEP> 26% <SEP> Q58752 <SEP> putative <SEP> potassium <SEP> channel <SEP> protein <SEP>mjl357;
<tb> Methanococcus <SEP> jannaschii
<tb> 933 <SEP> tagH <SEP> 48% <SEP> P42954 <SEP> teichoic <SEP> acid <SEP> translocation <SEP> atp-binding <SEP> protein
<tb> tagh <SEP>;<SEP> Bacillus <SEP> subtilis
<tb> 934 <SEP> tagG <SEP> 30% <SEP> P42953 <SEP> teichoic <SEP> acid <SEP> translocation <SEP> permease <SEP> protein
<tb> tagg <SEP>;<SEP> Bacillus <SEP> subtilis
<tb> 935 <SEP> yjeA <SEP> putative
<tb> 936 <SEP> tagZ <SEP> 33% <SEP> 006035 <SEP> epsg <SEP> protein <SEP>;<SEP> lactis
<tb> 937 <SEP> tagY <SEP> 31% <SEP> AAD56434 <SEP> tagf <SEP>;<SEP> epidermidis
<tb> 938 <SEP> yjeD <SEP> putative
<tb> 939 <SEP> tagX <SEP> 30% <SEP> AAD56434 <SEP> tagf <SEP>;<SEP> epidermidis
<tb> 940 <SEP> yjeF <SEP> 30% <SEP> P26388 <SEP> putative <SEP> colanic <SEP> acid <SEP> biosynthesis <SEP> glycosyl
<tb> transferase <SEP> wcal <SEP>;<SEP> typhimurium
<tb> 941 <SEP> yjeG <SEP> putative
<tb> 942 <SEP> tagD2 <SEP> 50% <SEP> 067380 <SEP> glycerol-3-phosphate <SEP>cytidyltransferase;
<tb> Aquifex <SEP> aeolicus
<tb> 943 <SEP> yjfB <SEP> putative
<tb> 944 <SEP> tagF <SEP> 41% <SEP> AAD56434 <SEP> tagf <SEP>;<SEP> epidermidis
<tb> 945 <SEP> tagB <SEP> 28% <SEP> P27621 <SEP> teichoic <SEP> acid <SEP> biosynthesis <SEP> protein <SEP> b <SEP>precursor;
<tb> Bacillus <SEP> subtilis
<tb> 946 <SEP> yjfE <SEP> 34% <SEP> Q9X485 <SEP> hypothetical <SEP> 33. <SEP> 8 <SEP> kd <SEP> protein <SEP>;<SEP> lactis
<tb>

<Desc / Clms Page number 163>

<tb>
<tb> 947 <SEP> deoB <SEP> 97% <SEP> 032808 <SEP> phosphopentomutase <SEP>;<SEP> lactis
<tb> 948 <SEP> yjfG <SEP> 91% <SEP> 032809 <SEP> hypothetical <SEP> 10. <SEP> 3 <SEP> kd <SEP> protein <SEP>;<SEP> lactis
<tb> 949 <SEP> deoD <SEP> 93% <SEP> 032810 <SEP> purine <SEP> nucleoside <SEP> phosphorylase <SEP>;
<tb> lactis
<tb> 950 <SEP> tra983C <SEP> 50% <SEP> 087534 <SEP> putative <SEP> transposase <SEP>;<SEP> pyogenes
<tb> 951 <SEP> yjfI <SEP> 39% <SEP> 086782 <SEP> hypothetical <SEP> 19. <SEP> 8 <SEP> kd <SEP> protein <SEP>;
<tb> coelicolor
<tb> 952 <SEP> yjfJ <SEP> 48% <SEP> Q9X8J2 <SEP> hypothetical <SEP> 11.3 <SEP> kd <SEP> protein <SEP>;
<tb> coelicolor
<tb> 953 <SEP> fhs <SEP> 65% <SEP> Q59925 <SEP> formate - tetrahydrofolate <SEP> ligase <SEP>;<SEP> Streptococcus
<tb> mutans
<tb> 954 <SEP> yjgB <SEP> 44% <SEP> Q9X7Z4 <SEP> putative <SEP> secreted <SEP> protein <SEP>;
<tb> coelicolor
<tb> 955 <SEP> yjgC <SEP> 29% <SEP> P54952 <SEP> probable <SEP> amino-acid <SEP> abc <SEP> transporter <SEP> binding
<tb> protein <SEP> in <SEP> idh-deor <SEP> intergenic <SEP> region <SEP> precursor <SEP>;
<tb> Bacillus <SEP> subtilis
<tb> 956 <SEP> yjgD <SEP> 40% <SEP> P54953 <SEP> probable <SEP> amino-acid <SEP> abc <SEP> transporter <SEP> permease
<tb> protein <SEP> in <SEP> idh-deor <SEP> intergenic <SEP>region;<SEP> Bacillus
<tb> subtilis
<tb> 957 <SEP> yjgE <SEP> 55% <SEP> 034900 <SEP> putative <SEP> amino <SEP> acid <SEP> transporter <SEP>;
<tb> subtilis
<tb> 958 <SEP> trxBl <SEP> 58% <SEP> 032823 <SEP> thioredoxin <SEP> reductase <SEP>;<SEP> monocytogenes
<tb> 959 <SEP> secG <SEP> 32% <SEP> 032233 <SEP> probable <SEP> protein-export <SEP> membrane <SEP> protein <SEP>secg;
<tb> Bacillus <SEP> subtilis
<tb> 960 <SEP> vacB <SEP> 43% <SEP> 032231 <SEP> yvaj <SEP> protein <SEP>;<SEP> subtilis
<tb> 961 <SEP> yjgF <SEP> 48% <SEP> P94573 <SEP> hypothetical <SEP> 21. <SEP> 1 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 962 <SEP> yjhA <SEP> putative
<tb> 963 <SEP> yjhB <SEP> 23% <SEP> P39582 <SEP> probable <SEP> 1,4-dihydroxy-2-naphthoate
<tb>octaprenyltransferase;<SEP> Bacillus <SEP> subtilis
<tb> 964 <SEP> yjhC <SEP> 48% <SEP> Q58953 <SEP> hypothetical <SEP> protein <SEP>mjl558;<SEP> Methanococcus
<tb> jannaschii
<tb> 965 <SEP> yjhD <SEP> 59% <SEP> Q59059 <SEP> hypothetical <SEP> protein <SEP>mjl665;<SEP> Methanococcus
<tb> jannaschii
<tb> 966 <SEP> yjhE <SEP> putative
<tb> 967 <SEP> yjhF <SEP> 34% <SEP> P96121 <SEP> phosphoglycerate <SEP> mutase <SEP>;<SEP> pallidum
<tb> 968 <SEP> dacB <SEP> 64% <SEP> Q9ZAT6 <SEP> putative <SEP> d, d-carboxypeptidase; <SEP> Streptococcus
<tb> mutans
<tb> 969 <SEP> yjhH <SEP> putative
<tb> 970 <SEP> hrcA <SEP> 97% <SEP> P42370 <SEP> heat-inducible <SEP> transcription <SEP> repressor <SEP>hrca;
<tb> Lactococcus <SEP> lactis
<tb> 971 <SEP> grpE <SEP> 81% <SEP> Q9X4R3 <SEP> heat <SEP> shock <SEP> protein <SEP> grpe <SEP>;
<tb> pneumoniae
<tb> 972 <SEP> dnaK <SEP> 87% <SEP> P42368 <SEP> dnak <SEP> protein <SEP>;<SEP> lactis
<tb> 973 <SEP> mycA <SEP> 61% <SEP> Q54525 <SEP> 67 <SEP> kda <SEP> myosin-crossreactive <SEP> streptococcal
<tb> antigen <SEP>;<SEP> Streptococcus <SEP> pyogenes
<tb> 974 <SEP> yjiB <SEP> 44% <SEP> 034980 <SEP> putative <SEP> hippurate <SEP> hydrolase <SEP>;<SEP> subtilis
<tb> 975 <SEP> lacR <SEP> 42% <SEP> 031713 <SEP> transcriptional <SEP> regulator <SEP>;<SEP> subtilis
<tb> 976 <SEP> lacC <SEP> 47% <SEP> 031714 <SEP> fructose-1-phosphate <SEP> kinase <SEP>;<SEP> subtilis
<tb> 977 <SEP> fruA <SEP> 43% <SEP> P71012 <SEP> phosphotransferase <SEP> system <SEP> fructose-specific
<tb> enzyme <SEP> iibc <SEP> component <SEP>;<SEP> subtilis
<tb> 978 <SEP> clsA <SEP> 47% <SEP> P71040 <SEP> hypothetical <SEP> 55. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> spoiiq-mta
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 979 <SEP> yjiE <SEP> 54% <SEP> 006973 <SEP> hypothetical <SEP> 33. <SEP> 9 <SEP> kd <SEP> protein <SEP> in <SEP> crh-trxb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 980 <SEP> yjiF <SEP> 42% <SEP> 006974 <SEP> hypothetical <SEP> 34. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> crh-trxb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 981 <SEP> yjjA <SEP> 42% <SEP> 006975 <SEP> hypothetical <SEP> 36. <SEP> 3 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 982 <SEP> yjjB <SEP> 31% <SEP> P96222 <SEP> hypothetical <SEP> 23. <SEP> 7 <SEP> kd <SEP> protein <SEP>;
<tb> tuberculosis
<tb> 983 <SEP> yjjC <SEP> 54% <SEP> Q9Z9N6 <SEP> yhaq <SEP>;<SEP> sp
<tb> 984 <SEP> yjjD <SEP> 26% <SEP> Q9Z9N5 <SEP> tnrb3protein <SEP>;<SEP> Bacillus <SEP> sp
<tb>

<Desc / Clms Page number 164>

<tb>
<tb> 985 <SEP> yjjE <SEP> putative
<tb> 986 <SEP> yjjF <SEP> 59% <SEP> AAF04741 <SEP> hypothetical <SEP> 18. <SEP> 7 <SEP> kd <SEP> protein <SEP>;
<tb> monocytogenes
<tb> 987 <SEP> yjjG <SEP> 60% <SEP> P71081 <SEP> hypothetical <SEP> 12. <SEP> 2 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 988 <SEP> yjjH <SEP> 25% <SEP> CAB48940 <SEP> hypothetical <SEP> 28. <SEP> 0 <SEP> kd <SEP> protein <SEP>;<SEP> abyssi
<tb> 989 <SEP> prfB <SEP> 52% <SEP> P28367 <SEP> peptide <SEP> chain <SEP> release <SEP> factor <SEP> 2 <SEP>;
<tb> subtilis
<tb> 990 <SEP> ftsE <SEP> 63% <SEP> 034814 <SEP> cell <SEP> division <SEP> atp-binding <SEP> protein <SEP>;
<tb> subtilis
<tb> 991 <SEP> ftsX <SEP> 38% <SEP> 034876 <SEP> cell <SEP> division <SEP> protein <SEP>;<SEP> subtilis
<tb> 992 <SEP> nrdF <SEP> 47% <SEP> 069274 <SEP> ribonucleotide <SEP> reductase <SEP> subunit <SEP>r2f;
<tb> Corynebacterium <SEP> ammonia
<tb> 993 <SEP> nrdE <SEP> 51% <SEP> Q9XD63 <SEP> ribonucleotide <SEP> reductase <SEP>alpha-chain;
<tb> Corynebacterium <SEP> glutamicum
<tb> 994 <SEP> ndrI <SEP> 93% <SEP> Q48709 <SEP> nrdi <SEP> protein <SEP>;<SEP> lactis
<tb> 995 <SEP> ndrH <SEP> 98% <SEP> Q48708 <SEP> glutaredoxin-like <SEP> protein <SEP> nrdh <SEP>;
<tb> lactis
<tb> 996 <SEP> ykaC <SEP> 58% <SEP> Q9X972 <SEP> hypothetical <SEP> 17. <SEP> 9 <SEP> kd <SEP> protein <SEP>;
<tb> gordonii
<tb> 997 <SEP> parE <SEP> 79% <SEP> Q59961 <SEP> topoisomerase <SEP> iv <SEP> subunit <SEP> b <SEP>;
<tb> pneumoniae
<tb> 998 <SEP> ykaE <SEP> putative
<tb> 999 <SEP> ykaF <SEP> 37% <SEP> CAB60666 <SEP> hypothetical <SEP> 25. <SEP> 4 <SEP> kd <SEP> protein <SEP>;
<tb> japonicum
<tb> 1000 <SEP> dnaQ <SEP> 42% <SEP> Q9zhf6 <SEP> dna <SEP> polymerase <SEP> iii, <SEP> alpha <SEP> chain <SEP>polc-type;
<tb> Thermotoga <SEP> maritima
<tb> 1001 <SEP> ykbA <SEP> 39% <SEP> P52077 <SEP> elaa <SEP>protein;<SEP> Escherichia <SEP> coli
<tb> 1002 <SEP> parC <SEP> 71% <SEP> Q9X5Y7 <SEP>park;<SEP> Streptococcus <SEP> mitis
<tb> 1003 <SEP> ykbB <SEP> 23% <SEP> Q9WW83 <SEP> hypothetical <SEP> 34. <SEP> 5 <SEP> kd <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1004 <SEP> ykbC <SEP> 23% <SEP> P40889 <SEP> hypothetical <SEP> 197. <SEP> 6 <SEP> kd <SEP> protein <SEP> in <SEP> fsp2 <SEP> 5 'region;
<tb> Saccharomyces <SEP> cerevisiae
<tb> 1005 <SEP> ykbD <SEP> putative
<tb> 1006 <SEP> ykbE <SEP> putative
<tb> 1007 <SEP> ykbF <SEP> putative
<tb> 1008 <SEP> ykcA <SEP> putative
<tb> 1009 <SEP> ykcB <SEP> putative
<tb> 1010 <SEP> ykcC <SEP> putative
<tb> 1011 <SEP> ribG <SEP> 45% <SEP> P50853 <SEP> riboflavin-specific <SEP> deaminase <SEP>;<SEP> Actinobacillus
<tb> pleuropneumoniae
<tb> 1012 <SEP> ribB <SEP> 58% <SEP> P50854 <SEP> riboflavin <SEP> synthase <SEP> alpha <SEP> chain <SEP>;
<tb> pleuropneumoniae
<tb> 1013 <SEP> ribA <SEP> 60% <SEP> P50855 <SEP> riboflavin <SEP> biosynthesis <SEP> protein <SEP> riba <SEP> [includes:
<tb> gtp <SEP> cyclohydrolase <SEP> ii <SEP>;<SEP> 3,4-dihydroxy-2-butanone
<tb> 4-ph. <SEP> Actinobacillus <SEP> pleuropneumoniae
<tb> 1014 <SEP> ribH <SEP> 67% <SEP> P50856 <SEP> 6,7-dimethyl-8-ribityllumazine <SEP> synthase
<tb> (riboflavin <SEP> synthase <SEP> beta. <SEP> Actinobacillus
<tb> pleuropneumoniae
<tb> 1015 <SEP> lspA <SEP> 78% <SEP> Q48729 <SEP> signal <SEP> peptidase <SEP> type <SEP> ii <SEP>;<SEP> lactis
<tb> 1016 <SEP> ykcD <SEP> 59% <SEP> Q45480 <SEP> hypothetical <SEP> 33. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> lsp-pyrr
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1017 <SEP> ykcE <SEP> 47% <SEP> P73185 <SEP> hypothetical <SEP> 16. <SEP> 0 <SEP> kd <SEP>protein;<SEP> Synechocystis <SEP> sp
<tb> 1018 <SEP> ykcF <SEP> putative
<tb> 1019 <SEP> ykcG <SEP> 50% <SEP> 034755 <SEP> hypothetical <SEP> 38. <SEP> 5 <SEP> kd <SEP> protein <SEP> in <SEP> tnra-sspd
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1020 <SEP> lrrE <SEP> 41% <SEP> 034903 <SEP> ykog <SEP>;<SEP> subtilis
<tb> 1021 <SEP> ykdA <SEP> putative
<tb> 1022 <SEP> kinE <SEP> 73% <SEP> 007386 <SEP> histidine <SEP> kinase <SEP>;<SEP> lactis
<tb> 1023 <SEP> ykdB <SEP> 66% <SEP> 007387 <SEP> histidine <SEP> kinase <SEP>;<SEP> lactis
<tb> 1024 <SEP> glmS <SEP> 59% <SEP> P39754 <SEP> B <SEP> glucosamine - fructose-6-phosphate
<tb> aminotransferase <SEP> [isomerizing] <SEP> (1-glutamine ...
<tb>

<Desc / Clms Page number 165>

<tb>
<tb>

1025 <SEP> radC <SEP> 40% <SEP> Q02170 <SEP> dna <SEP> repair <SEP> protein <SEP> radc <SEP>homolog;<SEP> Bacillus
<tb> subtilis
<tb> 1026 <SEP> pi201 <SEP> 99% <SEP> Q38325 <SEP>integrase;<SEP> Lactococcus <SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1027 <SEP> pi202 <SEP> 91% <SEP> Q38183 <SEP> orf <SEP>3;<SEP> Bacteriophage <SEP> tp901-l
<tb> 1028 <SEP> pi203 <SEP> 95% <SEP> Q38182 <SEP>orf2;<SEP> Bacteriophage <SEP> tp901-l
<tb> 1029 <SEP> pi204 <SEP> 98% <SEP> 048503 <SEP> hypothetical <SEP> 20. <SEP> 8 <SEP> kd <SEP>protein;<SEP> Bacteriophage
<tb> tp901-l
<tb> 1030 <SEP> pi205 <SEP> 100% <SEP> 048504 <SEP> hypothetical <SEP> 8. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Bacteriophage
<tb> tp901-l
<tb> 1031 <SEP> pi206 <SEP> 100% <SEP> 048505 <SEP> hypothetical <SEP> 28. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Bacteriophage
<tb> tp901-l
<tb> 1032 <SEP> pi207 <SEP> 100% <SEP> Q38331 <SEP>orflll;<SEP> Lactococcus <SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1033 <SEP> pi208 <SEP> 98% <SEP> Q9XJEO <SEP> hypothetical <SEP> 9.9 <SEP> kd <SEP>protein;<SEP> Bacteriophage
<tb> tuc2009
<tb> 1034 <SEP> pi209 <SEP> 100% <SEP> Q38272 <SEP>orf7l;<SEP> Lactococcus <SEP> bacteriophage
<tb> 1035 <SEP> pi210 <SEP> 100% <SEP> Q9XJE3 <SEP> hypothetical <SEP> 20. <SEP> 1 <SEP> kd <SEP>protein;<SEP> Bacteriophage
<tb> tuc2009
<tb> 1036 <SEP> pi211 <SEP> 94% <SEP> Q9XJE4 <SEP> putative <SEP> topoisomerase <SEP>i;<SEP> Bacteriophage <SEP> tuc2009
<tb> 1037 <SEP> pi212 <SEP> 87% <SEP> Q9XJE5 <SEP> putative <SEP> single <SEP> stranded <SEP> binding <SEP>protein;
<tb> Bacteriophage <SEP> tuc2009
<tb> 1038 <SEP> pi213 <SEP> 94% <SEP> Q9XJE6 <SEP> putative <SEP> replisome <SEP> organize <SEP>protein;
<tb> Bacteriophage <SEP> tuc2009
<tb> 1039 <SEP> pi214 <SEP> 99% <SEP> Q9XJE7 <SEP> hypothetical <SEP> 27. <SEP> 2 <SEP> kd <SEP>protein;<SEP> Bacteriophage
<tb> tuc2009
<tb> 1040 <SEP> pi215 <SEP> 88% <SEP> Q9XJE9 <SEP> hypothetical <SEP> 15. <SEP> 8 <SEP> kd <SEP>protein;<SEP> Bacteriophage
<tb> tuc2009
<tb> 1041 <SEP> pi216 <SEP> 93% <SEP> Q38101 <SEP>orfl5;<SEP> Bacteriophage <SEP> rlt
<tb> 1042 <SEP> pi217 <SEP> putative
<tb> 1043 <SEP> pi218 <SEP> 71% <SEP> Q9XJF1 <SEP> hypothetical <SEP> 22. <SEP> 4 <SEP> kd <SEP>protein;<SEP> Bacteriophage
<tb> tuc2009
<tb> 1044 <SEP> pi219 <SEP> putative
<tb> 1045 <SEP> pi220 <SEP> 72% <SEP> Q9XJF3 <SEP> hypothetical <SEP> 14. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Bacteriophage
<tb> tuc2009
<tb> 1046 <SEP> pi221 <SEP> 99% <SEP> Q38106 <SEP>dutpase;<SEP> Bacteriophage <SEP> rlt
<tb> 1047 <SEP> pi222 <SEP> putative
<tb> 1048 <SEP> pi223 <SEP> putative
<tb> 1049 <SEP> pi224 <SEP> putative
<tb> 1050 <SEP> pi225 <SEP> putative
<tb> 1051 <SEP> pi226 <SEP> 84% <SEP> 053058 <SEP> hypothetical <SEP> 11. <SEP> 0 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 1052 <SEP> pi227 <SEP> putative
<tb> 1053 <SEP> pi228 <SEP> 31% <SEP> Q9XJD9 <SEP> hypothetical <SEP> 21. <SEP> 5 <SEP> kd <SEP>protein;<SEP> Streptococcus
<tb> thermophilus <SEP> bacteriophage <SEP> dtl
<tb> 1054 <SEP> pi229 <SEP> putative
<tb> 1055 <SEP> pi230 <SEP> 22% <SEP> Q9XJT6 <SEP> putative <SEP>terminase;<SEP> Bacteriophage <SEP> d3
<tb> 1056 <SEP> pi231 <SEP> putative
<tb> 1057 <SEP> pi232 <SEP> 30% <SEP> Q9ZXF7 <SEP>orf26;<SEP> Bacteriophage <SEP> phi-105
<tb> 1058 <SEP> pi233 <SEP> 31% <SEP> P25386 <SEP> intracellular <SEP> protein <SEP> transport <SEP> protein <SEP>usol;
<tb> Saccharomyces <SEP> cerevisiae
<tb> 1059 <SEP> pi234 <SEP> putative
<tb> 1060 <SEP> pi235 <SEP> putative
<tb> 1061 <SEP> pi236 <SEP> putative
<tb> 1062 <SEP> pi237 <SEP> putative
<tb> 1063 <SEP> pi238 <SEP> putative
<tb> 1064 <SEP> pi239 <SEP> 24% <SEP> Q9ZXE9 <SEP>orf34;<SEP> Bacteriophage <SEP> phi-105
<tb> 1065 <SEP> pi240 <SEP> putative
<tb> 1066 <SEP> pi241 <SEP> putative
<tb> 1067 <SEP> pi242 <SEP> 22% <SEP> P26812 <SEP> hypothetical <SEP> protein <SEP> in <SEP> mcp <SEP> 3 '<SEP>region;
<tb> Lactococcus <SEP> lactis <SEP> bacteriophage <SEP> f4-1
<tb> 1068 <SEP> pi243 <SEP> 26% <SEP> CAB52531 <SEP> hypothetical <SEP> 28. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Lactobacillus
<tb> bacteriophage <SEP> phi <SEP> adh
<tb>

<Desc / Clms Page number 166>

<tb>
<tb> 1069 <SEP> pi244 <SEP> 41% <SEP> 051277 <SEP> conserved <SEP> hypothetical <SEP>protein;<SEP> Borrelia
<tb> burgdorferi
<tb> 1070 <SEP> pi245 <SEP> putative
<tb> 1071 <SEP> pi246 <SEP> putative
<tb> 1072 <SEP> pi247 <SEP> putative
<tb> 1073 <SEP> pi248 <SEP> putative
<tb> 1074 <SEP> pi249 <SEP> putative
<tb> 1075 <SEP> pi250 <SEP> 95% <SEP> Q38321 <SEP> orf75 <SEP>;<SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1076 <SEP> pi251 <SEP> 91% <SEP> Q38322 <SEP> orf95 <SEP>;<SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1077 <SEP> pi252 <SEP> 98% <SEP> Q38323 <SEP>orf259;<SEP> Lactococcus <SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1078 <SEP> ykhD <SEP> 48% <SEP> 005521 <SEP> hypothetical <SEP> 24. <SEP> 1 <SEP> kd <SEP> protein <SEP>ydih;<SEP> Bacillus
<tb> subtilis
<tb> 1079 <SEP> ykhE <SEP> 45% <SEP> 031602 <SEP> yjbd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1080 <SEP> ykhF <SEP> 51% <SEP> 005519 <SEP> hypothetical <SEP> abc <SEP> transporter <SEP> atp-binding <SEP> protein
<tb>ydif;<SEP> Bacillus <SEP> subtilis
<tb> 1081 <SEP> ykhG <SEP> putative
<tb> 1082 <SEP> ykhH <SEP> putative
<tb> 1083 <SEP> ykhJ <SEP> putative
<tb> 1084 <SEP> ykhI <SEP> 27% <SEP> 030416 <SEP> positive <SEP> regulator <SEP> gadr <SEP>;<SEP> lactis
<tb> 1085 <SEP> ykhK <SEP> putative
<tb> 1086 <SEP> pyrE <SEP> 72% <SEP> Q9ZHA6 <SEP> orotate <SEP> phosphoribosyltransferase <SEP>pyre;
<tb> Streptococcus <SEP> pneumoniae
<tb> 1087 <SEP> pyrC <SEP> 42% <SEP> 066990 <SEP>dihydroorotase;<SEP> Aquifex <SEP> aeolicus
<tb> 1088 <SEP> dnaD <SEP> 41% <SEP> P95775 <SEP> orf2 <SEP> protein <SEP>;<SEP> mutans
<tb> 1089 <SEP> nth <SEP> 49% <SEP> P39788 <SEP> probable <SEP> endonuclease <SEP> iii <SEP>(dna-;<SEP> Bacillus
<tb> subtilis
<tb> 1090 <SEP> ykiC <SEP> 49% <SEP> P95776 <SEP> orf3 <SEP> protein <SEP>;<SEP> mutans
<tb> 1091 <SEP> ykiD <SEP> 46% <SEP> P95777 <SEP> orf4 <SEP>protein;<SEP> Streptococcus <SEP> mutans
<tb> 1092 <SEP> ykiE <SEP> 23% <SEP> Q9X563 <SEP> hypothetical <SEP> 14.2 <SEP> kd <SEP> protein <SEP>;
<tb> faecium
<tb> 1093 <SEP> ykiF <SEP> 41% <SEP> P09997 <SEP> hypothetical <SEP> 29. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> ibpa-gyrb
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 1094 <SEP> ykiG <SEP> 51% <SEP> P39651 <SEP> hypothetical <SEP> 51. <SEP> 0 <SEP> kd <SEP> protein <SEP> in <SEP> pta <SEP> 3 'region;
<tb> Bacillus <SEP> subtilis
<tb> 1095 <SEP> ykiH <SEP> putative
<tb> 1096 <SEP> ykiI <SEP> putative
<tb> 1097 <SEP> rplU <SEP> 67% <SEP> P26908 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 121 <SEP>;<SEP> subtilis
<tb> 1098 <SEP> ykjA <SEP> 35% <SEP> P26942 <SEP> hypothetical <SEP> 12. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> rplu-rpma
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1099 <SEP> rpmA <SEP> 74% <SEP> Q44312 <SEP> ribosomal <SEP> protein <SEP> 127 <SEP>;<SEP> sp
<tb> 1100 <SEP> ykjB <SEP> 41% <SEP> AAD46619 <SEP> nramp <SEP> protein <SEP> mnth2 <SEP>;<SEP> aeruginosa
<tb> 1101 <SEP> ykjC <SEP> putative
<tb> 1102 <SEP> phoL <SEP> 62% <SEP> P46343 <SEP> phoh-like <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1103 <SEP> ykjE <SEP> 40% <SEP> P46351 <SEP> hypothetical <SEP> 45. <SEP> 4 <SEP> kd <SEP> protein <SEP> in <SEP> thiaminase <SEP> i
<tb>5'rgion;<SEP> Bacillus <SEP> subtilis
<tb> 1104 <SEP> ykjF <SEP> 61% <SEP> 051806 <SEP> diacyglycerol <SEP> kinase <SEP>;<SEP> mutans
<tb> 1105 <SEP> dgkA <SEP> 68% <SEP> Q05888 <SEP> diacylglycerol <SEP> kinase <SEP>;<SEP> Streptococcus <SEP> mutans
<tb> 1106 <SEP> ykjH <SEP> 30% <SEP> Q45226 <SEP> signal <SEP> peptidase <SEP>sips;<SEP> Bradyrhizobium <SEP> japonicum
<tb> 1107 <SEP> comFC <SEP> 36% <SEP> P39147 <SEP> comf <SEP> operon <SEP> protein <SEP>3;<SEP> Bacillus <SEP> subtilis
<tb> 1108 <SEP> comFA <SEP> 36% <SEP> P39145 <SEP> comf <SEP> operon <SEP> protein <SEP> 1 <SEP>;<SEP> subtilis
<tb> 1109 <SEP> ykjI <SEP> 46% <SEP> P32437 <SEP> hypothetical <SEP> 24. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> degs-tago
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1110 <SEP> ykjJ <SEP> 41% <SEP> CAB61225 <SEP> vayz <SEP>protein;<SEP> Bacillus <SEP> circulans
<tb> 1111 <SEP> ykjK <SEP> 39% <SEP> 006378 <SEP> hypothetical <SEP> 39. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Mycobacterium
<tb> tuberculosis
<tb> 1112 <SEP> nucA <SEP> 30% <SEP> Q9X6T9 <SEP>5'-nucleotidase<SEP> nuca <SEP>precursor;<SEP> Haemophilus
<tb> influenzae
<tb> 1113 <SEP> glySa <SEP> 71% <SEP> P54380 <SEP> glycyl-trna <SEP> synthetase <SEP> alpha <SEP>chain;<SEP> Bacillus
<tb> subtilis
<tb> 1114 <SEP> glySb <SEP> 41% <SEP> P54381 <SEP> glycyl-trna <SEP> synthetase <SEP> beta <SEP>chain;<SEP> Bacillus
<tb> subtilis
<tb>

<Desc / Clms Page number 167>

<tb>
<tb> 1115 <SEP> ylaC <SEP> 32% <SEP> 031818 <SEP> ynzc <SEP> protein <SEP>;<SEP> subtilis
<tb> 1116 <SEP> ylaD <SEP> 30% <SEP> Q9Z9W7 <SEP> transposase <SEP> protein <SEP>;<SEP> sp
<tb> 1117 <SEP> ylaE <SEP> 45% <SEP> P54455 <SEP> hypothetical <SEP> 22. <SEP> 2 <SEP> kd <SEP> protein <SEP> in <SEP> arod-comer
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1118 <SEP> ylaF <SEP> 61% <SEP> 032090 <SEP> yuek <SEP> protein <SEP>;<SEP> Bacillussubtilis
<tb> 1119 <SEP> ylaG <SEP> 30% <SEP> P46854 <SEP> hypothetical <SEP> 18. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> gntr-ggt
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 1120 <SEP> nadE <SEP> 65% <SEP> P18843 <SEP> nh-dependent <SEP> nad <SEP> synthetase <SEP>;<SEP> coli
<tb> 1121 <SEP> ylbA <SEP> 53% <SEP> 028456 <SEP> abc <SEP> transporter, <SEP> atp-binding <SEP>protein;
<tb> Archaeoglobus <SEP> fulgidus
<tb> 1122 <SEP> ylbB <SEP> 24% <SEP> 028455 <SEP> hypothetical <SEP> 89. <SEP> 0 <SEP> kd <SEP> protein <SEP>;
<tb> fulgidus
<tb> 1123 <SEP> cobQ <SEP> 43% <SEP> Q9ZGG8 <SEP> cobyric <SEP> acid <SEP> synthase <SEP> cobq <SEP>;
<tb> mobilis
<tb> 1124 <SEP> ylbD <SEP> 33% <SEP> Q9ZGG7 <SEP> udp-n-acetylmuramyl <SEP> tripeptide <SEP> synthetase <SEP>ripe;
<tb> Heliobacillus <SEP> mobilis
<tb> 1125 <SEP> aldC <SEP> 35% <SEP> P95676 <SEP> alpha-acetolactate <SEP> decarboxylase <SEP>;
<tb> lactis
<tb> 1126 <SEP> lepA <SEP> 74% <SEP> P37949 <SEP> gtp-binding <SEP> protein <SEP>lepa;<SEP> Bacillus <SEP> subtilis
<tb> 1127 <SEP> ylbE <SEP> 36% <SEP> 007609 <SEP> hypothetical <SEP> 22. <SEP> 8 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 1128 <SEP> ylcA <SEP> 53% <SEP> BAA35634 <SEP> hypothetical <SEP> 52. <SEP> 1 <SEP> kd <SEP> protein <SEP> in <SEP> ebgc-uxaa
<tb> intergenic <SEP>region;<SEP>;<SEP> Escherichia <SEP> coli
<tb> 1129 <SEP> gyrA <SEP> 71% <SEP> CAA06715 <SEP> dna <SEP> gyrase <SEP> subunit <SEP> a <SEP>;<SEP> pneumoniae
<tb> 1130 <SEP> apbE <SEP> 30% <SEP> Q9X1N9 <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;
<tb> maritima
<tb> 1131 <SEP> ylcC <SEP> 40% <SEP> P94587 <SEP> mbl, <SEP> flh <SEP> [o, p], <SEP> rapd, ywp [b, c, d, e, f, g, h, i, j] <SEP> and
<tb> ywqa <SEP>genes;<SEP> Bacillus <SEP> subtilis
<tb> 1132 <SEP> ylcD <SEP> putative
<tb> 1133 <SEP> ylcE <SEP> putative
<tb> 1134 <SEP> ylcF <SEP> putative
<tb> 1135 <SEP> ylcG <SEP> 28% <SEP> P94974 <SEP> hypothetical <SEP> 128. <SEP> 2 <SEP> kd <SEP> protein <SEP>;
<tb> tuberculosis
<tb> 1136 <SEP> yldA <SEP> putative
<tb> 1137 <SEP> yldB <SEP> 30% <SEP> 006251 <SEP> hypothetical <SEP> 26. <SEP> 8 <SEP> kd <SEP> protein <SEP>;
<tb> tuberculosis
<tb> 1138 <SEP> pcrA <SEP> 53% <SEP> P56255 <SEP> atp-dependent <SEP> helicase <SEP>pcra;<SEP> Bacillus
<tb> stearothermophilus
<tb> 1139 <SEP> mutX <SEP> 32% <SEP> P41354 <SEP> mutator <SEP> mutt <SEP> protein <SEP>;<SEP> pneumoniae
<tb> 1140 <SEP> tag <SEP> 46% <SEP> Q9X6Y6 <SEP> putative <SEP> dna-3-methyladenine <SEP> glycosidase <SEP>i;
<tb> Bifidobacterium <SEP> longum
<tb> 1141 <SEP> yldC <SEP> 66% <SEP> 032784 <SEP> hypothetical <SEP> 16. <SEP> 9 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 1142 <SEP> frdC <SEP> 43% <SEP> Q9X969 <SEP> fumarate <SEP> reductase <SEP> flavocytochrome <SEP> c3 <SEP>;
<tb> Shewanella <SEP> frigidimarina
<tb> 1143 <SEP> yldE <SEP> putative
<tb> 1144 <SEP> truB <SEP> 73% <SEP> 032785 <SEP> hypothetical <SEP> 19. <SEP> 7 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 1145 <SEP> ribC <SEP> 48% <SEP> 034127 <SEP> macrolide-efflux <SEP> protein <SEP>;<SEP> Streptococcus
<tb> agalactiae
<tb> 1146 <SEP> ldhX <SEP> 35% <SEP> P94885 <SEP> 1-lactate <SEP> dehydrogenase <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1147 <SEP> yleB <SEP> 29% <SEP> 050983 <SEP> outer <SEP> surface <SEP> protein, <SEP> putative <SEP>;
<tb> burgdorferi
<tb> 1148 <SEP> yleC <SEP> 52% <SEP> 031420 <SEP> ybbi <SEP> protein <SEP>;<SEP> subtilis
<tb> 1149 <SEP> yleD <SEP> 42% <SEP> Q45579 <SEP> ybbf <SEP>;<SEP> subtilis
<tb> 1150 <SEP> yleE <SEP> 52% <SEP> P40739 <SEP> pts <SEP> system, <SEP> beta-glucosides-specific <SEP> iiabc
<tb> component <SEP> (ec. <SEP> Bacillus <SEP> subtilis
<tb> 1151 <SEP> yleF <SEP> 31% <SEP> Q45581 <SEP> hypothetical <SEP> 33. <SEP> 3 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 1152 <SEP> tpiA <SEP> 99% <SEP> P50918 <SEP> triosephosphate <SEP> isomerase <SEP>;<SEP> lactis
<tb> 1153 <SEP> yleG <SEP> 29% <SEP> P12256 <SEP> penicillin <SEP> acylase <SEP>;<SEP> sphaericus
<tb> 1154 <SEP> ylfA <SEP> putative
<tb> 1155 <SEP> ylfB <SEP> 28% <SEP> BAA35232 <SEP> orf-id: ol66 # 5; <SEP> Escherichia <SEP> coli
<tb>

<Desc / Clms Page number 168>

<tb>
<tb> 1156 <SEP> ylfC <SEP> 47% <SEP> P77174 <SEP> hypothetical <SEP> 23. <SEP> 9 <SEP> kd <SEP> protein <SEP> in <SEP> csta-dsbg
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 1157 <SEP> hemN <SEP> 45% <SEP> CAB61616 <SEP> hemn <SEP> protein <SEP>;<SEP> subtilis
<tb> 1158 <SEP> ylfD <SEP> 25% <SEP> P34020 <SEP> autolytic <SEP>lysozyme;<SEP> Clostridium <SEP> acetobutylicum
<tb> 1159 <SEP> ylfE <SEP> 50% <SEP> CAB49495 <SEP> dcmp <SEP> deaminase, <SEP>putative;<SEP> Pyrococcus <SEP> abyssi
<tb> 1160 <SEP> ylfF <SEP> 25% <SEP> Q42714 <SEP> oleoyl-acyl <SEP> carrier <SEP> protein <SEP> thioesterase
<tb> precursor <SEP> (s-acyl <SEP> fatty <SEP> acid <SEP> synthase <SEP> thioeste.
<tb>

Carthamus <SEP> tinctorius
<tb> 1161 <SEP> ylfG <SEP> 28% <SEP> 004792 <SEP> acyl-acp <SEP>thioesterase;<SEP> Garcinia <SEP> mangostana
<tb> 1162 <SEP> ylfH <SEP> 45% <SEP> 032125 <SEP> yutf <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1163 <SEP> ylfI <SEP> putative
<tb> 1164 <SEP> guaC <SEP> 74% <SEP> 005269 <SEP> hypothetical <SEP> 35. <SEP> 8 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1165 <SEP> xpt <SEP> 68% <SEP> CAA13587 <SEP> xanthine <SEP>phosphoribosyltransferase;
<tb> Streptococcus <SEP> pneumoniae
<tb> 1166 <SEP> pbuX <SEP> 48% <SEP> P42086 <SEP> xanthine <SEP> permease <SEP>;<SEP> subtilis
<tb> 1167 <SEP> ylgB <SEP> putative
<tb> 1168 <SEP> ylgC <SEP> 57% <SEP> P32813 <SEP> hypothetical <SEP> 18. <SEP> 2 <SEP> kd <SEP> protein <SEP> in <SEP> glda <SEP> 3 'region;
<tb> Bacillus <SEP> stearothermophilus
<tb> 1169 <SEP> dfrA <SEP> 92% <SEP> Q59487 <SEP> dihydrofolate <SEP> reductase <SEP>;<SEP> lactis
<tb> 1170 <SEP> clpX <SEP> 64% <SEP> P50866 <SEP> atp-dependent <SEP> clp <SEP> protease <SEP> atp-binding <SEP> subunit
<tb>clpx;<SEP> Bacillus <SEP> subtilis
<tb> 1171 <SEP> ysxL <SEP> 66% <SEP> P38424 <SEP> hypothetical <SEP> gtp-binding <SEP> protein <SEP> in <SEP> lona-hema
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1172 <SEP> folB <SEP> 32% <SEP> AAF09757 <SEP> dihydroneopterin <SEP> aldolase <SEP>;
<tb> radiodurans
<tb> 1173 <SEP> folE <SEP> 48% <SEP> AAF09628 <SEP> gtp <SEP> cyclohydrolase <SEP> i <SEP>;<SEP> radiodurans
<tb> 1174 <SEP> folP <SEP> 36% <SEP> 067448 <SEP> dihydropteroate <SEP>synthase;<SEP> Aquifex <SEP> aeolicus
<tb> 1175 <SEP> ylgG <SEP> putative
<tb> 1176 <SEP> folC <SEP> 41% <SEP> Q05865 <SEP> folylpolyglutamate <SEP>synthase;<SEP> Bacillus <SEP> subtilis
<tb> 1177 <SEP> ylhA <SEP> 76% <SEP> Q9ZB43 <SEP> hypothetical <SEP> 24. <SEP> 8 <SEP> kd <SEP> protein <SEP>;
<tb> pyogenes
<tb> 1178 <SEP> hom <SEP> 91% <SEP> P52985 <SEP> homoserine <SEP> dehydrogenase <SEP>;<SEP> lactis
<tb> 1179 <SEP> thrB <SEP> 78% <SEP> P52991 <SEP> homoserine <SEP> kinase <SEP>;<SEP> lactis
<tb> 1180 <SEP> ylhB <SEP> putative
<tb> 1181 <SEP> murB <SEP> 39% <SEP> AAD53934 <SEP> udp-n-acetylenolpyruvoylglucosamine <SEP> reductase <SEP>;
<tb> Zymomonas <SEP> mobilis
<tb> 1182 <SEP> potA <SEP> 46% <SEP> 051587 <SEP> spermidine / putrescine <SEP> abc <SEP> transporter, <SEP> atpbinding <SEP> protein <SEP>;<SEP> burgdorferi
<tb> 1183 <SEP> potB <SEP> 32% <SEP> 085819 <SEP>potb;<SEP> Actinobacillus <SEP> actinomycetemcomitans
<tb> 1184 <SEP> potC <SEP> 38% <SEP> 051585 <SEP> spermidine / putrescine <SEP> abc <SEP> transporter, <SEP> permease
<tb>protein;<SEP> Borrelia <SEP> burgdorferi
<tb> 1185 <SEP> potD <SEP> 43% <SEP> P23861 <SEP> spermidine / putrescine-binding <SEP> periplasmic
<tb> protein <SEP>precursor;<SEP> Escherichia <SEP> coli
<tb> 1186 <SEP> yliA <SEP> 28% <SEP> P49330 <SEP> rgg <SEP>protein;<SEP> Streptococcus <SEP> gordonii <SEP> challis
<tb> 1187 <SEP> yliB <SEP> 24% <SEP> 058549 <SEP> 459aa <SEP> long <SEP> hypothetical <SEP>methyltransferase;
<tb> Pyrococcus <SEP> horikoshii
<tb> 1188 <SEP> yliC <SEP> 25% <SEP> CAB49999 <SEP> multidrug <SEP> resistance <SEP>protein;<SEP> Pyrococcus <SEP> abyssi
<tb> 1189 <SEP> yliD <SEP> 31% <SEP> Q9WYH7 <SEP> permease, <SEP>putative;<SEP> Thermotoga <SEP> maritima
<tb> 1190 <SEP> yliE <SEP> putative
<tb> 1191 <SEP> yliF <SEP> putative
<tb> 1192 <SEP> yliG <SEP> putative
<tb> 1193 <SEP> clsB <SEP> 41% <SEP> P71040 <SEP> hypothetical <SEP> 55. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> spoiiq-mta
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1194 <SEP> yliI <SEP> 33% <SEP> 008365 <SEP> probable <SEP> cation-transporting <SEP> atpase <SEP>e;
<tb> Mycobacterium <SEP> tuberculosis
<tb> 1195 <SEP> yljA <SEP> 33% <SEP> Q9Z4W5 <SEP> putative <SEP> integral <SEP> membrane <SEP> atpase <SEP>;
<tb> coelicolor
<tb> 1196 <SEP> yljB <SEP> 47% <SEP> 051589 <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;
<tb> burgdorferi
<tb> 1197 <SEP> yljC <SEP> 32% <SEP> P26833 <SEP> hypothetical <SEP> 31. <SEP> 2 <SEP> kd <SEP> protein <SEP> in <SEP> nagh <SEP> 5 'region;
<tb> Clostridium <SEP> perfringens
<tb>

<Desc / Clms Page number 169>

<tb>
<tb> 1198 <SEP> yljD <SEP> putative
<tb> 1199 <SEP> yljE <SEP> 43% <SEP> 031503 <SEP> yefa <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1200 <SEP> yljF <SEP> 52% <SEP> Q55555 <SEP>orfl;<SEP> Synechocystis <SEP> sp
<tb> 1201 <SEP> yljG <SEP> 77% <SEP> 032813 <SEP> lactococcus <SEP> lactis <SEP> orfa <SEP> and <SEP> orfb <SEP> genes, <SEP> partial
<tb> cds <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1202 <SEP> yljH <SEP> 60% <SEP> 032814 <SEP> lactococcus <SEP> lactis <SEP> orfa <SEP> and <SEP> orfb <SEP> genes, <SEP> partial
<tb> cds <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1203 <SEP> yljI <SEP> 79% <SEP> 032814 <SEP> lactococcus <SEP> lactis <SEP> orfa <SEP> and <SEP> orfb <SEP> genes, <SEP> partial
<tb> cds <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1204 <SEP> yljJ <SEP> 96% <SEP> Q48633 <SEP> alpha-acetolactate <SEP> synthase <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1205 <SEP> als <SEP> 97% <SEP> Q48634 <SEP> alpha-acetolactate <SEP> synthase <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1206 <SEP> ymaB <SEP> putative
<tb> 1207 <SEP> mae <SEP> 62% <SEP> CAB60039 <SEP> putative <SEP> malic <SEP>enzyme;<SEP> Weissella
<tb> paramesenteroides
<tb> 1208 <SEP> ymaE <SEP> 35% <SEP> Q48797 <SEP> malate <SEP> permease <SEP>;<SEP> Oenococcus <SEP> oeni
<tb> 1209 <SEP> ymaF <SEP> 49% <SEP> CAA57770 <SEP> malate <SEP> permease <SEP>;<SEP> Oenococcus <SEP> oeni
<tb> 1210 <SEP> ymaG <SEP> putative
<tb> 1211 <SEP> cliR <SEP> 41% <SEP> 086289 <SEP> regulatory <SEP> protein <SEP>;<SEP> Leuconostoc <SEP> mesenteroides
<tb> 1212 <SEP> citC <SEP> 48% <SEP> CAB60040 <SEP> putative <SEP> citrate <SEP> lyase <SEP>ligase;<SEP> Weissella
<tb> paramesenteroides
<tb> 1213 <SEP> citD <SEP> 60% <SEP> CAB60041 <SEP> putative <SEP> gamma <SEP> subunit <SEP> of <SEP> citrate <SEP>lyase;
<tb> Weissella <SEP> paramesenteroides
<tb> 1214 <SEP> citE <SEP> 67% <SEP> 053078 <SEP> citrate <SEP> lyase <SEP> beta <SEP> chain <SEP>;<SEP> Leuconostoc
<tb> mesenteroides
<tb> 1215 <SEP> citF <SEP> 80% <SEP> CAB60043 <SEP> putative <SEP> alfa <SEP> subunit <SEP> of <SEP> citrate <SEP>lyase;
<tb> Weissella <SEP> paramesenteroides
<tb> 1216 <SEP> citG <SEP> 46% <SEP> 053080 <SEP> citg <SEP> protein <SEP>;<SEP> mesenteroides
<tb> 1217 <SEP> ymbA <SEP> 29% <SEP> Q54877 <SEP> integrase <SEP>;<SEP> pneumoniae
<tb> 1218 <SEP> ymbC <SEP> putative
<tb> 1219 <SEP> ymbD <SEP> putative
<tb> 1220 <SEP> ymbE <SEP> 26% <SEP> 005949 <SEP> dna <SEP> polymerase <SEP> i <SEP>;<SEP> prowazekii
<tb> 1221 <SEP> ymbF <SEP> putative
<tb> 1222 <SEP> ymbG <SEP> putative
<tb> 1223 <SEP> ymbH <SEP> 23% <SEP> Q58437 <SEP> hypothetical <SEP> protein <SEP>mj1031;<SEP> Methanococcus
<tb> jannaschii
<tb> 1224 <SEP> tra981E <SEP> 91% <SEP> Q48668 <SEP> insertion <SEP> sequence <SEP> is981 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1225 <SEP> ymbI <SEP> 98% <SEP> Q48667 <SEP> insertion <SEP> sequence <SEP> is981 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1226 <SEP> ymbJ <SEP> 32% <SEP> 032802 <SEP> x42 <SEP>;<SEP> lactis
<tb> 1227 <SEP> ymbK <SEP> putative
<tb> 1228 <SEP> ymcA <SEP> putative
<tb> 1229 <SEP> ymcB <SEP> 21% <SEP> Q9X336 <SEP> pxol-66 <SEP>;<SEP> anthracis
<tb> 1230 <SEP> ymcC <SEP> putative
<tb> 1231 <SEP> ymcD <SEP> 98% <SEP> Q48667 <SEP> insertion <SEP> sequence <SEP> is981 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1232 <SEP> tra981F <SEP> 91% <SEP> Q48668 <SEP> insertion <SEP> sequence <SEP> is981 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1233 <SEP> ymcE <SEP> 44% <SEP> 006027 <SEP> epsr <SEP> protein <SEP>;<SEP> lactis
<tb> 1234 <SEP> ymcF <SEP> 30% <SEP> P32653 <SEP> muramidase-released <SEP> protein <SEP>precursor;
<tb> Streptococcus <SEP> am
<tb> 1235 <SEP> ymcG <SEP> 31% <SEP> Q9XAS7 <SEP> r5 <SEP> protein <SEP> precursor <SEP>;<SEP> Streptococcusagalactiae
<tb> 1236 <SEP> tra905 <SEP> 96% <SEP> P35881 <SEP> transposase <SEP> for <SEP> insertion <SEP> sequence <SEP> element
<tb> is905 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1237 <SEP> ymcH <SEP> 93% <SEP> Q02146 <SEP> hypothetical <SEP> protein <SEP> in <SEP> hisc <SEP>5'region;
<tb> Lactococcus <SEP> lactis
<tb> 1238 <SEP> hisC <SEP> 98% <SEP> Q02135 <SEP> histidinol-phosphate <SEP>aminotransferase;
<tb> Lactococcus <SEP> lactis
<tb> 1239 <SEP> hisX <SEP> 91% <SEP> Q02147 <SEP> hypothetical <SEP> 38. <SEP> 0 <SEP> kd <SEP> protein <SEP> in <SEP> hisc-hisg
<tb> intergenic <SEP>region;<SEP> Lactococcus <SEP> lactis
<tb> 1240 <SEP> hisG <SEP> 98% <SEP> Q02129 <SEP> atp <SEP> phosphoribosyltransferase <SEP>;
<tb> Lactococcuslactis
<tb> 1241 <SEP> hisD <SEP> 93% <SEP> Q02136 <SEP> histidinol <SEP> dehydrogenase <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1242 <SEP> ymdA <SEP> 87% <SEP> Q02148 <SEP> hypothetical <SEP> 30. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> hisd-hisb
<tb> intergenic <SEP>region;<SEP> Lactococcus <SEP> lactis
<tb>

<Desc / Clms Page number 170>

<tb>
<tb> 1243 <SEP> hisB <SEP> 98% <SEP> Q02134 <SEP> imidazoleglycerol-phosphate <SEP> dehydratase <SEP>;
<tb> Lactococcus <SEP> lactis
<tb> 1244 <SEP> ymdC <SEP> 99% <SEP> Q02149 <SEP> probable <SEP> aminoglycoside <SEP>3'-phosphotransferase;
<tb> Lactococcus <SEP> lactis
<tb> 1245 <SEP> hisH <SEP> 98% <SEP> Q02132 <SEP> amidotransferase <SEP> hish <SEP>;<SEP> lactis
<tb> 1246 <SEP> hisA <SEP> 96% <SEP> Q02131 <SEP> phosphoribosylformimino-5-aminoimidazole
<tb> carboxamide <SEP> ribotide <SEP> isomerase <SEP>;
<tb> lactis
<tb> 1247 <SEP> hisF <SEP> 89% <SEP> Q02133 <SEP> hisf <SEP> protein <SEP>;<SEP> Lactococcuslactis
<tb> 1248 <SEP> hisI <SEP> 99% <SEP> Q02130 <SEP> histidine <SEP> biosynthesis <SEP> bifunctional <SEP> protein
<tb> hisie <SEP> [includes: <SEP> phosphoribosyl-amp
<tb> cyclohydrolase <SEP>;<SEP> phosphori. <SEP> Lactococcus <SEP> lactis
<tb> 1249 <SEP> hisK <SEP> 95% <SEP> Q02150 <SEP> hypothetical <SEP> 31. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> hisie <SEP> 3 'region;
<tb> Lactococcus <SEP> lactis
<tb> 1250 <SEP> ymdE <SEP> 99% <SEP> 034131 <SEP> hypothetical <SEP> 36. <SEP> 8 <SEP> kd <SEP> protein <SEP>;
<tb> Lactococcuslactis
<tb> 1251 <SEP> leuA <SEP> 93% <SEP> Q02141 <SEP> 2-isopropylmalate <SEP> synthase <SEP>;<SEP> lactis
<tb> 1252 <SEP> leuB <SEP> 99% <SEP> Q02143 <SEP> 3-isopropylmalate <SEP> dehydrogenase <SEP>;
<tb> Lactococcuslactis
<tb> 1253 <SEP> ymeA <SEP> putative
<tb> 1254 <SEP> leuC <SEP> 93% <SEP> Q02142 <SEP> 3-isopropylmalate <SEP> dehydratase <SEP> large <SEP>subunit;
<tb> Lactococcus <SEP> lactis
<tb> 1255 <SEP> leuD <SEP> 100% <SEP> Q02144 <SEP> 3-isopropylmalate <SEP> dehydratase <SEP> small <SEP>subunit;
<tb> Lactococcus <SEP> lactis
<tb> 1256 <SEP> ymeB <SEP> 86% <SEP> Q02151 <SEP> hypothetical <SEP> abc <SEP> transporter <SEP> atp-binding <SEP> protein
<tb> in <SEP> node <SEP>3'region;<SEP> Lactococcus <SEP> lactis
<tb> 1257 <SEP> ilvD <SEP> 95% <SEP> Q02139 <SEP> dihydroxy-acid <SEP> dehydratase <SEP>;<SEP> Lactococcuslactis
<tb> 1258 <SEP> ilvB <SEP> 92% <SEP> Q02137 <SEP> acetolactate <SEP> synthase <SEP> large <SEP> subunit <SEP>;
<tb> lactis
<tb> 1259 <SEP> ilvN <SEP> 98% <SEP> Q02140 <SEP> acetolactate <SEP> synthase <SEP> small <SEP>subunit;<SEP> Lactococcus
<tb> lactis
<tb> 1260 <SEP> ilvC <SEP> 96% <SEP> Q02138 <SEP> ketol-acid <SEP> reductoisomerase <SEP> (alpha-keto-betahydroxylacil <SEP> reductoiso. <SEP> Lactococcus <SEP> lactis
<tb> 1261 <SEP> ilvA <SEP> 96% <SEP> 034132 <SEP>ilva;<SEP> Lactococcus <SEP> lactis
<tb> 1262 <SEP> aldB <SEP> 100% <SEP> P95676 <SEP> alpha-acetolactate <SEP>decarboxylase;<SEP> Lactococcus
<tb> lactis
<tb> 1263 <SEP> aldR <SEP> 99% <SEP> 034133 <SEP> putative <SEP> regulator <SEP>aldr;<SEP> Lactococcus <SEP> lactis
<tb> 1264 <SEP> ymfB <SEP> putative
<tb> 1265 <SEP> dprA <SEP> 43% <SEP> P39813 <SEP> smf <SEP> protein <SEP>;<SEP> subtilis
<tb> 1266 <SEP> topA <SEP> 62% <SEP> P39814 <SEP> dna <SEP> topoisomerase <SEP>i;<SEP> Bacillus <SEP> subtilis
<tb> 1267 <SEP> gidC <SEP> 65% <SEP> P39815 <SEP> gid <SEP> protein <SEP>;<SEP> subtilis
<tb> 1268 <SEP> ymfD <SEP> 70% <SEP> 069155 <SEP> hypothetical <SEP> 41. <SEP> 6 <SEP> kd <SEP>protein;<SEP> Streptococcus
<tb> mutans
<tb> 1269 <SEP> ymfE <SEP> putative
<tb> 1270 <SEP> ymgA <SEP> 46% <SEP> 069155 <SEP> hypothetical <SEP> 41. <SEP> 6 <SEP> kd <SEP> protein <SEP>;
<tb> mutans
<tb> 1271 <SEP> ymgB <SEP> putative
<tb> 1272 <SEP> ymgD <SEP> putative
<tb> 1273 <SEP> ymgC <SEP> 30% <SEP> 005316 <SEP> hypothetical <SEP> 62. <SEP> 6 <SEP> kd <SEP> protein <SEP>;
<tb> tuberculosis
<tb> 1274 <SEP> rlrA <SEP> 30% <SEP> 068014 <SEP> adpl. <SEP> lysr-type <SEP> transcriptional <SEP>activator;
<tb> Acinetobacter <SEP> sp
<tb> 1275 <SEP> ceo <SEP> 94% <SEP> P15244 <SEP> n5-ornithine <SEP> synthase <SEP> (n5--1-ornithine: nadp;
<tb> Lactococcus <SEP> lactis
<tb> 1276 <SEP> ymgF <SEP> 62% <SEP> Q48607 <SEP> putative <SEP> 37-kda <SEP> protein <SEP>;<SEP> Lactococcuslactis
<tb> 1277 <SEP> ymgG <SEP> 92% <SEP> Q48606 <SEP> putative <SEP> 20-kda <SEP> protein <SEP>;<SEP> Lactococcuslactis
<tb> 1278 <SEP> ymgH <SEP> 43% <SEP> Q48605 <SEP> putative <SEP> 6-kda <SEP> protein <SEP>;<SEP> lactis
<tb> 1279 <SEP> ymgI <SEP> putative
<tb> 1280 <SEP> ymgJ <SEP> 49% <SEP> P96594 <SEP> ydas <SEP> protein <SEP>;<SEP> subtilis
<tb> 1281 <SEP> ymgK <SEP> 53% <SEP> Q9XBS1 <SEP> 2,5-diketo-d-gluconate <SEP> reductase <SEP>;<SEP> Zymomonas
<tb> mobilis
<tb>

<Desc / Clms Page number 171>

<tb>
<tb> 1282 <SEP> glpF2 <SEP> 55% <SEP> P52281 <SEP> glycerol <SEP> uptake <SEP> facilitator <SEP>protein;
<tb> Streptococcus <SEP> pneumoniae
<tb> 1283 <SEP> glpD <SEP> 53% <SEP> 087017 <SEP> alpha-glycerophosphate <SEP>oxidase;<SEP> Streptococcus
<tb> pneumoniae
<tb> 1284 <SEP> glpK <SEP> 74% <SEP> 034154 <SEP> glycerol <SEP>kinase;<SEP> Enterococcus <SEP> faecalis
<tb> 1285 <SEP> ymhA <SEP> putative
<tb> 1286 <SEP> tra981G <SEP> 92% <SEP> Q48668 <SEP> insertion <SEP> sequence <SEP>is981;<SEP> Lactococcus <SEP> lactis
<tb> 1287 <SEP> ymhB <SEP> 96% <SEP> Q48667 <SEP> insertion <SEP> sequence <SEP>is981;<SEP> Lactococcus <SEP> lactis
<tb> 1288 <SEP> ymhC <SEP> putative
<tb> 1289 <SEP> amyL <SEP> 47% <SEP> 031193 <SEP> alpha <SEP>amylase;<SEP> Bacillus <SEP> stearothermophilus
<tb> 1290 <SEP> lctO <SEP> 45% <SEP> Q44467 <SEP> lactate <SEP> oxidase <SEP>;<SEP> viridans
<tb> 1291 <SEP> aroH <SEP> 41% <SEP> 054459 <SEP> phospho-2-dehydro-3-deoxyheptonate <SEP> aldolase,
<tb> trp-sensitive <SEP> (3-deoxy-d-arabino-he. <SEP> Erwinia
<tb> herbicola
<tb> 1292 <SEP> metF <SEP> 37% <SEP> 067422 <SEP> 5,10-methylenetetrahydrofolate <SEP>reductase;
<tb> Aquifex <SEP> aeolicus
<tb> 1293 <SEP> metE <SEP> 45% <SEP> Q42699 <SEP> Catharanthus <SEP> roseus <SEP> 5methyltetrahydropteroyltriglutamate-homocysteine <SEP> methyltransferase <SEP> (...
<tb>

* 1294 <SEP> ymiA <SEP> 44% <SEP> 033330 <SEP> transcriptional <SEP> repressor <SEP>;
<tb> tuberculosis
<tb> 1295 <SEP> mgtA <SEP> 49% <SEP> P39168 <SEP> mg <SEP> transport <SEP> atpase, <SEP> p-type <SEP>1;<SEP> Escherichia <SEP> coli
<tb> 1296 <SEP> dltD <SEP> 90% <SEP> 032815 <SEP> d-alanine <SEP> carrier <SEP> homolog <SEP>dltd;<SEP> Lactococcus
<tb> lactis
<tb> 1297 <SEP> called <SEP> 41% <SEP> AAF09203 <SEP>said;<SEP> Lactobacillus <SEP> rhamnosus
<tb> 1298 <SEP> dltB <SEP> 48% <SEP> CAB51920 <SEP> integral <SEP> membrane <SEP>protein;<SEP> Listeria
<tb> monocytogenes
<tb> 1299 <SEP> dltA <SEP> 41% <SEP> AAF09201 <SEP>dlta;<SEP> Lactobacillus <SEP> rhamnosus
<tb> 1300 <SEP> thiE <SEP> 37% <SEP> P39594 <SEP> thiamine-phosphate <SEP>pyrophosphorylase;<SEP> Bacillus
<tb> subtilis
<tb> 1301 <SEP> thiDl <SEP> 43% <SEP> P44697 <SEP> phosphomethylpyrimidine <SEP>kinase;<SEP> Haemophilus
<tb> influenzae
<tb> 1302 <SEP> thiM <SEP> 34% <SEP> Q57233 <SEP> hydroxyethylthiazole <SEP>kinase;<SEP> Haemophilus
<tb> influenzae
<tb> 1303 <SEP> ymjE <SEP> 25% <SEP> Q54066 <SEP>icaa;<SEP> Staphylococcus <SEP> epidermidis
<tb> 1304 <SEP> epsK <SEP> 50% <SEP> P97003 <SEP>udp-n-acetylglucosamine-2-epimerase;
<tb> Streptococcus <SEP> pneumoniae
<tb> 1305 <SEP> ymhG <SEP> putative
<tb> 1306 <SEP> ymhH <SEP> putative
<tb> 1307 <SEP> rplL <SEP> 50% <SEP> P02394 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 17/112 <SEP>;<SEP> Bacillussubtilis
<tb> 1308 <SEP> rplJ <SEP> 61% <SEP> P42923 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP>110;<SEP> Bacillus <SEP> subtilis
<tb> 1309 <SEP> ynaA <SEP> putative
<tb> 1310 <SEP> ynaB <SEP> 34% <SEP> P45902 <SEP> hypothetical <SEP> transcriptional <SEP> regulator <SEP> in
<tb> spoiiic-cwla <SEP> intergenic <SEP>region;<SEP> Bacillus
<tb> subtilis
<tb> 1311 <SEP> ynaC <SEP> 36% <SEP> 007549 <SEP> hypothetical <SEP> 76. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1312 <SEP> ynaD <SEP> 40% <SEP> P77265 <SEP> multidrug <SEP> resistance-like <SEP> atp-binding <SEP> protein
<tb>mdla;<SEP> Escherichia <SEP> coli
<tb> 1313 <SEP> ynaE <SEP> 24% <SEP> P50726 <SEP> hypothetical <SEP> 20. <SEP> 5 <SEP> kd <SEP> protein <SEP> in <SEP> sera-fer
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1314 <SEP> rsuB <SEP> 55% <SEP> P35159 <SEP> ribosomal <SEP> large <SEP> subunit <SEP> pseudouridine <SEP> synthase
<tb>b;<SEP> Bacillus <SEP> subtilis
<tb> 1315 <SEP> ynaG <SEP> 42% <SEP> AAF11414 <SEP> conserved <SEP> hypothetical <SEP>protein;<SEP> Deinococcus
<tb> radiodurans
<tb> 1316 <SEP> ynaH <SEP> 37% <SEP> P35154 <SEP> hypothetical <SEP> 29. <SEP> 6 <SEP> kd <SEP> protein <SEP> in <SEP> ribt-dacb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1317 <SEP> ynbA <SEP> putative
<tb> 1318 <SEP> ynbB <SEP> 28% <SEP> 031698 <SEP> ykul <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1319 <SEP> ynbC <SEP> 33% <SEP> P94559 <SEP> hypothetical <SEP> 19. <SEP> 2 <SEP> kd <SEP> protein <SEP> in <SEP> rph-ilvb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1320 <SEP> ynbD <SEP> 50% <SEP> P94558 <SEP> hypothetical <SEP> 21. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb>

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<tb>
<tb> 1321 <SEP> matured <SEP> 50% <SEP> 031338 <SEP> glutamate <SEP>racemase;<SEP> Bacillus <SEP> cereus
<tb> 1322 <SEP> ynbE <SEP> 37% <SEP> P45708 <SEP> hypothetical <SEP> 8. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> ttk-ccda
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1323 <SEP> lysA <SEP> 39% <SEP> P31851 <SEP> taba <SEP>protein;<SEP> Pseudomonas <SEP> syringae
<tb> 1324 <SEP> gltD <SEP> 47% <SEP> Q51584 <SEP> small <SEP> subunit <SEP> of <SEP> nadh-dependent <SEP> glutamate
<tb>synthase;<SEP> Plectonema <SEP> boryanum
<tb> 1325 <SEP> gltB <SEP> 48% <SEP> P39812 <SEP> glutamate <SEP> synthase <SEP> [nadph] <SEP> large <SEP>chain;<SEP> Bacillus
<tb> subtilis
<tb> 1326 <SEP> yncA <SEP> 44% <SEP> P40892 <SEP> putative <SEP> acetyltransferase <SEP> in <SEP> hxtll-hxt8
<tb> intergenic <SEP>region;<SEP> Saccharomyces <SEP> cerevisiae
<tb> 1327 <SEP> bcaT <SEP> 69% <SEP> P54689 <SEP> branched-chain <SEP> amino <SEP> acid <SEP>aminotransferase;
<tb> Haemophilus <SEP> influenzae
<tb> 1328 <SEP> yncB <SEP> 94% <SEP> 030419 <SEP> hypothetical <SEP> protein <SEP> in <SEP> gadb <SEP>3'region;
<tb> Lactococcus <SEP> lactis
<tb> 1329 <SEP> gadB <SEP> 97% <SEP> 030418 <SEP> glutamate <SEP>decarboxylase;<SEP> Lactococcus <SEP> lactis
<tb> 1330 <SEP> gadC <SEP> 90% <SEP> 030417 <SEP> amino <SEP> acid <SEP> antiporter <SEP>gadc;<SEP> Lactococcus <SEP> lactis
<tb> 1331 <SEP> gadR <SEP> 94% <SEP> 030416 <SEP> positive <SEP> regulator <SEP>gadr;<SEP> Lactococcus <SEP> lactis
<tb> 1332 <SEP> rnhB <SEP> 88% <SEP> 030415 <SEP> ribonuclease <SEP>hii;<SEP> Lactococcus <SEP> lactis
<tb> 1333 <SEP> ylqL <SEP> 46% <SEP> 031743 <SEP> ylqf <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1334 <SEP> yndA <SEP> putative
<tb> 1335 <SEP> yndB <SEP> 28% <SEP> AAF10898 <SEP> carboxymethylenebutenolidase-related <SEP>protein;
<tb> Deinococcus <SEP> radiodurans
<tb> 1336 <SEP> rdrB <SEP> 41% <SEP> P94591 <SEP> similar <SEP> to <SEP> phosphotransferase <SEP> system <SEP>regulator;
<tb> Bacillus <SEP> subtilis
<tb> 1337 <SEP> yndC <SEP> putative
<tb> 1338 <SEP> yndD <SEP> putative
<tb> 1339 <SEP> yndE <SEP> putative
<tb> 1340 <SEP> yndF <SEP> 34% <SEP> P25146 <SEP> internalin <SEP> a <SEP>precursor;<SEP> Listeria <SEP> monocytogenes
<tb> 1341 <SEP> yndG <SEP> 57% <SEP> 005703 <SEP> adca <SEP>protein;<SEP> Streptococcus <SEP> pneumoniae
<tb> 1342 <SEP> tra983D <SEP> 50% <SEP> 087534 <SEP> putative <SEP>transposase;<SEP> Streptococcus <SEP> pyogenes
<tb> 1343 <SEP> ipd <SEP> 42% <SEP> P71323 <SEP> indolepyruvate <SEP>decarboxylase;<SEP> Erwinia <SEP> herbicola
<tb> 1344 <SEP> rmaF <SEP> 32% <SEP> P31078 <SEP> petp <SEP>protein;<SEP> Rhodobacter <SEP> capsulatus
<tb> 1345 <SEP> rlrC <SEP> 27% <SEP> P73862 <SEP> rubisco <SEP> operon <SEP> transcriptional <SEP>regulator;
<tb> Synechocystis <SEP> sp
<tb> 1346 <SEP> yneB <SEP> 34% <SEP> AAF10396 <SEP> lipase, <SEP>putative;<SEP> Deinococcus <SEP> radiodurans
<tb> 1347 <SEP> yneC <SEP> putative
<tb> 1348 <SEP> yneD <SEP> 38% <SEP> Q9ZKW1 <SEP>putative;<SEP> Helicobacter <SEP> pylori <SEP> j99
<tb> 1349 <SEP> yneE <SEP> 38% <SEP> Q06861 <SEP> possible <SEP> virulence-regulating <SEP> 38 <SEP> kd <SEP>protein;
<tb> Mycobacterium <SEP> tuberculosis
<tb> 1350 <SEP> yneF <SEP> putative
<tb> 1351 <SEP> yneG <SEP> 36% <SEP> AAD51848 <SEP> as4. <SEP>arsd;<SEP> Sinorhizobium <SEP> sp
<tb> 1352 <SEP> yneH <SEP> 29% <SEP> 031602 <SEP> yjbd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1353 <SEP> pabB <SEP> 38% <SEP> Q9ZV26 <SEP> similar <SEP> to <SEP> streptomyces <SEP>papa;<SEP> Arabidopsis
<tb> thaliana
<tb> 1354 <SEP> pabA <SEP> 50% <SEP> P06193 <SEP> para-aminobenzoate <SEP> synthase <SEP> glutamine
<tb> amidotransferase <SEP> component <SEP>ii;<SEP> Salmonella
<tb> typhimurium
<tb> 1355 <SEP> mtsA <SEP> 74% <SEP> Q53891 <SEP>scba;<SEP> Streptococcus <SEP> cristatus
<tb> 1356 <SEP> mtsC <SEP> 59% <SEP> P42361 <SEP> 29 <SEP> kd <SEP> membrane <SEP> protein <SEP> in <SEP> psaa <SEP>5'region;
<tb> Streptococcus <SEP> gordonii <SEP> challis
<tb> 1357 <SEP> mtsB <SEP> 61% <SEP> 068832 <SEP> putative <SEP> atp-binding <SEP>protein;<SEP> Streptococcus
<tb> pneumoniae
<tb> 1358 <SEP> ynfC <SEP> 29% <SEP> 086747 <SEP> hypothetical <SEP> 14. <SEP> 8 <SEP> kd <SEP>protein;<SEP> Streptomyces
<tb> coelicolor
<tb> 1359 <SEP> ynfD <SEP> 38% <SEP> 050571 <SEP> hypothetical <SEP> 10. <SEP> 1 <SEP> kda <SEP>protein;<SEP> Bacillus <SEP> firmus
<tb> 1360 <SEP> sbcC <SEP> 22% <SEP> 067124 <SEP> hypothetical <SEP> 115. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Aquifex <SEP> aeolicus
<tb> 1361 <SEP> sbcD <SEP> 34% <SEP> 083634 <SEP> exonuclease, <SEP>putative;<SEP> Treponema <SEP> pallidum
<tb> 1362 <SEP> panE <SEP> 31% <SEP> CAB49673 <SEP> probable <SEP> 2-dehydropantoate <SEP>2-reductase;
<tb> Pyrococcus <SEP> abyssi
<tb> 1363 <SEP> ynfG <SEP> 44% <SEP> 031602 <SEP> yjbd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb>

<Desc / Clms Page number 173>

<tb>
<tb> 1364 <SEP> ynfH <SEP> 28% <SEP> Q9X6M3 <SEP> proline / threonine-rich <SEP> protein <SEP>;<SEP> Salmonella
<tb> typhi
<tb> 1365 <SEP> yngA <SEP> putative
<tb> 1366 <SEP> yngB <SEP> 59% <SEP> P95752 <SEP> fibronectin-binding <SEP> protein-like <SEP> protein <SEP>a;
<tb> Streptococcus <SEP> gordonii
<tb> 1367 <SEP> yngC <SEP> 46% <SEP> P36999 <SEP> rrna <SEP>-methyltransferase;<SEP> Escherichia <SEP> coli
<tb> 1368 <SEP> yngD <SEP> 27% <SEP> P36999 <SEP> rrna <SEP>-methyltransferase;<SEP> Escherichia <SEP> coli
<tb> 1369 <SEP> yngE <SEP> 62% <SEP> 005253 <SEP> hypothetical <SEP> 56. <SEP> 3 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 1370 <SEP> yngF <SEP> 34% <SEP> 005254 <SEP> hypothetical <SEP> 36. <SEP> 8 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 1371 <SEP> yngG <SEP> 47% <SEP> 005255 <SEP> hypothetical <SEP> 33. <SEP> 7 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 1372 <SEP> ldh <SEP> 96% <SEP> P94885 <SEP> 1-lactate <SEP> dehydrogenase <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1373 <SEP> pyk <SEP> 98% <SEP> Q07637 <SEP> pyruvate <SEP> kinase <SEP>;<SEP> lactis
<tb> 1374 <SEP> pfk <SEP> 90% <SEP> Q07636 <SEP>6-phosphofructokinase;<SEP> Lactococcus <SEP> lactis
<tb> 1375 <SEP> ynhA <SEP> putative
<tb> 1376 <SEP> nagA <SEP> 36% <SEP> P96166 <SEP> n-acetylglucosamine-6-phosphate <SEP>deacetylase;
<tb> Vibrio <SEP> furnissii
<tb> 1377 <SEP> ynhC <SEP> 54% <SEP> P37535 <SEP> hypothetical <SEP> 43. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> xpac-abrb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1378 <SEP> ynhD <SEP> 18% <SEP> P37467 <SEP> xpac <SEP> protein <SEP>;<SEP> subtilis
<tb> 1379 <SEP> gpdA <SEP> 51% <SEP> P46919 <SEP> glycerol-3-phosphate <SEP> dehydrogenase <SEP> [nad +] <SEP>(nad;
<tb> Bacillus <SEP> subtilis
<tb> 1380 <SEP> hasC <SEP> 73% <SEP> 086882 <SEP> utp-glucose-1-phosphate <SEP>uridylyltransferase;
<tb> Streptococcus <SEP> pneumoniae
<tb> 1381 <SEP> ynhH <SEP> 77% <SEP> Q08009 <SEP> export <SEP> element <SEP>bll;<SEP> Lactococcus <SEP> lactis
<tb> 1382 <SEP> ynhI <SEP> 76% <SEP> 032817 <SEP>gerça;<SEP> Lactococcus <SEP> lactis
<tb> 1383 <SEP> ispB <SEP> 96% <SEP> 032818 <SEP>gerce;<SEP> Lactococcus <SEP> lactis
<tb> 1384 <SEP> gidB <SEP> 55% <SEP> P25813 <SEP> glucose <SEP> inhibited <SEP> division <SEP> protein <SEP>b;<SEP> Bacillus
<tb> subtilis
<tb> 1385 <SEP> yniC <SEP> putative
<tb> 1386 <SEP> pyrF <SEP> 97% <SEP> P50924 <SEP> orotidine <SEP>5'-phosphate<SEP> decarboxylase <SEP>;
<tb> Lactococcus <SEP> lactis
<tb> 1387 <SEP> pyrDb <SEP> 88% <SEP> P54322 <SEP> dihydroorotate <SEP> dehydrogenase <SEP> b <SEP>;
<tb> lactis
<tb> 1388 <SEP> pyrZ <SEP> 41% <SEP> P46536 <SEP> hypothetical <SEP> 27. <SEP> 6 <SEP> kd <SEP> protein <SEP> in <SEP> pyrab-pyrd
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> caldolyticus
<tb> 1389 <SEP> yniG <SEP> 31% <SEP> CAB61253 <SEP> orfb, <SEP> orfc <SEP> and <SEP> hspl8 <SEP>gene;<SEP> Oenococcus <SEP> oeni
<tb> 1390 <SEP> yniH <SEP> 68% <SEP> CAA76860 <SEP> hypothetical <SEP> 44. <SEP> 9 <SEP> kd <SEP> protein <SEP>;
<tb> faecalis
<tb> 1391 <SEP> yniI <SEP> 51% <SEP> 086211 <SEP> hypothetical <SEP> 43. <SEP> 3 <SEP> kd <SEP> protein <SEP>;
<tb> faecalis
<tb> 1392 <SEP> yniJ <SEP> 33% <SEP> 086210 <SEP> hypothetical <SEP> 29. <SEP> 4 <SEP> kd <SEP> protein <SEP>;
<tb> faecalis
<tb> 1393 <SEP> ynjA <SEP> 58% <SEP> BAA35957 <SEP> hypothetical <SEP> protein <SEP>hi0694;<SEP> Escherichia <SEP> coli
<tb> 1394 <SEP> ynjB <SEP> putative
<tb> 1395 <SEP> ynjC <SEP> 23% <SEP> Q9X336 <SEP>pxol-66;<SEP> Bacillus <SEP> anthracis
<tb> 1396 <SEP> ynjD <SEP> 22% <SEP> 017893 <SEP> f55bll.3 <SEP> protein <SEP>;<SEP> Caenorhabditis <SEP> elegans
<tb> 1397 <SEP> ynjE <SEP> putative
<tb> 1398 <SEP> ynjF <SEP> putative
<tb> 1399 <SEP> ynjG <SEP> 22% <SEP> Q22579 <SEP> similar <SEP> to <SEP> a. <SEP> faecalis <SEP> poly <SEP>depolymerase;
<tb> Caenorhabditis <SEP> elegans
<tb> 1400 <SEP> tra983E <SEP> 50% <SEP> 087534 <SEP> putative <SEP> transposase <SEP>;<SEP> pyogenes
<tb> 1401 <SEP> ynjH <SEP> putative
<tb> 1402 <SEP> ynjI <SEP> putative
<tb> 1403 <SEP> ynjJ <SEP> 20% <SEP> 094317 <SEP> serine-rich <SEP> protein <SEP>;<SEP> pombe
<tb> 1404 <SEP> carB <SEP> 93% <SEP> 032771 <SEP> carbamoylphosphate <SEP> synthetase <SEP>;<SEP> Lactococcus
<tb> lactis
<tb> 1405 <SEP> gpo <SEP> 93% <SEP> 032770 <SEP> glutathione <SEP> peroxidase <SEP>;<SEP> lactis
<tb> 1406 <SEP> acmC <SEP> 48% <SEP> 032083 <SEP> yube <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1407 <SEP> yoaB <SEP> 41% <SEP> 034431 <SEP> ylob <SEP> protein <SEP>;<SEP> subtilis
<tb> 1408 <SEP> yoaD <SEP> 39% <SEP> Q9ZCA9 <SEP> hypothetical <SEP> 24. <SEP> 9 <SEP> kd <SEP> protein <SEP>;
<tb> prowazekii
<tb>

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<tb>
<tb> 1409 <SEP> yoaF <SEP> 30% <SEP> 006531 <SEP> hypothetical <SEP> 21. <SEP> 2 <SEP> kd <SEP>protein;<SEP> Lactobacillus
<tb> fermentum
<tb> 1410 <SEP> yoaG <SEP> putative
<tb> 1411 <SEP> yoaH <SEP> 33% <SEP> 027534 <SEP> hypothetical <SEP> 21. <SEP> 2 <SEP> kd <SEP>protein;<SEP> Methanobacterium
<tb> thermoautotrophicum
<tb> 1412 <SEP> yoaI <SEP> 27% <SEP> P17419 <SEP> possible <SEP> fimbrial <SEP> assembly <SEP> protein <SEP>fimc;
<tb> Bacteroides <SEP> nodosus
<tb> 1413 <SEP> yobA <SEP> 34% <SEP> Q57951 <SEP> hypothetical <SEP> protein <SEP>mj0531;<SEP> Methanococcus
<tb> jannaschii
<tb> 1414 <SEP> arsC <SEP> 58% <SEP> P45947 <SEP> putative <SEP> arsenate <SEP>reductase;<SEP> Bacillus <SEP> subtilis
<tb> 1415 <SEP> yobC <SEP> putative
<tb> 1416 <SEP> pi301 <SEP> 41% <SEP> Q38326 <SEP>orf258;<SEP> Lactococcus <SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1417 <SEP> pi302 <SEP> putative
<tb> 1418 <SEP> pi303 <SEP> putative
<tb> 1419 <SEP> pi304 <SEP> putative
<tb> 1420 <SEP> pi305 <SEP> 97% <SEP> Q38323 <SEP>orf259;<SEP> Lactococcus <SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1421 <SEP> pi306 <SEP> 65% <SEP> Q38322 <SEP>orf95;<SEP> Lactococcus <SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1422 <SEP> pi307 <SEP> 83% <SEP> Q38133 <SEP>orf47;<SEP> Bacteriophage <SEP> rlt
<tb> 1423 <SEP> pi308 <SEP> 97% <SEP> Q38321 <SEP>orf75;<SEP> Lactococcus <SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1424 <SEP> pi309 <SEP> 78% <SEP> Q38319 <SEP>orfl904;<SEP> Lactococcus <SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1425 <SEP> pi310 <SEP> 78% <SEP> 080183 <SEP>gp57;<SEP> Streptococcus <SEP> thermophilus <SEP> bacteriophage
<tb> sfill
<tb> 1426 <SEP> pi311 <SEP> 78% <SEP> 080182 <SEP>gp373;<SEP> Streptococcus <SEP> thermophilus <SEP> bacteriophage
<tb> sfill
<tb> 1427 <SEP> pi312 <SEP> 52% <SEP> Q38319 <SEP>orfl904;<SEP> Lactococcus <SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1428 <SEP> pi313 <SEP> 38% <SEP> Q38318 <SEP>orf'410;<SEP> Lactococcus <SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1429 <SEP> pi314 <SEP> 34% <SEP> 003937 <SEP> minor <SEP> capsid <SEP>protein;<SEP> Bacteriophage <SEP> phigle
<tb> 1430 <SEP> pi315 <SEP> putative
<tb> 1431 <SEP> pi316 <SEP> putative
<tb> 1432 <SEP> pi317 <SEP> 48% <SEP> 064291 <SEP> hypothetical <SEP> 21. <SEP> 8 <SEP> kd <SEP>protein;<SEP> Streptococcus
<tb> thermophilus <SEP> bacteriophage <SEP> sfil9
<tb> 1433 <SEP> pi318 <SEP> 36% <SEP> Q38220 <SEP>orfi;<SEP> Bacteriophage <SEP> 110
<tb> 1434 <SEP> pi319 <SEP> 36% <SEP> Q38219 <SEP>orfa;<SEP> Bacteriophage <SEP> 110
<tb> 1435 <SEP> pi320 <SEP> 29% <SEP> Q9XJA3 <SEP> putative <SEP> head-tail <SEP> joining <SEP>protein;
<tb> Streptococcus <SEP> thermophilus <SEP> bacteriophage <SEP> dtl
<tb> 1436 <SEP> pi321 <SEP> 32% <SEP> 064276 <SEP> hypothetical <SEP> 11.8 <SEP> kd <SEP>protein;<SEP> Streptococcus
<tb> thermophilus <SEP> bacteriophage <SEP> sfi21
<tb> 1437 <SEP> pi322 <SEP> 60% <SEP> Q9XJV7 <SEP> orf397 <SEP>gp;<SEP> Streptococcus <SEP> thermophilus
<tb> bacteriophage <SEP> sfil9
<tb> 1438 <SEP> pi323 <SEP> 49% <SEP> Q9XJAO <SEP> putative <SEP> scaffolding <SEP>protein;<SEP> Streptococcus
<tb> thermophilus <SEP> bacteriophage <SEP> dtl
<tb> 1439 <SEP> pi324 <SEP> 52% <SEP> Q9XJ81 <SEP> orf384 <SEP>gp;<SEP> Streptococcus <SEP> thermophilus
<tb> bacteriophage <SEP> sfi21
<tb> 1440 <SEP> pi325 <SEP> 46% <SEP> Q9XJ98 <SEP> putative <SEP> head-tail <SEP> joining <SEP>protein;
<tb> Streptococcus <SEP> thermophilus <SEP> bacteriophage <SEP> dtl
<tb> 1441 <SEP> pi326 <SEP> 62% <SEP> Q9XJWO <SEP> orf623 <SEP>gp;<SEP> Streptococcus <SEP> thermophilus
<tb> bacteriophage <SEP> sfil9
<tb> 1442 <SEP> pi327 <SEP> 44% <SEP> Q9XJ95 <SEP> hypothetical <SEP> 17. <SEP> 4 <SEP> kd <SEP>protein;<SEP> Streptococcus
<tb> thermophilus <SEP> bacteriophage <SEP> dtl
<tb> 1443 <SEP> pi328 <SEP> 42% <SEP> CAB52516 <SEP> hypothetical <SEP> 20. <SEP> 6 <SEP> kd <SEP>protein;<SEP> Lactobacillus
<tb> bacteriophage <SEP> phi <SEP> adh
<tb> 1444 <SEP> pi329 <SEP> putative
<tb> 1445 <SEP> pi330 <SEP> 69% <SEP> 053060 <SEP> hypothetical <SEP> 16. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 1446 <SEP> pi331 <SEP> putative
<tb> 1447 <SEP> pi332 <SEP> putative
<tb> 1448 <SEP> pi333 <SEP> 86% <SEP> 021897 <SEP> hypothetical <SEP> 12. <SEP> 7 <SEP> kd <SEP>protein;<SEP> Bacteriophage <SEP> skl
<tb> 1449 <SEP> pi334 <SEP> 46% <SEP> Q38107 <SEP>orf21;<SEP> Bacteriophage <SEP> rlt
<tb> 1450 <SEP> pi335 <SEP> 97% <SEP> Q38106 <SEP>dutpase;<SEP> Bacteriophage <SEP> rlt
<tb> 1451 <SEP> pi336 <SEP> putative
<tb> 1452 <SEP> pi337 <SEP> 37% <SEP> Q38105 <SEP>orfl9;<SEP> Bacteriophage <SEP> rlt
<tb>

<Desc / Clms Page number 175>

<tb>
<tb> 1453 <SEP> pi338 <SEP> 46% <SEP> Q38444 <SEP>orf2;<SEP> Bacteriophage <SEP> t5
<tb> 1454 <SEP> pi339 <SEP> 25% <SEP> Q90767 <SEP> atrial-specific <SEP> myosin <SEP> heavy-chain <SEP>;
<tb> gallus
<tb> 1455 <SEP> pi340 <SEP> 80% <SEP> Q9XJF1 <SEP> hypothetical <SEP> 22. <SEP> 4 <SEP> kd <SEP> protein <SEP>;
<tb> tuc2009
<tb> 1456 <SEP> pi341 <SEP> 93% <SEP> Q38103 <SEP>orfl7;<SEP> Bacteriophage <SEP> rlt, <SEP> and <SEP> bacteriophage
<tb> tuc2009
<tb> 1457 <SEP> pi342 <SEP> putative
<tb> 1458 <SEP> pi343 <SEP> 88% <SEP> Q38102 <SEP>orfl6;<SEP> Bacteriophage <SEP> rlt
<tb> 1459 <SEP> pi344 <SEP> 70% <SEP> Q38101 <SEP>orfl5;<SEP> Bacteriophage <SEP> rlt
<tb> 1460 <SEP> pi345 <SEP> putative
<tb> 1461 <SEP> pi346 <SEP> 37% <SEP> 003914 <SEP> zinc <SEP> finger <SEP> protein <SEP>;<SEP> Bacteriophagephigle
<tb> 1462 <SEP> pi347 <SEP> 35% <SEP> Q9XJE6 <SEP> putative <SEP> replisome <SEP> organize <SEP>protein;
<tb> Bacteriophage <SEP> tuc2009
<tb> 1463 <SEP> pi348 <SEP> 66% <SEP> Q9XJE5 <SEP> putative <SEP> single <SEP> stranded <SEP> binding <SEP>protein;
<tb> Bacteriophage <SEP> tuc2009
<tb> 1464 <SEP> pi349 <SEP> 31% <SEP> AAF10011 <SEP> hypothetical <SEP> 23. <SEP> 0 <SEP> kd <SEP> protein <SEP>;
<tb> radiodurans
<tb> 1465 <SEP> pi350 <SEP> 78% <SEP> 048508 <SEP> hypothetical <SEP> 14. <SEP> 7 <SEP> kd <SEP> protein <SEP>;
<tb> Bacteriophagetp901-l
<tb> 1466 <SEP> pi351 <SEP> 100% <SEP> Q38272 <SEP>orf71;<SEP> Lactococcus <SEP> bacteriophage
<tb> 1467 <SEP> pi352 <SEP> 98% <SEP> Q9XJEO <SEP> hypothetical <SEP> 9. <SEP> 9 <SEP> kd <SEP> protein <SEP>;
<tb> tuc2009
<tb> 1468 <SEP> pi353 <SEP> 95% <SEP> Q38333 <SEP>orfll3;<SEP> Lactococcus <SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1469 <SEP> pi354 <SEP> putative
<tb> 1470 <SEP> pi355 <SEP> 95% <SEP> 048505 <SEP> hypothetical <SEP> 28. <SEP> 3 <SEP> kd <SEP> protein <SEP>;
<tb> Bacteriophagetp901-l
<tb> 1471 <SEP> pi356 <SEP> 59% <SEP> 064369 <SEP> hypothetical <SEP> 9. <SEP> 2 <SEP> kd <SEP> protein <SEP>;
<tb> casei <SEP> bacteriophage <SEP> a2
<tb> 1472 <SEP> pi357 <SEP> 56% <SEP> 064370 <SEP> repressor <SEP>;<SEP> casei <SEP> bacteriophage <SEP> a2
<tb> 1473 <SEP> pi358 <SEP> 37% <SEP> AAF12709 <SEP> hypothetical <SEP> 21. <SEP> 8 <SEP> kd <SEP> protein <SEP>;
<tb> tpw22
<tb> 1474 <SEP> pi359 <SEP> 33% <SEP> 021991 <SEP> orf203 <SEP> protein <SEP>;<SEP> thermophilus
<tb> bacteriophage <SEP> sfi21
<tb> 1475 <SEP> pi360 <SEP> 54% <SEP> Q38159 <SEP> integrase <SEP>;<SEP> t2
<tb> 1476 <SEP> yofM <SEP> 71% <SEP> P96468 <SEP> ylxm <SEP>;<SEP> mutans
<tb> 1477 <SEP> lrrB <SEP> 37% <SEP> Q9ZI97 <SEP> putative <SEP> response <SEP> regulator <SEP>;<SEP> Lactobacillussake
<tb> 1478 <SEP> kinB <SEP> 87% <SEP> 007383 <SEP> histidine <SEP> kinase <SEP>;<SEP> lactis
<tb> 1479 <SEP> yogA <SEP> putative
<tb> 1480 <SEP> rgrB <SEP> 34% <SEP> 034817 <SEP> yvoa <SEP>;<SEP> subtilis
<tb> 1481 <SEP> bmpA <SEP> 48% <SEP> 005252 <SEP> hypothetical <SEP> lipoprotein <SEP> yufn <SEP>precursor;
<tb> Bacillus <SEP> subtilis
<tb> 1482 <SEP> cdd <SEP> 55% <SEP> CAB51906 <SEP> cytidine <SEP> deaminase <SEP>;<SEP> psychrophilus
<tb> 1483 <SEP> deoC <SEP> 61% <SEP> P39121 <SEP> deoxyribose-phosphate <SEP> aldolase <SEP>;
<tb> subtilis
<tb> 1484 <SEP> yogE <SEP> putative
<tb> 1485 <SEP> pdp <SEP> 55% <SEP> P77836 <SEP> pyrimidine-nucleoside <SEP> phosphorylase <SEP>;
<tb> Bacillusstearothermophilus
<tb> 1486 <SEP> yogG <SEP> 44% <SEP> Q53753 <SEP> hypothetical <SEP> 22. <SEP> 7 <SEP> kd <SEP> protein <SEP>;
<tb> aureus
<tb> 1487 <SEP> coaA <SEP> 43% <SEP> P44793 <SEP> pantothenate <SEP> kinase <SEP>;<SEP> influenzae
<tb> 1488 <SEP> yogi <SEP> putative
<tb> 1489 <SEP> yogJ <SEP> 30% <SEP> 085699 <SEP> hypothetical <SEP> 35. <SEP> 5 <SEP> kd <SEP> protein <SEP>;
<tb> lividans
<tb> 1490 <SEP> yogL <SEP> 51% <SEP> 006027 <SEP> epsr <SEP> protein <SEP>;<SEP> lactis
<tb> 1491 <SEP> yogM <SEP> 48% <SEP> P77174 <SEP> hypothetical <SEP> 23. <SEP> 9 <SEP> kd <SEP> protein <SEP> in <SEP> csta-dsbg
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 1492 <SEP> yohA <SEP> 27% <SEP> BAA35232 <SEP> orf ~ id: o166 # 5; <SEP> Escherichia <SEP> coli
<tb> 1493 <SEP> yohB <SEP> 30% <SEP> BAA35232 <SEP> orf ~ id: o166 # 5; <SEP> Escherichia <SEP> coli
<tb> 1494 <SEP> yohC <SEP> 24% <SEP> 067157 <SEP> transcriptional <SEP> regulator <SEP>;<SEP> aeolicus
<tb> 1495 <SEP> yohD <SEP> putative
<tb>

<Desc / Clms Page number 176>

<tb>
<tb> 1496 <SEP> busAB <SEP> 90% <SEP> AAF04259 <SEP> glycine-betaine <SEP> binding <SEP> permease <SEP>protein;
<tb> Lactococcus <SEP> lactis
<tb> 1497 <SEP> busAA <SEP> 96% <SEP> AAF04258 <SEP>busaa;<SEP> Lactococcus <SEP> lactis
<tb> 1498 <SEP> busR <SEP> 36% <SEP> P13669 <SEP> fatty <SEP> acyl <SEP> responsive <SEP>regulator;<SEP> Escherichia
<tb> coli
<tb> 1499 <SEP> yohH <SEP> 27% <SEP> Q56916 <SEP>trsd;<SEP> Yersinia <SEP> enterocolitica
<tb> 1500 <SEP> yohJ <SEP> 28% <SEP> Q9WZ90 <SEP> lipopolysaccharide <SEP> biosynthesis <SEP> protein,
<tb>putative;<SEP> Thermotoga <SEP> maritima
<tb> 1501 <SEP> yoiA <SEP> 20% <SEP> 096133 <SEP> hypothetical <SEP> 237. <SEP> 7 <SEP> kd <SEP>protein;<SEP> Plasmodium
<tb> falciparum
<tb> 1502 <SEP> yoiB <SEP> 40% <SEP> Q9X4V4 <SEP>cps2j;<SEP> Streptococcus <SEP> am
<tb> 1503 <SEP> yoiC <SEP> 27% <SEP> Q02290 <SEP> xylanase <SEP>b;<SEP> Neocallimastix <SEP> patriciarum
<tb> 1504 <SEP> bglH <SEP> 64% <SEP> 086291 <SEP> beta-glucosidase <SEP>;<SEP> plantarum
<tb> 1505 <SEP> ptbA <SEP> 49% <SEP> Q46129 <SEP> pts-dependent <SEP> enzyme <SEP> ii <SEP>;
<tb> longisporum
<tb> 1506 <SEP> bglR <SEP> 98% <SEP> Q48639 <SEP>bglr;<SEP> Lactococcus <SEP> lactis
<tb> 1507 <SEP> trpA <SEP> 94% <SEP> Q01997 <SEP> tryptophan <SEP> synthase <SEP> alpha <SEP> chain <SEP>;
<tb> lactis
<tb> 1508 <SEP> trpB <SEP> 100% <SEP> Q01998 <SEP> tryptophan <SEP> synthase <SEP> beta <SEP>chain;<SEP> Lactococcus
<tb> lactis
<tb> 1509 <SEP> yojB <SEP> 39% <SEP> AAF10375 <SEP> acetyltransferase, <SEP>putative;<SEP> Deinococcus
<tb> radiodurans
<tb> 1510 <SEP> yojC <SEP> putative
<tb> 1511 <SEP> trpF <SEP> 100% <SEP> Q02002 <SEP> n-anthranilate <SEP> isomerase <SEP>;<SEP> lactis
<tb> 1512 <SEP> trpC <SEP> 100% <SEP> Q01999 <SEP> indole-3-glycerol <SEP> phosphate <SEP>synthase;
<tb> Lactococcus <SEP> lactis
<tb> 1513 <SEP> trpD <SEP> 100% <SEP> Q02000 <SEP> anthranilate <SEP>phosphoribosyltransferase;
<tb> Lactococcus <SEP> lactis
<tb> 1514 <SEP> trpG <SEP> 99% <SEP> Q02003 <SEP> anthranilate <SEP> synthase <SEP> component <SEP>ii;<SEP> Lactococcus
<tb> lactis
<tb> 1515 <SEP> trpE <SEP> 95% <SEP> Q02001 <SEP> anthranilate <SEP> synthase <SEP> component <SEP>i;<SEP> Lactococcus
<tb> lactis
<tb> 1516 <SEP> ypaA <SEP> 70% <SEP> Q02009 <SEP> hypothetical <SEP> 13. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> trpe <SEP> 5 'region;
<tb> Lactococcus <SEP> lactis
<tb> 1517 <SEP> rmaC <SEP> 53% <SEP> P96707 <SEP> putative <SEP> nadh <SEP> nitroreductase <SEP> ydgi <SEP>;
<tb> subtilis
<tb> 1518 <SEP> ypaC <SEP> 29% <SEP> 087832 <SEP>methyltransferase;<SEP> Streptomyces <SEP> antibioticus
<tb> 1519 <SEP> ypaD <SEP> 31% <SEP> AAF13747 <SEP> hypothetical <SEP> 24. <SEP> 5 <SEP> kd <SEP>protein;<SEP> Zymomonas <SEP> mobilis
<tb> 1520 <SEP> ypaE <SEP> 31% <SEP> AAF13747 <SEP> hypothetical <SEP> 24. <SEP> 5 <SEP> kd <SEP>protein;<SEP> Zymomonas <SEP> mobilis
<tb> 1521 <SEP> fur <SEP> 35% <SEP> AAF00079 <SEP> ferric <SEP> uptake <SEP> regulator <SEP>homolog;<SEP> Staphylococcus
<tb> aureus
<tb> 1522 <SEP> ypaG <SEP> 37% <SEP> P54940 <SEP> hypothetical <SEP> 13. <SEP> 0 <SEP> kd <SEP> protein <SEP> in <SEP> idh-deor
<tb> intergenic <SEP> region <SEP>precursor;<SEP> Bacillus <SEP> subtilis
<tb> 1523 <SEP> ypaH <SEP> 32% <SEP> P96661 <SEP> hypothetical <SEP> 35. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> cspc-nap
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1524 <SEP> rmeB <SEP> 36% <SEP> P44558 <SEP> hypothetical <SEP> transcriptional <SEP> regulator <SEP>hi0186;
<tb> Haemophilus <SEP> influenzae
<tb> 1525 <SEP> ypaI <SEP> 35% <SEP> 054197 <SEP> clavulanate-9-aldehyde <SEP>reducatase;<SEP> Streptomyces
<tb> clavuligerus
<tb> 1526 <SEP> dxs <SEP> 35% <SEP> P26242 <SEP> probable <SEP> 1-deoxyxylulose-5-phosphate <SEP> synthase <SEP>;
<tb> Rhodobacter <SEP> capsulatus
<tb> 1527 <SEP> rmaE <SEP> 30% <SEP> 085850 <SEP> marr <SEP> family <SEP>regulator;<SEP> Sphingomonas
<tb> aromaticivorans
<tb> 1528 <SEP> ypbB <SEP> 26% <SEP> AAF12002 <SEP> transport <SEP> protein, <SEP>putative;<SEP> Deinococcus
<tb> radiodurans
<tb> 1529 <SEP> ypbC <SEP> 23% <SEP> CAB50319 <SEP> dinf <SEP>related;<SEP> Pyrococcus <SEP> abyssi
<tb> 1530 <SEP> ypbD <SEP> 23% <SEP> P70939 <SEP> orf <SEP>protein;<SEP> Bacteroides <SEP> ovatus
<tb> 1531 <SEP> guaA <SEP> 94% <SEP> Q9Z6H4 <SEP> gmp <SEP>synthase;<SEP> Lactococcus <SEP> lactis
<tb> 1532 <SEP> scrK <SEP> 61% <SEP> CAB09691 <SEP>fructokinase;<SEP> Lactococcus <SEP> lactis
<tb> 1533 <SEP> ypbG <SEP> 29% <SEP> 051771 <SEP> xylose <SEP> operon <SEP> regulatory <SEP>protein;<SEP> Borrelia
<tb> burgdorferi
<tb>

<Desc / Clms Page number 177>

<tb>
<tb> 1534 <SEP> ypcA <SEP> 50% <SEP> 005508 <SEP> c. <SEP> thermocellum <SEP> beta-glucosidase <SEP>;
<tb> subtilis
<tb> 1535 <SEP> ypcB <SEP> putative
<tb> 1536 <SEP> ypcC <SEP> 32% <SEP> Q9XBW4 <SEP> immunoreactive <SEP> 92 <SEP> kda <SEP> antigen <SEP>pg21;
<tb> Porphyromonas <SEP> gingivalis
<tb> 1537 <SEP> ypcD <SEP> 38% <SEP> Q9ZB22 <SEP>endo-beta-n-acetylglucosaminidase;<SEP> Arthrobacter
<tb> protophormiae
<tb> 1538 <SEP> dexB <SEP> 55% <SEP> 084995 <SEP> alpha, <SEP> 1-6-glucosidase <SEP>;
<tb> Streptococcuspneumoniae
<tb> 1539 <SEP> lnbA <SEP> 28% <SEP> Q9Z4I7 <SEP> lacto-n-biosidase <SEP> precursor <SEP>;<SEP> sp
<tb> 1540 <SEP> ypcG <SEP> 27% <SEP> Q9WYP9 <SEP> sugar <SEP> abc <SEP> transporter, <SEP> periplasmic <SEP> sugar-binding
<tb> protein, <SEP> putative <SEP>;<SEP> maritima
<tb> 1541 <SEP> ypcH <SEP> 41% <SEP> Q44421 <SEP> sugar-binding <SEP> transport <SEP> protein <SEP>;
<tb> thermophilum
<tb> 1542 <SEP> ypdA <SEP> 44% <SEP> Q44420 <SEP> sugar-binding <SEP> transport <SEP>protein;<SEP> Anaerocellum
<tb> thermophilum
<tb> 1543 <SEP> ypdB <SEP> 26% <SEP> BAA35398 <SEP> hypothetical <SEP> protein <SEP> in <SEP> hrsa <SEP>3'region;<SEP>;<SEP>
<tb> Escherichia <SEP> coli
<tb> 1544 <SEP> ypdC <SEP> 42% <SEP> CAB52976 <SEP> hypothetical <SEP> 47. <SEP> 8 <SEP> kd <SEP> protein <SEP>;
<tb> coelicolor
<tb> 1545 <SEP> rliB <SEP> 31% <SEP> Q45831 <SEP> transcription <SEP> regulatory <SEP> protein <SEP>rega;
<tb> Clostridium <SEP> acetobutylicum
<tb> 1546 <SEP> ypdD <SEP> 33% <SEP> AAD51075 <SEP> immunoreactive <SEP> 89kd <SEP> antigen <SEP>pg87;<SEP> Porphyromonas
<tb> gingivalis
<tb> 1547 <SEP> ypdE <SEP> 41% <SEP> P74690 <SEP> hypothetical <SEP> 92. <SEP> 4 <SEP> kd <SEP> protein <SEP>;<SEP> sp
<tb> 1548 <SEP> xylT <SEP> 60% <SEP> 052733 <SEP> d-xylose-proton <SEP> symporter <SEP>;<SEP> brevis
<tb> 1549 <SEP> xyaX <SEP> 26% <SEP> P77862 <SEP> galactoside <SEP>o-acetyltransferase;<SEP> Escherichia
<tb> coli
<tb> 1550 <SEP> xynB <SEP> 51% <SEP> 052575 <SEP> xylosidase / arabinosidase; <SEP> Selenomonas
<tb> ruminantium
<tb> 1551 <SEP> xynT <SEP> 97% <SEP> AAD20246 <SEP> xyloside <SEP>transporter;<SEP> Lactococcus <SEP> lactis
<tb> 1552 <SEP> xylM <SEP> 99% <SEP> Q9X417 <SEP>mutarotase;<SEP> Lactococcus <SEP> lactis
<tb> 1553 <SEP> xylB <SEP> 95% <SEP> Q9X419 <SEP> xylulokinase <SEP>;<SEP> lactis
<tb> 1554 <SEP> xylA <SEP> 93% <SEP> Q9X416 <SEP> xylose <SEP>isomerase;<SEP> Lactococcus <SEP> lactis
<tb> 1555 <SEP> xylR <SEP> 94% <SEP> AAD20248 <SEP> xylose <SEP> regulatory <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1556 <SEP> purK <SEP> 100% <SEP> Q9ZF42 <SEP> purk <SEP> protein <SEP>;<SEP> lactis
<tb> 1557 <SEP> purE <SEP> 91% <SEP> Q9ZF43 <SEP> pure <SEP> protein <SEP>;<SEP> lactis
<tb> 1558 <SEP> purD <SEP> 99% <SEP> Q9ZF44 <SEP> purd <SEP> protein <SEP>;<SEP> lactis
<tb> 1559 <SEP> ypfD <SEP> 90% <SEP> Q9ZF45 <SEP> hypothetical <SEP> 14. <SEP> 0 <SEP> kd <SEP> protein <SEP>;<SEP> lactis
<tb> 1560 <SEP> tra983F <SEP> 50% <SEP> 087534 <SEP> putative <SEP>transposase;<SEP> Streptococcus <SEP> pyogenes
<tb> 1561 <SEP> ypfE <SEP> 26% <SEP> 035018 <SEP>lmrb;<SEP> Bacillus <SEP> subtilis
<tb> 1562 <SEP> ypfF <SEP> 32% <SEP> 006480 <SEP>yfnb;<SEP> Bacillus <SEP> subtilis
<tb> 1563 <SEP> purH <SEP> 56% <SEP> P12048 <SEP> B <SEP> bifunctional <SEP> purine <SEP> biosynthesis <SEP> protein <SEP> purh
<tb> [includes:
<tb> phosphoribosylaminoimidazolecarboxamide
<tb> formyltransferase <SEP>;<SEP> imp <SEP> cyclohydrolase <SEP> (ec <SEP> 3 ...
<tb>

1564 <SEP> hprT <SEP> 59% <SEP> P94303 <SEP> hypoxanthine-guanine <SEP>phosphoribosyltransferase;
<tb> Bacillus <SEP> firmus
<tb> 1565 <SEP> ypgB <SEP> 29% <SEP> Q19391 <SEP> similar <SEP> to <SEP>dihydroflavonol-4-reductase;
<tb> Caenorhabditis <SEP> elegans
<tb> 1566 <SEP> ypgC <SEP> putative
<tb> 1567 <SEP> ypgD <SEP> 28% <SEP> Q48569 <SEP> abc <SEP>transporter;<SEP> Lactobacillus <SEP> helveticus
<tb> 1568 <SEP> purN <SEP> 47% <SEP> AAF08602 <SEP> phosphoribosylglycinamide <SEP> formyltransferase
<tb> homolog <SEP>;<SEP> Streptococcus <SEP> pyogenes
<tb> 1569 <SEP> purM <SEP> 90% <SEP> 068186 <SEP> phosphoribosylformylglycinamide <SEP> cycloligase <SEP>;
<tb> Lactococcus <SEP> lactis
<tb> 1570 <SEP> clpB <SEP> 94% <SEP> 068185 <SEP> clpb <SEP> chaperone <SEP>homolog;<SEP> Lactococcus <SEP> lactis
<tb> 1571 <SEP> ypgH <SEP> putative
<tb> 1572 <SEP> yphA <SEP> putative
<tb> 1573 <SEP> purF <SEP> 94% <SEP> Q9ZB05 <SEP> phosphoribosylpyrophosphate <SEP>amidotransferase;
<tb> Lactococcus <SEP> lactis
<tb>

<Desc / Clms Page number 178>

<tb>
<tb> 1574 <SEP> yphC <SEP> 41% <SEP> CAB53269 <SEP> putative <SEP>oxidoreductase;<SEP> Streptomyces
<tb> coelicolor
<tb> 1575 <SEP> purL <SEP> 94% <SEP> Q9ZB06 <SEP> phosphoribosylformylglycinamidine <SEP> synthetase <SEP>ii;
<tb> Lactococcus <SEP> lactis
<tb> 1576 <SEP> purQ <SEP> 95% <SEP> Q9ZB07 <SEP> phosphoribosylformylglycinamidine <SEP> synthetase <SEP>i;
<tb> Lactococcus <SEP> lactis
<tb> 1577 <SEP> yphF <SEP> 71% <SEP> Q9ZB08 <SEP> hypothetical <SEP> 9. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1578 <SEP> purC <SEP> 92% <SEP> AAD12623 <SEP> phosphoribosylaminoimidazolesuccinocarboxamide
<tb> synthetase <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1579 <SEP> yphH <SEP> 41% <SEP> Q9XOA3 <SEP> hypothetical <SEP> 15. <SEP> 1 <SEP> kd <SEP> protein <SEP>;
<tb> maritima
<tb> 1580 <SEP> yphI <SEP> putative
<tb> 1581 <SEP> yphJ <SEP> 37% <SEP> Q9XD79 <SEP> 2065.4-carboxymuconolactone <SEP> decarboxylase / 3oxoadipate <SEP> enol-lactone <SEP>hydrolase;<SEP> Streptomyces
<tb> sp
<tb> 1582 <SEP> yphK <SEP> putative
<tb> 1583 <SEP> ypiA <SEP> 73% <SEP> P25145 <SEP> hypothetical <SEP> oxidoreductase <SEP> in <SEP> inla <SEP>5'region;
<tb> Listeria <SEP> monocytogenes
<tb> 1584 <SEP> ypiB <SEP> 31% <SEP> CAB61253 <SEP> orfb, <SEP> orfc <SEP> and <SEP> hspl8 <SEP>gene;<SEP> Oenococcus <SEP> oeni
<tb> 1585 <SEP> ypiC <SEP> 35% <SEP> P97247 <SEP> hypothetical <SEP> 17. <SEP> 1 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 1586 <SEP> thyA <SEP> 96% <SEP> P19368 <SEP> thymidylate <SEP>synthase;<SEP> Lactococcus <SEP> lactis
<tb> 1587 <SEP> ypiE <SEP> putative
<tb> 1588 <SEP> ypiF <SEP> putative
<tb> 1589 <SEP> ypiG <SEP> putative
<tb> 1590 <SEP> ypiH <SEP> putative
<tb> 1591 <SEP> tra981H <SEP> 92% <SEP> Q48668 <SEP> insertion <SEP> sequence <SEP>is981;<SEP> Lactococcus <SEP> lactis
<tb> 1592 <SEP> ypiI <SEP> 100% <SEP> Q48667 <SEP> insertion <SEP> sequence <SEP>is981;<SEP> Lactococcus <SEP> lactis
<tb> 1593 <SEP> ypiJ <SEP> putative
<tb> 1594 <SEP> ypiK <SEP> putative
<tb> 1595 <SEP> ypiL <SEP> 18% <SEP> 039307 <SEP> positional <SEP> counterpart <SEP> of <SEP> hsv-1 <SEP> gene <SEP> us5 <SEP>;
<tb> Equine <SEP> herpesvirus <SEP> 4
<tb> 1596 <SEP> ypjA <SEP> 40% <SEP> 034179 <SEP> dehydrogenase <SEP>;<SEP> volcanii
<tb> 1597 <SEP> ypjB <SEP> putative
<tb> 1598 <SEP> ypjC <SEP> putative
<tb> 1599 <SEP> pyrDa <SEP> 92% <SEP> P54321 <SEP> dihydroorotate <SEP> dehydrogenase <SEP>a;<SEP> Lactococcus
<tb> lactis
<tb> 1600 <SEP> ypjE <SEP> 54% <SEP> P54154 <SEP> putative <SEP> peptide <SEP> methionine <SEP> sulfoxide <SEP> reductase
<tb> (peptide <SEP>met;<SEP> Bacillus <SEP> subtilis
<tb> 1601 <SEP> ypjF <SEP> 28% <SEP> CAB61731 <SEP> putative <SEP>oxidoreductase;<SEP>;<SEP> Streptomyces
<tb> coelicolor
<tb> 1602 <SEP> ypjG <SEP> 41% <SEP> 006476 <SEP>yfmr;<SEP> Bacillus <SEP> subtilis
<tb> 1603 <SEP> rlrE <SEP> 51% <SEP> CAB36982 <SEP> cpsy <SEP>protein;<SEP> Streptococcus <SEP> agalactiae
<tb> 1604 <SEP> ypjH <SEP> 32% <SEP> BAA35229 <SEP> hypothetical <SEP> protein <SEP> in <SEP> csta <SEP> 3 <SEP>'region;<SEP>;<SEP>
<tb> Escherichia <SEP> coli
<tb> 1605 <SEP> ypjI <SEP> 80% <SEP> Q48644 <SEP> cremoris <SEP> partial <SEP> putative <SEP> open <SEP> reading <SEP>frame;
<tb> Lactococcus <SEP> lactis
<tb> 1606 <SEP> pepDB <SEP> 53% <SEP> Q48558 <SEP>dipeptidase;<SEP> Lactobacillus <SEP> helveticus
<tb> 1607 <SEP> papL <SEP> 39% <SEP> P42977 <SEP> poly <SEP> polymerase <SEP>;<SEP> subtilis
<tb> 1608 <SEP> yqaB <SEP> 29% <SEP> AAF10345 <SEP> hypothetical <SEP> 18. <SEP> 1 <SEP> kd <SEP>protein;<SEP> Deinococcus
<tb> radiodurans
<tb> 1609 <SEP> dapB <SEP> 50% <SEP> P42976 <SEP> dihydrodipicolinate <SEP> reductase <SEP>;<SEP> subtilis
<tb> 1610 <SEP> yqaC <SEP> 33% <SEP> P32436 <SEP> degv <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1611 <SEP> yqaD <SEP> putative
<tb> 1612 <SEP> trmD <SEP> 57% <SEP> 031741 <SEP> trna <SEP>-methyltransferase;<SEP> Bacillus <SEP> subtilis
<tb> 1613 <SEP> rimM <SEP> 46% <SEP> 031740 <SEP> probable <SEP> 16s <SEP> rrna <SEP> processing <SEP> protein <SEP>rimm;
<tb> Bacillus <SEP> subtilis
<tb> 1614 <SEP> yqaG <SEP> 30% <SEP> 028521 <SEP> lysophospholipase <SEP>;<SEP> fulgidus
<tb> 1615 <SEP> hemH <SEP> 37% <SEP> P43413 <SEP> ferrochelatase <SEP>;<SEP> Yersinia <SEP> enterocolitica
<tb> 1616 <SEP> yqbA <SEP> putative
<tb> 1617 <SEP> rpsP <SEP> 65% <SEP> P21474 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP>sl6;<SEP> Bacillus <SEP> subtilis
<tb>

<Desc / Clms Page number 179>

<tb>
<tb> 1618 <SEP> mvaA <SEP> 38% <SEP> 028538 <SEP> 3-hydroxy-3-methylglutaryl-coenzyme <SEP> a <SEP>reductase;
<tb> Archaeoglobus <SEP> fulgidus
<tb> 1619 <SEP> yqbC <SEP> 47% <SEP> AAF11511 <SEP> acetyl-coa <SEP>acetyltransferase;<SEP> Deinococcus
<tb> radiodurans
<tb> 1620 <SEP> yqbD <SEP> 55% <SEP> Q9ZB67 <SEP> similar <SEP> to <SEP>condensing-enzymes;<SEP> Staphylococcus
<tb> carnosus
<tb> 1621 <SEP> nagB <SEP> 49% <SEP> 031458 <SEP> hypothetical <SEP> 27. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> gltp-cwlj
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1622 <SEP> yqbF <SEP> 26% <SEP> P54567 <SEP> hypothetical <SEP> 34.6 <SEP> kd <SEP> protein <SEP> in <SEP> glnq-ansr
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1623 <SEP> queA <SEP> 63% <SEP> 032054 <SEP> s-adenosylmethionine: trna <SEP>ribosyltransferaseisomerase;<SEP> Bacillus <SEP> subtilis
<tb> 1624 <SEP> yqbH <SEP> 55% <SEP> 006027 <SEP> epsr <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1625 <SEP> yqbI <SEP> putative
<tb> 1626 <SEP> yqbJ <SEP> 29% <SEP> Q9X336 <SEP>pxol-66;<SEP> Bacillus <SEP> anthracis
<tb> 1627 <SEP> yqbK <SEP> 21% <SEP> 076602 <SEP> h02f09.3 <SEP>protein;<SEP> Caenorhabditis <SEP> elegans
<tb> 1628 <SEP> yqcA <SEP> 36% <SEP> Q54942 <SEP> orf <SEP>iota;<SEP> Streptococcus <SEP> pyogenes
<tb> 1629 <SEP> yqcB <SEP> putative
<tb> 1630 <SEP> yqcC <SEP> putative
<tb> 1631 <SEP> yqcD <SEP> putative
<tb> 1632 <SEP> yqcE <SEP> putative
<tb> 1633 <SEP> yqcF <SEP> putative
<tb> 1634 <SEP> yqcG <SEP> putative
<tb> 1635 <SEP> obgL <SEP> 59% <SEP> P20964 <SEP> spoOb-associated <SEP> gtp-binding <SEP>protein;<SEP> Bacillus
<tb> subtilis
<tb> 1636 <SEP> ftsQ <SEP> 30% <SEP> P16655 <SEP> division <SEP> initiation <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1637 <SEP> murG <SEP> 50% <SEP> 007109 <SEP> undecaprenyl-pp-n-acetylmuramic <SEP> acidpentapeptide <SEP> n-acetylglucosamine <SEP>transferase;
<tb> Enterococcus <SEP> faecalis
<tb> 1638 <SEP> murD <SEP> 58% <SEP> Q9ZHBO <SEP> d-glutamic <SEP> acid <SEP> adding <SEP> enzyme <SEP>murd;
<tb> Streptococcus <SEP> pneumoniae
<tb> 1639 <SEP> glnB <SEP> 57% <SEP> 030794 <SEP> nitrogen <SEP> regulatory <SEP> protein <SEP>p-ii;<SEP> Nostoc
punctiform <tb>
<tb> 1640 <SEP> amtB <SEP> 38% <SEP> 026759 <SEP> putative <SEP> ammonium <SEP> transporter <SEP>mth663;
<tb> Methanobacterium <SEP> thermoautotrophicum
<tb> 1641 <SEP> kinA <SEP> 87% <SEP> 007382 <SEP> histidine <SEP> kinase <SEP>llkina;<SEP> Lactococcus <SEP> lactis
<tb> 1642 <SEP> lrrA <SEP> 61% <SEP> 087527 <SEP>csrr;<SEP> Streptococcus <SEP> pyogenes
<tb> 1643 <SEP> yqdA <SEP> 28% <SEP> 034445 <SEP> ylbn <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1644 <SEP> rpmE <SEP> 67% <SEP> Q9ZH28 <SEP> ribosomal <SEP> protein <SEP>131;<SEP> Listeria <SEP> monocytogenes
<tb> 1645 <SEP> yqeA <SEP> putative
<tb> 1646 <SEP> yqeB <SEP> putative
<tb> 1647 <SEP> yqeC <SEP> 68% <SEP> Q38326 <SEP>orf258;<SEP> Lactococcus <SEP> lactis <SEP> phage <SEP> bk5-t
<tb> 1648 <SEP> yqeD <SEP> 36% <SEP> 034870 <SEP> ykue <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1649 <SEP> pyrAA <SEP> 66% <SEP> P77885 <SEP> L <SEP> glutaminase <SEP> of <SEP> carbamoyl-phosphate <SEP> synthase
<tb> (carbamoyl-phosphate <SEP> synthase <SEP> (carbamoylphosphate <SEP> synthetase <SEP> (gluta ...
<tb>

1650 <SEP> pyrB <SEP> 55% <SEP> P77883 <SEP> aspartate <SEP>carbamoyltransferase;<SEP> Lactobacillus
<tb> plantarum
<tb> 1651 <SEP> pyrP <SEP> 51% <SEP> 052708 <SEP> putative <SEP> uracil <SEP>permease;<SEP> Enterococcus <SEP> faecalis
<tb> 1652 <SEP> pyrR <SEP> 60% <SEP> 052707 <SEP> attenuation <SEP> regulatory <SEP>protein;<SEP> Enterococcus
<tb> faecalis
<tb> 1653 <SEP> yqeH <SEP> putative
<tb> 1654 <SEP> rarA <SEP> 26% <SEP> Q55940 <SEP> transcriptional <SEP> repressor <SEP> smtb <SEP>homolog;
<tb> Synechocystis <SEP> sp
<tb> 1655 <SEP> yqeI <SEP> 29% <SEP> 007084 <SEP> cation <SEP> transport <SEP> protein <SEP>yrdo;<SEP> Bacillus
<tb> subtilis
<tb> 1656 <SEP> proA <SEP> 66% <SEP> P96489 <SEP> gamma-glutamyl <SEP> phosphate <SEP>reductase;
<tb> Streptococcus <SEP> thermophilus
<tb> 1657 <SEP> proB <SEP> 54% <SEP> P96488 <SEP> glutamate <SEP>5-kinase;<SEP> Streptococcus <SEP> thermophilus
<tb> 1658 <SEP> yqfA <SEP> 32% <SEP> CAB49904 <SEP> hypothetical <SEP> 52. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Pyrococcus <SEP> abyssi
<tb> 1659 <SEP> yqfB <SEP> putative
<tb>

<Desc / Clms Page number 180>

<tb>
<tb> 1660 <SEP> yqfC <SEP> putative
<tb> 1661 <SEP> yqfD <SEP> 25% <SEP> 025889 <SEP> hypothetical <SEP> protein <SEP>hpl331;<SEP> Helicobacter <SEP> pylori
<tb> 1662 <SEP> yqfE <SEP> 34% <SEP> CAB61933 <SEP> putative <SEP>reductase;<SEP> Streptomyces <SEP> coelicolor
<tb> 1663 <SEP> yqfF <SEP> 48% <SEP> P37354 <SEP> spermidine <SEP>nl-acetyltransferase;<SEP> Escherichia
<tb> coli
<tb> 1664 <SEP> ffh <SEP> 65% <SEP> Q54431 <SEP> signal <SEP> recognition <SEP> particle <SEP>protein;
<tb> Streptococcus <SEP> mutans
<tb> 1665 <SEP> yqfG <SEP> 29% <SEP> 068831 <SEP> surface <SEP> antigen <SEP>bspa;<SEP> Bacteroides <SEP> forsythus
<tb> 1666 <SEP> yqgA <SEP> 37% <SEP> Q45493 <SEP> hypothetical <SEP> 61. <SEP> 5 <SEP> kd <SEP> protein <SEP> in <SEP> adec-pdha
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1667 <SEP> yqgG <SEP> 53% <SEP> P26606 <SEP> hypothetical <SEP> 23. <SEP> 2 <SEP> kd <SEP> protein <SEP> in <SEP> slp-hdeb
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 1668 <SEP> dapA <SEP> 47% <SEP> Q04796 <SEP> dihydrodipicolinate <SEP>synthase;<SEP> Bacillus <SEP> subtilis
<tb> 1669 <SEP> yqgC <SEP> 34% <SEP> AAF10361 <SEP> mutt / nudix <SEP> family <SEP>protein;<SEP> Deinococcus
<tb> radiodurans
<tb> 1670 <SEP> asd <SEP> 69% <SEP> P10539 <SEP> aspartate-semialdehyde <SEP>dehydrogenase;
<tb> Streptococcus <SEP> mutans
<tb> 1671 <SEP> yqgE <SEP> 49% <SEP> P22094 <SEP> hypothetical <SEP> 30. <SEP> 9 <SEP> kd <SEP> protein <SEP> in <SEP> pepx <SEP> 5 'region.
<tb>

Lactococcus <SEP> lactis <SEP>, <SEP> and <SEP> lactococcus <SEP> lactis
<tb> 1672 <SEP> yqgF <SEP> putative
<tb> 1673 <SEP> tkt <SEP> 55% <SEP> P45694 <SEP>transketolase;<SEP> Bacillus <SEP> subtilis
<tb> 1674 <SEP> kdgA <SEP> 42% <SEP> Q9WXS1 <SEP> 2-dehydro-3-deoxyphosphogluconate <SEP> aldolase / 4hydroxy-2-oxoglutarate <SEP>aldolase;<SEP> Thermotoga
<tb> maritima
<tb> 1675 <SEP> kdgK <SEP> 45% <SEP> P50845 <SEP>2-dehydro-3-deoxygluconokinase;<SEP> Bacillus
<tb> subtilis
<tb> 1676 <SEP> uxaC <SEP> 47% <SEP> P42607 <SEP> uronate <SEP>isomerase;<SEP> Escherichia <SEP> coli
<tb> 1677 <SEP> yqhA <SEP> 40% <SEP> P73504 <SEP> hypothetical <SEP> 33. <SEP> 0 <SEP> kd <SEP>protein;<SEP> Synechocystis <SEP> sp
<tb> 1678 <SEP> uxuT <SEP> 22% <SEP> AAD20246 <SEP> xyloside <SEP>transporter;<SEP> Lactococcus <SEP> lactis
<tb> 1679 <SEP> uxuA <SEP> 57% <SEP> Q9WXS4 <SEP> d-mannonate <SEP>hydrolase;<SEP> Thermotoga <SEP> maritima
<tb> 1680 <SEP> uxuB <SEP> 49% <SEP> Q9WXS3 <SEP> d-mannonate <SEP> oxidoreductase, <SEP>putative;
<tb> Thermotoga <SEP> maritima
<tb> 1681 <SEP> kdgR <SEP> 36% <SEP> Q9ZFL9 <SEP> regulatory <SEP>protein;<SEP> Bacillus <SEP> stearothermophilus
<tb> 1682 <SEP> yqiA <SEP> 22% <SEP> Q54806 <SEP> integral <SEP> membrane <SEP>protein;<SEP> Streptomyces
<tb> pristinaespiralis
<tb> 1683 <SEP> rbsB <SEP> 44% <SEP> P36949 <SEP> d-ribose-binding <SEP> protein <SEP>precursor;<SEP> Bacillus
<tb> subtilis
<tb> 1684 <SEP> rbsC <SEP> 53% <SEP> P96731 <SEP> membrane <SEP> transport <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1685 <SEP> rbsA <SEP> 59% <SEP> P96732 <SEP> atp-binding <SEP> transport <SEP>protein;<SEP> Bacillus
<tb> subtilis
<tb> 1686 <SEP> rbsD <SEP> 56% <SEP> P36946 <SEP> high <SEP> affinity <SEP> ribose <SEP> transport <SEP> protein <SEP>rbsd;
<tb> Bacillus <SEP> subtilis
<tb> 1687 <SEP> rbsK <SEP> 46% <SEP> P36945 <SEP>ribokinase;<SEP> Bacillus <SEP> subtilis
<tb> 1688 <SEP> rbsR <SEP> 41% <SEP> P36944 <SEP> ribose <SEP> operon <SEP>repressor;<SEP> Bacillus <SEP> subtilis
<tb> 1689 <SEP> purB <SEP> 74% <SEP> P12047 <SEP> adenylosuccinate <SEP>lyase;<SEP> Bacillus <SEP> subtilis
<tb> 1690 <SEP> aroD <SEP> 36% <SEP> P35146 <SEP> 3-dehydroquinate <SEP>dehydratase;<SEP> Bacillus <SEP> subtilis
<tb> 1691 <SEP> yqjA <SEP> putative
<tb> 1692 <SEP> trxA <SEP> 59% <SEP> CAB40815 <SEP>thioredoxin;<SEP> Listeria <SEP> monocytogenes
<tb> 1693 <SEP> mutS <SEP> 41% <SEP> P94545 <SEP> muts2 <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1694 <SEP> yqjB <SEP> 30% <SEP> P94543 <SEP> hypothetical <SEP> 19. <SEP> 5 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1695 <SEP> trxB2 <SEP> 39% <SEP> 005268 <SEP> thioredoxin <SEP>reductase;<SEP> Bacillus <SEP> subtilis
<tb> 1696 <SEP> ccpA <SEP> 98% <SEP> Q9ZFC9 <SEP> catabolite <SEP> control <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1697 <SEP> pepQ <SEP> 53% <SEP> 030666 <SEP>pepq;<SEP> Streptococcus <SEP> mutans
<tb> 1698 <SEP> yqjD <SEP> 25% <SEP> Q23915 <SEP> protein <SEP>kinase;<SEP> Dictyostelium <SEP> discoideum
<tb> 1699 <SEP> yqjE <SEP> 48% <SEP> P50840 <SEP> hypothetical <SEP> 43. <SEP> 5 <SEP> kd <SEP> protein <SEP> in <SEP> cotd-kdud
<tb> intergenic <SEP> region <SEP>precursor;<SEP> Bacillus <SEP> subtilis
<tb> 1700 <SEP> yraA <SEP> putative
<tb> 1701 <SEP> yraB <SEP> 32% <SEP> P50839 <SEP> hypothetical <SEP> 11.6 <SEP> kd <SEP> protein <SEP> in <SEP> cotd-kdud
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1702 <SEP> yraC <SEP> 36% <SEP> 054085 <SEP> hypothetical <SEP> 39. <SEP> 7 <SEP> kd <SEP>protein;<SEP> Streptococcus
<tb> agalactiae
<tb>

<Desc / Clms Page number 181>

<tb>
<tb> 1703 <SEP> yraD <SEP> putative
<tb> 1704 <SEP> ftsK <SEP> 44% <SEP> P21458 <SEP> stage <SEP> iii <SEP> sporulation <SEP> protein <SEP>e;<SEP> Bacillus
<tb> subtilis
<tb> 1705 <SEP> yraE <SEP> 30% <SEP> Q45494 <SEP> hypothetical <SEP> 28. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1706 <SEP> yraF <SEP> putative
<tb> 1707 <SEP> pta <SEP> 62% <SEP> P39646 <SEP> probable <SEP> phosphate <SEP>acetyltransferase;<SEP> Bacillus
<tb> subtilis
<tb> 1708 <SEP> udk <SEP> 57% <SEP> 032033 <SEP> uridine <SEP>kinase;<SEP> Bacillus <SEP> subtilis
<tb> 1709 <SEP> yrbA <SEP> 34% <SEP> P42599 <SEP> hypothetical <SEP> 36. <SEP> 2 <SEP> kd <SEP> protein <SEP> in <SEP> ebgc-uxaa
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 1710 <SEP> yrbB <SEP> 46% <SEP> P19385 <SEP> lysozyme <SEP>;<SEP> cp-7
<tb> 1711 <SEP> yrbC <SEP> 20% <SEP> P39582 <SEP> probable <SEP> 1,4-dihydroxy-2-naphthoate
<tb>octaprenyltransferase;<SEP> Bacillus <SEP> subtilis
<tb> 1712 <SEP> yrbD <SEP> 28% <SEP> P73745 <SEP> hypothetical <SEP> 48. <SEP> 4 <SEP> kd <SEP>protein;<SEP> Synechocystis <SEP> sp
<tb> 1713 <SEP> yrbE <SEP> putative
<tb> 1714 <SEP> yrbF <SEP> putative
<tb> 1715 <SEP> yrbG <SEP> putative
<tb> 1716 <SEP> yrbH <SEP> putative
<tb> 1717 <SEP> yrbI <SEP> 37% <SEP> 030416 <SEP> positive <SEP> regulator <SEP>gadr;<SEP> Lactococcus <SEP> lactis
<tb> 1718 <SEP> yrbJ <SEP> 97% <SEP> P49016 <SEP> probable <SEP> menaquinone <SEP> biosynthesis
<tb>methyltransferase;<SEP> Lactococcus <SEP> lactis
<tb> 1719 <SEP> yrbK <SEP> 84% <SEP> P49016 <SEP> probable <SEP> menaquinone <SEP> biosynthesis
<tb>methyltransferase;<SEP> Lactococcus <SEP> lactis
<tb> 1720 <SEP> pip <SEP> 92% <SEP> P49022 <SEP> phage <SEP> infection <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1721 <SEP> yrcA <SEP> 58% <SEP> P24240 <SEP> 6-phospho-beta-glucosidase <SEP>ascb;<SEP> Escherichia
<tb> coli
<tb> 1722 <SEP> yrcB <SEP> 55% <SEP> Q9X1H3 <SEP> conserved <SEP> hypothetical <SEP>protein;<SEP> Thermotoga
<tb> maritima
<tb> 1723 <SEP> tktB <SEP> 34% <SEP> 067036 <SEP> hypothetical <SEP> 69. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Aquifex <SEP> aeolicus
<tb> 1724 <SEP> kinF <SEP> 42% <SEP> CAB54565 <SEP> histidine <SEP>kinase;<SEP> Streptococcus <SEP> pneumoniae
<tb> 1725 <SEP> lrrF <SEP> 99% <SEP> Q9ZI77 <SEP> putative <SEP> response <SEP>regulator;<SEP> Lactococcus <SEP> lactis
<tb> 1726 <SEP> rliA <SEP> 95% <SEP> Q9ZI78 <SEP> hypothetical <SEP> 36. <SEP> 2 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 1727 <SEP> mapA <SEP> 91% <SEP> Q9ZI79 <SEP> hypothetical <SEP> 68. <SEP> 4 <SEP> kd <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1728 <SEP> agl <SEP> 42% <SEP> P94451 <SEP> exo-alpha-1, <SEP>4-glucosidase;<SEP> Bacillus
<tb> stearothermophilus
<tb> 1729 <SEP> amyY <SEP> 38% <SEP> P20845 <SEP> alpha-amylase <SEP>precursor;<SEP> Bacillus <SEP> megaterium
<tb> 1730 <SEP> maa <SEP> 40% <SEP> P77862 <SEP> galactoside <SEP>o-acetyltransferase;<SEP> Escherichia
<tb> coli
<tb> 1731 <SEP> malA <SEP> 64% <SEP> 084995 <SEP> alpha, <SEP>1-6-glucosidase;<SEP> Streptococcus
<tb> pneumoniae
<tb> 1732 <SEP> dexC <SEP> 49% <SEP> P38940 <SEP>neopullulanase;<SEP> Bacillus <SEP> stearothermophilus
<tb> 1733 <SEP> malE <SEP> 27% <SEP> 007009 <SEP> hypothetical <SEP> 45. <SEP> 5 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1734 <SEP> malF <SEP> 34% <SEP> Q48396 <SEP> cym <SEP> a, b, c, d, e, f, g, h, i, j <SEP>genes;<SEP> Klebsiella
<tb> oxytoca
<tb> 1735 <SEP> malG <SEP> 38% <SEP> Q48397 <SEP> cym <SEP> a, b, c, d, e, f, g, h, i, j <SEP>genes;<SEP> Klebsiella
<tb> oxytoca
<tb> 1736 <SEP> yreA <SEP> putative
<tb> 1737 <SEP> yreB <SEP> putative
<tb> 1738 <SEP> yreC <SEP> putative
<tb> 1739 <SEP> yreD <SEP> 26% <SEP> P77262 <SEP> hypothetical <SEP> 23. <SEP> 0 <SEP> kd <SEP> protein <SEP> in <SEP> intf-eaeh
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 1740 <SEP> yreE <SEP> putative
<tb> 1741 <SEP> tra981I <SEP> 92% <SEP> Q48668 <SEP> insertion <SEP> sequence <SEP> is981 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1742 <SEP> yrdA <SEP> 100% <SEP> Q48667 <SEP> insertion <SEP> sequence <SEP>is981;<SEP> Lactococcus <SEP> lactis
<tb> 1743 <SEP> yrdB <SEP> putative
<tb> 1744 <SEP> yreF <SEP> 27% <SEP> Q9XAS7 <SEP> r5 <SEP> protein <SEP>precursor;<SEP> Streptococcus <SEP> agalactiae
<tb> 1745 <SEP> yrfA <SEP> 36% <SEP> 031245 <SEP> orfl <SEP>protein;<SEP> Agrobacterium <SEP> radiobacter
<tb> 1746 <SEP> yrfB <SEP> 40% <SEP> P54524 <SEP> probable <SEP> nadh-dependent <SEP> flavin <SEP> oxidoreductase
<tb>yqig;<SEP> Bacillus <SEP> subtilis
<tb> 1747 <SEP> arcC3 <SEP> 54% <SEP> 053090 <SEP> carbamate <SEP>kinase;<SEP> Lactobacillus <SEP> sake
<tb>

<Desc / Clms Page number 182>

<tb>
<tb> 1748 <SEP> yrfC <SEP> 49% <SEP> AAD47622 <SEP> bg33r. <SEP> hypothetical <SEP> 41. <SEP> 0 <SEP> kd <SEP>protein;
<tb> Pseudomonas <SEP> sp
<tb> 1749 <SEP> tra983G <SEP> 50% <SEP> 087534 <SEP> putative <SEP> transposase <SEP>;<SEP> pyogenes
<tb> 1750 <SEP> yrfD <SEP> 19% <SEP> BAA84897 <SEP> orf62 <SEP> protein <SEP>;<SEP> coli
<tb> 1751 <SEP> otcA <SEP> 45% <SEP> 058457 <SEP> 317aa <SEP> long <SEP> hypothetical <SEP> ornithine
<tb>carbamoyltransferase;<SEP> Pyrococcus <SEP> horikoshii
<tb> 1752 <SEP> lrrH <SEP> 45% <SEP> 087395 <SEP> two-component <SEP> response <SEP> regulator <SEP> orra <SEP>;
<tb> sp
<tb> 1753 <SEP> yrfE <SEP> 31% <SEP> Q47828 <SEP> psr <SEP>;<SEP> hirae
<tb> 1754 <SEP> cmk <SEP> 50% <SEP> 005386 <SEP> cytidylate <SEP> kinase-like <SEP>protein;<SEP> Bacillus <SEP> cereus
<tb> 1755 <SEP> yrgA <SEP> putative
<tb> 1756 <SEP> iron <SEP> 36% <SEP> P29604 <SEP> ferredoxin <SEP>;<SEP> litoralis
<tb> 1757 <SEP> ptnAB <SEP> 74% <SEP> AAD46485 <SEP> mannose-specific <SEP> phosphotransferase <SEP> system
<tb> component <SEP> iiab <SEP>;<SEP> salivarius
<tb> 1758 <SEP> ptnC <SEP> 46% <SEP> AAD46486 <SEP> mannose-specific <SEP> phosphotransferase <SEP> system
<tb> component <SEP> iic <SEP>;<SEP> salivarius
<tb> 1759 <SEP> ptnD <SEP> 70% <SEP> AAD46487 <SEP> mannose-specific <SEP> phosphotransferase <SEP> system
<tb> component <SEP> iid <SEP>;<SEP> salivarius
<tb> 1760 <SEP> yrgE <SEP> 43% <SEP> AAD46488 <SEP> hypothetical <SEP> 13. <SEP> 7 <SEP> kd <SEP> protein <SEP>;
<tb> salivarius
<tb> 1761 <SEP> yrgF <SEP> 28% <SEP> 051049 <SEP> conserved <SEP> hypothetical <SEP> integral <SEP> membrane
<tb> protein <SEP>;<SEP> Borrelia <SEP> burgdorferi
<tb> 1762 <SEP> yrgG <SEP> 85% <SEP> Q48643 <SEP> cremoris <SEP> putative <SEP> partial <SEP> open <SEP> reading <SEP>frame;
<tb> Lactococcus <SEP> lactis
<tb> 1763 <SEP> serS <SEP> 60% <SEP> P37464 <SEP> seryl-trna <SEP> synthetase <SEP>;<SEP> subtilis
<tb> 1764 <SEP> yrgH <SEP> 38% <SEP> 035046 <SEP> yocd <SEP>;<SEP> subtilis
<tb> 1765 <SEP> yrgI <SEP> 26% <SEP> P36942 <SEP> probable <SEP> phosphoglycerate <SEP> mutase <SEP> 2 <SEP>;
<tb> Escherichiacoli
<tb> 1766 <SEP> phoU <SEP> 35% <SEP> Q9X4T4 <SEP> phou <SEP>;<SEP> Streptococcus <SEP> pneumoniae
<tb> 1767 <SEP> pstA <SEP> 63% <SEP> Q58418 <SEP> probable <SEP> phosphate <SEP> transport <SEP> atp-binding <SEP> protein
<tb> pstb <SEP>;<SEP> Methanococcus <SEP> jannaschii
<tb> 1768 <SEP> pstB <SEP> 58% <SEP> P46341 <SEP> hypothetical <SEP> abc <SEP> transporter <SEP> atp-binding <SEP> protein
<tb> in <SEP> soda-comga <SEP> intergenic <SEP>region;<SEP> Bacillus
<tb> subtilis
<tb> 1769 <SEP> pstC <SEP> 51% <SEP> P46340 <SEP> probable <SEP> abc <SEP> transporter <SEP> permease <SEP> protein <SEP> in
<tb> soda-comga <SEP> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1770 <SEP> pstD <SEP> 47% <SEP> P46339 <SEP> probable <SEP> abc <SEP> transporter <SEP> permease <SEP> protein <SEP> in
<tb> soda-comga <SEP> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1771 <SEP> pstE <SEP> 97% <SEP> 066079 <SEP> lipoprotein <SEP> nlpl <SEP> precursor <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1772 <SEP> pstF <SEP> 56% <SEP> 066079 <SEP> lipoprotein <SEP> nlpl <SEP> precursor <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1773 <SEP> yrhG <SEP> 70% <SEP> 085201 <SEP> vacb <SEP> homolog <SEP>;<SEP> pneumoniae
<tb> 1774 <SEP> yrhH <SEP> 29% <SEP> 080443 <SEP> fl6ml4.11 <SEP> protein <SEP>;<SEP> Arabidopsis <SEP> thaliana
<tb> 1775 <SEP> alaS <SEP> 51% <SEP> 034526 <SEP> alanyl-trna <SEP> synthetase <SEP>;<SEP> subtilis
<tb> 1776 <SEP> pmpA <SEP> 84% <SEP> 066088 <SEP> lipoprotein <SEP> nlp4 <SEP> precursor <SEP>;<SEP> lactis
<tb> 1777 <SEP> yriA <SEP> 88% <SEP> P94877 <SEP> methyltransferase <SEP>;<SEP> lactis
<tb> 1778 <SEP> pepF <SEP> 96% <SEP> P54124 <SEP> oligoendopeptidase <SEP> f, <SEP> plasmid <SEP>;
<tb> lactis
<tb> 1779 <SEP> coiA <SEP> 74% <SEP> P94875 <SEP> transcription <SEP> factor <SEP>;<SEP> lactis
<tb> 1780 <SEP> yriB <SEP> 82% <SEP> P94874 <SEP> orf, <SEP> genes <SEP> homologous <SEP> to <SEP> vsf-1 <SEP> and <SEP> pepf2 <SEP > and
<tb> gene <SEP> encoding <SEP> protein <SEP> homologous <SEP> to
<tb> methyltransferase <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1781 <SEP> yriC <SEP> 41% <SEP> Q9ZB16 <SEP> hypothetical <SEP> 34. <SEP> 5 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 1782 <SEP> yriD <SEP> 38% <SEP> AAF12190 <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;
<tb> radiodurans
<tb> 1783 <SEP> yrjA <SEP> 31% <SEP> P70947 <SEP> hypothetical <SEP> 30. <SEP> 6 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 1784 <SEP> yrjB <SEP> 57% <SEP> 007020 <SEP> hypothetical <SEP> 26. <SEP> 4 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 1785 <SEP> yrjC <SEP> 97% <SEP> 069147 <SEP> putative <SEP> iron-binding <SEP> protein <SEP>;
<tb> lactis
<tb> 1786 <SEP> yrjD <SEP> 77% <SEP> 069148 <SEP> hypothetical <SEP> 25. <SEP> 1 <SEP> kd <SEP> protein <SEP>;<SEP> lactis
<tb>

<Desc / Clms Page number 183>

<tb>
<tb> 1787 <SEP> yrjE <SEP> 93% <SEP> 069149 <SEP> putative <SEP> membrane <SEP> spanning <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 1788 <SEP> yrjF <SEP> 28% <SEP> P39074 <SEP> bmru <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1789 <SEP> yrjG <SEP> 31% <SEP> 067622 <SEP> hypothetical <SEP> 64. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Aquifex <SEP> aeolicus
<tb> 1790 <SEP> rpsT <SEP> 40% <SEP> BAA01302 <SEP> ribosomal <SEP> protein <SEP>s20;<SEP> Escherichia <SEP> coli
<tb> 1791 <SEP> recD <SEP> 40% <SEP> 034481 <SEP> yrrc <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1792 <SEP> yrjI <SEP> 28% <SEP> Q9X194 <SEP> phosphoglycerate <SEP>mutase;<SEP> Thermotoga <SEP> maritima
<tb> 1793 <SEP> pheA <SEP> 86% <SEP> P43909 <SEP> prephenate <SEP>dehydratase;<SEP> Lactococcus <SEP> lactis
<tb> 1794 <SEP> aroK <SEP> 85% <SEP> P43906 <SEP> shikimate <SEP>kinase;<SEP> Lactococcus <SEP> lactis
<tb> 1795 <SEP> aroA <SEP> 89% <SEP> P43905 <SEP> 3-phosphoshikimate <SEP> 1-carboxyvinyltransferase
<tb> (epsp <SEP> synthas. <SEP> Lactococcus <SEP> lactis
<tb> 1796 <SEP> tyrA <SEP> 77% <SEP> P43901 <SEP> prephenate <SEP>dehydrogenase;<SEP> Lactococcus <SEP> lactis
<tb> 1797 <SEP> kinG <SEP> 41% <SEP> CAB54567 <SEP> histidine <SEP>kinase;<SEP> Streptococcus <SEP> pneumoniae
<tb> 1798 <SEP> lrrG <SEP> 45% <SEP> CAB54566 <SEP> response <SEP>regulator;<SEP> Streptococcus <SEP> pneumoniae
<tb> 1799 <SEP> ysaA <SEP> putative
<tb> 1800 <SEP> ysaB <SEP> 20% <SEP> P42424 <SEP> hypothetical <SEP> 70. <SEP> 5 <SEP> kd <SEP> protein <SEP> in <SEP> idh <SEP> 3 'region;
<tb> Bacillus <SEP> subtilis
<tb> 1801 <SEP> ysaC <SEP> 49% <SEP> P42423 <SEP> hypothetical <SEP> abc <SEP> transporter <SEP> atp-binding <SEP> protein
<tb> in <SEP> idh <SEP>3'region;<SEP> Bacillus <SEP> subtilis
<tb> 1802 <SEP> ysaD <SEP> 37% <SEP> P54940 <SEP> hypothetical <SEP> 13. <SEP> 0 <SEP> kd <SEP> protein <SEP> in <SEP> idh-deor
<tb> intergenic <SEP> region <SEP>precursor;<SEP> Bacillus <SEP> subtilis
<tb> 1803 <SEP> aroC <SEP> 58% <SEP> P31104 <SEP> chorismate <SEP>synthase;<SEP> Bacillus <SEP> subt-ilis
<tb> 1804 <SEP> ysbA <SEP> 32% <SEP> Q57064 <SEP>unidentified;<SEP> Streptococcus <SEP> pneumoniae
<tb> 1805 <SEP> ysbB <SEP> 32% <SEP> Q45498 <SEP> hypothetical <SEP> 24. <SEP> 6 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1806 <SEP> ysbC <SEP> 33% <SEP> AAF10690 <SEP> hypothetical <SEP> 16. <SEP> 7 <SEP> kd <SEP>protein;<SEP> Deinococcus
<tb> radiodurans
<tb> 1807 <SEP> aroB <SEP> 42% <SEP> P73997 <SEP> 3-dehydroquinate <SEP>synthase;<SEP> Synechocystis <SEP> sp
<tb> 1808 <SEP> aroE <SEP> 37% <SEP> CAB49372 <SEP> shikimate <SEP>5-dehydrogenase;<SEP> Pyrococcus <SEP> abyssi
<tb> 1809 <SEP> ysbD <SEP> 42% <SEP> 069601 <SEP> hypothetical <SEP> 24. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Mycobacterium
<tb> leprae
<tb> 1810 <SEP> glnP <SEP> 98% <SEP> AAF16724 <SEP> putative <SEP> integral <SEP> membrane <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 1811 <SEP> glnQ <SEP> 62% <SEP> 029577 <SEP> glutamine <SEP> abc <SEP> transporter, <SEP> atp-binding <SEP>protein;
<tb> Archaeoglobus <SEP> fulgidus
<tb> 1812 <SEP> yscA <SEP> 21% <SEP> 076602 <SEP> h02f09.3 <SEP> protein <SEP>;<SEP> Caenorhabditis <SEP> elegans
<tb> 1813 <SEP> yscB <SEP> putative
<tb> 1814 <SEP> atpE <SEP> 80% <SEP> AAF02208 <SEP> h ± atpase <SEP> cytoplasmic <SEP> fl-part <SEP>epsilon-subunit;
<tb> Lactococcus <SEP> lactis
<tb> 1815 <SEP> atpD <SEP> 91% <SEP> AAF02210 <SEP> h ± atpase <SEP> cytoplasmic <SEP> fl-part <SEP> beta-subunit <SEP>;
<tb> Lactococcus <SEP> lactis
<tb> 1816 <SEP> atpG <SEP> 89% <SEP> AAF02207 <SEP> h ± atpase <SEP> cytoplasmic <SEP> fl-part <SEP>gamma-subunit;
<tb> Lactococcus <SEP> lactis
<tb> 1817 <SEP> atpA <SEP> 97% <SEP> AAF02206 <SEP> h ± atpase <SEP> cytoplasmic <SEP> fl-part <SEP>alpha-subunit;
<tb> Lactococcus <SEP> lactis
<tb> 1818 <SEP> atpH <SEP> 92% <SEP> AAF02205 <SEP> h ± atpase <SEP> cytoplasmic <SEP> fl-part <SEP> delta-subunit <SEP>;
<tb> Lactococcus <SEP> lactis
<tb> 1819 <SEP> atpF <SEP> 99% <SEP> AAF02204 <SEP> h ± atpase <SEP> fO-part <SEP> b-subunit <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 1820 <SEP> atpB <SEP> 94% <SEP> AAF02203 <SEP> h ± atpase <SEP> fO-part <SEP>a-subunit;<SEP> Lactococcus <SEP> lactis
<tb> 1821 <SEP> yscD <SEP> putative
<tb> 1822 <SEP> yscE <SEP> 94% <SEP> AAF02201 <SEP>lipase;<SEP> Lactococcus <SEP> lactis
<tb> 1823 <SEP> comEC <SEP> 40% <SEP> 085198 <SEP> competence <SEP>protein;<SEP> Streptococcus <SEP> pneumoniae
<tb> 1824 <SEP> comEA <SEP> 41% <SEP> P39694 <SEP> horn <SEP> operon <SEP> protein <SEP> 1 <SEP>;<SEP> subtilis
<tb> 1825 <SEP> ysdA <SEP> 25% <SEP> Q48856 <SEP> hypothetical <SEP> 46. <SEP> 8 <SEP> kd <SEP> protein <SEP>;
<tb> Lactobacillussake
<tb> 1826 <SEP> ysdB <SEP> 43% <SEP> 087564 <SEP> nata <SEP>;<SEP> firmus
<tb> 1827 <SEP> ysdC <SEP> putative
<tb> 1828 <SEP> ysdD <SEP> 30% <SEP> 068850 <SEP> hypothetical <SEP> 19. <SEP> 3 <SEP> kd <SEP> protein <SEP>;<SEP> cholerae
<tb> 1829 <SEP> ysdE <SEP> 23% <SEP> Q57898 <SEP> hypothetical <SEP> protein <SEP>mj0456;<SEP> Methanococcus
<tb> jannaschii
<tb> 1830 <SEP> tenA <SEP> 37% <SEP> P25052 <SEP> transcriptional <SEP> activator <SEP> tena <SEP>;
<tb> subtilis
<tb>

<Desc / Clms Page number 184>

<tb>
<tb> 1831 <SEP> birAl <SEP> 31% <SEP> 030162 <SEP> biotin <SEP> operon <SEP> repressor / biotin - [acetyl <SEP> coa
<tb> carboxylase] <SEP> ligase <SEP>;<SEP> fulgidus
<tb> 1832 <SEP> yseA <SEP> 30% <SEP> 057898 <SEP> hypothetical <SEP> protein <SEP>ph0159;<SEP> Pyrococcus
<tb> horikoshii
<tb> 1833 <SEP> yseB <SEP> 27% <SEP> 007619 <SEP> hypothetical <SEP> 52. <SEP> 9 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 1834 <SEP> fadA <SEP> 35% <SEP> P44873 <SEP> acetyl-coa <SEP> acetyltransferase <SEP>;
<tb> Haemophilusinfluenzae
<tb> 1835 <SEP> yseC <SEP> putative
<tb> 1836 <SEP> yseD <SEP> putative
<tb> 1837 <SEP> fabG2 <SEP> 40% <SEP> 067610 <SEP> 3-oxoacyl- [acyl-carrier <SEP> protein] <SEP>reductase;
<tb> Aquifex <SEP> aeolicus
<tb> 1838 <SEP> yseE <SEP> 37% <SEP> Q9WZQ7 <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;
<tb> maritima
<tb> 1839 <SEP> yseF <SEP> 65% <SEP> 032162 <SEP> yuru <SEP> protein <SEP>;<SEP> subtilis
<tb> 1840 <SEP> yseG <SEP> 52% <SEP> 032163 <SEP> yurv <SEP> protein <SEP>;<SEP> subtilis
<tb> 1841 <SEP> yseH <SEP> putative
<tb> 1842 <SEP> yscI <SEP> 58% <SEP> 032164 <SEP> yurw <SEP> protein <SEP>;<SEP> subtilis
<tb> 1843 <SEP> ysfA <SEP> 39% <SEP> 032165 <SEP> yurx <SEP> protein <SEP>;<SEP> subtilis
<tb> 1844 <SEP> ysfB <SEP> 73% <SEP> P80866 <SEP> vegetative <SEP> protein <SEP> 296 <SEP>;<SEP> Bacillus <SEP> subtilis
<tb> 1845 <SEP> ysfC <SEP> 57% <SEP> Q9XDW8 <SEP> rgpg <SEP>;<SEP> mutans
<tb> 1846 <SEP> ysfD <SEP> 27% <SEP> Q9XDW9 <SEP> negative <SEP> regulator <SEP> of <SEP> genetic <SEP>competence;
<tb> Streptococcusmutans
<tb> 1847 <SEP> gltQ <SEP> 60% <SEP> 029577 <SEP> glutamine <SEP> abc <SEP> transporter, <SEP> atp-binding <SEP>protein;
<tb> Archaeoglobus <SEP> fulgidus
<tb> 1848 <SEP> gltP <SEP> 42% <SEP> Q9WZ61 <SEP> amino <SEP> acid <SEP> abc <SEP> transporter, <SEP> permease <SEP>protein;
<tb> Thermotoga <SEP> maritima
<tb> 1849 <SEP> ysfG <SEP> 28% <SEP> 034799 <SEP>ytlr;<SEP> Bacillus <SEP> subtilis
<tb> 1850 <SEP> rpoC <SEP> 70% <SEP> Q9Z9M1 <SEP> rpoc <SEP> protein <SEP>;<SEP> sp
<tb> 1851 <SEP> rpoB <SEP> 69% <SEP> CAB56706 <SEP> dna-dependent <SEP> rna <SEP> polymerase <SEP> subunit <SEP>beta;
<tb> Listeria <SEP> monocytogenes
<tb> 1852 <SEP> codZ <SEP> 26% <SEP> P39779 <SEP> cody <SEP> protein <SEP>;<SEP> subtilis
<tb> 1853 <SEP> ysgA <SEP> 48% <SEP> 006027 <SEP> epsr <SEP> protein <SEP>;<SEP> lactis
<tb> 1854 <SEP> pepO <SEP> 99% <SEP> Q09145 <SEP> neutral <SEP> endopeptidase <SEP>;<SEP> lactis
<tb> 1855 <SEP> ysgB <SEP> 39% <SEP> Q50855 <SEP> putative <SEP> methylguanine-dna <SEP>methyltransferase;
<tb> Myxococcus <SEP> xanthus
<tb> 1856 <SEP> ysgC <SEP> 31% <SEP> 034674 <SEP> ytgp <SEP>;<SEP> subtilis
<tb> 1857 <SEP> murE <SEP> 28% <SEP> 067631 <SEP> udp-murnac-tripeptide <SEP> synthetase <SEP>;
<tb> aeolicus
<tb> 1858 <SEP> adhA <SEP> 63% <SEP> P20368 <SEP> alcohol <SEP> dehydrogenase <SEP> i <SEP>;<SEP> mobilized
<tb> 1859 <SEP> recQ <SEP> 49% <SEP> 034748 <SEP> recq <SEP> homolog <SEP>;<SEP> subtilis
<tb> 1860 <SEP> yshA <SEP> 53% <SEP> Q9ZJ11 <SEP> yjem <SEP>;<SEP> Salmonella <SEP> typhimurium
<tb> 1861 <SEP> pepT <SEP> 94% <SEP> P42020 <SEP> peptidase <SEP> t <SEP>;<SEP> lactis
<tb> 1862 <SEP> yshB <SEP> 43% <SEP> 068580 <SEP> hypothetical <SEP> 11.4 <SEP> kd <SEP> protein <SEP>;
<tb> Streptococcusmutans
<tb> 1863 <SEP> yshC <SEP> 70% <SEP> P95765 <SEP> intrageneric <SEP> coaggregation-relevant <SEP>adhesin;
<tb> Streptococcus <SEP> gordonii
<tb> 1864 <SEP> pflA <SEP> 67% <SEP> 068575 <SEP> pyruvate <SEP> formate-lyase <SEP> activating <SEP>enzyme;
<tb> Streptococcus <SEP> mutans
<tb> 1865 <SEP> ysiA <SEP> 55% <SEP> 068574 <SEP> putative <SEP> hemolysin <SEP>;<SEP> mutans
<tb> 1866 <SEP> ysiB <SEP> 43% <SEP> 068573 <SEP> putative <SEP> permease <SEP>;<SEP> mutans
<tb> 1867 <SEP> ysiC <SEP> 36% <SEP> Q9X244 <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;
<tb> maritima
<tb> 1868 <SEP> ysiD <SEP> 54% <SEP> 086222 <SEP> hypothetical <SEP> 25. <SEP> 1 <SEP> kd <SEP> protein <SEP>;
<tb> influenzae <SEP> rd
<tb> 1869 <SEP> uvrA <SEP> 63% <SEP> 034863 <SEP> excinuclease <SEP> abc <SEP> subunit <SEP> a <SEP>;<SEP> subtilis
<tb> 1870 <SEP> ysiE <SEP> 24% <SEP> Q12263 <SEP> serine / threonine-protein <SEP> kinase <SEP>gin4;
<tb> Saccharomyces <SEP> cerevisiae
<tb> 1871 <SEP> cobC <SEP> 33% <SEP> P77109 <SEP> putative <SEP> cobalamin <SEP> synthesis <SEP>protein;
<tb> Escherichia <SEP> coli
<tb> 1872 <SEP> ysiG <SEP> 52% <SEP> Q51440 <SEP> d-lactate <SEP> dehydrogenase <SEP>;
<tb> acidilactici
<tb>

<Desc / Clms Page number 185>

<tb>
<tb> 1873 <SEP> ysjA <SEP> 35% <SEP> 032257 <SEP> yvbw <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1874 <SEP> ysjB <SEP> 28% <SEP> BAA35876 <SEP> mvim <SEP> protein <SEP>;<SEP> coli
<tb> 1875 <SEP> ysjC <SEP> 35% <SEP> 034664 <SEP> ylos <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1876 <SEP> ysjD <SEP> 47% <SEP> Q05247 <SEP> gene <SEP> 37 <SEP>protein;<SEP> Mycobacteriophage <SEP> 15
<tb> 1877 <SEP> ysjE <SEP> putative
<tb> 1878 <SEP> ysjF <SEP> putative
<tb> 1879 <SEP> asnS <SEP> 57% <SEP> P39772 <SEP> asparaginyl-trna <SEP>synthetase;<SEP> Bacillus <SEP> subtilis
<tb> 1880 <SEP> ysjG <SEP> putative
<tb> 1881 <SEP> aspB <SEP> 87% <SEP> AAF12702 <SEP> aspartate <SEP>aminotransferase;<SEP> Lactococcus <SEP> lactis
<tb> 1882 <SEP> ysjH <SEP> putative
<tb> 1883 <SEP> dinG <SEP> 31% <SEP> 066684 <SEP> atp-dependent <SEP>helicase;<SEP> Aquifex <SEP> aeolicus
<tb> 1884 <SEP> ytaA <SEP> 33% <SEP> Q57951 <SEP> hypothetical <SEP> protein <SEP>mj0531;<SEP> Methanococcus
<tb> jannaschii
<tb> 1885 <SEP> ytaB <SEP> 41% <SEP> 005241 <SEP> hypothetical <SEP> 49. <SEP> 5 <SEP> kd <SEP> protein <SEP> in <SEP> tgl-pgi
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1886 <SEP> ytaC <SEP> 43% <SEP> P12256 <SEP> penicillin <SEP>acylase;<SEP> Bacillus <SEP> sphaericus
<tb> 1887 <SEP> ytaD <SEP> 27% <SEP> Q9X7W7 <SEP> hypothetical <SEP> 31. <SEP> 4 <SEP> kd <SEP>protein;<SEP> Streptomyces
<tb> coelicolor
<tb> 1888 <SEP> oppA <SEP> 87% <SEP> Q07741 <SEP> oligopeptide-binding <SEP> protein <SEP> oppa <SEP>precursor;
<tb> Lactococcus <SEP> lactis
<tb> 1889 <SEP> oppC <SEP> 94% <SEP> Q07743 <SEP> oligopeptide <SEP> transport <SEP> system <SEP> permease <SEP> protein
<tb>oppc;<SEP> Lactococcus <SEP> lactis <SEP>, <SEP> and <SEP> lactococcus
<tb> lactis
<tb> 1890 <SEP> oppB <SEP> 95% <SEP> P50989 <SEP> oligopeptide <SEP> transport <SEP> system <SEP> permease <SEP> protein
<tb>oppb;<SEP> Lactococcus <SEP> lactis
<tb> 1891 <SEP> oppF <SEP> 99% <SEP> Q07734 <SEP> oligopeptide <SEP> transport <SEP> atp-binding <SEP> protein <SEP>oppf;
<tb> Lactococcus <SEP> lactis <SEP>, <SEP> and <SEP> lactococcus <SEP> lactis
<tb> 1892 <SEP> oppD <SEP> 99% <SEP> P50980 <SEP> oligopeptide <SEP> transport <SEP> atp-binding <SEP> protein <SEP>oppd;
<tb> Lactococcus <SEP> lactis
<tb> 1893 <SEP> rplT <SEP> 54% <SEP> P55873 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 120 <SEP>;<SEP> subtilis
<tb> 1894 <SEP> rpmI <SEP> 64% <SEP> P55874 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 135 <SEP>;<SEP> subtilis
<tb> 1895 <SEP> infC <SEP> 55% <SEP> 053084 <SEP> translation <SEP> initiation <SEP> factor <SEP>if-3;<SEP> Listeria
<tb> monocytogenes
<tb> 1896 <SEP> ytbA <SEP> putative
<tb> 1897 <SEP> ytbB <SEP> 28% <SEP> 006480 <SEP>yfnb;<SEP> Bacillus <SEP> subtilis
<tb> 1898 <SEP> gidA <SEP> 96% <SEP> 032806 <SEP> glucose <SEP> inhibited <SEP> division <SEP> protein <SEP>a;
<tb> Lactococcus <SEP> lactis
<tb> 1899 <SEP> ytbC <SEP> putative
<tb> 1900 <SEP> ytbD <SEP> 49% <SEP> 006665 <SEP> putative <SEP> dna <SEP> binding <SEP> protein <SEP>;
<tb> gordonii
<tb> 1901 <SEP> ytbE <SEP> 54% <SEP> 031418 <SEP> yazc <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1902 <SEP> cysS <SEP> 47% <SEP> Q06752 <SEP> cysteinyl-trna <SEP> synthetase <SEP>;<SEP> subtilis
<tb> 1903 <SEP> ytcA <SEP> putative
<tb> 1904 <SEP> cysE <SEP> 50% <SEP> Q06750 <SEP> serine <SEP>acetyltransferase;<SEP> Bacillus <SEP> subtilis
<tb> 1905 <SEP> ytcB <SEP> putative
<tb> 1906 <SEP> pnpA <SEP> 60% <SEP> P50849 <SEP> polyribonucleotide <SEP>nucleotidyltransferase;
<tb> Bacillus <SEP> subtilis
<tb> 1907 <SEP> ytcC <SEP> 78% <SEP> 030413 <SEP> hypothetical <SEP> 31. <SEP> 2 <SEP> kd <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1908 <SEP> prsB <SEP> 51% <SEP> 033924 <SEP> prpp <SEP>synthetase;<SEP> Corynebacterium <SEP> ammonia
<tb> 1909 <SEP> ytcD <SEP> 32% <SEP> 026984 <SEP> conserved <SEP>protein;<SEP> Methanobacterium
<tb> thermoautotrophicum
<tb> 1910 <SEP> nifS <SEP> 45% <SEP> 034599 <SEP> yrvo <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1911 <SEP> ytcE <SEP> putative
<tb> 1912 <SEP> tuf <SEP> 78% <SEP> P33170 <SEP> elongation <SEP> factor <SEP>tu;<SEP> Streptococcus <SEP> oralis
<tb> 1913 <SEP> ytdA <SEP> putative
<tb> 1914 <SEP> ileS <SEP> 62% <SEP> Q9ZHB3 <SEP> isoleucine-trna <SEP> synthetase <SEP>;
<tb> pneumoniae
<tb> 1915 <SEP> ytdB <SEP> 36% <SEP> Q9ZHB4 <SEP> cell <SEP> division <SEP> protein <SEP>diviva;<SEP> Streptococcus
<tb> pneumoniae
<tb> 1916 <SEP> ytdC <SEP> 35% <SEP> Q9ZHB5 <SEP>ylmh;<SEP> Streptococcus <SEP> pneumoniae
<tb> 1917 <SEP> ytdD <SEP> 81% <SEP> Q9ZAI8 <SEP> hypothetical <SEP> 10. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb>

<Desc / Clms Page number 186>

<tb>
<tb> 1918 <SEP> ytdE <SEP> 85% <SEP> Q9ZAI9 <SEP> hypothetical <SEP> 21. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1919 <SEP> ytdF <SEP> 92% <SEP> Q9ZAJO <SEP> hypothetical <SEP> 25. <SEP> 5 <SEP> kd <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1920 <SEP> ftsZ <SEP> 83% <SEP> Q9ZAJ1 <SEP> cell <SEP> division <SEP> protein <SEP>ftsz;<SEP> Lactococcus <SEP> lactis
<tb> 1921 <SEP> ftsA <SEP> 92% <SEP> Q9ZAJ2 <SEP> cell <SEP> division <SEP> protein <SEP>ftsa;<SEP> Lactococcus <SEP> lactis
<tb> 1922 <SEP> yteA <SEP> 33% <SEP> P70945 <SEP> hypothetical <SEP> 31. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1923 <SEP> trmH <SEP> 45% <SEP> Q06753 <SEP> hypothetical <SEP> trna / rrna <SEP> methyltransferase <SEP>yaco;
<tb> Bacillus <SEP> subtilis
<tb> 1924 <SEP> yteB <SEP> 32% <SEP> 032159 <SEP> hypothetical <SEP> 39.4 <SEP> kd <SEP> oxidoreductase <SEP> in <SEP> hom-mrga
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1925 <SEP> yteC <SEP> 41% <SEP> P22045 <SEP> probable <SEP>reductase;<SEP> Leishmania <SEP> major
<tb> 1926 <SEP> yteD <SEP> 26% <SEP> 069986 <SEP> transmembrane <SEP> efflux <SEP>protein;<SEP> Streptomyces
<tb> coelicolor
<tb> 1927 <SEP> rlrB <SEP> 26% <SEP> 066882 <SEP> transcriptional <SEP>regulator;<SEP> Aquifex <SEP> aeolicus
<tb> 1928 <SEP> rmeA <SEP> 37% <SEP> 006008 <SEP> mercuric <SEP> resistance <SEP> operon <SEP> regulatory <SEP>protein;
<tb> Bacillus <SEP> subtilis
<tb> 1929 <SEP> pepC <SEP> 95% <SEP> Q04723 <SEP> aminopeptidase <SEP>c;<SEP> Lactococcus <SEP> lactis
<tb> 1930 <SEP> yteE <SEP> 87% <SEP> Q04731 <SEP> hypothetical <SEP> protein <SEP> in <SEP> pepc <SEP>5'region;
<tb> Lactococcus <SEP> lactis
<tb> 1931 <SEP> pfs <SEP> 38% <SEP> P24247 <SEP> mta / sah <SEP> nucleosidase <SEP> [includes: <SEP>5'methylthioadenosine<SEP> nucleosidase <SEP>;<SEP> sadenosylhomocysteine <SEP> nucleosidase <SEP>];<SEP> Escherichia
<tb> coli
<tb> 1932 <SEP> ytfA <SEP> putative
<tb> 1933 <SEP> ytfB <SEP> 49% <SEP> P54570 <SEP> hypothetical <SEP> 21. <SEP> 0 <SEP> kd <SEP> protein <SEP> in <SEP> glnq-ansr
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1934 <SEP> glmU <SEP> 54% <SEP> P14192 <SEP> udp-n-acetylglucosamine <SEP>pyrophosphorylase;
<tb> Bacillus <SEP> subtilis
<tb> 1935 <SEP> proC <SEP> 37% <SEP> Q04708 <SEP> pyrroline-5-carboxylate <SEP>reductase;<SEP> Pisum <SEP> sativum
<tb> 1936 <SEP> tra983H <SEP> 50% <SEP> 087534 <SEP> putative <SEP>transposase;<SEP> Streptococcus <SEP> pyogenes
<tb> 1937 <SEP> rpsO <SEP> 61% <SEP> P05766 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP>sl5;<SEP> Bacillus
<tb> stearothermophilus
<tb> 1938 <SEP> ytfC <SEP> 86% <SEP> Q9ZEK3 <SEP> hypothetical <SEP> 41. <SEP> 6 <SEP> kd <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1939 <SEP> ytfD <SEP> 93% <SEP> Q9ZEK4 <SEP> pppl <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1940 <SEP> sunL <SEP> 92% <SEP> Q9ZEK5 <SEP> sunl <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1941 <SEP> ytgH <SEP> 74% <SEP> Q48606 <SEP> putative <SEP> 20-kda <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 1942 <SEP> ytgA <SEP> putative
<tb> 1943 <SEP> ytgB <SEP> 52% <SEP> P96594 <SEP> ydas <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1944 <SEP> fmt <SEP> 46% <SEP> P94463 <SEP> methionyl-trna <SEP>formyltransferase;<SEP> Bacillus
<tb> subtilis
<tb> 1945 <SEP> yteG <SEP> 42% <SEP> Q9X7R8 <SEP> hypothetical <SEP> 17. <SEP> 7 <SEP> kd <SEP>protein;<SEP> Streptomyces
<tb> coelicolor
<tb> 1946 <SEP> ytgC <SEP> 31% <SEP> Q58549 <SEP> adp-ribose <SEP>pyrophosphatase;<SEP> Methanococcus
<tb> jannaschii
<tb> 1947 <SEP> ytgD <SEP> putative
<tb> 1948 <SEP> priA <SEP> 47% <SEP> P94461 <SEP> primosomal <SEP> protein <SEP> n ';<SEP> Bacillus <SEP> subtilis
<tb> 1949 <SEP> ytgE <SEP> 43% <SEP> 035011 <SEP> yloh <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1950 <SEP> gmk <SEP> 60% <SEP> 034328 <SEP> ylod <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1951 <SEP> ytgF <SEP> 54% <SEP> 031774 <SEP> ymda <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1952 <SEP> ytgG <SEP> 39% <SEP> P31470 <SEP> hypothetical <SEP> 23. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> tnab-bglb
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 1953 <SEP> metK <SEP> 65% <SEP> P50307 <SEP> s-adenosylmethionine <SEP>synthetase;<SEP> Staphylococcus
<tb> aureus
<tb> 1954 <SEP> ythD <SEP> 43% <SEP> Q9ZKG8 <SEP> cyclopocyclopropane <SEP> fatty <SEP> acid <SEP>synthase;
<tb> Helicobacter <SEP> pylori <SEP> j99
<tb> 1955 <SEP> cfa <SEP> 43% <SEP> 025171 <SEP> cyclopropane <SEP> fatty <SEP> acid <SEP>synthase;<SEP> Helicobacter
<tb> pylori
<tb> 1956 <SEP> birA2 <SEP> 33% <SEP> 027938 <SEP> biotin <SEP> acetyl-coa <SEP> carboxylase <SEP> ligase / <SEP> biotin
<tb> operon <SEP> repressor <SEP> bifunctional <SEP>protein;
<tb> Methanobacterium <SEP> thermoautotrophicum
<tb> 1957 <SEP> ythA <SEP> 38% <SEP> Q9XOPO <SEP> conserved <SEP> hypothetical <SEP>protein;<SEP> Thermotoga
<tb> maritima
<tb>

<Desc / Clms Page number 187>

<tb>
<tb> 1958 <SEP> ythB <SEP> 46% <SEP> Q9XOPO <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;<SEP> Thermotoga
<tb> maritima
<tb> 1959 <SEP> ythC <SEP> 23% <SEP> 034628 <SEP> yvlb <SEP>;<SEP> subtilis
<tb> 1960 <SEP> acmB <SEP> 42% <SEP> 052362 <SEP> n-acetylmuramidase <SEP>precursor;<SEP> Lactococcus
<tb> lactis
<tb> 1961 <SEP> tra983I <SEP> 50% <SEP> 087534 <SEP> putative <SEP>transposase;<SEP> Streptococcus <SEP> pyogenes
<tb> 1962 <SEP> fbaA <SEP> 74% <SEP> 065944 <SEP> fructose-bisphosphate <SEP>aldolase;<SEP> Streptococcus
<tb> pneumoniae
<tb> 1963 <SEP> ytiA <SEP> 32% <SEP> P37027 <SEP> hypothetical <SEP> 22. <SEP> 1 <SEP> kd <SEP> protein <SEP> in <SEP> heml-pfs
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 1964 <SEP> thrS <SEP> 59% <SEP> P18255 <SEP> threonyl-trna <SEP> synthetase <SEP> 1 <SEP>;<SEP> subtilis
<tb> 1965 <SEP> ytjA <SEP> putative
<tb> 1966 <SEP> ytjB <SEP> 25% <SEP> P96593 <SEP> hypothetical <SEP> 45. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> mutt-gsib
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 1967 <SEP> ytjC <SEP> 36% <SEP> AAD46617 <SEP> nramp <SEP> manganese <SEP> transport <SEP> protein <SEP>mnth;
<tb> Escherichia <SEP> coli
<tb> 1968 <SEP> ytjD <SEP> 34% <SEP> P37261 <SEP> hypothetical <SEP> 21. <SEP> 1 <SEP> kd <SEP> protein <SEP> in <SEP> fusl-agpl
<tb> intergenic <SEP>region;<SEP> Saccharomyces <SEP> cerevisiae
<tb> 1969 <SEP> upp <SEP> 99% <SEP> P50926 <SEP> uracil <SEP>phosphoribosyltransferase;<SEP> Lactococcus
<tb> lactis
<tb> 1970 <SEP> nah <SEP> 88% <SEP> Q48731 <SEP> na / h <SEP> antiporter <SEP>homolog;<SEP> Lactococcus <SEP> lactis
<tb> 1971 <SEP> ytjE <SEP> 37% <SEP> Q08432 <SEP> putative <SEP> aminotransferase <SEP> b <SEP>;<SEP> Bacillussubtilis
<tb> 1972 <SEP> metBl <SEP> 50% <SEP> 031631 <SEP> yjci <SEP> protein <SEP>;<SEP> subtilis
<tb> 1973 <SEP> metA <SEP> 53% <SEP> Q9WZY3 <SEP> homoserine <SEP>o-succinyltransferase;<SEP> Thermotoga
<tb> maritima
<tb> 1974 <SEP> ytjF <SEP> putative
<tb> 1975 <SEP> ytjG <SEP> 26% <SEP> Q9WY71 <SEP> conserved <SEP> hypothetical <SEP>protein;<SEP> Thermotoga
<tb> maritima
<tb> 1976 <SEP> ytjH <SEP> 37% <SEP> P42096 <SEP> lacx <SEP> protein, <SEP>chromosomal;<SEP> Lactococcus <SEP> lactis
<tb> 1977 <SEP> yuaA <SEP> 38% <SEP> Q53606 <SEP> cmp-binding-factor <SEP>1;<SEP> Staphylococcus <SEP> aureus
<tb> 1978 <SEP> yuaB <SEP> 23% <SEP> Q9Z6S7 <SEP> yign <SEP> family <SEP> hypothetical <SEP>protein;<SEP> Chlamydia
<tb> pneumoniae
<tb> 1979 <SEP> rpe <SEP> 55% <SEP> P51012 <SEP> ribulose-phosphate <SEP> 3-epimerase <SEP>;
<tb> capsulatus
<tb> 1980 <SEP> yuaC <SEP> putative
<tb> 1981 <SEP> yuaD <SEP> 45% <SEP> 034530 <SEP> yloq <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 1982 <SEP> yuaE <SEP> 61% <SEP> 066078 <SEP> putative <SEP> extracellular <SEP> protein <SEP> expl <SEP> precursor <SEP>;
<tb> Lactococcus <SEP> lactis
<tb> 1983 <SEP> pheT <SEP> 44% <SEP> P17922 <SEP> phenylalanyl-trna <SEP> synthetase <SEP> beta <SEP> chain <SEP>;
<tb> Bacillus <SEP> subtilis
<tb> 1984 <SEP> pheS <SEP> 60% <SEP> P17921 <SEP> phenylalanyl-trna <SEP> synthetase <SEP> alpha <SEP>chain;
<tb> Bacillus <SEP> subtilis
<tb> 1985 <SEP> pdc <SEP> 78% <SEP> P94900 <SEP> p-coumaric <SEP> acid <SEP>decarboxylase;<SEP> Lactobacillus
<tb> plantarum
<tb> 1986 <SEP> tra983J <SEP> 50% <SEP> 087534 <SEP> putative <SEP>transposase;<SEP> Streptococcus <SEP> pyogenes
<tb> 1987 <SEP> yubA <SEP> 25% <SEP> P71160 <SEP> intb, <SEP> rega, <SEP> gepa, <SEP> gepb, <SEP> and <SEP> gepc <SEP>genes;
<tb> Bacteroides <SEP> nodosus
<tb> 1988 <SEP> yubB <SEP> putative
<tb> 1989 <SEP> yubK <SEP> putative
<tb> 1990 <SEP> yubD <SEP> 92% <SEP> AAF12712 <SEP> hypothetical <SEP> 9.1 <SEP> kd <SEP>protein;<SEP> Bacteriophage
<tb> tpw22
<tb> 1991 <SEP> yubE <SEP> 35% <SEP> P39909 <SEP> spermine / spermidine <SEP>acetyltransferase;<SEP> Bacillus
<tb> subtilis
<tb> 1992 <SEP> tra983K <SEP> 50% <SEP> 087534 <SEP> putative <SEP>transposase;<SEP> Streptococcus <SEP> pyogenes
<tb> 1993 <SEP> yubF <SEP> 32% <SEP> P53352 <SEP> inner <SEP> centromere <SEP> protein <SEP>;<SEP> gallus
<tb> 1994 <SEP> yubG <SEP> 27% <SEP> CAB49281 <SEP> chromosome <SEP> segregation <SEP> protein <SEP>;<SEP> Pyrococcus
<tb> abyssi
<tb> 1995 <SEP> yubH <SEP> putative
<tb> 1996 <SEP> yubI <SEP> putative
<tb> 1997 <SEP> yubJ <SEP> putative
<tb> 1998 <SEP> yucA <SEP> 49% <SEP> Q00370 <SEP> hypothetical <SEP> 26. <SEP> 8 <SEP> kd <SEP> protein <SEP>;<SEP> 50
<tb>

<Desc / Clms Page number 188>

<tb>
<tb> 1999 <SEP> yucB <SEP> putative
<tb> 2000 <SEP> yucC <SEP> 30% <SEP> P45197 <SEP> hypothetical <SEP> protein <SEP>hil412;<SEP> Haemophilus
<tb> influenzae
<tb> 2001 <SEP> yucD <SEP> putative
<tb> 2002 <SEP> yucE <SEP> 30% <SEP> P03035 <SEP> repressor <SEP> protein <SEP> c2 <SEP>;<SEP> p22, <SEP> and
<tb> bacteriophage <SEP> p21
<tb> 2003 <SEP> int5 <SEP> 26% <SEP> P97010 <SEP> integrase <SEP>;<SEP> Bacteriophagetl2
<tb> 2004 <SEP> yucF <SEP> 38% <SEP> P94443 <SEP> yfio <SEP>;<SEP> subtilis
<tb> 2005 <SEP> chiA <SEP> 49% <SEP> Q9WXD3 <SEP> chitinase <SEP>cl;<SEP> Serratia <SEP> marcescens
<tb> 2006 <SEP> yucG <SEP> 46% <SEP> 083009 <SEP> cbp21 <SEP> precursor <SEP>;<SEP> Serratia <SEP> marcescens
<tb> 2007 <SEP> purA <SEP> 67% <SEP> P29726 <SEP> adenylosuccinate <SEP> synthetase <SEP>;<SEP> subtilis
<tb> 2008 <SEP> yudA <SEP> 30% <SEP> P95773 <SEP> cadb <SEP>;<SEP> Staphylococcus <SEP> lugdunensis
<tb> 2009 <SEP> yudB <SEP> putative
<tb> 2010 <SEP> yudC <SEP> putative
<tb> 2011 <SEP> yudD <SEP> 30% <SEP> Q45146 <SEP> insertion <SEP> sequence <SEP> isll68 <SEP> and <SEP> nimb <SEP> gene <SEP> for <SEP> 5nitroimidazole <SEP> antibiotic <SEP> resistance <SEP> protein <SEP>;
<tb> Bacteroides <SEP> fragilis
<tb> 2012 <SEP> yudE <SEP> putative
<tb> 2013 <SEP> yudF <SEP> putative
<tb> 2014 <SEP> yudG <SEP> 57% <SEP> Q9ZB45 <SEP> hypothetical <SEP> 30. <SEP> 1 <SEP> kd <SEP> protein <SEP>;
<tb> pyogenes
<tb> 2015 <SEP> yudH <SEP> 40% <SEP> P45862 <SEP> hypothetical <SEP> 19. <SEP> 6 <SEP> kd <SEP> protein <SEP> in <SEP> acda <SEP> 5 <SEP>'region;<SEP>
<tb> Bacillus <SEP> subtilis
<tb> 2016 <SEP> yudI <SEP> 59% <SEP> P37567 <SEP> hypothetical <SEP> 37. <SEP> 1 <SEP> kd <SEP> protein <SEP> in <SEP> folk-lyss
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 2017 <SEP> yudJ <SEP> 43% <SEP> P42978 <SEP> hypothetical <SEP> 23. <SEP> 6 <SEP> kd <SEP> protein <SEP> in <SEP> qcrc-dapb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 2018 <SEP> yudK <SEP> 43% <SEP> P42978 <SEP> hypothetical <SEP> 23. <SEP> 6 <SEP> kd <SEP> protein <SEP> in <SEP> qcrc-dapb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 2019 <SEP> yudL <SEP> 39% <SEP> Q48842 <SEP> gene <SEP> cluster <SEP>;<SEP> Lactobacillus <SEP> sake
<tb> 2020 <SEP> aspS <SEP> 53% <SEP> 032038 <SEP> aspartyl-trna <SEP> synthetase <SEP>;<SEP> subtilis
<tb> 2021 <SEP> yueA <SEP> 42% <SEP> CAB49889 <SEP> hit-like <SEP> protein <SEP>;<SEP> abyssi
<tb> 2022 <SEP> hisS <SEP> 63% <SEP> P30053 <SEP> histidyl-trna <SEP> synthetase <SEP>;
<tb> equisimilis
<tb> 2023 <SEP> yueB <SEP> 23% <SEP> 030416 <SEP> positive <SEP> regulator <SEP> gadr <SEP>;<SEP> lactis
<tb> 2024 <SEP> yueC <SEP> putative
<tb> 2025 <SEP> pgsA <SEP> 58% <SEP> 087532 <SEP> phosphotidylglycerophosphate <SEP> synthase <SEP>;
<tb> Streptococcus <SEP> pyogenes
<tb> 2026 <SEP> yueD <SEP> 35% <SEP> P94510 <SEP> hypothetical <SEP> 34. <SEP> 7 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 2027 <SEP> yueE <SEP> 43% <SEP> 031766 <SEP> ymfh <SEP> protein <SEP>;<SEP> subtilis
<tb> 2028 <SEP> yueF <SEP> 36% <SEP> 087529 <SEP> hypothetical <SEP> 48.2 <SEP> kd <SEP> protein <SEP>;
<tb> pyogenes
<tb> 2029 <SEP> yufA <SEP> 71% <SEP> Q48692 <SEP> dna <SEP> for <SEP> orfl21 <SEP> and <SEP> recf <SEP>genes;<SEP> Lactococcus
<tb> lactis
<tb> 2030 <SEP> recF <SEP> 99% <SEP> P50925 <SEP> recf <SEP> protein <SEP>;<SEP> lactis
<tb> 2031 <SEP> pcaC <SEP> 40% <SEP> 026336 <SEP> gamma-carboxymuconolactone <SEP>decarboxylase;
<tb> Methanobacterium <SEP> thermoautotrophicum
<tb> 2032 <SEP> yufB <SEP> 42% <SEP> AAF11850 <SEP> transcriptional <SEP> regulator, <SEP> merr <SEP>family;
<tb> Deinococcus <SEP> radiodurans
<tb> 2033 <SEP> yufC <SEP> 69% <SEP> Q9ZB16 <SEP> hypothetical <SEP> 34. <SEP> 5 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 2034 <SEP> galE <SEP> 99% <SEP> 087524 <SEP> udp-galactose-4-epimerase <SEP>;<SEP> lactis
<tb> 2035 <SEP> lacZ <SEP> 98% <SEP> 087523 <SEP> beta-galactosidase <SEP>;<SEP> lactis
<tb> 2036 <SEP> thgA <SEP> 99% <SEP> AAC63019 <SEP> putative <SEP> galactoside <SEP>o-acetyltransferase;
<tb> Lactococcus <SEP> lactis
<tb> 2037 <SEP> galT <SEP> 99% <SEP> 087522 <SEP> galactose-1-phosphate <SEP>uridylyltransferase;
<tb> Lactococcus <SEP> lactis
<tb> 2038 <SEP> galK <SEP> 93% <SEP> AAD11510 <SEP> galactokinase <SEP>;<SEP> lactis
<tb> 2039 <SEP> galM <SEP> 99% <SEP> Q9ZB17 <SEP> aldose <SEP>1-epimerase;<SEP> Lactococcus <SEP> lactis
<tb> 2040 <SEP> lacS <SEP> 91% <SEP> Q9ZB18 <SEP> lactose <SEP> permease <SEP>;<SEP> lactis
<tb>

<Desc / Clms Page number 189>

<tb>
<tb> 2041 <SEP> yugA <SEP> 94% <SEP> Q9ZB19 <SEP> hypothetical <SEP> 27. <SEP> 6 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 2042 <SEP> yugB <SEP> 93% <SEP> Q9ZB20 <SEP> hypothetical <SEP> 37. <SEP> 6 <SEP> kd <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 2043 <SEP> nadR <SEP> 28% <SEP> P27278 <SEP> transcriptional <SEP> regulator <SEP>nadr;<SEP> Escherichia
<tb> coli
<tb> 2044 <SEP> yugC <SEP> 32% <SEP> Q9X4A4 <SEP> hypothetical <SEP> 35. <SEP> 4 <SEP> kd <SEP>protein;<SEP> Staphylococcus
<tb> aureus
<tb> 2045 <SEP> yugD <SEP> 48% <SEP> 032034 <SEP> yrro <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 2046 <SEP> yuhA <SEP> putative
<tb> 2047 <SEP> yuhB <SEP> 32% <SEP> 032035 <SEP> yrrn <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 2048 <SEP> yuhC <SEP> putative
<tb> 2049 <SEP> yuhD <SEP> 36% <SEP> P42313 <SEP> hypothetical <SEP> 31. <SEP> 5 <SEP> kd <SEP> protein <SEP> in <SEP> katb <SEP> 3 'region;
<tb> Bacillus <SEP> subtilis
<tb> 2050 <SEP> yuhE <SEP> 32% <SEP> Q9Y321 <SEP> cgi-32 <SEP>protein;<SEP> Homo <SEP> sapiens
<tb> 2051 <SEP> ecsB <SEP> 26% <SEP> P55340 <SEP> protein <SEP>ecsb;<SEP> Bacillus <SEP> subtilis
<tb> 2052 <SEP> ecsA <SEP> 60% <SEP> P55339 <SEP> abc-type <SEP> transporter <SEP> atp-binding <SEP> protein <SEP>ecsa;
<tb> Bacillus <SEP> subtilis
<tb> 2053 <SEP> yuhH <SEP> 25% <SEP> 007592 <SEP> hypothetical <SEP> 27. <SEP> 5 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 2054 <SEP> yuhI <SEP> 54% <SEP> 007513 <SEP> hit <SEP> protein <SEP>;<SEP> subtilis
<tb> 2055 <SEP> yuhJ <SEP> putative
<tb> 2056 <SEP> rplA <SEP> 58% <SEP> Q06797 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP>11;<SEP> Bacillus <SEP> subtilis
<tb> 2057 <SEP> rplK <SEP> 80% <SEP> P36254 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP>111;<SEP> Staphylococcus
<tb> carnosus
<tb> 2058 <SEP> yuiA <SEP> 38% <SEP> Q60048 <SEP> probable <SEP> cadmium-transporting <SEP>atpase;<SEP> Listeria
<tb> monocytogenes
<tb> 2059 <SEP> rcfA <SEP> 49% <SEP> CAB53581 <SEP> fnr-like <SEP>protein;<SEP> Lactococcus <SEP> lactis
<tb> 2060 <SEP> tra983L <SEP> 50% <SEP> 087534 <SEP> putative <SEP>transposase;<SEP> Streptococcus <SEP> pyogenes
<tb> 2061 <SEP> yuiB <SEP> 41% <SEP> 031864 <SEP> yoze <SEP> protein <SEP>;<SEP> subtilis
<tb> 2062 <SEP> yuiF <SEP> 52% <SEP> P54154 <SEP> putative <SEP> peptide <SEP> methionine <SEP> sulfoxide <SEP> reductase
<tb> (peptide <SEP>met;<SEP> Bacillus <SEP> subtilis
<tb> 2063 <SEP> yuiC <SEP> 35% <SEP> 006747 <SEP> yitl <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 2064 <SEP> yuiD <SEP> putative
<tb> 2065 <SEP> frr <SEP> 53% <SEP> P81101 <SEP> ribosome <SEP> recycling <SEP>factor;<SEP> Bacillus <SEP> subtilis
<tb> 2066 <SEP> pyrH <SEP> 94% <SEP> Q9Z5K8 <SEP>ump-kinase;<SEP> Lactococcus <SEP> lactis
<tb> 2067 <SEP> yuiE <SEP> putative
<tb> 2068 <SEP> ackA2 <SEP> 53% <SEP> P37877 <SEP> acetate <SEP> kinase <SEP>;<SEP> Bacillus <SEP> subtilis
<tb> 2069 <SEP> ackAl <SEP> 50% <SEP> P37877 <SEP> acetate <SEP>kinase;<SEP> Bacillus <SEP> subtilis
<tb> 2070 <SEP> yujA <SEP> 32% <SEP> P37876 <SEP> hypothetical <SEP> 37.4 <SEP> kd <SEP> protein <SEP> in <SEP> acka-sspa
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 2071 <SEP> typA <SEP> 70% <SEP> 007631 <SEP> gtp-binding <SEP> protein <SEP> typa / bipa <SEP>homolog;<SEP> Bacillus
<tb> subtilis
<tb> 2072 <SEP> yujB <SEP> putative
<tb> 2073 <SEP> yujC <SEP> putative
<tb> 2074 <SEP> yujD <SEP> 54% <SEP> Q9ZHB1 <SEP> hypothetical <SEP> 24. <SEP> 0 <SEP> kd <SEP>protein;<SEP> Streptococcus
<tb> pneumoniae
<tb> 2075 <SEP> yujE <SEP> 23% <SEP> Q9ZHB2 <SEP> hypothetical <SEP> 55. <SEP> 9 <SEP> kd <SEP>protein;<SEP> Streptococcus
<tb> pneumoniae
<tb> 2076 <SEP> yujF <SEP> putative
<tb> 2077 <SEP> yujG <SEP> 24% <SEP> Q9X474 <SEP>input;<SEP> Enterococcus <SEP> faecium
<tb> 2078 <SEP> yvaA <SEP> 35% <SEP> 031391 <SEP> orfl <SEP> protein <SEP>;<SEP> Bacillus <SEP> megaterium
<tb> 2079 <SEP> glk <SEP> 43% <SEP> 031392 <SEP> glucose <SEP>kinase;<SEP> Bacillus <SEP> megaterium
<tb> 2080 <SEP> yvaB <SEP> 35% <SEP> P54510 <SEP> hypothetical <SEP> 14. <SEP> 6 <SEP> kd <SEP> protein <SEP> in <SEP> gcvt-spoiiiaa
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 2081 <SEP> yvaC <SEP> 48% <SEP> 085254 <SEP> hypothetical <SEP> 19. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Streptococcus
<tb> pneumoniae
<tb> 2082 <SEP> tra981J <SEP> 92% <SEP> Q48668 <SEP> insertion <SEP> sequence <SEP>is981;<SEP> Lactococcus <SEP> lactis
<tb> 2083 <SEP> yuiI <SEP> 100% <SEP> Q48667 <SEP> insertion <SEP> sequence <SEP>is981;<SEP> Lactococcus <SEP> lactis
<tb> 2084 <SEP> comC <SEP> 26% <SEP> P15378 <SEP> type <SEP> 4 <SEP> prepilin-like <SEP> protein <SEP> specific <SEP> leader
<tb>peptidase;<SEP> Bacillus <SEP> subtilis
<tb>

<Desc / Clms Page number 190>

<tb>
<tb> 2085 <SEP> dinP <SEP> 42% <SEP> Q47155 <SEP> dna-damage-inducible <SEP> protein <SEP>p;<SEP> Escherichia
<tb> coli
<tb> 2086 <SEP> yvaD <SEP> 24% <SEP> 060155 <SEP> putative <SEP> prolyl-trna <SEP>synthetase;
<tb> Schizosaccharomyces <SEP> pombe
<tb> 2087 <SEP> arcD2 <SEP> 62% <SEP> 032816 <SEP> arginine / ornithine <SEP> antiporter <SEP> homolog <SEP>arcd;
<tb> Lactococcus <SEP> lactis
<tb> 2088 <SEP> arcT <SEP> 52% <SEP> 053091 <SEP>orft;<SEP> Lactobacillus <SEP> sake
<tb> 2089 <SEP> arcC2 <SEP> 50% <SEP> 053090 <SEP> carbamate <SEP>kinase;<SEP> Lactobacillus <SEP> sake
<tb> 2090 <SEP> arcCl <SEP> 51% <SEP> 053090 <SEP> carbamate <SEP>kinase;<SEP> Lactobacillus <SEP> sake
<tb> 2091 <SEP> arcDl <SEP> 86% <SEP> 032816 <SEP> arginine / ornithine <SEP> antiporter <SEP> homolog <SEP>arcd;
<tb> Lactococcus <SEP> lactis
<tb> 2092 <SEP> arcB <SEP> 72% <SEP> 053089 <SEP> ornithine <SEP>transcarbamoylase;<SEP> Lactobacillus <SEP> sake
<tb> 2093 <SEP> arcA <SEP> 60% <SEP> 053088 <SEP> arginine <SEP>deiminase;<SEP> Lactobacillus <SEP> sake
<tb> 2094 <SEP> argS <SEP> 37% <SEP> 074781 <SEP> putative <SEP> arginyl-trna <SEP> synthetase, <SEP>cytoplasmic;
<tb> Schizosaccharomyces <SEP> pombe
<tb> 2095 <SEP> argR <SEP> 37% <SEP> Q54870 <SEP> probable <SEP> arginine <SEP>repressor;<SEP> Streptococcus
<tb> pneumoniae
<tb> 2096 <SEP> murC <SEP> 56% <SEP> P40778 <SEP> udp-n-acetylmuramate - alanine <SEP>ligase;<SEP> Bacillus
<tb> subtilis
<tb> 2097 <SEP> yvcA <SEP> putative
<tb> 2098 <SEP> yvcB <SEP> 38% <SEP> P94295 <SEP> orfl <SEP> and <SEP> snf2 <SEP>gene;<SEP> Bacillus <SEP> cereus
<tb> 2099 <SEP> yvcC <SEP> 28% <SEP> Q9ZV10 <SEP> retrotransposon-like <SEP>protein;<SEP> Arabidopsis
<tb> thaliana
<tb> 2100 <SEP> poxL <SEP> 43% <SEP> P37063 <SEP> pyruvate <SEP>oxidase;<SEP> Lactobacillus <SEP> plantarum
<tb> 2101 <SEP> yvdA <SEP> 27% <SEP> CAB61729 <SEP> possible <SEP> secreted <SEP>esterase;<SEP> Streptomyces
<tb> coelicolor
<tb> 2102 <SEP> yvdB <SEP> 94% <SEP> 068177 <SEP>cypl;<SEP> Lactococcus <SEP> lactis
<tb> 2103 <SEP> yvdC <SEP> 31% <SEP> Q47774 <SEP>orf8;<SEP> Enterococcus <SEP> faecalis
<tb> 2104 <SEP> yvdD <SEP> 92% <SEP> P22094 <SEP> hypothetical <SEP> 30. <SEP> 9 <SEP> kd <SEP> protein <SEP> in <SEP> pepx <SEP> 5 'region.
<tb>

Lactococcus <SEP> lactis <SEP>, <SEP> and <SEP> lactococcus <SEP> lactis
<tb> 2105 <SEP> pepXP <SEP> 89% <SEP> P22093 <SEP> xaa-pro <SEP> dipeptidyl-peptidase <SEP> (xp. <SEP> Lactococcus
<tb> lactis
<tb> 2106 <SEP> yvdE <SEP> 90% <SEP> P22347 <SEP> hypothetical <SEP> 18. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> pepx <SEP> 3 'region;
<tb> Lactococcus <SEP> lactis
<tb> 2107 <SEP> yvdF <SEP> 29% <SEP> P54952 <SEP> probable <SEP> amino-acid <SEP> abc <SEP> transporter <SEP> binding
<tb> protein <SEP> in <SEP> idh-deor <SEP> intergenic <SEP> region <SEP>precursor;
<tb> Bacillus <SEP> subtilis
<tb> 2108 <SEP> yvdG <SEP> 48% <SEP> P77212 <SEP> probable <SEP> pyridine <SEP> nucleotide-disulfide
<tb> oxidoreductase <SEP> in <SEP> eaeh-beta <SEP> intergenic <SEP>region;
<tb> Escherichia <SEP> coli
<tb> 2109 <SEP> gltX <SEP> 56% <SEP> 086083 <SEP> glutamyl-trna <SEP>synthetase;<SEP> Lactobacillus
<tb> delbrueckii
<tb> 2110 <SEP> yveA <SEP> 32% <SEP> 028131 <SEP>isochorismatase;<SEP> Archaeoglobus <SEP> fulgidus
<tb> 2111 <SEP> yveB <SEP> putative
<tb> 2112 <SEP> yveC <SEP> 27% <SEP> CAB57420 <SEP> putative <SEP> arylalkylamine <SEP>n-acetyltransferase;
<tb> Schizosaccharomyces <SEP> pombe
<tb> 2113 <SEP> yveD <SEP> putative
<tb> 2114 <SEP> yveE <SEP> putative
<tb> 2115 <SEP> yveF <SEP> 38% <SEP> 087247 <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;
<tb> lactis
<tb> 2116 <SEP> yveG <SEP> putative
<tb> 2117 <SEP> yveH <SEP> 43% <SEP> AAF10688 <SEP> conserved <SEP> hypothetical <SEP>protein;<SEP> Deinococcus
<tb> radiodurans
<tb> 2118 <SEP> tra983M <SEP> 50% <SEP> 087534 <SEP> putative <SEP>transposase;<SEP> Streptococcus <SEP> pyogenes
<tb> 2119 <SEP> yveI <SEP> putative
<tb> 2120 <SEP> radA <SEP> 58% <SEP> 086063 <SEP> rada <SEP>homolog;<SEP> Listeria <SEP> monocytogenes
<tb> 2121 <SEP> yvfA <SEP> 36% <SEP> 067432 <SEP> cation <SEP> transporting <SEP> atpase <SEP>;<SEP> aeolicus
<tb> 2122 <SEP> yvfB <SEP> putative
<tb> 2123 <SEP> rplQ <SEP> 72% <SEP> P20277 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP>117;<SEP> Bacillus <SEP> subtilis
<tb> 2124 <SEP> rpoA <SEP> 58% <SEP> BAA75298 <SEP> rpoa <SEP>protein;<SEP> Bacillus <SEP> sp
<tb> 2125 <SEP> rpsK <SEP> 73% <SEP> P04969 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP>sll;<SEP> Bacillus <SEP> subtilis
<tb>

<Desc / Clms Page number 191>

<tb>
<tb> 2126 <SEP> rpsM <SEP> 70% <SEP> P20282 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP>sl3;<SEP> Bacillus <SEP> subtilis
<tb> 2127 <SEP> rpmJ <SEP> 100% <SEP> P27146 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 136 <SEP>;<SEP> lactis
<tb> 2128 <SEP> infA <SEP> 100% <SEP> P27149 <SEP> translation <SEP> initiation <SEP> factor <SEP>if-1;<SEP> Lactococcus
<tb> lactis
<tb> 2129 <SEP> tra904H <SEP> 99% <SEP> CAA55220 <SEP> isl069 <SEP>gene;<SEP> Lactococcus <SEP> lactis
<tb> 2130 <SEP> yvfD <SEP> 98% <SEP> Q48710 <SEP> span <SEP> gene <SEP> encoding <SEP> nisin <SEP> and <SEP> insertion <SEP> sequence
<tb> is904 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 2131 <SEP> tra1077F <SEP> 98% <SEP> 032787 <SEP> transposase <SEP>;<SEP> lactis
<tb> 2132 <SEP> yvfC <SEP> 99% <SEP> 032786 <SEP> hypothetical <SEP> 21. <SEP> 3 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 2133 <SEP> adk <SEP> 98% <SEP> P27143 <SEP> adenylate <SEP> kinase <SEP>;<SEP> lactis
<tb> 2134 <SEP> secY <SEP> 96% <SEP> P27148 <SEP> preprotein <SEP> translocase <SEP> secy <SEP> subunit <SEP>;
<tb> lactis
<tb> 2135 <SEP> rplO <SEP> 58% <SEP> 006445 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 115 <SEP>;
<tb> aureus
<tb> 2136 <SEP> rpmD <SEP> 62% <SEP> 006444 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 130 <SEP>;
<tb> aureus
<tb> 2137 <SEP> rpsE <SEP> 58% <SEP> Q9Z9J7 <SEP> rpse <SEP> protein <SEP>;<SEP> sp
<tb> 2138 <SEP> rplR <SEP> 49% <SEP> P46899 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 118 <SEP>;<SEP> subtilis
<tb> 2139 <SEP> rplF <SEP> 63% <SEP> P02391 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 16 <SEP>;
<tb> stearothermophilus
<tb> 2140 <SEP> rpsH <SEP> 71% <SEP> P12879 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP>s8;<SEP> Bacillus <SEP> subtilis
<tb> 2141 <SEP> yvgA <SEP> putative
<tb> 2142 <SEP> rpsN <SEP> 81% <SEP> P54798 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP>sl4;<SEP> Bacillus
<tb> stearothermophilus
<tb> 2143 <SEP> rplE <SEP> 80% <SEP> P08895 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP>15;<SEP> Bacillus
<tb> stearothermophilus
<tb> 2144 <SEP> rplX <SEP> 75% <SEP> Q9WVW6 <SEP>rpl24;<SEP> Streptococcus <SEP> pneumoniae
<tb> 2145 <SEP> rplN <SEP> 74% <SEP> Q9WVZ2 <SEP>rpll4;<SEP> Streptococcus <SEP> pneumoniae
<tb> 2146 <SEP> rpsQ <SEP> 88% <SEP> Q9WW03 <SEP>rpsl7;<SEP> Streptococcus <SEP> pneumoniae
<tb> 2147 <SEP> rpmC <SEP> 69% <SEP> Q9WVW8 <SEP>rpl29;<SEP> Streptococcus <SEP> pneumoniae
<tb> 2148 <SEP> rplP <SEP> 89% <SEP> Q9X5K1 <SEP>rpll6;<SEP> Streptococcus <SEP> pneumoniae
<tb> 2149 <SEP> rpsC <SEP> 87% <SEP> Q9WW37 <SEP> rps3 <SEP>;<SEP> pneumoniae
<tb> 2150 <SEP> rplV <SEP> 84% <SEP> Q9WVU5 <SEP>rpl22;<SEP> Streptococcus <SEP> pneumoniae
<tb> 2151 <SEP> rpsS <SEP> 90% <SEP> Q9WW12 <SEP>rpsl9;<SEP> Streptococcus <SEP> pneumoniae
<tb> 2152 <SEP> rplB <SEP> 76% <SEP> P42919 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP>12;<SEP> Bacillus <SEP> subtilis
<tb> 2153 <SEP> rplW <SEP> 54% <SEP> P04454 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 123 <SEP>;
<tb> stearothermophilus
<tb> 2154 <SEP> rplD <SEP> 61% <SEP> P42921 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 14 <SEP>;<SEP> subtilis
<tb> 2155 <SEP> rplC <SEP> 69% <SEP> Q9Z9L4 <SEP> rplc <SEP> protein <SEP>;<SEP> Bacillus <SEP> sp
<tb> 2156 <SEP> rpsJ <SEP> 86% <SEP> P48853 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP>slO;<SEP> Streptococcus <SEP> mutans
<tb> 2157 <SEP> mscL <SEP> 44% <SEP> P94585 <SEP> large-conductance <SEP> mechanosensitive <SEP>channel;
<tb> Bacillus <SEP> subtilis
<tb> 2158 <SEP> yvhA <SEP> 27% <SEP> Q58119 <SEP> hypothetical <SEP> protein <SEP>mj0709;<SEP> Methanococcus
<tb> jannaschii
<tb> 2159 <SEP> thrC <SEP> 38% <SEP> Q42598 <SEP> threonine <SEP> synthase <SEP>;<SEP> pombe
<tb> 2160 <SEP> nusG <SEP> 49% <SEP> Q06795 <SEP> transcription <SEP> antitermination <SEP> protein <SEP>nusg;
<tb> Bacillus <SEP> subtilis
<tb> 2161 <SEP> secE <SEP> putative
<tb> 2162 <SEP> rpmGC <SEP> 57% <SEP> P51415 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP> 133 <SEP>;
<tb> capricolum
<tb> 2163 <SEP> yvhB <SEP> 29% <SEP> 005402 <SEP> hypothetical <SEP> 72. <SEP> 2 <SEP> kd <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 2164 <SEP> pbp2A <SEP> 50% <SEP> 070039 <SEP> penicillin-binding <SEP> protein <SEP> 2a <SEP>;
<tb> pneumoniae
<tb> 2165 <SEP> yviA <SEP> 33% <SEP> 032050 <SEP> yrbg <SEP> protein <SEP>;<SEP> subtilis
<tb> 2166 <SEP> yviB <SEP> putative
<tb> 2167 <SEP> yviC <SEP> 39% <SEP> Q46604 <SEP> fmn-binding <SEP>protein;<SEP> Desulfovibrio <SEP> vulgaris
<tb> 2168 <SEP> yviD <SEP> 37% <SEP> P54604 <SEP> hypothetical <SEP> 33. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> cspb-glpp
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 2169 <SEP> zitP <SEP> 57% <SEP> 033704 <SEP> adcb <SEP> protein <SEP>;<SEP> pneumoniae
<tb> 2170 <SEP> zitQ <SEP> 65% <SEP> 087862 <SEP> adcc <SEP> protein <SEP>;<SEP> pneumoniae
<tb>

<Desc / Clms Page number 192>

<tb>
<tb> 2171 <SEP> zitS <SEP> 43% <SEP> 034966 <SEP> ycdh <SEP>;<SEP> subtilis
<tb> 2172 <SEP> zitR <SEP> 48% <SEP> 033703 <SEP> adcr <SEP> protein <SEP>;<SEP> pneumoniae
<tb> 2173 <SEP> yviH <SEP> 57% <SEP> 086274 <SEP> hypothetical <SEP> 9. <SEP> 1 <SEP> kd <SEP> protein <SEP>;<SEP> lactis
<tb> 2174 <SEP> yviI <SEP> 76% <SEP> 086275 <SEP> orfl50 <SEP> protein <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 2175 <SEP> yviJ <SEP> 52% <SEP> 086276 <SEP> hypothetical <SEP> 14. <SEP> 8 <SEP> kd <SEP> protein <SEP>;<SEP> lactis
<tb> 2176 <SEP> comGD <SEP> 31% <SEP> 085196 <SEP> competence <SEP> protein <SEP>;<SEP> Streptococcus <SEP> pneumoniae
<tb> 2177 <SEP> comGC <SEP> 74% <SEP> 086277 <SEP> orfl25 <SEP> protein <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 2178 <SEP> comGB <SEP> 70% <SEP> 086278 <SEP> orf348 <SEP> protein <SEP>;<SEP> lactis
<tb> 2179 <SEP> comGA <SEP> 76% <SEP> 086279 <SEP> orf248 <SEP> protein <SEP>;<SEP> lactis
<tb> 2180 <SEP> polC <SEP> 98% <SEP> 086280 <SEP> dna <SEP> polymerase <SEP> iii <SEP> alpha <SEP> chain-like <SEP>protein;
<tb> Lactococcus <SEP> lactis
<tb> 2181 <SEP> yvjA <SEP> putative
<tb> 2182 <SEP> noxD <SEP> 33% <SEP> P37061 <SEP> nadh <SEP> oxidase <SEP>;<SEP> faecalis
<tb> 2183 <SEP> proS <SEP> 50% <SEP> 031755 <SEP> prolyl-trna <SEP> synthetase <SEP>;<SEP> subtilis
<tb> 2184 <SEP> yvjB <SEP> 52% <SEP> AAD47948 <SEP> eep <SEP>;<SEP> faecalis
<tb> 2185 <SEP> cdsA <SEP> 37% <SEP> Q9ZML7 <SEP> cdp-diacylglycerol <SEP> synthase <SEP>;<SEP> Helicobacter
<tb> pylori <SEP> j99
<tb> 2186 <SEP> ywaA <SEP> 49% <SEP> 031751 <SEP> undecaprenyl <SEP> pyrophosphate <SEP> synthetase <SEP>;
<tb> subtilis
<tb> 2187 <SEP> ywaB <SEP> 50% <SEP> Q47777 <SEP>orfll;<SEP> Enterococcus <SEP> faecalis
<tb> 2188 <SEP> ywaC <SEP> 40% <SEP> Q9XBL3 <SEP> dna <SEP> alkylation <SEP> repair <SEP> enzyme <SEP>;<SEP> cereus
<tb> 2189 <SEP> ywaD <SEP> 45% <SEP> Q9XBL3 <SEP> dna <SEP> alkylation <SEP> repair <SEP> enzyme <SEP>;<SEP> cereus
<tb> 2190 <SEP> ywaE <SEP> 54% <SEP> Q45601 <SEP> yyda <SEP> protein <SEP>;<SEP> subtilis
<tb> 2191 <SEP> tra983N <SEP> 50% <SEP> 087534 <SEP> putative <SEP> transposase <SEP>;<SEP> pyogenes
<tb> 2192 <SEP> htrA <SEP> 58% <SEP> 006670 <SEP> putative <SEP> serine <SEP> protease <SEP>;
<tb> pneumoniae
<tb> 2193 <SEP> ywaF <SEP> 26% <SEP> 006452 <SEP> dnag, <SEP> rpod, <SEP> cpoa <SEP> genes <SEP> and <SEP> orf3 <SEP> and <SEP>orf5;
<tb> Streptococcus <SEP> pneumoniae
<tb> 2194 <SEP> ywaG <SEP> 55% <SEP> 006453 <SEP> dnag, <SEP> rpod, <SEP> cpoa <SEP> genes <SEP> and <SEP> orf3 <SEP> and <SEP>orf5;
<tb> Streptococcus <SEP> pneumoniae
<tb> 2195 <SEP> ywaH <SEP> putative
<tb> 2196 <SEP> ywaI <SEP> 23% <SEP> Q26223 <SEP> rhoptry <SEP> protein <SEP>;<SEP> berghei <SEP> yoelii
<tb> 2197 <SEP> ywbA <SEP> 46% <SEP> P37543 <SEP> hypothetical <SEP> 28. <SEP> 3 <SEP> kd <SEP> protein <SEP> in <SEP> xpac-abrb
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 2198 <SEP> polA <SEP> 93% <SEP> 032801 <SEP> dna <SEP> polymerase <SEP> i <SEP>;<SEP> lactis
<tb> 2199 <SEP> ywbB <SEP> 90% <SEP> 032800 <SEP> dna <SEP> polymerase <SEP> i <SEP>;<SEP> lactis
<tb> 2200 <SEP> rliD <SEP> 43% <SEP> P37517 <SEP> hypothetical <SEP> transcriptional <SEP> regulator <SEP> in <SEP> tetlexoa <SEP> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 2201 <SEP> tra904I <SEP> 100% <SEP> CAA55220 <SEP> is1069 <SEP>gene;<SEP> Lactococcus <SEP> lactis
<tb> 2202 <SEP> yvjF <SEP> 98% <SEP> Q48710 <SEP> span <SEP> gene <SEP> encoding <SEP> nisin <SEP> and <SEP> insertion <SEP> sequence
<tb> is904 <SEP>;<SEP> Lactococcus <SEP> lactis
<tb> 2203 <SEP> tral077G <SEP> 98% <SEP> 032787 <SEP> transposase <SEP>;<SEP> lactis
<tb> 2204 <SEP> ywbC <SEP> 99% <SEP> 032786 <SEP> hypothetical <SEP> 21. <SEP> 3 <SEP> kd <SEP> protein <SEP>;
<tb> lactis
<tb> 2205 <SEP> ywbD <SEP> 27% <SEP> P37517 <SEP> hypothetical <SEP> transcriptional <SEP> regulator <SEP> in <SEP> tetlexoa <SEP> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 2206 <SEP> ywcA <SEP> 76% <SEP> Q48591 <SEP> n <SEP> of <SEP> 16s <SEP> rrna <SEP>gene;<SEP> Lactococcus <SEP> lactis
<tb> 2207 <SEP> ezrA <SEP> 21% <SEP> 034894 <SEP> ytwp <SEP>;<SEP> Bacillus <SEP> subtilis
<tb> 2208 <SEP> tsf <SEP> 39% <SEP> Q9ZJ71 <SEP> elongation <SEP> factor <SEP> ts <SEP>;<SEP> Helicobacterpylori <SEP> j99
<tb> 2209 <SEP> rpsB <SEP> 71% <SEP> P49668 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP> s2 <SEP>;
<tb> acidilactici
<tb> 2210 <SEP> ywcC <SEP> 100% <SEP> 086271 <SEP> orfb <SEP> protein <SEP>;<SEP> lactis
<tb> 2211 <SEP> adhE <SEP> 98% <SEP> 086272 <SEP> alcohol-acetaldehyde <SEP> dehydrogenase <SEP>;
<tb> lactis
<tb> 2212 <SEP> ywdA <SEP> 23% <SEP> CAB49813 <SEP> hypothetical <SEP> 22. <SEP> 1 <SEP> kd <SEP>protein;<SEP> Pyrococcus <SEP> abyssi
<tb> 2213 <SEP> ywdB <SEP> putative
<tb> 2214 <SEP> ywdC <SEP> 26% <SEP> 058557 <SEP> 552aa <SEP> long <SEP> hypothetical <SEP> nitrite <SEP> reductase <SEP>;
<tb> Pyrococcus <SEP> horikoshii
<tb> 2215 <SEP> ywdD <SEP> 29% <SEP> P07782 <SEP> coenzyme <SEP> pqq <SEP> synthesis <SEP> protein <SEP> e <SEP>;
<tb> calcoaceticus
<tb> 2216 <SEP> ywdE <SEP> 30% <SEP> P49330 <SEP> rgg <SEP> protein <SEP>;<SEP> gordonii <SEP> challis
<tb>

<Desc / Clms Page number 193>

<tb>
<tb> 2217 <SEP> ywdF <SEP> 34% <SEP> 034470 <SEP> ylbl <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 2218 <SEP> kdtB <SEP> 39% <SEP> Q9WZKO <SEP> lipopolysaccharide <SEP> core <SEP> biosynthesis <SEP> protein
<tb>kdtb;<SEP> Thermotoga <SEP> maritima
<tb> 2219 <SEP> ywdG <SEP> 49% <SEP> 034331 <SEP> ylbh <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 2220 <SEP> yweA <SEP> 35% <SEP> Q48658 <SEP> lmrp <SEP> integral <SEP> membrane <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 2221 <SEP> lmrP <SEP> 91% <SEP> Q48658 <SEP> lmrp <SEP> integral <SEP> membrane <SEP>protein;<SEP> Lactococcus
<tb> lactis
<tb> 2222 <SEP> sigX <SEP> 30% <SEP> 007627 <SEP> putative <SEP> rna <SEP> polymerase <SEP> sigma <SEP> factor <SEP>ylac;
<tb> Bacillus <SEP> subtilis
<tb> 2223 <SEP> yweB <SEP> putative
<tb> 2224 <SEP> pgiA <SEP> 79% <SEP> Q9X670 <SEP> glucose-6-phosphate <SEP>isomerase;<SEP> Streptococcus
<tb> mutans
<tb> 2225 <SEP> yweC <SEP> 32% <SEP> 029764 <SEP> conserved <SEP> hypothetical <SEP>protein;<SEP> Archaeoglobus
<tb> fulgidus
<tb> 2226 <SEP> yweD <SEP> 36% <SEP> P39315 <SEP> hypothetical <SEP> 29. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> rpli-cpdb
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 2227 <SEP> yweE <SEP> 53% <SEP> P70885 <SEP>orfl08;<SEP> Butyrivibrio <SEP> fibrisolvens
<tb> 2228 <SEP> yweF <SEP> putative
<tb> 2229 <SEP> vals <SEP> 60% <SEP> Q05873 <SEP> valyl-trna <SEP>synthetase;<SEP> Bacillus <SEP> subtilis
<tb> 2230 <SEP> ywfA <SEP> putative
<tb> 2231 <SEP> ywfB <SEP> putative
<tb> 2232 <SEP> ywfC <SEP> 40% <SEP> P32699 <SEP> hypothetical <SEP> 13. <SEP> 5 <SEP> kd <SEP> protein <SEP> in <SEP> apha-uvra
<tb> intergenic <SEP>region;<SEP> Escherichia <SEP> coli
<tb> 2233 <SEP> ywfD <SEP> putative
<tb> 2234 <SEP> ywfE <SEP> 30% <SEP> CAB57644 <SEP> hypothetical <SEP> 25. <SEP> 3 <SEP> kd <SEP>protein;<SEP> Sulfolobus
<tb> solfataricus
<tb> 2235 <SEP> ywfF <SEP> 43% <SEP> 031545 <SEP> yfjo <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 2236 <SEP> ywfG <SEP> 27% <SEP> Q15333 <SEP> hr44 <SEP>protein;<SEP> Homo <SEP> sapiens
<tb> 2237 <SEP> ywfH <SEP> 36% <SEP> CAB61244 <SEP> secreted <SEP> protein <SEP>precursor;<SEP> Lactococcus <SEP> lactis
<tb> 2238 <SEP> ywgA <SEP> 31% <SEP> 031575 <SEP> yfhg <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 2239 <SEP> gntP <SEP> 50% <SEP> P46832 <SEP> gluconate <SEP>permease;<SEP> Bacillus <SEP> licheniformis
<tb> 2240 <SEP> tra9830 <SEP> 50% <SEP> 087534 <SEP> putative <SEP>transposase;<SEP> Streptococcus <SEP> pyogenes
<tb> 2241 <SEP> gntK <SEP> 48% <SEP> P12011 <SEP>gluconokinase;<SEP> Bacillus <SEP> subtilis
<tb> 2242 <SEP> gntZ <SEP> 56% <SEP> P54448 <SEP> hypothetical <SEP> 32. <SEP> 8 <SEP> kd <SEP> protein <SEP> in <SEP> nucb-arod
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 2243 <SEP> gntR <SEP> 29% <SEP> Q9WYG1 <SEP> transcriptional <SEP> regulator, <SEP> rpir <SEP>family;
<tb> Thermotoga <SEP> maritima
<tb> 2244 <SEP> ywhA <SEP> putative
<tb> 2245 <SEP> ywhB <SEP> 31% <SEP> 034870 <SEP> ykue <SEP>protein;<SEP> Bacillus <SEP> subtilis
<tb> 2246 <SEP> rpsR <SEP> 70% <SEP> P10806 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP>sl8;<SEP> Bacillus
<tb> stearothermophilus
<tb> 2247 <SEP> ssbD <SEP> 65% <SEP> Q9XJE5 <SEP> putative <SEP> single <SEP> stranded <SEP> binding <SEP>protein;
<tb> Bacteriophage <SEP> tuc2009
<tb> 2248 <SEP> rpsF <SEP> 59% <SEP> P21468 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP> s6 <SEP>;<SEP> subtilis
<tb> 2249 <SEP> bacA <SEP> 39% <SEP> AAD50462 <SEP>baca;<SEP> Cytophaga <SEP> johnsonae
<tb> 2250 <SEP> lysP <SEP> 45% <SEP> P25737 <SEP> lysine-specific <SEP>permease;<SEP> Escherichia <SEP> coli
<tb> 2251 <SEP> dnaH <SEP> 50% <SEP> Q9WZF2 <SEP> dna <SEP> polymerase <SEP> iii, <SEP> gamma <SEP> and <SEP> tau <SEP>subunit;
<tb> Thermotoga <SEP> maritima
<tb> 2252 <SEP> ywiA <SEP> 33% <SEP> 005841 <SEP> hypothetical <SEP> 51. <SEP> 3 <SEP> kd <SEP> protein <SEP>;
<tb> tuberculosis
<tb> 2253 <SEP> ywiB <SEP> 43% <SEP> P36088 <SEP> hypothetical <SEP> 19. <SEP> 7 <SEP> kd <SEP> protein <SEP> in <SEP> lhsl-nuplOO
<tb> intergenic <SEP>region;<SEP> Saccharomyces <SEP> cerevisiae
<tb> 2254 <SEP> ywiC <SEP> 31% <SEP> P39912 <SEP> B <SEP> aroa <SEP> protein <SEP> [includes: <SEP> phospho-2-dehydro-3deoxyheptonate <SEP> aldolase <MS> (3-deoxy-d-arabinoheptulosona ...
<tb>

2255 <SEP> ywiD <SEP> putative
<tb> 2256 <SEP> ywiE <SEP> putative
<tb> 2257 <SEP> glnA <SEP> 66% <SEP> P95692 <SEP> glutamine <SEP> synthetase <SEP> type <SEP> 1 <SEP>;
<tb> agalactiae
<tb> 2258 <SEP> glnR <SEP> 45% <SEP> P37582 <SEP> regulatory <SEP> protein <SEP>glnr;<SEP> Bacillus <SEP> subtilis
<tb>

<Desc / Clms Page number 194>

<tb>
<tb> 2259 <SEP> ywiF <SEP> 45% <SEP> 035016 <SEP> yfkj <SEP> protein <SEP>;<SEP> Bacillussubtilis
<tb> 2260 <SEP> ywiG <SEP> 29% <SEP> Q9WZM4 <SEP> abc <SEP> transporter, <SEP> atp-binding <SEP>protein;
<tb> Thermotoga <SEP> maritima
<tb> 2261 <SEP> ywiH <SEP> putative
<tb> 2262 <SEP> ywiI <SEP> 23% <SEP> 030416 <SEP> positive <SEP> regulator <SEP> gadr <SEP>;<SEP> lactis
<tb> 2263 <SEP> ruvB <SEP> 63% <SEP> 032055 <SEP> holliday <SEP> junction <SEP> dna <SEP> helicase <SEP> ruvb <SEP>;
<tb> subtilis
<tb> 2264 <SEP> ruvA <SEP> 42% <SEP> 084509 <SEP> holliday <SEP> junction <SEP>helicase;<SEP> Chlamydia
<tb> trachomatis
<tb> 2265 <SEP> hexB <SEP> 86% <SEP> 032819 <SEP> mismatch <SEP> repair <SEP> protein <SEP> homolog <SEP>;
<tb> lactis
<tb> 2266 <SEP> ywjA <SEP> 30% <SEP> Q17113 <SEP> 80 <SEP> kda <SEP> protein <SEP>;<SEP> bovis
<tb> 2267 <SEP> hexA <SEP> 64% <SEP> P10564 <SEP> dna <SEP> mismatch <SEP> repair <SEP> protein <SEP> hexa <SEP>;
<tb> pneumoniae
<tb> 2268 <SEP> ywjB <SEP> 24% <SEP> 031779 <SEP> ymca <SEP> protein <SEP>;<SEP> subtilis
<tb> 2269 <SEP> ywjC <SEP> putative
<tb> 2270 <SEP> ywjD <SEP> 43% <SEP> 034647 <SEP> transcription <SEP> regulator <SEP>;<SEP> subtilis
<tb> 2271 <SEP> ywjE <SEP> putative
<tb> 2272 <SEP> ywjF <SEP> 52% <SEP> 034948 <SEP> hypothetical <SEP> 30.7 <SEP> kd <SEP> protein <SEP> in <SEP> mcpc-kina
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 2273 <SEP> ywjG <SEP> putative
<tb> 2274 <SEP> ywjH <SEP> putative
<tb> 2275 <SEP> yxaA <SEP> 25% <SEP> 028711 <SEP> conserved <SEP> hypothetical <SEP> protein <SEP>;
<tb> fulgidus
<tb> 2276 <SEP> yxaB <SEP> putative
<tb> 2277 <SEP> zwf <SEP> 49% <SEP> P54547 <SEP> glucose-6-phosphate <SEP> 1-dehydrogenase <SEP>;
<tb> subtilis
<tb> 2278 <SEP> yxaC <SEP> 38% <SEP> P54452 <SEP> hypothetical <SEP> 20. <SEP> 1 <SEP> kd <SEP> protein <SEP> in <SEP> nucb-arod
<tb> intergenic <SEP>region;<SEP> Bacillus <SEP> subtilis
<tb> 2279 <SEP> pspA <SEP> 40% <SEP> 005166 <SEP> pcpa <SEP>;<SEP> pneumoniae
<tb> 2280 <SEP> pspB <SEP> 40% <SEP> 005166 <SEP> pcpa <SEP>;<SEP> pneumoniae
<tb> 2281 <SEP> dnaJ <SEP> 86% <SEP> P35514 <SEP> dnaj <SEP> protein <SEP>;<SEP> lactis
<tb> 2282 <SEP> yxaF <SEP> putative
<tb> 2283 <SEP> racD <SEP> 53% <SEP> P29079 <SEP> aspartate <SEP> racemase <SEP>;<SEP> thermophilus
<tb> 2284 <SEP> yxbA <SEP> putative
<tb> 2285 <SEP> asnH <SEP> 40% <SEP> 034902 <SEP> asparagine <SEP> synthase <SEP>;<SEP> subtilis
<tb> 2286 <SEP> usp45 <SEP> 63% <SEP> P22865 <SEP> secreted <SEP> 45 <SEP> kd <SEP> protein <SEP> precursor <SEP>;
<tb> lactis
<tb> 2287 <SEP> mreD <SEP> 25% <SEP> Q01467 <SEP> rod <SEP> shape-determining <SEP> protein <SEP> mred <SEP>;
<tb> subtilis
<tb> 2288 <SEP> mreC <SEP> 95% <SEP> Q99223 <SEP> beta-lactamase <SEP> precursor <SEP>;<SEP> lactis
<tb> 2289 <SEP> yxbC <SEP> 40% <SEP> P46351 <SEP> hypothetical <SEP> 45. <SEP> 4 <SEP> kd <SEP> protein <SEP> in <SEP> thiaminase <SEP> i
<tb>5'region;<SEP> Bacillus <SEP> subtilis
<tb> 2290 <SEP> rpiA <SEP> 45% <SEP> P72012 <SEP> probable <SEP> ribose <SEP> 5-phosphate <SEP>isomerase;
<tb> Methanobacterium <SEP> thermoautotrophicum
<tb> 2291 <SEP> rcfB <SEP> 27% <SEP> 086128 <SEP> fnr <SEP> protein <SEP>;<SEP> licheniformis
<tb> 2292 <SEP> yxbD <SEP> 23% <SEP> P94577 <SEP> hypothetical <SEP> 43. <SEP> 1 <SEP> kd <SEP> protein <SEP>;<SEP> subtilis
<tb> 2293 <SEP> yxbE <SEP> 33% <SEP> 027074 <SEP> conserved <SEP> protein <SEP>;
<tb> thermoautotrophicum
<tb> 2294 <SEP> yxbF <SEP> putative
<tb> 2295 <SEP> yxcA <SEP> 29% <SEP> P11568 <SEP> activator <SEP> of-2-hydroxyglutaryl-coa <SEP> dehydratase <SEP>;
<tb> Acidaminococcus <SEP> fermentans
<tb> 2296 <SEP> yxcB <SEP> 27% <SEP> CAB55667 <SEP> putative <SEP> tetr-family <SEP> transcriptional <SEP>regulator;
<tb> Streptomyces <SEP> coelicolor
<tb> 2297 <SEP> rsuA <SEP> 42% <SEP> Q9WYA2 <SEP> 16s <SEP> pseudouridylate <SEP> synthase <SEP>;
<tb> maritima
<tb> 2298 <SEP> yxcD <SEP> putative
<tb> 2299 <SEP> thdF <SEP> 66% <SEP> CAB61255 <SEP> thiophene <SEP> degradation <SEP> protein <SEP> f <SEP>;
<tb> agalactiae
<tb> 2300 <SEP> yxcE <SEP> putative
<tb>

<Desc / Clms Page number 195>

<tb>
<tb> 2301 <SEP> recG <SEP> 66% <SEP> Q54900 <SEP> atp-dependent <SEP> dna <SEP> helicase <SEP>recg;<SEP> Streptococcus
<tb> pneumoniae
<tb> 2302 <SEP> yxdA <SEP> 44% <SEP> P16680 <SEP> phna <SEP>protein;<SEP> Escherichia <SEP> coli
<tb> 2303 <SEP> gapB <SEP> 78% <SEP> P50467 <SEP> glyceraldehyde <SEP> 3-phosphate <SEP>dehydrogenase;
<tb> Streptococcus <SEP> pyogenes
<tb> 2304 <SEP> yxdB <SEP> 24% <SEP> 015738 <SEP>zipa;<SEP> Dictyostelium <SEP> discoideum
<tb> 2305 <SEP> yxdC <SEP> 37% <SEP> P37278 <SEP> cation-transporting <SEP> atpase <SEP>pacl;<SEP> Synechococcus
<tb> sp
<tb> 2306 <SEP> yxdD <SEP> putative
<tb> 2307 <SEP> yxdE <SEP> 34% <SEP> AAF12130 <SEP> oxidoreductase, <SEP> short-chain
<tb> dehydrogenase / reductase <SEP>family;<SEP> Deinococcus
<tb> radiodurans
<tb> 2308 <SEP> yxdF <SEP> 30% <SEP> Q48724 <SEP> abortive <SEP> infection <SEP> proteins <SEP> genes, <SEP> complete <SEP> cds <SEP>;
<tb> Lactococcus <SEP> lactis
<tb> 2309 <SEP> yxdG <SEP> putative
<tb> 2310 <SEP> rpsI <SEP> 70% <SEP> P21470 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP>s9;<SEP> Bacillus <SEP> subtilis
<tb> 2311 <SEP> rplM <SEP> 63% <SEP> Q00990 <SEP> 50s <SEP> ribosomal <SEP> protein <SEP>113;<SEP> Staphylococcus
<tb> carnosus
<tb> 2312 <SEP> yxeA <SEP> 29% <SEP> AAF12525 <SEP> hypothetical <SEP> 37. <SEP> 1 <SEP> kd <SEP> protein <SEP>;
<tb> radiodurans
<tb> 2313 <SEP> yxeB <SEP> 40% <SEP> 028803 <SEP> abc <SEP> transporter, <SEP> atp-binding <SEP>protein;
<tb> Archaeoglobus <SEP> fulgidus
<tb> 2314 <SEP> rnhA <SEP> 55% <SEP> 007874 <SEP> ribonuclease <SEP>hii;<SEP> Streptococcus <SEP> pneumoniae
<tb> 2315 <SEP> sipL <SEP> 53% <SEP> CAA13401 <SEP> signal <SEP> peptidase <SEP> 1 <SEP>;<SEP> pneumoniae
<tb> 2316 <SEP> purR <SEP> 100% <SEP> 053065 <SEP>purr;<SEP> Lactococcus <SEP> lactis
<tb> 2317 <SEP> fusA <SEP> 73% <SEP> P80868 <SEP> elongation <SEP> factor <SEP> g <SEP>;<SEP> subtilis
<tb> 2318 <SEP> rpsG <SEP> 72% <SEP> Q9Z9L8 <SEP> rpsg <SEP> protein <SEP>;<SEP> sp
<tb> 2319 <SEP> rpsL <SEP> 89% <SEP> P30891 <SEP> 30s <SEP> ribosomal <SEP> protein <SEP>sl2;<SEP> Streptococcus
<tb> pneumoniae
<tb> 2320 <SEP> dacA <SEP> 84% <SEP> 066081 <SEP> extracellular <SEP> protein <SEP> exp2 <SEP>precursor;
<tb> Lactococcus <SEP> lactis
<tb> 2321 <SEP> yxfA <SEP> 55% <SEP> Q54615 <SEP> putative <SEP> multiple <SEP> membrane <SEP> domain <SEP>protein;
<tb> Streptococcus <SEP> pyogenes
<tb> 2322 <SEP> yxfB <SEP> 37% <SEP> 034614 <SEP> ytqb <SEP>;<SEP> subtilis
<tb> 2323 <SEP> yxfC <SEP> 59% <SEP> 035008 <SEP> ytqa <SEP>;<SEP> subtilis
<tb>

<Desc / Clms Page number 196>

Table IV. Genes involved in secretion phenomena

<tb>
<tb> ORF <SEP> Name <SEP> of the <SEP> gene
<tb> 9 <SEP> yabC
<tb> 19 <SEP> yacG
<tb> 109 <SEP> ybaG
<tb> 116 <SEP> ybbE
<tb> 192 <SEP> ybiK
<tb> 210 <SEP> ycaF
<tb> 225 <SEP> yccB
<tb> 266 <SEP> ycfF
<tb> 326 <SEP> plpA
<tb> 327 <SEP> plpB
<tb> 422 <SEP> ptcB
<tb> 433 <SEP> yedB
<tb> 445 <SEP> yeeG
<tb> 506 <SEP> dgk
<tb> 515 <SEP> ps202
<tb> 552 <SEP> yfcH
<tb> 554 <SEP> ponA
<tb> 561 <SEP> yfdG
<tb> 578 <SEP> yfgC
<tb> 595 <SEP> yfhl
<tb> 611 <SEP> yfiL
<tb> 627 <SEP> ygaD
<tb> 633 <SEP> ygaJ
<tb> 638 <SEP> miaA
<tb> 667 <SEP> ygeB
<tb> 696 <SEP> ygiC
<tb> 754 <SEP> floL
<tb> 801 <SEP> noxC
<tb> 843 <SEP> noxA
<tb> 865 <SEP> yigE
<tb> 879 <SEP> yiiD
<tb> 931 <SEP> yjdl
<tb> 944 <SEP> tagF
<tb> 954 <SEP> yjgB
<tb> 985 <SEP> yjjE
<tb> 1007 <SEP> ykbF
<tb> 1085 <SEP> ykhK
<tb> 1132 <SEP> ylcD
<tb> 1133 <SEP> ylcE
<tb> 1142 <SEP> frdC
<tb> 1177 <SEP> ylhA
<tb> 1206 <SEP> ymaB
<tb> 1208 <SEP> ymaE
<tb> 1228 <SEP> ymcA
<tb> 1234 <SEP> ymcF
<tb> 1309 <SEP> ynaA
<tb> 1335 <SEP> yndB
<tb> 1395 <SEP> ynjC
<tb> 1396 <SEP> ynjD
<tb> 1399 <SEP> ynjG
<tb>

<Desc / Clms Page number 197>

<tb>
<tb> 1402 <SEP> ynjI
<tb> 1403 <SEP> ynjJ
<tb> 1416 <SEP> pi301
<tb> 1444 <SEP> pi329
<tb> 1454 <SEP> pi339
<tb> 1495 <SEP> yohD
<tb> 1522 <SEP> ypaG
<tb> 1626 <SEP> yqbJ
<tb> 1627 <SEP> yqbK
<tb> 1628 <SEP> yqcA
<tb> 1629 <SEP> yqcB
<tb> 1631 <SEP> yqcD
<tb> 1638 <SEP> murD
<tb> 1647 <SEP> yqeC
<tb> 1648 <SEP> yqeD
<tb> 1710 <SEP> yrbB
<tb> 1736 <SEP> yreA
<tb> 1802 <SEP> ysaD
<tb> 1870 <SEP> ysiE
<tb> 1978 <SEP> yuaB
<tb> 1980 <SEP> yuaC
<tb> 2005 <SEP> chiA
<tb> 2024 <SEP> yueC
<tb> 2033 <SEP> yufC
<tb> 2073 <SEP> yujC
<tb> 2076 <SEP> yujF
<tb> 2175 <SEP> yviJ
<tb> 2176 <SEP> comGD
<tb> 2207 <SEP> ezrA
<tb> 2217 <SEP> ywdF
<tb> 2272 <SEP> ywjF
<tb> 2279 <SEP> pspA
<tb> 2280 <SEP> pspB
<tb>

Claims (110)

CLAIMS 1. Lactococcus lactis nucleotide sequence characterized in that it corresponds to SEQ ID N 1. 2. Lactococcus lactis nucleotide sequence, characterized in that it is chosen from: a) a nucleotide sequence comprising at least 80% identity with SEQ ID N 1; b) a nucleotide sequence hybridizing under high stringency conditions with SEQ ID N 1; c) a nucleotide sequence complementary to SEQ ID N 1 or complementary to a nucleotide sequence as defined in a), or b), or a nucleotide sequence of the corresponding RNA; d) a nucleotide sequence of fragment representative of SEQ ID N 1, or of a fragment representative of a nucleotide sequence as defined in a), b) or c); e) a nucleotide sequence comprising a sequence as defined in a), b), c) or d); and f) a nucleotide sequence modified from a nucleotide sequence as defined in a), b), c), d) or e). 3. Nucleotide sequence according to claim 2, characterized in that it codes for a sequence chosen from SEQ ID N 1 and in that it codes for a polypeptide chosen from the sequences SEQ ID N 2 to SEQ ID N 2323. <Desc / Clms Page number 199> 4. Nucleotide sequence characterized in that it comprises a nucleotide sequence chosen from a) a nucleotide sequence according to claim 3; b) a nucleotide sequence comprising at least 80% identity with a nucleotide sequence according to claim 3; c) a nucleotide sequence hybridizing under high stringency conditions with a nucleotide sequence according to claim 3; d) a complementary nucleotide or RNA sequence corresponding to a sequence as defined in a), b) or c); e) a nucleotide sequence of a fragment representative of a sequence as defined in a), b), c) or d); and f) a nucleotide sequence modified from a sequence as defined in a), b), c), d) or e). 5. Polypeptide encoded by a nucleotide sequence according to one of claims 2 to 4. 6. Polypeptide according to claim 5, characterized in that it is chosen from the sequences SEQ ID N 2 to SEQ ID N 2323. 7. Polypeptide characterized in that it comprises a polypeptide chosen from: a) a polypeptide according to one of claims 5 and 6; b) a polypeptide exhibiting at least 80% identity with a polypeptide according to one of claims 5 and 6; c) a fragment of at least 5 amino acids of a polypeptide according to one of claims 5 and 6, or as defined in b); d) a biologically active fragment of a polypeptide according to one of claims 5 and 6, or as defined in b) or c); and <Desc / Clms Page number 200> e) a modified polypeptide of a polypeptide according to one of claims 5 and 6 or as defined in b), c) or d). 8. Nucleotide sequence encoding a polypeptide according to claim 7. 9. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the biosynthesis of amino acids or one of its fragments. 10. Nucleotide sequence according to one of claims 2 to 4 and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the biosynthesis of cofactors, prosthetic groups and transporters or one of its fragments. 11. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a cell envelope polypeptide of Lactococcus lactis or one of its fragments. 12. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the cellular machinery or one of its fragments. 13. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the central intermediate metabolism or one of its fragments. <Desc / Clms Page number 201> 14. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in energy metabolism or one of its fragments. 15. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the metabolism of fatty acids and phospholipids or one of its fragments. 16. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the metabolism of nucleotides, purines, pyrimidines or nucleosides or one of its fragments. 17. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the regulatory functions or one of its fragments. 18. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the replication process or one of its fragments. 19. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the transcription process or one of its fragments. <Desc / Clms Page number 202> 20. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the translation process or one of its fragments. 21. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the process of transport and binding of proteins or one of its fragments. 22. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the adaptation to atypical conditions or one of its fragments. 23. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in sensitivity to drugs and analogues or one of its fragments. 24. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the functions relating to phages and prophages or one of its fragments. 25. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a Lactococcus lactis polypeptide involved in the functions relating to transposons or one of its fragments. <Desc / Clms Page number 203> 26. Nucleotide sequence according to one of claims 2 to 4, and 8, characterized in that it codes for a specific polypeptide of Lactococcus lactis or a fragment thereof. 27. Polypeptide according to one of claims 5 to 7, characterized in that it is a polypeptide of Lactococcus lactis involved in the biosynthesis of amino acids or one of its fragments. 28. Polypeptide according to one of claims 5 to 7, characterized in that it is a polypeptide of Lactococcus lactis involved in the biosynthesis of cofactors, prosthetic groups and transporters or one of its fragments. 29. Polypeptide according to one of claims 5 to 7, characterized in that it is a polypeptide of the cell envelope of Lactococcus lactis or one of its fragments. 30. Polypeptide according to one of claims 5 to 7, characterized in that it is a polypeptide of Lactococcus lactis involved in the cellular machinery or one of its fragments. 31. Polypeptide according to one of claims 5 to 7, characterized in that it is a Lactococcus lactis polypeptide involved in the central intermediate metabolism or one of its fragments. 32. Polypeptide according to one of claims 5 to 7, characterized in that it is a Lactococcus lactis polypeptide involved in energy metabolism or one of its fragments. <Desc / Clms Page number 204> 33. Polypeptide according to one of claims 5 to 7, characterized in that it is a polypeptide of Lactococcus lactis involved in the metabolism of fatty acids and phospholipids or one of its fragments. 34. Polypeptide according to one of claims 5 to 7, characterized in that it is a polypeptide of Lactococcus lactis involved in the metabolism of nucleotides, purines, pyrimidines or nucleosides or one of its fragments. . 35. Polypeptide according to one of claims 5 to 7, characterized in that it is a polypeptide of Lactococcus lactis involved in the regulatory functions or one of its fragments. 36. Polypeptide according to one of claims 5 to 7, characterized in that it is a Lactococcus lactis polypeptide involved in the replication process or one of its fragments. 37. Polypeptide according to one of claims 5 to 7, characterized in that it is a Lactococcus lactis polypeptide involved in the transcription process or one of its fragments. 38. Polypeptide according to one of claims 5 to 7, characterized in that it is a Lactococcus lactis polypeptide involved in the translation process or one of its fragments. 39. Polypeptide according to one of claims 5 to 7, characterized in that it is a Lactococcus lactis polypeptide involved in the process of transport and binding of proteins or one of its fragments. <Desc / Clms Page number 205> 40. Polypeptide according to one of claims 5 to 7, characterized in that it is a Lactococcus lactis polypeptide involved in adaptation to atypical conditions or one of its fragments. 41. Polypeptide according to one of claims 5 to 7, characterized in that it is a polypeptide of Lactococcus lactis involved in sensitivity to drugs and analogues or one of its fragments. 42. Polypeptide according to one of claims 5 to 7, characterized in that it is a Lactococcus lactis polypeptide involved in the functions relating to phages and prophages or one of its fragments. 43. Polypeptide according to one of claims 5 to 7, characterized in that it is a Lactococcus lactis polypeptide involved in the functions relating to transposons or one of its fragments. 44. Polypeptide according to one of claims 5 to 7, characterized in that it is a specific polypeptide of Lactococcus lactis or one of its fragments. 45. Method for estimating the collinearity between the genomes of Lactococcus lactis IL 1403 and of another strain of Lactococcus lactis, characterized in that it comprises the steps: - of fragmentation of the chromosomal DNA of said other strain (sonication, digestion), - sequence of DNA fragments, homology analysis with the genome of Lactococcus lactis IL 1043 (SEQ ID N 1) by comparing with a recording medium <Desc / Clms Page number 206> the form and nature of which facilitate the reading, analysis and / or use of a sequence recorded on said medium, on which is recorded at least one nucleotide sequence according to one of claims 1 to 4.8 to 26 and / or a polypeptide sequence according to one of claims 5 to 7 and 27 to 44. 46. Nucleotide sequence which can be used as a primer or as a probe, characterized in that the said sequence is chosen from the nucleotide sequences according to one of claims 2 to 4 and 8 to 26. 47. Nucleotide sequence according to claim 46, characterized in that it is labeled with a radioactive compound or with a non-radioactive compound. 48. Nucleotide sequence according to one of claims 46 and 47, characterized in that it is immobilized on a support, covalently or non-covalently. 49. Nucleotide sequence according to one of claims 47 to 48, characterized in that it is immobilized on a support such as a high density filter or a DNA chip. 50. Nucleotide sequence according to one of claims 47 to 49 for the detection and / or amplification of nucleic sequences. 51. DNA chip or filter, characterized in that it contains at least one nucleotide sequence according to claim 49. 52. DNA chip or filter according to claim 51, characterized in that it further contains at least one nucleotide sequence of a microorganism other than Lactococcus lactis, immobilized on the support of said chip. <Desc / Clms Page number 207> 53. DNA chip or filter according to claim 52, characterized in that the other microorganism is chosen from a microorganism associated with Lactococcus lactis, a bacterium of the genus Lactococcus, and a variant of Lactococcus lactis. 54. Kit or necessary for the detection and / or identification of bacteria belonging to the species Lactococcus lactis or to an associated microorganism, characterized in that it comprises a DNA chip or a filter according to claim 51. 55. Kit or necessary for the detection and / or identification of a microorganism, characterized in that it comprises a DNA chip or a filter according to one of claims 52 and 53. 56. Kit or necessary for the detection and / or quantification of the expression of at least one Lactococcus lactis gene, characterized in that it comprises a DNA chip or a filter according to one of claims 51 to 53 . 57. Cloning and / or expression vector, characterized in that it contains a nucleotide sequence according to one of claims 2 to 4 and 8 to 26. 58. Cloning and / or expression vector according to claim 57, characterized in that it contains a nucleotide sequence according to claim 13. 59. Cloning and / or expression vector according to claim 57, characterized in that it contains a nucleotide sequence according to claim 14. <Desc / Clms Page number 208> 60. Cloning and / or expression vector according to claim 57, characterized in that it contains a nucleotide sequence according to claim 9, 19 or 20. 61. Cloning and / or expression vector according to claim 57, characterized in that it contains a nucleotide sequence according to claim 24. 62. Cloning and / or expression vector according to claim 57, characterized in that it contains a nucleotide sequence according to claim 12, in particular encoding a protein involved in the secretion mechanisms. 63. Cloning and / or expression vector according to claim 57, characterized in that it contains a nucleotide sequence encoding a protein involved in resistance and / or adaptation to stress. 64. Use of a vector according to one of claims 57 to 63 for the generation of a bacterial strain exhibiting improved fermentation properties, and / or increased stability. 65. Host cell, characterized in that it is transformed with a vector according to one of claims 57 to 63. 66. Host cell according to claim 65, characterized in that it is a bacterium belonging to the genus Lactococcus. 67. Host cell according to claim 66, characterized in that it is a bacterium belonging to the species Lactococcus lactis. <Desc / Clms Page number 209> 68. Host cell according to claim 65, characterized in that it is a microorganism associated with the species Lactococcus lactis. 69. Food composition comprising a transformed cell according to one of claims 65 to 68. 70. Plant or animal, except humans, comprising a transformed cell according to one of claims 65 to 68. 71. Process for preparing a polypeptide, characterized in that a cell transformed with a vector according to claim 57 is cultured under conditions allowing the expression of said polypeptide and that said recombinant polypeptide is recovered. 72. Recombinant polypeptide obtainable by a process according to claim 71. 73. Process for preparing a synthetic polypeptide according to one of claims 5 to 7.27 to 44, characterized in that a chemical synthesis of said polypeptide is carried out. 74. Hybrid polypeptide, characterized in that it comprises at least the sequence of a polypeptide according to one of claims 5 to 7.27 to 44 and 72, and a sequence of a polypeptide capable of inducing an immune response in humans or animals. 75. Nucleotide sequence encoding a hybrid polypeptide according to claim 74. <Desc / Clms Page number 210> 76. Vector characterized in that it contains a nucleotide sequence according to claim 75. 77. Monoclonal or polyclonal antibody, its fragments, or chimeric antibody, characterized in that it is capable of specifically recognizing a polypeptide according to one of claims 5 to 7.27 to 44.72 or 74. 78. Antibody according to claim 77, characterized in that it is a labeled antibody. 79. Method for the detection and / or identification of bacteria belonging to the species Lactococcus lactis or to an associated microorganism in a biological sample, characterized in that it comprises the following steps: a) contacting the biological sample with an antibody according to one of claims 77 and 78; b) demonstration of the antigen-antibody complex possibly formed. 80. Method for detecting the expression of a Lactococcus lactis gene, characterized in that a strain of Lactococcus lactis is brought into contact with an antibody according to claim 77 or 78 and that the complex is detected. antigen / antibody possibly formed. 81. Kit or necessary for the implementation of a method according to claim 79 or 80, characterized in that it comprises the following elements: a) a polyclonal or monoclonal antibody according to one of <Desc / Clms Page number 211> claims 77 and 78; b) optionally, the reagents for constituting the medium suitable for the immunological reaction; c) optionally, the reagents allowing the detection of the antigen-antibody complexes produced by the immunological reaction. 82. Polypeptide according to one of claims 5 to 7.27 to 44.72 and 74, or antibody according to one of claims 77 and 78, characterized in that it is immobilized on a support, in particular a protein chip . 83. Protein chip, characterized in that it contains at least one polypeptide according to one of claims 5 to 7.27 to 44.72 and 74, or at least one antibody according to one of claims 77 and 78, immobilized on the support of said chip. 84. Protein chip according to claim 83, characterized in that it further contains at least one polypeptide of a microorganism other than Lactococcus lactis or at least one antibody directed against a compound of a microorganism other than Lactococcus lactis, immobilized on the support of said chip. 85. Kit or necessary for the detection and / or identification of bacteria belonging to the species Lactococcus lactis or to an associated microorganism, characterized in that it comprises a protein chip according to one of claims 83 and 84. 86. Kit or necessary for the detection and / or identification of a microorganism, characterized in that it comprises a protein chip according to <Desc / Clms Page number 212> claim 84. 87. Method for the detection and / or identification of bacteria belonging to the species Lactococcus lactis or to an associated microorganism in a biological sample, characterized in that it uses a nucleotide sequence according to one of claims 1 to 4.8 to 26.46 to 50 and 75. 88. The method of claim 87, characterized in that it comprises the following steps: a) optionally, isolation of the DNA from the biological sample to be analyzed, or obtaining a cDNA from the RNA. biological sample; b) specific amplification of the DNA of bacteria belonging to the species Lactococcus lactis or with a microorganism associated with the aid of at least one primer according to one of claims 46 to 50; c) demonstration of amplification products. 89. The method of claim 87, characterized in that it comprises the following steps: a) bringing a nucleotide probe according to one of claims 46 to 50 into contact with a biological sample, the nucleic acid contained in the biological sample having, where appropriate, previously been made accessible for hybridization, under conditions allowing hybridization of the probe to the nucleic acid of a bacterium belonging to the species Lactococcus lactis or to a micro- associated body; b) demonstration of the hybrid possibly formed between the nucleotide probe and the nucleic acid of the biological sample. <Desc / Clms Page number 213> 90. The method of claim 87, characterized in that it comprises the following steps: a) bringing a nucleotide probe immobilized on a support according to claim 48 into contact with a biological sample, the nucleic acid of the sample having, where appropriate, been previously made accessible for hybridization, under conditions allowing hybridization of the probe to the nucleic acid of a bacterium belonging to the species Lactococcus lactis or to an associated microorganism; b) bringing the hybrid formed into contact between the nucleotide probe immobilized on a support and the nucleic acid contained in the biological sample, where appropriate after removing the nucleic acid from the biological sample which has not hybridized with the probe, with a labeled nucleotide probe according to claim 47; c) demonstration of the new hybrid formed in step b). 91. The method of claim 90, characterized in that, prior to step a), the DNA of the biological sample or the cDNA optionally obtained by reverse transcription of the RNA of the sample, is amplified at using at least one primer according to one of the claims 46 to 50. 92. Kit or necessary for the detection and / or identification of bacteria belonging to the species Lactococcus lactis or to an associated microorganism, characterized in that it comprises the following elements: a) a nucleotide probe according to one of claims 46 to 50; b) optionally, the reagents necessary for the implementation of a <Desc / Clms Page number 214> 46 to 50 as well as the reagents necessary for a DNA amplification reaction. hybridization reaction; c) optionally, at least one primer according to one of the claims 93. Kit or necessary for the detection and / or identification of bacteria belonging to the species Lactococcus lactis or to an associated microorganism, characterized in that it comprises the following elements: a) a nucleotide probe, called a probe capture according to claim 48; b) an oligonucleotide probe, called a revelation probe, according to claim 47; c) optionally, at least one primer according to one of the claims 46 to 50 as well as the reagents necessary for a DNA amplification reaction. 94. Kit or necessary for the detection and / or identification of bacteria belonging to the species Lactococcus lactis or to an associated microorganism, characterized in that it comprises the following elements: a) at least one primer according to l one of claims 46 to 50; b) optionally, the reagents necessary to carry out a DNA amplification reaction; c) optionally, a component making it possible to verify the sequence of the amplified fragment, more particularly an oligonucleotide probe according to one of claims 46 to 50. 95. Method according to claims 87 to 91 or kit or kit according to claims 92 to 94 for the detection and / or identification of bacteria belonging to the species Lactococcus lactis, characterized in that said said <Desc / Clms Page number 215> 74 specific for the Lactococcus lactis species and in that said antibodies are chosen from the antibodies according to one of claims 77 and 78 directed against the polypeptides chosen from the polypeptides according to one of claims 5 to 7.27 to 44, 72 and 74 specific for the species Lactococcus lactis. primer and / or said probe are chosen from the nucleotide sequences according to one of claims 2 to 4.8 to 26, 46 to 50 and 75 specific for the species Lactococcus lactis, in that said polypeptides are chosen from polypeptides according to one of claims 5 to 7, 27 to 44 and 72 and 96. Method or kit or kit according to claim 95, characterized in that said primer and / or said probe are chosen from nucleotide sequences encoding a secreted protein, in that said polypeptides are chosen from secreted polypeptides and in that said antibodies are chosen from the antibodies according to one of claims 77 and 78 directed against secreted polypeptides of Lactococcus lactis. 97. Lactococcus lactis strain, characterized in that it contains at least one mutation in at least one nucleotide sequence according to one of claims 2 to 4 or 8 to 26. 98. Lactococcus lactis strain according to claim 97, characterized in that it contains at least one mutation in at least one nucleotide sequence according to claim 13. 99. Lactococcus lactis strain according to claim 97, characterized in that it contains at least one mutation in at least one nucleotide sequence according to claim 14. <Desc / Clms Page number 216> 100. Lactococcus lactis strain according to claim 97, characterized in that it contains at least one mutation in at least one nucleotide sequence according to claim 9, 19 or 20. 101. Lactococcus lactis strain according to claim 97, characterized in that it contains at least one mutation in at least one nucleotide sequence according to claim 24. 102. Lactococcus lactis strain according to claim 97, characterized in that it contains at least one mutation in at least one nucleotide sequence according to claim 12, in particular encoding a protein involved in the secretion mechanisms. 103. Lactococcus lactis strain according to claim 97, characterized in that it contains at least one mutation in at least one nucleotide sequence encoding a protein involved in resistance and / or adaptation to stress. 104. Lactococcus lactis strain according to one of claims 97 to 103, characterized in that the mutation leads to inactivation of the gene. 105. Lactococcus lactis strain according to one of claims 97 to 103, characterized in that the mutation leads to overexpression of the gene. 106. Lactococcus lactis strain exhibiting increased resistance to infection and / or propagation of phages, characterized in that it overexpresses or underexpresses a polypeptide according to claim 42. <Desc / Clms Page number 217> 107. Lactococcus lactis strain exhibiting increased resistance to infection and / or propagation of phages, characterized in that it contains a toxic gene under the control of an agent regulating the expression of phage genes, encoding for polypeptides according to claim 42. 108. Method for diagnosing the presence of phages in lactic acid starter and dairy products, characterized in that the presence of nucleic acid encoding a polypeptide according to claim 42 is studied. 109. Use of a polypeptide according to one of claims 5 to 7, 27 to 44, 72 and 74 of a transformed cell according to one of claims 65 to 68 of a strain according to claim 97 to 105 and / or an animal according to claim 70, for the biosynthesis or biodegradation of a compound of interest. 110. A method of biosynthesis or biodegradation of a compound of interest, characterized in that it uses a polypeptide according to one of claims 5 to 7.27 to 44.72 and 74, a transformed cell according to one of claims 65 to 68 a strain according to one of claims 97 to 105 and / or an animal according to claim 70.