AU2002328273A1 - A thermostable isomerase and use thereof in particular for producing tagatose - Google Patents

Description

A NOVEL THERMOSTABLE ISOMERASE AND USE HEREOF, IN PARTICULAR FOR PRODUCING TAGATOSE

FIELD OF INVENTION

The present invention is within the field of industrial enzymes, in particular enzymes for synthesis of sugars such as D-tagatose.

TECHNICAL BACKGROUND AND PRIOR ART

D-tagatose is the keto-sugar corresponding to the aldo-sugar D-galactose. It has a sweetness value equivalent to sucrose but is poorly digested and has been found to be a use- ful, safe non-cariogenic low-calorie sweetener in food products, for which there is high demand.

D-tagatose can be synthesised chemically, e.g. as described in US 5,002,612.

Enzymatic methods for production of D-tagatose have been described. Yamanaka and Wood (1966) list a number of lactic acid bacteria providing an L-arabinose isomerase enzyme capable of producing ketoses from L-arabinose, D-galactose or D-fucose.

US 6,057,135 discloses a process for manufacturing D-tagatose, wherein a lactose per- meate is hydrolysed to obtain a lactose hydrolysate comprising D-galactose and glucose. The hydrolysate is fermented to convert the glucose to ethanol which is subsequently removed and the remaining solution of D-galactose is subjected to enzymatic isomerisation with an L-arabinose isomerase to obtain D-tagatose. The L-arabinose isomerase preparations used are crude biomass extracts of Lactobacillus pentosus, Bacillus amyloliquefa- ciens or Arthrobacter spp.

WO 00/68397 describes the use of E.coli engineered for enhanced expression of E.coli L-arabinose isomerase for the production of tagatose. WO 02/50282 describes the isolation of a thermostable L-arabinose isomerase capable of isomerising galactose. The amino acid sequence of this enzyme is closely related to previously known L-arabinose isomerase sequences, especially Bacillus stearothermophilus.

However, to date, enzymatic methods for production of tagatose have not been used commercially. There exists a high demand for new and improved low-calorie sweeteners, and consequently, improved methods for producing tagatose with higher efficiency and yield are highly needed in the industry.

A novel L-arabinose isomerase active enzyme has now been isolated and characterised. This enzyme exhibits a low sequence similarity when compared to all presently known L- arabinose isomerase sequences, including those disclosed in WO 00/68397 and WO 02/50282. The enzyme of the current invention has different substrate specificity as compared to prior art L-arabinose isomerases and it is a versatile aldose isomerase capable of isomerising structurally related aldoses. The enzyme is obtainable from a thermophilic microbial source and can thus be used at high operating temperatures.

SUMMARY OF INVENTION

In a first aspect of the invention, an isolated L-arabinose isomerase active enzyme is provided, which enzyme is derived from a Thermoanaerobacter species, or an isomerase active fragment hereof.

A second aspect of the invention is the provision of the nucleic acid coding for L-arabinose isomerase or an L-arabinose isomerase active fragment thereof, selected from the group consisting of: (i) a wild type nucleic acid isolated from a Thermoanaerobacter species and (ii) a nucleic acid sequence that is capable of hybridising with the sequence of (i) under stringent conditions.

In a further aspect is provided a nucleic acid construct comprising the above nucleic acid.

In a still further aspect of the invention there is provided a cell that is transformed with the above-mentioned nucleic acid or construct. In a still further aspect, a method is provided for converting an aldose into a ketose, comprising contacting the aldose with the isomerase of the invention and keeping the reaction under conditions where at least 1 wt% of the aldose is converted into the corresponding ketose.

The invention provides in yet a further aspect a method of producing L-arabinose isomerase, comprising transforming a cell with the nucleic acid of the invention and operably linking thereto appropriate expression signals directing the expression of the isomerase and, optionally, sequences directing the secretion of the isomerase, propagating said transformed cell and harvesting the progeny cells containing the isomerase or, if it is secreted into the medium, the excreted isomerase.

In a still further aspect, the invention provides a composition comprising the isomerase of the invention in an immobilised form.

Another aspect of the invention provides a method of producing D-tagatose comprising hydrolyzing lactose by contacting the lactose with a lactase-active enzyme to yield glucose and D-galactose, and converting at least a portion of the obtained D-galactose to D-tagatose by contacting the D-galactose with an L-arabinose isomerase-active enzyme, wherein said lactase-active enzyme and said L-arabinose isomerase-active enzyme are contained in the same reactor unit under essentially the same reaction conditions.

DETAILED DESCRIPTION

As stated above, the invention described herein provides a novel L-arabinose isomerase active enzyme or an isomerase active fragment thereof, which is derived from a Thermoanaerobacter species.

L-arabinose isomerase (EC 5.3.1.4) also referred to as L-arabinose ketol-isomerase, falls within the general class of intramolecular oxidoreductases and more specifically, the group of aldose isomerases, which are capable of interconverting aldoses to their corresponding ketoses. The L-arabinose isomerase is classified and named according to its ability to convert the aldose L-arabinose to its corresponding ketose, L-ribulose. The term "isolated" as used herein means that the material is removed from its original environment (e.g. the natural environment where the material is naturally occurring). For example, a polynucleotide or polypeptide while present in a living organism is not isolated, but the same polynucleotide or polypeptide, which is separated from some or all of the coexisting materials in the natural system, is isolated. Such polynucleotides could be part of a vector and/or such polynucleotides or polypeptides could be part of a composition, and still be isolated in that the vector or composition is not part of the natural environment.

The Thermoanaerobacter genus includes a range of species such as T. acetoethylicus, T. brockii, T. cellulolyticus, T. ethanolicus, T. finnii, T. italicus, T. kivui, T. mathranii, T. si- derophilus, T. subterraneus, T. sulfurophilus, T. thermohydrosulfuricus and T. wiegelii. In a presently preferred embodiment, the isomerase enzyme or active fragment thereof is obtained from the species T. mathranii, of which a useful strain (DSMZ 11426) is obtain- able from Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSMZ).

The isomerase of the invention preferably has at least one of the following characteristics: (i) an optimum activity at a temperature in the range of 40 to 95°C, preferably in the range of 60 to 80°C, such as in the range of about 60 to 70°C, including about 65°C; (ii) opti- mum activity at a pH in the range of 6 to 9, preferably in the range of 7 to 9, such as in the range of about pH 7 to 8; and (iii) is capable of isomerising at least one aldopentose or at least one aldohexose. Aldopentoses are five-carbon aldoses which include e.g. arabi- nose, ribose, xylose and lyxose, whereas aldohexoses are six-carbon sugars, including allose, altrose, glucose, mannose, gulose, idose, galactose and talose. More preferably, the isomerase has at least two of these characteristics and most preferably all three of these characteristics. Reaction temperatures of 60°C and higher such as at least 65, 70, 75 or 80°C are preferred, as the contamination risk from growth of other microorganisms is minimised at such elevated temperatures. Furthermore, high temperatures allow the use of higher substrate concentrations due to the increased substrate solubility. The pre- ferred isomerase from T. mathranii has an excellent temperature profile in this respect, with maximum activity at around 65°C, and about or more than 70% of the maximum activity is retained in the temperature range of about 60-75°C.

Yet further advantages of performing the isomerization at a high temperature are: (i) that the equilibrium between aldose and ketose is shifted towards ketose at higher temperatures. (For L-arabinose isomerase fra Lactobacillus plantarum it has been reported that the amount of ketose at 10°C, 25°C og 53°C is 10%, 14% and 16% respectively (Heath, E.G., Horecker, B.L., Smyrniotis, P.Z. and Takagi, Y. (1958) J. Biol. Chem. 231: 1031-1037).

(ii) the substrate specificity towards D-galactose is higher relative to L-arabinose at higher temperatures. U.S. patent No. 6,057,135 8 (Krafts Foods, Inc., Example 5) discloses L- arabinose isomerase fra Lactobacillus pentosus having relative specificity for L-ara:D-gal of 300:1 at 35°C and 85:1 at 60°C.

Compared to the known L-arabinose isomerases, the isomerases of the current invention appear to be relatively versatile aldose isomerases which are able to isomerise many structurally related aldoses. Preferably, the isomerases of the invention are capable of isomerising at least all of L-arabinose, D-galactose and D-fucose. These three aldoses have the same chiral configuration from C-1 to C-4. In particular, for the production of D- tagatose, isomerases being capable of efficient isomerisation of D-galactose are highly desirable.

The isomerase of the invention is derived from a thermophilic source, which endows it with both a high activity at elevated temperatures, such as within the temperature ranges mentioned above, for extended periods of time, and good stability against thermal denatu- ration. It is contemplated that related L-arabinose isomerases from other thermophilic sources will have similar suitable characteristics.

The activity of the enzyme towards L-arabinose and D-galactose may conveniently be assayed as described in Example 2 or by any other applicable methods known in the art. The specificity can be further defined by comparative activity measurements for other aldose substrates.

In one embodiment of the invention, the isomerase has the amino acid sequence of SEQ ID NO:2 herein. Variants and derivatives thereof are also encompassed by the invention including such variants and derivatives that have isomerase activity and showing at least 70% sequence identity to this sequence, including at least 75% or at least 80% sequence identity, such as at least 90% sequence identity, and preferably at least 95% or 97% sequence identity. Useful variants and derivatives may e.g. be obtained by isolation from microbial species such as those mentioned above and/or by genetic modification of organisms naturally producing isomerases such as by site-directed mutagenesis, or e.g. by insertion of a sequence coding for an affinity tag such as a His-tag.

Alternative methods for providing variants of the invention include gene-shuffling methods which have become available, e.g., as described in Merz et al. Biochemistry (2000) 39: 880-889; J. Minshull Curr. Op. Chem. Biol. (1999) 3:284-290; WO 95/22625 (Affymax Technologies NN.), US 6,291,165 (Νovo Νordisk A S), US 6,132,970 and US 6,372,497 (Maxygen, Inc.). Briefly, gene shuffling techniques involves providing a plurality of related genes or nucleic acid sequences (e.g., sequences coding for different L-arabinose isomerases of the present invention) that are randomly fragmented and then reassembled by a reaction in which homologous fragments (or conserved regions of heterologous fragments) act as primers for each other, The thus obtained variants can be screened and selected based on various criteria. The shuffling techniques are particularly beneficial in this respect, as they allow the combination of different desired properties from different related proteins. With respect to the isomerases of the present invention, desired properties that can be combined by shuffling techniques and screened for with applicable methods of the art include substrate specificity, temperature stability, optimum temperature, long-term stability, expression efficiency in a selected host organism, etc.

"Sequence identity" as used herein is calculated based on a reference sequence, (which in this instance is the sequence of SEQ ID ΝO:2). Algorithms for sequence analysis are known in the art, such as e.g. BLAST, described in Altschul et al., J. Mol. Biol. (1990) 215:403-10. Generally, the default settings with respect to e.g. "scoring matrix" and "gap penalty" will be used for alignment.

As seen in Fig. 2 and discussed in Example 1 , the presently preferred isomerase of the invention derived from Thermoanaerobacter mathranii, has low sequence identity (24- 30%) with known L-arabinose isomerases, which all show significantly higher identity to each other. This may explain differences in the kinetic characteristics and specificity from prior art L-arabinose isomerases.

Preferred isomerases of the present invention have a molecular weight in the range of about 50-60 kDa and more preferably in the range of about 52-55 kDa, including about 53 kDa. However, the isomerase active fragments of the invention may have a significantly lower molecular weight as they may contain only a small portion of a wild type isomerase sequence necessary for correct folding of the polypeptide and retention of activity.

The highly preferred L-arabinose isomerase derived from T. mathranii has a full length molecular weight of 53 kDa calculated on the basis of the sequence of Table 1.2 herein (SEQ ID NO:2). Many of the preferred isomerases of the invention, including the full length isomerase derived from T. mathranii, have a tetramer quaternary structure in the native, active state of the protein.

The term "isomerase active fragment" refers generally to any fragment of an isomerase of the present invention, which fragment is sufficiently large to substantially retain the activity of the isomerase from which it is obtained. While the active site of arabinose isomerase has not been characterized in detail, a comparison with the related L-fucose isomerase from E. coli (Seemann, J.E. and Schulz, G.E. (1997) J. Mol. Biol. 273:256-268) is suggestive of active site residues. Catalyticaily active residues in the fucose isomerase are Glu337 and Asp 361. An alignment of known L-arabinose isomerases with the L- fucose isomerase shows that the glutamic acid residue is conserved among all the known L-arabinose isomerases (Glu300 in the T. mathranii L-arabinose isomerase). The aspartic acid is conserved in all the L-arabinose isomerase sequences except the T. mathranii sequence, which has a methionine in the corresponding position (Met324) (see Fig. 4). Residues that may act as proton donors are Asp318, Glu323 and Asp 328. Consequently, it is postulated that the key active site residues are located in the region between amino acid residues 290-340. Thus, useful isomerase active fragments of the present invention may include a sequence fragment comprising residues within the region of 150-462, or e.g. 200-460, such as within the region of 200-400, or 250-400, including the region of 270-350, or the region of 290-340. Such fragment may be folded in a tetrameric quaternary structure, or possibly retain its activity but having a different quaternary structure, e.g. a monomeric structure. Further, an isomerase fragment of the invention may in certain embodiments be combined with other suitable polypeptide sequences that do not hinder the isomerase activity but may improve features such as, e.g., overexpression, solubility and/or stability, to obtain a chimeric protein comprising an isomerase active fragment sequence.

In useful embodiments, the isomerase of the invention has a K_m value for D-galactose in the range of about 50 to 350 mM, including the range of 100 to 200 mM. Certain preferred isomerases of the invention have similar K_m also for L-arabinose. A standard definition of K_m can be found in Stryer, L. Biochemistry 3rd ed., Freeman, NY, 1988. It follows that the substrate affinity of such preferred isomerases for D-galactose vs. L-arabinose is comparatively high in comparison to prior art isomerases, as shown in Table 2.1 herein.

Preferably the isomerase according to the invention has a D-galactose activity which is about 10 to 50% of its L-arabinose activity, such as in the range of 15-30%, including the range of about 20-25%.

Preferred isomerases of the present invention show a high conversion efficiency for the conversion of D-galactose to D-tagatose, even at high substrate concentrations. Preferably, the isomerases of the invention are capable of converting at least 20 wt% of D-galactose which is at a concentration of about 30 wt% or higher in the reaction medium, in a 24 h period.

The invention provides in a further aspect an L-arabinose isomerase capable of isomerising D-galactose to D-tagatose, which isomerase has at least 60% sequence identity to the sequence of SEQ ID NO:2 herein or higher, such as at least 70% or at least 80% sequence identity or at least 90% sequence identity SEQ ID NO:2, and an isomerase active fragment thereof. In particular embodiments the isomerase may have even higher sequence identity to SEQ ID NO:2, such as at least 95% or at least 97% sequence identity.

Preferably the isomerase is derived from a thermophilic organism, such as a bacterium which is taxonomically related to the genus Thermoanaerobacter.

In another aspect, the invention provides a nucleic acid coding for L-arabinose isomerase or an L-arabinose isomerase active fragment hereof, selected from the group consisting of: (i) a wild type nucleic acid isolated from a Thermoanaerobacter species and (ii) a nu- cleic acid sequence that is capable of hybridising with the aforementioned sequence under stringent conditions.

The term "nucleic acid" as used herein, includes DNA (e.g. genomic DNA or cDNA), and RNA, with naturally occurring nucleotides as well as containing one or more modified bases. Thus, DNAs or RNAs with backbones modified for stability or for other reasons are nucleic acids as defined herein. Moreover, DNAs or RNAs comprising unusual bases, such as inosine, or modified bases, such as tritylated bases, to name just two examples, are nucleic acids as the term is used herein.

The term "stringent conditions" in this context refers to general conditions of high stringency. The term "stringency" is well known in the art and is used in reference to the conditions (temperature, ionic strength and the presence of other compounds such as organic solvents) under which nucleic acid hybridisations are conducted. With "high stringency" conditions, nucleic acid base pairing will occur only between nucleic acid fragments that have a high frequency of complementary base sequences, as compared to conditions of "weak" or "low" stringency.

As an example, high stringency hybridisation conditions include (1) employ low ionic strength and high temperature for washing, such as 0.015 M NaCI/0.0015 M sodium cit- rate, pH 7.0 (O.lxSSC) with 0.1% sodium dodecyl sulfate (SDS) at 50°C; (2) employ during hybridisation 50% (vol/vol) formamide with 5xDenhardt's solution (0.1% (wt/vol) highly purified bovine serum albumin/0.1% (wt/vol) Ficoll/0.1% (wt/vol) polyvinylpyrrolidone), 50 mM sodium phosphate buffer at pH 6.5 and 5x SSC at 42°C; or (3) employ hybridisation with 50%> formamide, 5xSSC, 50 mM sodium phosphate (pH 6.8), 0.1 % sodium pyrophos- phate, 5xDenhardt's solution, sonicated salmon sperm DNA (50 μg/ml), 0.1% SDS, and 10% dextran sulfate at 42°C with washes at 42°C in 0.2xSSC and 0.1 % SDS.

In a preferred embodiment, the nucleic acid coding for said isomerase or fragment thereof is the wild type nucleic acid isolated from Thermoanaerobacter mathranii, or a sequence that is capable of hybridising with such sequence under stringent conditions.

In a useful embodiment, the nucleic acid of the invention codes for the amino acid of SEQ ID NO:2 herein, or an isomerase-active fragment thereof. However, also encompassed by the invention are nucleic acids coding for isomerase-active polypeptides with high se- quence identity to SEQ ID NO:2 or an isomerase-active part thereof, such as with a sequence identity as defined above of at least 75%, and preferably 90% or higher, such as 95% or 97%. A particular embodiment of the invention provides the nucleic acid having the sequence of SEQ ID:1, which is shown in Table 1.1 , or a fragment thereof coding for an isomerase active fragment.

In yet a highly useful aspect, the invention provides a nucleic acid construct comprising the nucleic acid of the invention. A "nucleic acid construct" as used herein includes a plasmid, virus, retrovirus, bacteriophage, transposon, cosmid, artificial chromosome (bacterial or yeast), that is able to replicate in a host cell and which typically has one or more restriction endonuclease recognition sites at which the sequence may be cut in a predetermined fashion. The construct can also contain a marker suitable for use in the identification of transformed cells, e.g., tetracycline resistance or ampicillin resistance.

Also encompassed by the invention is a cell that is transformed with either the above described nucleic acid or construct. A "cell" as used herein, refers to any prokaryotϊc or eukaryotic cell which is used as a recipient of the recombinant polynucleotides and constructs provided herein. In preferred embodiments, the transformed cell of the invention is a bacterial cell, a yeast cell or a cell of a filamentous fungus. A host cell such as E. coli may be emplyed in this regard, however, preferred host cells are those that are readily compatible with food production. Examples of suitable bacterial host cells are Bacillus spp.e.g. Bacillus subtiiis, Bacillus licheniformis, Bacillus lentus, Bacillus brevis, Bacillus stearothermophilus, Bacillus alkalophilus, Bacillus amyloliquefaciens, Bacillus coagulans, Bacillus circulans, Bacillus lautus, Bacillus megaterium, and Bacillus thuringiensis, or Streptomyces lividans or Streptomyces murinus, or Lactococcus spp., Lactobacillus spp. and Zymomomas spp. Useful yeast host cells include cells of Saccharomyces spp. (in particular S. cerevisiae), Schizosaccharomyces spp., and Pichia spp. and useful cells of filamentous fungi include those of Aspergillus spp. such as A. niger, A. nidulans and A. oryzae; Mucorspp., e.g. Mucor circinelloides; and Neurospora spp., e.g. Neurospora crassa.

Methods of transforming cells such as those mentioned above with a nucleic acid or construct as those mentioned above are well known in the art. The construct or nucleic acid may be introduced into the host cells using any suitable method (e.g. electroporation, transfection using calcium chloride, rubidium chloride, calcium phosphate, DEAE-dextran, or other substances; microprojectile bombardment, lipofection, infection, transduction). Yet a further aspect of the invention provides a method of converting an aldose into a ketose, the method comprising contacting the aldose with the L-arabinose isomerase of the invention and keeping the reaction under conditions where at least 1 wt% of the aldose is converted. Preferably, conditions are selected such that at least 10 wt% of the substrate aldose is converted to its corresponding ketose, and more preferably at least about 20%, including about 25%, and even more preferably at least about 30% or more of the aldose is converted to ketose.

The aldose may be any of those mentioned above and is preferably selected from the group consisting of L-arabinose, D-galactose and D-fucose. A highly useful embodiment of the invention uses D-galactose as the aldose, in which case the reaction product ketose is D-tagatose. D-galactose may be readily obtained by hydrolysing lactose, obtained on a commercial scale from cheese whey and/or milk.

In a preferred embodiment of method, the reaction takes place at a temperature of at least 60°C, such as in the range of 60-100°C, including about 60-80°C, and preferably in a range of about 60-70°C.

Manganese ions (Mn⁺²) may be required to sustain the activity of at least some of the isomerases of the invention. Consequently, in useful embodiments of the invention Mn⁺² is present in the reaction mixture at a concentration in the range of about 1-20 mM, including about 1-10 mM such as in the range of about 2-5 mM. However, some of the preferred isomerases still retain substantially all of their activity if Fe⁺² ions are present at a concentration such as those just mentioned, or higher.

High substrate concentrations are generally advantageous in the industrial production of D-tagatose using the method of the invention, such as 5 wt% or higher, preferably 10 wt% or higher and more preferably 30 wt% or higher, such as in the range of 30-60 wt%. As discussed above, the isomerases of the present invention have good conversion effi- ciency of D-galactose at such substrate concentrations and the high operating temperatures benefit high substrate solubility.

The L-arabinose isomerase may suitably be provided as an isolated enzyme preparation. Methods of isolating the isomerase from its source can be readily selected and adjusted by the skilled person to obtain the isolated enzyme of desired purity. Such methods may comprise one or more steps of chromatographic purification by ion exchange, affinity, and gel permeation chromatography, and/or may include steps of sonification, centrifugation and/or ultrafiltration.

Preferably, the isomerase is purified to an extent where it is essentially without any other proteins. In this context "essentially without any other proteins" refers to a high degree of purity, wherein other proteins comprise less than 10 wt% of the purified isomerase preparation, preferably less than 5 wt% and more preferably less than 3 wt%, such as substantially 0 wt% of the preparation.

The enzyme of the invention may advantageously be used as a free, non-immobilised enzyme, but in other useful embodiments, the isolated isomerase enzyme preparation is immobilised. In the present context, the term 'immobilised' refers generally to the binding (covalent or non-covalent) of the enzyme to a solid matrix such as beads, fibres or a membrane or imbedding the enzyme within a porous matrix, such that the enzyme-matrix contact is withheld during normal reaction conditions. Methods of immobilising an enzyme are well known in the art and include as an example cross-linking with glutaraldehyde as it is demonstrated in Example 3. Other applicable methods are e.g. coupling of the enzyme to matrix hydroxyl groups that are activated by e.g. a carbodiimide, carbonyl diϊmidazole, N,N'-disuccinimidyf carbonate (DSC), or cyanogen bromide; and coupling by epoxidation by e.g. 1 ,4-butanediol diglycidyl ether.

As shown in Example 3.3 herein, immobilised isomerase of the invention is shown to have excellent long-term stability during repeated reaction cycles at relatively high operating temperatures (65°C), and thus is highly suitable for industrial applications.

It has been found that a two-step process of (i) hydrolysing lactose to glucose and galactose and (ii) isomerising the obtained galactose to tagatose can be performed in a single reactor; that is, a suitable lactase-active enzyme and an L-arabinose isomerase of the present invention can be used simultaneously in one reaction unit which is fed with lactose to obtain tagatose. An embodiment of this is demonstrated and described in detail in Example 4. Surprisingly, the obtained glucose does not hinder the activity of the isomerase, and the glucose may be separated from the tagatose as well as any non- isomerized galactose with suitable separation means, such as chromatography. Such a two-step one-reactor process is conveniently setup by use of immobilized lactase and immobilized L-arabinose isomerase, where both enzymes may be immobilized e.g. as described herein. Preferably, the lactase should retain its activity at a high temperature, e.g. in the range of 60-100°C, including the range of 60-80°C and 60-70°C, such that the high-temperature regime of the isomerase can be utilized, as described herein. One preferred lactase enzyme in this regard is β-glycosidase which is readily available from various sources, e.g. derived from thermophilic bacteria and expressed in a suitable host such as E. coli, but more preferably in a more compatible and better approved food production host cell, such as are mentioned herein.

Based on the above findings, the invention thus provides in a further aspect, a method of producing D-tagatose comprising hydrolyzing lactose by contacting the lactose with a lactase-active enzyme (in most cases being a β-galactosidase) to yield glucose and D- galactose, and converting at least a portion of the obtained D-galactose to D-tagatose by contacting the galactose with an L-arabinose isomerase-active enzyme, wherein said lactase-active enzyme and said L-arabinose isomerase-active enzyme are contained in the same reactor unit under essentially the same reaction conditions. In particularly useful embodiments the reaction conditions include a temperature in the range of about 50 to about 100°C, preferably of about 55 to about 100°C, and more preferably in a range of about 60 to about 100°C, such as in the range of about 60 to about 80°C, including the range of about 65 to about 80°C, such as in the range of about 65 to about 75°C, including about 65°C, about 70°C, and about 75°C. In addition, the reaction conditions will typically include such conditions as described above, such as a pH in the range of 6 to 9, preferably in the range of 7 to 9, such as in the range of about pH 7 to 8

D-tagatose produced by the methods of the present invention finds use in a variety of food, functional food, and pharmaceutical applications. It is a low-calorie full bulk sweetener which can advantageously replace, fully or partially, sugar and/or non-sugar sweeteners in conventional sweet products such as candies, chocolate, cereals, sweet dairy products (ice cream, yoghurt, milk-based drinks), baked goods, and soft drinks. The D- tagatose can further be used in diet health bars, sugarless chewing gum and as a sweetening filler in medicinal products such as pills, lozenges and liquid mixtures. D-tagatose is non-cariogenic and has probiotic properties that promote healthy digestion. The compound is safe for use by people with diabetes. In a still further aspect of the invention there is provided a method of producing L-arabinose isomerase, comprising transforming a cell such as of those described above with a nucleic acid of the invention and operably linking thereto appropriate expression signals directing the expression of the isomerase and, optionally, sequences directing the secre- tion of the isomerase, propagating the thus transformed cell and harvesting the progeny cells containing the isomerase or, if it is secreted into the medium, the excreted isomerase. The term "transforming" refers to changing in a heritable manner the characteristics of a host cell in response to the introduced exogenous DNA, which may or may not be integrated (covalently linked) to chromosomal DNA making up the genome of the cell. In prokaryotes and yeast, for example, the exogenous DNA may be maintained on an epi- somal element such as a piasmid. With respect to eukaryotic cells, a stably transformed cell is one in which the exogenous DNA has been integrated into a chromosome so that it is inherited by daughter cells through chromosome replication. This stability is demonstrated by the ability of the eukaryotic cell to establish cell lines or clones comprised of a population of daughter cells containing the exogenous DNA.

In useful embodiments, the method of the invention comprises the further step of purifying the L-arabinose isomerase from the progeny cells or the medium to obtain an L-arabinose isomerase preparation, e.g. with purification methods such as those described above.

In one embodiment, the method comprises the further step of drying the isomerase preparation to a moisture content of at the most 10 wt%. Such a preparation can be in a powder or granular form, which may suitably be re-dissolved in a medium for using the isomerase as described herein.

In a still further aspect, the invention provides a composition comprising the L-arabinose isomerase described herein in an immobilised form e.g. an immobilised form such as is described herein.

The invention is further illustrated in the following, non-limiting examples and the drawings, wherein

Fig. 1 is a genetic map of the DNA fragment from T. mathranii which was cloned in E. coli, as described in Example 1 , Fig. 2 shows the percentage of identical amino acid residues found by pairwise alignment of a number of known araA sequences as compared to the sequence from T. mathranii. The known sequences are identified by EMBL/Genbank database accession numbers,

Fig. 3 shows a phylogenetic tree based on all the L-arabinose isomerase amino acid sequences presently available in public sequence databases and the sequence from T. mathranii,

Fig. 4 shows an amino acid sequence alignment of the araA gene from Thermoanaerobacter mathranii and other araA sequences presently available in public databases. The numbers shown below the sequences refer to the araA sequence from T. mathranii. The catalyticaily active amino acid residues in the active site of the E. coli L- fucose isomerase are Glu337 and Asp361 , and the putative corresponding amino acids are marked with a "#" in the alignment of L-arabinose isomerase sequences. Conserved amino acid residues are marked with a "*", conservative substitutions are marked with a

":", and related residues are marked with a "•". The alignment was made with the program

CLUSTAL X (1.8),

Fig. 5 illustrates the temperature dependence of L-arabinose isomerase from T. mathranii produced in E coli,

Fig. 6 illustrates the pH dependence of L-arabinose isomerase from T. mathranii produced in E. coli, and

Fig. 7 illustrates the single-reactor conversion of lactose to tagatose with immobilised lactase and immobilised isomerase.

EXAMPLE 1

Cloning of the L-arabinose isomerase gene (araA) from Thermoanaerobacter mathranii and heterologous production of the enzyme in E. coli

The anaerobic, thermophilic microorganism Thermoanaerobacter mathranii DSMZ 11426 was obtained from Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH, Mascheroder Weg 1b, D-38124 Braunschweig, Germany (DSMZ). Originally, the strain was described as "strain A3" (Sonne-Hansen, J., Mathrani, I.M. and Ahring, B.K. (1993) Appl. Microbiol. Biotechnol. 38: 537-541). Later, the strain was deposited at DSMZ and the name T. mathranii was proposed (Larsen, L., Nielsen, P. and Ahring, B. (1997) Arch. Microbiol. 168: 114-119).

1.1. Growth of T. mathranii

T. mathranii (DSMZ 11426) was cultivated at 65°C under anaerobic conditions in the me- dium recommended by DSMZ. After growth, the culture was centrifuged and the pellet was stored at -80°C until purification of chromosomal DNA.

1.2. Gene cloning

A standard phenol/chloroform extraction method described by Sambrook et al. was used for purification of total chromosomal DNA from frozen T. mathranii cells. Purified chromosomal DNA was partially cleaved with Sau3A restriction enzyme (New England Biolabs) and DNA fragments of about 3-4 kb were purified from agarose gels using the GFX Gel Band Purification kit (Amersham Pharmacia Biotech).

The pBluescript KS(+/-) plasmid (Stratagene Cloning Systems) was cleaved with Bam \ restriction enzyme (New England Biolabs), treated with alkaline phosphatase (CIP, New England Biolabs) and purified from agarose gels using the GFX Gel Band Purification kit (Amersham Pharmacia Biotech). After ligation of purified DNA fragments and purified plasmid vector, the ligation mixture was introduced into super competent DH10B cells (Life Technologies) by electroporation as described by the manufacturer. Transformed cells were plated onto LB medium containing ampicillin (100 μg/ml). About 16,000 colonies were pooled from 20 plates, and a Jetstar kit (Genomed) was used to make a plasmid preparation from the pooled cells.

The plasmid library prepared from pooled cells was introduced by electroporation into UP1089 cells, an Escherichia coli strain carrying an araA mutation that prevents it from growing on an L-arabinose minimal medium. The UP1089 strain was purchased from E. coli Genetic Stock Center, 355 Osborn Memorial Laboratories, Department of Biology, P.O. Box 208104, Yale University, New Haven, CT 06520-8104, USA. After transforma- tion with the plasmid library, the UP1089 cells were plated onto minimal medium containing L-arabinose as the only sugar, thus selecting for complementation of the ara>4 mutation. About 90 colonies were obtained by selection for growth on L-arabinose minimal medium plates.

1.3. DNA sequencing and phylogenetic comparison

Plasmid inserts from two of these colonies were selected for DNA sequencing (ALF Express, Amersham Pharmacia Biotech), and they were found to contain identical DNA fragments comprising an L-arabinose isomerase gene (araA) followed by an L-ribuloki- nase gene (araB) (Fig 1). The nucleotide sequence of the 5'-part of a cloned DNA fragment comprising the araA and araB genes is shown in the below Table 1.1. The open reading frame of the araA gene is shown in bold.

Table 1.1. Nucleotide sequence of DNA fragment comprising the araA and araB genes of Thermoanaerobacter matrahnii (SEQ ID NO:1)

GATCTATTAA ACGGTGTGTG TGTAATAGAG ACAGAGGCAG AACGAGAAGA TTATGGGTCA TGGGGAGAAG AGCTTTATAA 80

GGTAGATGTT AATGTATCGT ATAAGCCCGT GAGAATAAAA TTTATACCGT ATTTTGCATG GGCGAACCGT GCACCGGGTG 160

AAATGATGGT ATGGGTAAGG GAAAAGTAAA ATTACTAGAA GGGGTTTTAA TGTGTTTAAT CAAGAAGGTA GAAATATAGG 240

TTTAAATGGC AAAGGAACAA GTTTTTGTAT ATTGATAAAG TATATAAAAC CTAAGATAGT TTTATATTTA TTTGTCTAAG 320

TTTTAGAAAT AAATTTTTTA AAAACAAAGA AGGAATTTTG AATAAAATGT AGAATATATT AATTATAAAT GTACGTACAT 400

CTAATATCAT GATAATTAAA ATATACGAAC AACAAAATAA CAAATCAAAG GGAGGATTTA TTATGCAAAC CAAGAAAAAG 480

CCGCAAATAG GATITTTAGG CATTATGCAA GAGTTGTACG ATGATATGTT ACCAGGCATT ACTGAAAGAC AAGAAAAATA 560

TGCAAGAGAA GTTATAGAAC AACTTCAAGA TGTTGCCGAT TTTCATTTTC CTAAAGCAGC AAAGAATAGA CAGGACATTG 640

AACATATTGT GAAAGAATIT AATGAAAAAG ACCTTGATGG TATTATGATA GTAATGCTTA CGTATGGACC TGCTACAAAT 720

ATTGTTAATG CACTAAGGAA TAATAAACTA CCTATTATGC TTGCGAACAT TCAACCTGTT CCGACAGTAA CAGAGGATTG 800

GGATATGGGA GATTTGACAT ACAATCAAGG TGTTCACGGT GCCCAAGATA CAGCAAATGC CATTTTAAGG ATGGGAATTA 880

AGTGTCCTAT TATTACAGAA GAATGGCATT CAGAAGAATT TAAAAAATTT GTTGGAGATT GGGCTAAAGC TGTGCAGACA 960

ATTAAAGCAT TGCGAAACAT GAAAATAGCG CAGTTTGGAA GAATGCATGG AATGTATGAT ATTTTGGGAG ATGATGCAGC 1040

CTTTACAAGA AAAATAGGTC CGCAAATTAA TCAAGAATAC ATTGGCGAAG TTTATAGATA TATGGAAACT GCGACAGAAG 1120

AGGAGATTAA TGCGGTTATT GAAGAGAATA GAAAGAATIT TTATATCGAT CCAAATCTTA GCGAAGAAAG CCATAGATAT 1200

GCTGCAAGAT TACAAATTGG ATTTAAAAAA TTTCTTATTA ATAAAGGATA TGACGGATTT ACTGCGCATT TCGATGTGTT 1280

TAAAGGAGAT GGAAGATTCA AGCAAATTCC AATGATGGCT GCGTCAAATT TAATGGCTGA AGGATATGGA TATGCAGCAG 1360

AGGGTGATGC TGTAACTGCA AGTTTGGTTG CGGCAGGTCA TGTATTGATA GGAGATGCAC ATTTTACTGA GATGTACGCT 1440

ATGGATTITA AGAGAAATTC AATTTTAATG AGCCATATGG GCGAAGGTAA CTGGAAAATA GCAAGAAAGG ATAGACCGAT 1520

TAAACTTATT GATAGAGAAC TGGGCATTGG AAAACTTGAT AATCCGCCGA CAATTGTGTT TATGGCACAA CCTGGGCCAG 1600

CAACTCTTGT TTCTTTAGTA TCCTTAGAAG GAGAAAGATA TAGGTTAGTT GTGTCAAAAG GAGAAATTCT GGATACAGAA 1680

GAAGCAAAGT ATATTGAAAT GCCATATTTC CACTTTAGAC CTTCAACAGG TGTGAAGGCA TGTCTTGATG GATGGCTTAC 1760

AAATGGAGGA ACACATCATG AATGTTTAAA TCTAGGTGAT AACACACGGA GATGGAAAAT ATTATGTAAC CTCTTGGACA 1840

TTGAATATGT AGAAGTATAG GGGGATGAAA AATGGCAAAG TATTCAATTG GAATAGATTA CGGGACAGAG TCTGCAAGGG 1920

CTCTGCTCCT TAATCTTGAG ACGGGAGAAG AAGTAGCTAC TTCTGTAATG AATTATCCCC ATGGCGTGAT GGATGAAGAA 2000

CTTCCTGATG GAACAAAACT TCCACAAGAT TGGGCATTAC AACATCCAGA TGACTATATT GAAGTTTTAA AGAAAATAGT 2080

ACCTGATGTA ATAAATCAGG CAGGTATAGA CAAAGCTGAT GTAATAGGCT TAGGCATAGA TTTTACAGCT TGTACTATGT 2160

TGCCTATAAA AAAAGATGGA ACTCCTCTTT GTGACATCCC CCAGTACAAA TCGAACCCTC ATTCATATGT TAAGTTATGG 2240

AAACATCATG CTGCGCAACC TGAAGCAAAC AAATTGAATG AAATAGCATC ACAAAGGGGT GAGGATTTTT TAGCAAGGTA 2320

TGGAGGAAAA ATATCTTCAG AATGGCTCAT ACCCAAAATA TGGCAAATAT TAAATGAAGC GCCAGATATC TATGAAGAAG 2400

CTGATAAATT TATTGAAGCT ACTGATTGGG TTGTTATGAA GCTAACAGGT AATGAAAGGC GAAATAGCTG TACTGCAGGC 2480

TATAAAGCGA TTTGGCACAA AAGAAAGGGG TATCCTTCCA AAGATTTCTT TCGAGCATTA GATGAGAGGC TTGAAAATTT 2560

GGTAGAAGAA AAATTATCTA AAGATATATA TCCATTAGGT ACAAAAGCAG GGGAATTGAC GCCTGAAATG GCAAAAATAA 2640

TGGGCTTAAA CCCGGGAGTA GCGGTTGCTG TAGGCAATGT TGATGCTCAT GTTTCAGTAC CAGCAGTAGG AGTTACATCG 2720 CCAGGGAAAA TGGTAATGGT AATGGGAACT TCGATTTGCC ATTTGGTGTT AGATGATAAA GAAGTAGAGG TCCCAGGCAT 2800

GTGTGGCGTT GTAGAAGATG GAATTATACC AGGCTTTTAT GGATATGAAG CAGGACAATC TGCGGTTGGC GACATCTTTG 2880

CCTGGTTTGT TGATAATTGT GTGCCGTACG AATACAAAAT TGAAGCAGAA AAAAGAGGGA TAAGTATTCA CGAGTTATTA 2960

ACAGAAAAAG CCGCAAAGCT AAAACCCGGA GAAAGTGGCC TCTTGGCGAT TGACTGGTGG AACGGAAACA GGTCAGTACT 3040

AGTAGATGCA GACCTTACTG GTGTAATATT AGGAATGACT TTAACTACGA AACCTGAGGA GATATACAGA GCATTAATCG 3120

AAGCAACAGC TTTTGGGACG AGGATGATAA TTGATACTTT TAATCAAAAT GGAGTAAGTA TTAGTGAACT GTACGCTTGT 3200

GGAGGACTTC CTGAAAAAAA TCCTATGCTT ATGCAAATCT ATGCTGATGT TACAAATCTC GAAATTAAAG TATCAAAATC 3280

TTCACAAACA CCAGCACTTG GTGCAGCAAT GTTTGGAGCA GTTGCAGCAG GTAAAGCAAA AGGAGGGTTT GATAGTATAT 3360

TTGAAGCGGC ACGAGTAATA CCCAAGCTAA AGGAAGAAAC ATACAATCCA ATACCTGAAA ATGTTGAAAT ATATGATAAA 3440

TTATTTGAAG AATACAAACT TCTTCATGAC TATTTTGGCA GAGGTATAAA TAATGTAATG AAAAGGCTAA AAGCCTTAAA 3520

AGAGGGGGTT TCCAATGTTA GAGAAGCTTA AAGAACGAGT ATACAAAATG AATATGATGT TGCCGAAAAA TAATCTTGTT 3600

ACAATGACAA GTGGGAATGT CAGTGGAAGA GATGTTGAAA CAGGATATGT AGTTATAAAA CCAAGCGGGA TTCCTTATGA 3680

AGAAATGCAA CCAGAGGATA TGGTTGTGGT TGACCTTAA 3719

The open reading frame of the araA gene encoded 465 amino acid residues, corresponding to a molecular weight of 52,785 Da. The amino acid sequence of the AraA gene product (SEQ ID NO:2) deduced from the sequence of Table 1.1 is shown in the below Table 1.2.

Table 1.2. Amino acid sequence of AraA gene product of T. mathranii DSMZ 11426 (SEQ ID NO:2)

MQTKKKPQIG FLGIMQELYD DMLPGITERQ EKYAREVIEQ LQDVADFHFP 50

KAAKNRQDIE HIVKEFNEKD LDGIMIVMLT YGPATNIVNA LRNNKLPIML 100 ANIQPVPTVT ED DMGDLTY NQGVHGAQDT ANAILRMGIK CPIITEE HS 150

EEFKKFVGDW AKAVQTIKAL RNMKIAQFGR MHGMYDILGD DAAFTRKIGP 200

QINQEYIGEV YRYMETATEE EINAVIEENR KNFYIDPNLS EESHRYAARL 250

QIGFKKFLIN KGYDGFTAHF DVFKGDGRFK QIPMMAASNL MAEGYGYAAE 300

GDAVTASLVA AGHVLIGDAH FTEMYAMDFK RNSILMSHMG EGN KIARKD 350 RPIKLIDREL GIGKLDNPPT IVFMAQPGPA TLVSLVSLEG ERYRLVVSKG 400

EILDTEEAKY IEMPYFHFRP STGVKACLDG LTNGGTHHE CLNLGDNTRR 450 KILCNLLDI EYVEV 465

The amino acid sequence showed homology to previously known L-arabinose isome- rases. The percentage of identical amino acid residues was relatively low, 24-30%, when the T. mathranii sequence was aligned with other ara>4 genes (Fig. 4). In comparison, the identity level was above 46% within the reference group of previously known L-arabinose isomerases (Fig. 2). The L-arabinose isomerase amino acid sequences presently available in public sequence databases and the sequence from T. mathranii were subsequently used for construction of a phylogenetic tree (Fig. 3) using the ClustalX program (Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F. and Higgins, D.G. (1997) Nucleic Acids Res. 25: 4876-4882). One of the two colonies was selected for further use.

1.4. Heterologous production of T. mathranii L-arabinose isomerase in E. coli UP1089 cells

E. coli cells harbouring the L-arabinose isomerase gene were grown over night at 37°C in LB medium containing ampicillin (100 μg/ml). After centrifugation, the cells were resus- pended in 50 mM Tris-CI, pH 7.5 and lysed in a French pressure cell operated at 1100 psig. Cell debris was removed by centrifugation and the resulting cell extract was used for characterisation of the enzyme, as described below.

EXAMPLE 2

Characterisation of L-arabinose isomerase from T. mathrani produced in E. coli

2.1. Assay method

L-arabinose isomerase activity was determined as described by Yamanaka, K. and Wood, W.A. (1966) Methods in Enzymology 9: 596-602. Enzyme sample, 10-50 μl, was mixed with 950 μl of assay reagent and incubated at 65°C for 60 min. The final concentrations were: L-arabinose, 5 mM; MnCI₂, 5 mM; maleate buffer, pH 6.9, 25 mM. When galactose or fucose was used as a substrate, the concentration of D-galactose or D-fucose was 0.5 M and the incubation time was about 16 h.

The obtained concentrations of the ketoses L-ribuIose, D-tagatose or D-fuculose, respectively, were determined by the cysteine-carbazol-sulfuric acid method (Dische, Z. and Borenfreund, E. (1951) J. Biol. Chem. 192: 583-587). Samples were incubated at room temperature for 60 min and the absorbance at 560 nm was measured in a microplate reader. Standard curves showing the colour response of 0-5 mM ketose were made with D-tagatose and D-ribulose, since L-ribulose was not commercially available. (No standard curve was obtained for D-fuculose which was not commercially available.)

The concentrations of lactose, D-glucose, D-galactose, D-tagatose, L-ribulose and D- fuculose were determined by high pressure liquid chromatography using an Aminex HPX- 87C column (Bio-Rad) and a refractive index detector. The mobile phase was de-ionised, degassed water, the column temperature was 85°C, and the flow rate was 0.6 ml/min.

2.2. Temperature dependence

D-galactose assays performed at increasing temperatures between 45°C and 85°C showed highest activity at 65°C (Fig. 5).

2.3. pH dependence D-galactose assays performed at pH 4, 5, 6, 7, 8 and 9, respectively showed highest activity at pH 8 (Fig. 6). The buffer used for these assays was a mixture of 25 mM acetic acid, 25 mM 2-[N-morpholino]ethanesulfonic acid (MES), 5 mM MnCI₂, and 25 mM tris[hydroxymethyl]-aminomethane (TRIS), which was titrated with HCI or NaOH.

2.4. Metal ion requirement

A range of metal salts (MnCI₂, NaCI, KCI, MgSO₄, ZnSO₄, CuSO₄, and FeSO₄) were tested for their ability to reactivate enzyme which had previously been dialysed against a buffer containing 5 mM ethylenediaminetetraacetic acid (EDTA). Only addition of MnCI₂ (100%o) or FeSO₄ (76%) restored the L-arabinose isomerase activity.

Other L-arabinose isomerase enzymes from Escherichia coli (Patrick, J.W. and Lee, N (1968) J. Biol. Chem. 243: 4312-4318), Aerobacter aerogenes (Yamanaka, K. and Wood, W.A. (1966) Methods in Enzymology 9: 596-602), and Lactobacillus gayonii (Nakamatu, T. and Yamanaka, K. (1968) Biochim. Biophys. Ada 178: 156-165) have also been reported to require Mn²⁺.

2.5. Molecular weight

A native molecular weight of about 220 kDa was determined by gel filtration on a Super- dex 200 HR10/30 column (Amersham Pharmacia Biotech) and enzyme assay of collected fractions.

Sodium dodecyl sulphate polyacrylamide gel electrophoresis (SDS-PAGE) of collected fractions showed a subunit molecular weight of about 55 kDa, which is in good agreement with the subunit size of 53 kDa predicted from the DNA sequence of the araA open reading frame (465 amino acid residues). The identity of the 55-kDa L-arabinose isomerase band seen in SDS-PAGE was verified by electrophoretic transfer of the polypeptide to polyvinylidene difluoride (PVDF) membrane and N-terminal amino acid sequencing in an automated microsequencer. The N-terminal sequence, MQTKKK-, was identical to the amino acid sequence deduced from the DNA sequence of the araA gene from T. mathranii, as described above in Example 1. The observed native molecular weight of about 220 kDa and the subunit size of about 55 kDa suggest that the active enzyme is a tetramer. The corresponding enzyme in E. coli is a hexamer containing six identical subunits of about 60 kDa (Patrick, J.W. and Lee, N.J. (1969) J. Biol. Chem. 244: 4277-4283).

2.6. Substrate specificity

It has been reported previously that certain L-arabinose isomerase enzymes may isome- rise not only L-arabinose, but also D-galactose and D-fucose (Yamanaka, K. and Wood, W.A. (1966) Methods in Enzymology 9: 596-602). These sugars have the same configuration at Cι to C , including an L-cis configuration at C₂-C₃.

The molar ratio of keto-sugar generated by isomerisation of L-arabinose and D-galactose respectively, was determined at a substrate concentration of 0.5 M (pH 6.9, 65°C). The ratio was calculated from the cysteine-carbazol-sulfuric acid colour responses and the standard curves generated with ribulose and tagatose, respectively. This calculation showed that the D-galactose activity was 21% of the L-arabinose activity.

The colour response obtained with 0.5 M D-fucose was 46% of the corresponding response seen with L-arabinose. The molar ratio between the D-fucose and L-arabinose activity could not be calculated, since no standard curve was obtained for D-fuculose.

No significant enzyme activity was detected with other aldo-hexoses (D-glucose, D- mannose), other aldo-pentoses (D-arabinose, L-ribose, D-ribose, D-xylose), or with another deoxy-sugar (L-fucose).

2.7. Substrate affinity

The apparent Michaelis-Menten constants, _m, of the enzyme were about 80 mM for L- arabinose, about 120 mM for D-galactose, and about 145 mM for D-fucose. Previously reported values for other L-arabinose isomerases are shown in Table 2.1. The broad substrate specificity shown above and the similar K_m values for L-arabinose, D-galactose, and D-fucose suggest that the enzyme of the invention, compared to other L-arabinose isomerases, is a versatile aldose isomerase which is capable of isomerising a range of structurally related aldoses.

Table 2.1. Substrate affinity of L-arabinose isomerases: K_m values for L-arabinose. D- galactose and D-fucose

Origin of enzyme Reference L-arabinose D- D-fucose galactose

T. mathranii (produced in E. coli) this s wwoorrkk -80 mM ~ 120 mM ~ 145 mM

Aerobacter aerogenes 1 33 mM 370 mM 270 mM

Bacillus amyloliquefaciens 2 670 mM

Arthrobacter sp. 2 870 mM

Lactobacillus pentosus 2 1110 mM

Escherichia coli 3 60 mM

Lactobacillus plantarum 4 28 mM

Lactobacillus gayonii 5 55 mM

Mycobacterium smegmatis 6 ~ 30 mM

References cited in Table 2.1 :

1: Yamanaka, K. and Wood, W.A. (1966) Methods in Enzymology 9: 596-602 2: Ibrahim, O.O. and Spradlin, J.E., US patent no. 6,057,135 (Kraft Foods, Inc.) 3: Patrick, J.W. and Lee, N. (1968) J. Biol. Chem. 243: 4312-4318 4: Heath, E.C., Horecker, B.L, Smyrniotis, P.Z. and Takagi, Y. (1958) J. Biol. Chem. 231:1031-1037 5: Nakamatu, T and Yamanaka, K. (1969) Biochim. Biophys. Acta 178: 156-165 6: Izumori, K., Yeda, Y. and Yamanaka, K. (1978) J. Bacteriol. 133: 413-414 2.8. Enzymatic bioconversion of D-galactose to D-tagatose with non-immobilised enzyme

Free enzyme was used to demonstrate the bioconversion potential of the enzyme at elevated substrate concentrations. One-ml assay mixtures containing 0.20 ml of E. coli cell extract with recombinant L-arabinose isomerase from T. mathranii, 0.30 g of D-galactose (30%), 1.67 M) or 0.60 g of D-galactose (60%, 3.33 M), 25 mM maleate buffer, pH 6.9 and 5 mM MnCI₂ were incubated at 65°C. Control samples without enzyme were treated simi- larly. Periodically, samples were taken and the concentration of D-tagatose was determined by the cystein-carbazol-sulfuric acid method as described above. The results are shown in Table 2.2A (30% D-galactose) and 2.2B (60% D-galactose).

Table 2.2A. Bioconversion of D-galactose to D-tagatose with free enzyme

Initial cone, of D-galactose 30% (1.67 M)

Incubation time Cone, of Percent bioconver¬

<h) D-tagatose (mM) sion

0 0 0

24 427 25

48 450 26

72 422 25

Table 2.2B. Bioconversion of D-galactose to D-tagatose with free enzvme.

Initial concentration of D-qalactose 60% (3.33 M)

Incubation time Cone, of Percent bioconver¬

(h) D-tagatose (mM) sion

0 0 0

24 462 14

48 542 16

72 622 19

EXAMPLE 3 Bioconversion of D-galactose to D-tagatose with immobilised enzyme

3.1. Enzyme immobilisation by cross-linking with glutaraldehyde and polyethylenimine

5 Cells from a 2-liter culture of E. coli cells producing L-arabinose isomerase were collected by centrifugation and homogenised in a French Pressure Cell as described above. The enzyme was immobilised by cross-linking all cell components with glutaraldehyde and polyethylenimine as described in US 4,355,105. Glutaraldehyde, 25 % (w/v), was obtained from Merck, Darmstadt, Germany and polyethylenimine, 50 % (w/v), was obtained 10 from Sigma Chemicals. The cross-linked enzyme was recovered by centrifugation, and the pellet was lyophilised and stored at 4°C until further use.

The activity of the immobilised enzyme was determined by incubation of 20 mg of freeze- drϊed enzyme in a one-ml assay mixture containing 0.30 g of D-galactose (30%, 1.67 M),

15 25 mM maleate buffer, pH 6.9 and 5 mM MnCI₂ at 65°C. A control sample without enzyme was treated similarly. Periodically, samples were taken and the concentration of D- tagatose was determined by high-pressure liquid chromatography. The yield of immobilised enzyme was generally 60-100 units per liter of E. coli cell culture, and the recovery of enzyme activity after immobilisation was about 50%. The specific activity of

20 the immobilised enzyme preparation was about 55 units per gram freeze-dried enzyme. One unit was defined as the amount of enzyme producing one micromole of D-tagatose per min at 65°C, pH 6.9, in a 30%) (w/v) solution of D-galactose.

3.2. Enzymatic bioconversion of D-galactose to D-tagatose with cross-linked, immobilised 25 enzyme

One-ml assay mixtures containing 40 mg of freeze-dried enzyme (2.2 units), 0.30 g of D- galactose (30%, 1.67 M), 25 mM maleate buffer, pH 6.9 and 5 mM MnCI₂ were incubated at 65°C. A control sample without enzyme was treated similarly. Periodically, samples 30 were taken and the concentration of D-tagatose was determined by high pressure liquid chromatography. The results are shown in Table 3.1. Table 3.1. Bioconversion of D-galactose to D-tagatose with cross-linked, immobilised enzyme

Incubation time Concentration of Percent bioconver¬

(h) D-tagatose (mM) sion³

0 0 0

2 182 11

4 249 15

6 317 19

24 593 36

48 700 42

^a The inital concentration of galactose was 30% (w/v) corresponding to 1.67 M

3.3. Long-term stability of the immobilised enzyme

A sample of freeze-dried enzyme (40 mg, 2.2 units) was incubated at 65°C in a one-ml assay mixture containing 0.30 g of D-galactose (30%, 1.67 M), 25 mM maleate buffer, pH 6.9 and 5 mM MnCI₂. Samples for determination of the concentration of D-tagatose were taken at 0 h and 24 h and analysed by HPLC as described above. After sampling at 24 h the sugar solution above the immobilised enzyme was removed, and fresh assay solution was added to a final volume of 1.0 ml. The 24-h incubation was repeated four times using the same enzyme sample for all the galactose-to-tagatose conversion cycles.

The final concentration of tagatose after conversion for 24 h remained constant (average 529 mM ± 5%) during repeated bioconversions with the same enzyme sample (Table 3.2), and even after operation for more than 100 h at 65°C the enzyme showed no sign of a reduced reaction rate. The experiment demonstated that the immobilised enzyme is a stable bio-catalyst which may be used for multiple, repeated bioconversions of galactose to tagatose. Table 3.2 Long-term stability of the immobilised enzyme

Cycle Time Tagatose Tagatose no. (h) cone. production

(mM) during 24 h (mM)

1 0 0

524

24 524

2 24 165^*

339

48 504

3 48 148*

408

72 556

4 72 153*

364

96 517

5 96 142*

400

120 542

^* The concentration of tagatose determined at the beginning of cycles 2, 3, 4 and 5 originated from dilution of the tagatose found in the residual assay solution surrounding the immobilised enzyme after the preceding 24-h incubation.

EXAMPLE 4

Single-reactor conversion of lactose to tagatose with immobilised lactase and immobilised isomerase

The combined use of a thermostable, immobilised lactase and a thermostable immobilised L-arabinose isomerase for direct, high-temperature conversion of lactose to tagatose in a single reactor was demonstrated. The enzyme selected for lactose hydrolysis was the extremely thermostable β-glycosidase from the thermoacidophilic archaeon Sulfolobus solfataricus (Moracci, M., Ciaramella, M. and Rossi, M. [2001] Methods in Enzymology 330: 201-15). This broad-spectrum enzyme is an efficient lactase, and it has successfully been cloned and expressed in E. coli and other microbial host organisms (ibid.). While most of the previously characterised lactases are strongly inhibited by galactose, this particular enzyme has been reported not to be inhibited by galactose, and to be only moderately inhibited by glucose (Pisani, F.M., Rella, R., Raia, C.A., Rozzo, O, Nucci, R., Gambacorta, A., De Rosa, M. and Rossi, M. [1990] Eur J Biochem. 187:321-328).

Pisani et al 1990). These favourable properties with regard to end-product inhibition were expected to be highly advantageous for hydrolysis of lactose at a high substrate concentration such as 30% (w/v). Furthermore, the S. solfataricus enzyme requires no cofactor, unlike, for example, the β-galactosidase from £. coli which is Mg²⁺ dependent. Therefore, only the cofactor required by the T. mathranii isomerase, manganese ions, had to be included in the reaction medium, thus excluding any influence from a cofactor required by the lactase.

4.1. Heterologous production in E. coli and immobilisation of β-glycosidase from Sulfolobus solfataricus

The β-glycosidase encoding gene from Sulfolobus solfataricus was cloned and expressed in £. coli. The gene was isolated by polymerase chain reaction (PCR) using purified chromosomal DNA from Sulfolobus solfataricus strain P2. Primers containing additional restriction sites for Nde\ and BamhH were designed to yield the entire coding sequence on a fragment which was subsequently cloned into the standard expression plasmid pET3a (Novagen).

E. coli cells producing the enzyme were cultivated, harvested by centrifugation, lysed in a French pressure cell and cross-linked with glutaraldehyde and polyethylenimine as described in US 4,354,105. The immobilised enzyme was recovered by centrifugation and lyophilisation of the pellet. The activity of the immobilised lactase was 1500 units/g dry weight. One unit was defined as the amount of enzyme liberating one micromole of glucose per min at 65°C, pH 6.5, in a 30% (w/v) solution of lactose.

4.2. Heterologous production in E. coli and immobilisation of L-arabinose isomerase from Thermoanaerobacter mathranii L-arabinose isomerase from Thermoanaerobacter mathranii was produced in £. coli and immobilised as described above in Example 3.1.

4.3. Single-reactor conversion of lactose to tagatose with immobilised lactase from S. solfataricus and immobilised L-arabinose isomerase from T. mathranii

One-ml assay mixtures containing 20 mg (30 units) of immobilised lactase, 80 mg (4.4 units) of immobilised isomerase, 0.30 g of lactose (30%, 875 mM), 25 mM K-maleate buffer, pH 6.9, and 5 mM MnCI₂ were incubated at 65°C. A control sample without enzymes was treated similarly. Periodically, samples were taken and the concentrations of glucose, galactose and tagatose were determined by high pressure liquid chromatography. As shown in Fig. 7, the concentration of glucose increased to about 800 mM over 24h, indicating that almost all lactose was hydrolysed to galactose and glucose. The concentration of tagatose increased linearly to about 300 mM over 24h, indicating a bioconversion of about 38% (300 mM/800 mM).

The successful hydrolysis of lactose and the subsequent isomerisation of galactose to tagatose demonstrated that the two enzymes involved were able to operate under the same reaction conditions with regard to pH, temperature, buffer components and metal- ion concentration (5 mM MnCI₂ ). In addition, it was demonstrated that the isomerase enzyme is unaffected by the high concentration of glucose present as a result of the lactose hydrolysis.

REFERENCES

Altschul, S.F., Gish, W., Miller, W., Myers, E.W. and Lipman, D.J. (1990) J. Mol. Biol.

215:403-10 Dische, Z. and Borenfreund, E. (1951) J. Biol. Chem. 192: 583-587

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15

Claims

1. An isolated L-arabinose isomerase active enzyme derived from a Thermoanaerobacter species or an isomerase active fragment hereof.

2. The isomerase of claim 1 which is derived from Thermoanaerobacter mathranii.

3. The isomerase of claim 1 or 2 showing at least one of the following characteristics:

(i) optimum activity at a temperature in the range of 60 to 80°C,

(ii) optimum activity at a pH in the range of 7 to 9,

(iii) capable of isomerising at least one aldopentose and at least one aldohexose,

4. The isomerase of claim 3 which is capable of isomerising L-arabinose, D-galactose and D-fucose.

5. The isomerase of claim 1 having the amino sequence of SEQ ID NO: 2.

6. An L-arabinose isomerase capable of ϊsomerizing D-galactose to D-tagatose, which isomerase has at least 70% sequence identity to the sequence of SEQ ID NO:2.

7. The L-arabinose isomerase of claim 6, which isomerase has at least 90% sequence identity to the sequence of SEQ ID NO:2.

8. An isomerase active fragment of the L-arabinose isomerase of claim 6.

9. A nucleic acid coding for L-arabinose isomerase or an L-arabinose isomerase active fragment hereof, selected from the group consisting of: (i) a wild type nucleic acid isolated from a Thermoanaerobacter species and (ii) a nucleic acid sequence that is capable of hybridising with the sequence of (i) under stringent conditions.

10. The nucleic acid of claim 9 where the wild type nucleic acid is isolated from Thermo- anaerobacter mathranii.

11. The nucleic acid of claim 9, which nucleic acid codes for the amino acid sequence as depicted in SEQ ID NO:2, or an isomerase active fragment thereof

5 12. The nucleic acid of claim 9, having the nucleic acid sequence of SEQ ID NO:1 , or a fragment thereof coding for an isomerase active fragment.

13. A nucleic acid construct comprising the nucleic acid of claim 9.

10 14. The construct of claim 13 which is a construct selected from the group consisting of a plasmid, a chromosome, a bacteriophage, a transposon and a cosmid.

15. A cell that is transformed with the nucleic acid of claim 9 or the construct of claim 13.

15 16. A method of converting an aldose into a ketose comprising contacting the aldose with the isomerase of claim 1 and keeping the reaction under conditions where at least 1 % by weight of the aldose is converted.

17. The method of claim 16 wherein the aldose is selected from the group consisting of L- 20 arabinose, D-galactose and D-fucose.

18. The method of claim 16 wherein the reaction takes place at a temperature of at least 60°C.

25 19. The method of claim 16 wherein at least 10% by weight of the substrate aldose is converted to its corresponding ketose.

20. The method of claim 19 wherein at least 25% by weight of the substrate aldose is converted into its corresponding ketose.

30

21. The method of claim 19 wherein the ketose is D-tagatose.

22. The method of claim 16 wherein the L-arabinose isomerase is provided as an isolated enzyme preparation.

35

23. The method of claim 16 wherein the isolated enzyme preparation is immobilised.

24. The method of claim 16, further comprising the step of hydrolysing lactose to obtain D- galactose by use of a lactase-active enzyme, wherein D-galactose is converted to D- tagatose.

25. The method of claim 24 wherein the lactase is immobilised and the isomerase enzyme preparation is immobilized, and wherein the lactose hydrolysation and the aldose isomerisation takes place in the same reactor.

26. The method of claim 24 wherein the lactase-active enzyme is β-glycosidase.

27. A method of producing D-tagatose comprising hydrolyzing lactose by contacting the lactose with a lactase-active enzyme to yield glucose and D-galactose, and converting at least a portion of the obtained D-galactose to D-tagatose by contacting the D- galactose with an L-arabinose isomerase-active enzyme, wherein said lactase-active enzyme and said L-arabinose isomerase-active enzyme are contained in the same reactor unit under essentially the same reaction conditions including a temperature in the range of about 60 to about 100°C.

28. The method of claim 27, where the lactase-active enzyme and L-arabinose isomerase-active are immobilised.

29. The method of claim 27, wherein the reactions are carried out at a temperature in the range of about 60 to about 80°C, including the range of about 65-80°C.

30. A method of producing L-arabinose isomerase, comprising transforming a cell with the nucleic acid of claim 9 and operably linking thereto appropriate expression signals directing the expression of the isomerase and, optionally, sequences directing the se- cretion of the isomerase, propagating said transformed cell and harvesting the progeny cells containing the isomerase or, if it is secreted into the medium, the excreted isomerase.

31. The method according to claim 30 wherein the cell being transformed is a cell selected from the group consisting of a bacterial cell, a yeast cell and a cell of a filamentous fungus.

5 32. The method of claim 30 comprising the further step of purifying the L-arabinose isomerase from the progeny cells or the medium to obtain an L-arabinose isomerase preparation.

33. The method of claim 32 wherein the isomerase is purified to an extent where it is es- 10 sentially without any other proteins.

34. The method of claim 33 comprising the further step of drying the preparation to a moisture content of at the most 10% by weight.

15 35. A composition comprising the isomerase of claim 1 in an immobilised form.