- Research article
- Open Access
Characterization of recombinant β-fructofuranosidase from Bifidobacterium adolescentisG1
© Omori et al 2010
- Received: 17 January 2010
- Accepted: 12 April 2010
- Published: 12 April 2010
We have previously reported on purification and characterization of β-fructofuranosidase (β-FFase) from Bifidobacterium adolescentis G1. This enzyme showed high activity of hydrolysis on fructo-oligosaccharides with a low degree of polymerization. Recently, genome sequences of B. longum NCC2705 and B. adolescentis ATCC 15703 were determined, and cscA gene in the both genome sequences encoding β-FFase was predicted. Here, cloning of cscA gene encoding putative β-FFase from B. adolescentis G1, its expression in E. coli and properties of the recombinant protein are described.
Using the information of cscA gene from Bifidobacterium adolescentis ATCC 15703, cscA gene from B. adolescentis G1 was cloned and sequenced. The N-terminal amino acid sequence of purified β-FFase from B. adolescentis G1 was identical to the deduced amino acid sequences of cscA gene from B. adolescentis G1. To confirm the translated product of the cscA gene, the recombinant protein was expressed in Escherichia coli. Molecular mass of the purified recombinant enzyme was estimated to be about 66,000 by SDS-PAGE and 60,300 by MALDI TOF-MS. The optimum pH of the enzyme was 5.7 and the enzyme was stable at pH 5.0-8.6. The thermostability of the enzyme was up to 50°C. The Km (mM), Vmax (μmol/mg of protein/min), k0 (sec-1) and k0/Km(mM-1 sec-1) for 1-kestose, neokestose, nystose, fructosylnystose, sucrose and inulin were 1.7, 107, 107.5, 63.2, and 1.7, 142, 142.7, 83.9, and 3.9, 152, 152.8, 39.2, and 2.2, 75, 75.4, 34.3, and 38, 79, 79.4, 2.1, and 25.9, 77, 77.4, 3.0, respectively. The hydrolytic activity was strongly inhibited by AgNO3, SDS, and HgCl2.
The recombinant enzyme had similar specificity to the native enzyme, high affinity for 1-kestose, and low affinity for sucrose and inulin, although properties of the recombinant enzyme showed slight difference from those of the native one previously described.
- Recombinant Protein
- Sodium Phosphate Buffer
- Recombinant Enzyme
Bifidobacteria are saccharolytic anaerobes generally present in human intestine. Growth of bifidobacteria is selectively promoted by prebiotics .
Fructo-oligosaccharides, such as 1-kestose, nystose and fructosylnystose, consist of β-2,1-linked fructose to sucrose, and they are naturally contained in artichoke tubers , chicory roots  and burdock roots [4, 5]. These saccharides have been produced and commercially manufactured from sucrose with bacterial fructosyltransferase  and β-fructofuransidases (β-FFases) [7–9], and have been on the market as prebiotics. Fructo-oligosaccharides are not hydrolyzed by digestive enzymes of mammalian origin, so they are able to reach large intestine, and to be selectively degraded by the resident microbes, such as bifidobacteria.
We have already reported that B. adolescentis G1 were isolated from feces of human adults, and produce the unique β-FFase which has high affinity toward 1-kestose, nystose and fructosylnystose [10–12]. Recently, genome sequences of B. longum NCC2705 (accession no. AE014295) and B. adolescentis ATCC 15703 (AP009256) were determined, and cscA gene in the both genome sequences encoding β-FFase was predicted . The recombinant β-FFase from B. infantis , B. lactis  and B. longum  have been studied using mixtures of fructo-oligosaccharides (Actilight, Raftilose and Raftiline) as a substrate, although detailed substrate specificity of the enzyme to sole fructo-oligosaccharide remains unclear. In our previous study purification and the substrate specificity of β-FFase from B. adolescentis G1 was demonstrated [10, 11]. However, we have not revealed the gene encoding β-FFase from B. adolescentis G1 yet. This study is aimed at cloning of cscA gene from B. adolescentis G1 and characterizing the recombinant protein of cscA gene expressed in Escherichia coli.
Deduced amino acid sequence of cscA gene from B. adolescentis G1
Heterologous expression and purification of recombinant protein
Summary of purification procedure recombinant β-FFase.
Total protein (mg)
Total activity (units)
Specific activity (units/mg)
Metal affinity resins
Effects of pH and temperature
Effects of various metal salts and chemical reagents
Effects of various metal salts or chemical reagents on recombinant β-FFase.
Relative activity (%)
Deoxycholic acid sodium salt
Substrate specificity and kinetic parameters
Rate parameters of recombinant β-FFase.
K m a)
V max b)
k 0 c)
The recombinant protein indicated a higher relative efficiency for fructo-oligosaccharides such as 1-kestose, neokestose and nystose than sucrose and inulin. The result is in similar to the kinetic parameters from native enzyme . Janer et al reported that recombinant β-FFase from B. lactis (72% identity with amino acid sequence from B. adolescentis G1 β-FFase) showed high affinity to low molecular fructans (Raftilose, DP < 5) compared to low or high polymerized inulin (Raftiline LS or HP) or sucrose . These observations were very similar to our result. Some properties (pH-optima, pH-stability, temperature-stability, effects of various metal salts or chemical reagents) are different between the recombinant and native enzymes, but the characterization are similar each other. We investigated substrate specificity for neokestose in this study, although it was not used in the previous research. Neokestose (β-D-fructofuranosyl (2->6) -α-D-glucopyranosyl-(1<->2)-β-D-fructofuranoside) and its related fructo-oligosaccharides are contained in onion bulbs and asparagus roots. Neokestose and the related saccharides were reported to be synthesized by fructan:fructan 6 G -fructosyltransferase from the vegetables [23, 24]. Recombinant β-FFase from B. adolescentis G1 preferentially hydrolyzed neokestose rather than 1-kestose. The enzyme hydrolyzes not only terminal β-2,1 fructoside bond of 1-kestose or nystose, but also β-2,6 fructoside bond (fru-2-6-glc) of neokestose. The result indicated that neokestose had potentiality to be a good efficient prebiotics, which can promote the human health due to growth of bifidobacteria in the gut.
Our result exhibited that the recombinant β-FFase from B. adolescentis G1 had unique properties to hydrolyze preferably low DP fructo-oligosaccharides as well as native one. We suppose that research about β-FFase efficiently to hydrolyze fructo-oligosaccharides is to be of much help for developing more effective prebiotics, probiotics and synbiotics.
In this article, cloning the cscA gene from Bifidobacterium adolescentis G1 and characterization of the recombinant protein of cscA gene expressed in Escherichia coli were described. Molecular mass of the purified recombinant enzyme was estimated to be about 66,000 by SDS-PAGE and 60,300 by MALDI TOF-MS. The optimum pH of the enzyme was 5.7 and the enzyme was stable at pH 5.0-8.6. The thermostability of the enzyme was up to 50°C. The Km (mM), Vmax (μmol/mg of protein/min/), k0 (sec-1) and k0/Km (mM-1 sec-1) for 1-kestose, neokestose, nystose, fructosylnysotse, sucrose and inulin were 1.7, 107, 107.5, 63.2, and 1.7, 142, 142.7, 83.9, and 3.9, 152, 152.8, 39.2, and 2.2, 75, 75.4, 34.3, and 38, 79, 79.4, 2.1, and 25.9, 77, 77.4, 3.0, respectively. The hydrolytic activity was strongly inhibited by AgNO3, SDS, HgCl2. The recombinant enzyme had similar specificity to the native enzyme, high affinity for 1-kestose, and low affinity for sucrose and inulin, although properties of the recombinant enzyme showed slight difference from those of the native one previously described.
Bacterial strains, plasmids and culture condition
B. adolescentis G1 was cultured in GAM broth (Nissui Pharmaceutical Co., Ltd, Tokyo, Japan), and then, it was used for the extraction of genomic DNA. Escherichia coli DH5α was used as host cell with the plasmid pGEM-T vector (Promega, Madison, WI, USA) for cloning and sequencing. Escherichia coli Rosetta2 (DE3) (Novagen, Madison, WI, USA) was used as host cell with the plasmid pET-32b (+) vector (Novagen) for protein expression. E. coli strains were grown in Luria Bertani (LB) medium supplemented with 100 μg/ml carbenicillin.
Analysis of N-terminal amino acid Sequences
N-terminal sequences of β-FFase purified from Bifidobacterium adolescentis G1 was determined by ABI 477A protein sequencer/120A PTH analyzer system.
After grown B. adolescentis G1 in GAM broth, the cells were collected by centrifugation (1,700 × g, 10 min, 4°C) and the supernatant was removed, the precipitate was resuspended by adding 20 mM Tris-HCl buffer (pH 8.0), and centrifugated (1,700 × g, 10 min, 4°C). Genomic DNA was extracted from the precipitate by DNeasy Tissue Kit (Qiagen, Courtaboueuf, France).
Based on cscA gene encoding β-FFase from Bifidobacterium adolescentis ATCC 15703 [accession no. AP009256, protein ID BAF39931], a 1,659 bp of DNA including cscA gene from B. adolescentis G1 was amplified by PCR using B. adolescentis G1 genomic DNA as a template and using G1FFase1-for (5'-CCCAACAATTCATAACCCAG-3') and G1FFase2-rev (5'-TTCCCATATACCCCTTGCTA-3') as primers. PCR condition was: initial step of denaturation by 94°C for 2 min, followed by 30 cycles of 94°C for 15 sec, 57°C for 30 sec and 68°C for 90 sec, and then a final step at 68°C for 10 min using of KOD-plus- (Toyobo, Osaka, Japan). After adenine was attached to the PCR products by A addition kit (Qiagen), these products were ligated into pGEM-T vector using T4 DNA ligase (Promega) and E. coli DH5α was transformed by the resulting vector. The transformants were grown and harvested, and the plasmids were isolated by Sigma GenElute Plasmid Mini-Prep Kit (Sigma-Aldrich, St. Louis, MO, USA), and its insert DNA was sequenced. The plasmid was named pGEM-G1cscA.
Expression of a recombinant protein in E. coli
For construction of expression vector, cscA gene was amplified by PCR using pGEM-G1cscA as a template. Primers used were ffaseNtEcoRI-for (5'-TCCGAATTCGATGACTGGCTTTACTCCGGA-3') and ffaseCtXhoI-rev (5'-TTGCTCGAGTTCCAGTCCGATGGACTTCAT-3'). These primers had recognition sequence of EcoRI and XhoI, respectively. PCR condition was: initial step of denaturation by 94°C for 2 min, followed by 30 cycles of 94°C for 15 sec, 57°C for 30 sec and 68°C for 60 sec, and then a final step at 68°C for 7 min using of KOD-plus-. The PCR product was digested with EcoRI and XhoI, followed by ligation into pET-32b (+) vector cleaved with the same restriction enzyme using Quick T4 DNA ligase (New England Biolabs, Inc., Ipswich, MA). Finally, E. coli Rosetta2 (DE3) was transformed by the ligated pET vector. Resulting plasmid was named pET-G1cscA. The nucleotide sequence of the plasmid was analyzed by ABI 3730 × l sequencer (Applied Biosystems, Foster City,. CA, USA), and confirmed it had no error. The transformants were selected on LB agar plates containing 100 μg/ml carbenicillin. A single colony of transformant was inoculated into 26 ml LB broth containing 100 μg/ml carbenicillin and grown in a shaking incubator at 37°C until the cell density at 600 nm reached 0.4. By adding 1 mM isopropyl-β-D-thiogalactopyranoside (IPTG), and then, incubated for an additional 3 h, recombinant protein was induced. The cells were harvested by centrifugation (10,000 × g, 5 min, 4°C) and washed twice with 20 mM Tris-HCl. Finally, the cells were harvested by centrifugation (5,000 × g, 5 min, 4°C), and stored at -80°C until the preparation of the crude enzyme.
Purification of recombinant protein
All operations were done at 4°C. The cells were suspended in 8 ml wash buffer (50 mM NaH2PO4, 0.3 M NaCl, pH 7.5) containing protease inhibitor cocktail EDTA-free (Roche Molecular Biochemicals, Mannheim Germany), and the suspension was disrupted by ultrasonication. Supernatant after centrifugation (12,000 × g, 5 min) was used as the crude extract. The recombinant protein was purified from the crude extract by His-tag affinity resin (TALON CellThru Resin, Takara-Bio, Kyoto, Japan) according to the manufacturer's instructions. The active fraction was dialyzed for 1 day against the 10 mM sodium phosphate buffer (pH 7.5). To remove the His-tag peptides from recombinant protein in the purified fraction, recombinant enterokinase (rEK, Novagen) was used according to the manufacturer's instructions. The treated fraction was dialyzed for 1 day against the 10 mM sodium phosphate buffer (pH 7.5). This dialyzate was applied to a column (ϕ 1.7 cm × 20.2 cm) of DEAE-Sepharose CL-6B (GE Healthcare, Milwaukee, WI, USA) equilibrated with the same buffer. The adsorbed proteins were eluted with a linear gradient of sodium chloride from 0 to 1.0 M in the same buffer at the flow rate of 30 ml/h. The active fraction was dialyzed against 50 mM sodium phosphate buffer containing 0.1 M NaCl (pH 7.5) for 1 day, and the dialyzate was concentrated by ultrafiltration with Vivaspin 20 (30,000 MWCO, Sartorius, Germany). The ultrafiltrate was filtered on a column (ϕ 2.4 cm × 67 cm) of Toyopearl HW-55S (Tosoh Co. Ltd, Tokyo, Japan) equilibrated with 50 mM sodium phosphate buffer containing 0.1 M NaCl (pH 7.5) at the flow rate of 30 ml/h. The active fraction was used as the purified enzyme solution.
Measurement of molecular mass
SDS-PAGE was conducted on a 12.5% (v/w) polyacrylamide gel by the method of Laemmli . Proteins in the gel were stained with Coomassie Brilliant Blue R-250. LMW Marker (GE Healthcare) was used as molecular mass marker. The concentration of protein was spectrophotometrically measured at 280 nm. MALDI TOF-MS spectra were measured using a Shimadzu-Kratos mass spectrometer (KOMPACT Probe) in positive ion mode with 10 mg sinapic acid dissolved in 600 μl trifluoroacetic acid and 400 μl acetonitrile as a matrix. Ions were formed by a pulsed UV laser beam (nitrogen laser, 337 nm). Calibration was done using bovine serum albumin (BSA) as an external standard.
For the measurement of β-FFase activity, 50 μl of 20 mM 1-kestose in distilled water was mixed with 25 μl of 0.2 M sodium phosphate buffer (pH 5.7) and 25 μl of purified enzyme solution and incubated at 37°C for 10 min. The reaction was stopped by boiling for 5 min. One unit of β-FFase activity was defined as the amount of enzyme which produced 1 μmol of fructose per min under the above reaction conditions. For quantification of fructose, high performance anion exchange chromatography (HPAEC) was done on a DX300 chromatograph (Dionex Corp., Sunnyvale, USA) with a CarboPac PA-1 anion exchange column (Dionex Corp.) and a pulsed amperometric detector (PAD) as described previously .
For the determination of optimum pH, McIlvaine buffer with pH range 3.0-8.5 were used. The reaction was stopped by adding 900 μl of 150 mM NaOH.
To investigate the pH stability of enzyme, the mixture of 25 μl of Britton- Robinson buffer with pH range 3.0-10.0 and 25 μl of purified enzyme solution containing 0.1% BSA was kept at 4°C for 20 h, then the mixture was adjusted to pH 5.7, and incubated with 10 mM 1-kestose at 37°C for 10 min. The reaction was stopped by heating the samples at 100°C for 5 min.
For temperature stability profiles, 25 μl of 0.2 M sodium phosphate buffer (pH 5.7) and 25 μl of purified enzyme solution containing 0.1% BSA were mixed, and they were incubated at 4, 30, 40, 45, 50, 55, 60 and 65°C for 15 min, respectively, and then, each solution was cooled to 0°C. The mixtures were incubated with 50 μl of 20 mM 1-kestose at 37°C for 10 min. The reaction was stopped by heating the samples at 100°C for 5 min.
The effects of metal salts and chemical reagents on the enzyme activity were investigated. The reaction mixture, 25 μl of 40 mM 1-kestose, 25 μl of 0.2 M sodium phosphate buffer (pH 5.7), 10 μl of each metal salt or chemical reagents, 15 μl of distilled water and 25 μl purified enzyme was incubated at 37°C for 10 min. The reaction was stopped by boiling for 5 min.
To measure rate parameters of hydrolysis against different substrates, a reaction mixture containing 50 μl of each substrate at various concentrations, 25 μl of 0.2 M sodium phosphate buffer (pH 5.7) and 25 μl of enzyme solution was incubated at 37°C for 10 min. Molecular activities (k0) were calculated by using maximum velocities (Vmax) and relative molecular mass of the enzyme.
- Gibson GR, Roberfroid MB: Dietary modulation of the human colonic microbiota: introducing the concept of prebiotics. J Nutr. 1995, 125: 1401-1412.Google Scholar
- Bacon JSD, Edelman J: The carbohydrates of the Jerusalem artichoke and other compositae. Biochem J. 1951, 48: 114-126.View ArticleGoogle Scholar
- Ende Van den W, Mintiens A, Speleers H, Onuoha AA, Van Laere A: The metabolism of fructans in roots of Cichorium intybus during growth, storage and forcing. New Phytol. 1996, 132: 555-563. 10.1111/j.1469-8137.1996.tb01874.x.View ArticleGoogle Scholar
- Ishiguro Y, Ueno K, Abe M, Onodera S, Fukushi E, Benkeblia N, Shiomi N: Isolation and structural determination of reducing fructooligosaccharides newly produced in stored edible burdock. J Appl Glycosci. 2009, 56: 159-164.View ArticleGoogle Scholar
- Abe M, Ueno K, Ishiguro Y, Omori T, Onodera S, Shiomi N: Purification, cloning and functional characterization of fructan: fructan 1-fructosyltransferase from edible burdock (Arctium lappa L.). J Appl Glycosci. 2009, 56: 239-246.View ArticleGoogle Scholar
- van Balken JAM, van Dooren ThJGM, Tweel van den WJJ, Kamphuis J, Meijer EM: Production of 1-kestose with intact mycelium of Aspergillus phoenicis containing sucrose-1F-fructosyltransferase. Appl Microbiol Biotechnol. 1991, 35: 216-221.View ArticleGoogle Scholar
- Takeda H, Sato K, Kinoshita S, Sasaki H: Production of 1-kestose by Scopulariopsis brevicaulis . J Ferment Bioeng. 1994, 77: 386-389. 10.1016/0922-338X(94)90009-4.View ArticleGoogle Scholar
- Hirayama M, Sumi N, Hidaka H: Purification and properties of a fructooligosaccharides-producing β-fructofuranosidase from Aspergillus niger ATCC 20611. Agric Biol Chem. 1989, 53: 667-673.Google Scholar
- Hidaka H, Adachi T, Tokunaga T, Nakajima Y, Kono T: The road of fructooligosaccharide research and business development. Recent Advances in Fructooligosaccharides Research. Edited by: Shiomi N, Benkeblia N, Onodera S. 2007, Kerala: Research Signpost Publisher, 375-395.Google Scholar
- Muramatsu K, Onodera S, Kikuchi M, Shiomi N: Purification and some properties of β-fructofuranosidase from Bifidobacterium adolescentis G1. Biosci Biotechnol Biochem. 1993, 57: 1681-1685. 10.1271/bbb.57.1681.View ArticleGoogle Scholar
- Muramatsu K, Onodera S, Kikuchi M, Shiomi N: Substrate specificity and subsite affinities of β-fructofuranosidase from Bifidobacterium adolescentis G1. Biosci Biotechnol Biochem. 1994, 58: 1642-1645. 10.1271/bbb.58.1642.View ArticleGoogle Scholar
- Muramatsu K, Onodera S, Kikuchi M, Shiomi N: The production of β-fructofuranosidase from Bifidobacterium spp. Biosci Biotechnol Biochem. 1992, 56: 1451-1454. 10.1271/bbb.56.1451.View ArticleGoogle Scholar
- Schell MA, Karmirantzou M, Snel B, Vilanova D, Berger B, Pessi G, Zwahlen MC, Desiere F, Bork P, Delley M, Pridmore RD, Arigoni F: The genome sequence of Bifidobacterium longum reflects its adaptation to the human gastrointestinal tract. Proc Natl Acad Sci USA. 2002, 99: 14422-14427. 10.1073/pnas.212527599.View ArticleGoogle Scholar
- Warchol M, Perrin S, Grill JP, Schneider F: Characterization of a purified β-fructofuranosidase from Bifidobacterium infantis ATCC 15697. Lett Appl Microbiol. 2002, 35: 462-467. 10.1046/j.1472-765X.2002.01224.x.View ArticleGoogle Scholar
- Janer C, Rohr LM, Pelaez C, Laloi M, Cleusix V, Requena T, Meile L: Hydrolysis of oligofructoses by the recombinanant β-fructofuranosidase from Bifidobacterium lactis . Syst Appl Microbiol. 2004, 27: 279-285. 10.1078/0723-2020-00274.View ArticleGoogle Scholar
- Kullin B, Abratt VR, Reid SJ: A functional analysis of the Bifidobacterium longum cscA and scrP genes in sucrose utilization. Appl Microbiol Biotechnol. 2006, 72: 975-81. 10.1007/s00253-006-0358-x.View ArticleGoogle Scholar
- Reddy VA, Maley F: Identification of an active-site residue in yeast invertase by affinity labeling and site-directed mutagenesis. J Biol Chem. 1990, 265: 10817-10820.Google Scholar
- Reddy A, Maley F: Studies on identifying the catalytic role of Glu-204 in the active site of yeast invertase. J Biol Chem. 1996, 271: 13953-13958. 10.1074/jbc.271.24.13953.View ArticleGoogle Scholar
- Batista FR, Hernández L, Fernández JR, Arrieta J, Menéndez C, Gómez R, Tambara Y, Pons T: Substitution of Asp-309 by Asn in the Arg-Asp-Pro (RDP) motif of Acetobacter diazotrophicus levansucrase affects sucrose hydrolysis, but not enzyme specificity. Biochem J. 1999, 377: 503-506. 10.1042/0264-6021:3370503.View ArticleGoogle Scholar
- Meng G, Fütterer K: Structural framework of fructosyl transfer in Bacillus subtilis levansucrase. Nat Struct Biol. 2003, 10: 935-941. 10.1038/nsb974.View ArticleGoogle Scholar
- Carbohydrate-Active enzymes Database. [http://www.cazy.org/]
- Shirai A, Matsuyama A, Yashiroda Y, Hashimoto A, Kawamura Y, Arai R, Komatsu Y, Horinouchi S, Yoshida M: Global analysis of gel mobility of proteins and its use in target identification. J Biol Chem. 2008, 283: 10745-10752. 10.1074/jbc.M709211200.View ArticleGoogle Scholar
- Ueno K, Onodera S, Kawakami A, Yoshida M, Shiomi N: Molecular characterization and expression of a cDNA encoding fructan:fructan 6G-fructosyltransferase from asparagus (Asparagus officinalis). New phytologist. 2005, 165: 813-824. 10.1111/j.1469-8137.2004.01294.x.View ArticleGoogle Scholar
- Fujishima M, Sakai H, Ueno K, Takahashi N, Onodera S, Benkeblia N, Shiomi N: Purification and characterization of a fructosyltransferase from onion bulbs and its key role in the synthesis of fructo-oligosaccharides in vivo . New phytologist. 2005, 165: 513-524. 10.1111/j.1469-8137.2004.01231.x.View ArticleGoogle Scholar
- Laemmli UK: Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature. 1970, 227: 680-685. 10.1038/227680a0.View ArticleGoogle Scholar
- Shiomi N, Onodera S, Chatterton NJ, Harrison PA: Separation of fructooligosaccharide isomers by anion-exchange chromatography. Agric Biol Chem. 1991, 55: 427-1428.Google Scholar
- Takeda H, Sato K, Kinoshita S, Sasaki H: Production of 1-kestose by Scopulariopsis brevicaulis . J Ferment Bioeng. 1994, 77: 386-389. 10.1016/0922-338X(94)90009-4.View ArticleGoogle Scholar
- Shiomi N, Yamada J, Izawa M: Isolation and identification of fructo-oligosaccharides in roots of asparagus (Asparagus officinalis L.). Agr Biol Chem. 1976, 40: 567-575.Google Scholar