Raffinose family oligosaccharide utilisation by probiotic bacteria: insight into substrate recognition, molecular architecture and diversity of GH36 α-galactosidases

References

• Ademark P, de Vries RP, Hägglund P, Stålbrand H, Visser J. 2001. Cloning and characterization of Aspergillus niger genes encoding an α-galactosidase and a β-mannosidase involved in galactomannan degradation. Eur J Biochem 268:2982–2990.
   PubMedGoogle Scholar
• Anggraeni AA, Sakka M, Kimura T, Ratanakhaokchai K, Kitaoka M, Sakka K. 2008. Characterization of Bacillus halodurans α-galactosidase Mel4A encoded by the mel4A gene (BH2228). Biosci Biotechnol Biochem 72:2459–2462.
   PubMed Web of Science ®Google Scholar
• Anisha GS, John RP, Prema P. 2009. Biochemical and hydrolytic properties of multiple thermostable α-galactosidases from Streptomyces griseoloalbus: obvious existence of a novel galactose-tolerant enzyme. Process Biochem 44:327–333.
   Web of Science ®Google Scholar
• Barrangou R, Azcarate-Peril MA, Duong T, Conners SB, Kelly RM, Klaenhammer TR. 2006. Global analysis of carbohydrate utilization by Lactobacillus acidophilus using cDNA microarrays. Proc Natl Acad Sci USA 103:3816–3821.
   Google Scholar
• Barrangou R, Briczinski EP, Traeger LL, Loquasto JR, Richards M, Horvath P, . 2009. Comparison of the complete genome sequences of Bifidobacterium animalis subsp lactis DSM 10140 and Bl-04. J Bacteriol 191:4144–4151.
   PubMed Web of Science ®Google Scholar
• Brouns SJJ, Smits N, Wu H, Snijders APL, Wright PC, de Vos WA, van der Oost J. 2006. Identification of a novel α-galactosidase from the hyperthermophilic archaeon Sulfolobus solfataricus. J Bacteriol 188:2392–2399.
   PubMed Web of Science ®Google Scholar
• Cantarel BL, Coutinho PM, Rancurel C, Bernard T, Lombard V, Henrissat B. 2009. The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics. Nucleic Acids Res 37:D233–D238.
   PubMed Web of Science ®Google Scholar
• Cao YN, Wang YR, Meng K, Bai YG, Shi PJ, Luo HY, . 2009. A novel protease-resistant α-galactosidase with high hydrolytic activity from Gibberella sp F75: gene cloning, expression, and enzymatic characterization. Appl Microbiol Biotechnol 83:875–884.
   PubMed Web of Science ®Google Scholar
• Cao YN, Yang PL, Shi PJ, Wang YR, Luo HY, Meng K, . 2007. Purification and characterization of a novel protease-resistant α-galactosidase from Rhizopus sp. F78 ACCC 30795. Enzyme Microb Technol 41:835–841.
   Google Scholar
• Carrera-Silva EA, Silvestroni A, LeBlanc JG, Piard JC, de Giori GS, Sesma F. 2006. A thermostable α-galactosidase from Lactobacillus fermentum CRL722: genetic characterization and main properties. Curr Microbiol 53:374–378.
   PubMed Web of Science ®Google Scholar
• Cerqueira MA, Pinheiro AC, Souza BWS, Lima AMP, Ribeiro C, Miranda C, . 2009. Extraction, purification and characterization of galactomannans from non-traditional sources. Carbohyd Polym 75:408–414.
   Web of Science ®Google Scholar
• Comfort DA, Bobrov KS, Ivanen DR, Shabalin KA, Harris JM, Kulminskaya AA, Brumer H, Kelly RM. 2007. Biochemical analysis of Thermotoga maritima GH36 α-galactosidase (TmGalA) confirms the mechanistic commonality of clan GH-D glycoside hydrolases. Biochemistry 46:3319–3330.
   PubMed Web of Science ®Google Scholar
• Deutscher J, Francke C, Postma PW. 2006. How phosphotransferase system-related protein phosphorylation regulates carbohydrate metabolism in bacteria. Microbiol Mol Biol Rev 70: 939–1031.
   PubMed Web of Science ®Google Scholar
• Dey PM, Patel S, Brownleader MD. 1993. Induction of α- galactosidase in Penicillium ochrochloron by guar (Cyamopsis tetragonobola) gum. Biotechnol Appl Biochem 17:361–371.
   PubMed Web of Science ®Google Scholar
• Dinoto A, Suksomcheep A, Ishizuka S, Kimura H, Hanada S, Kamagata Y, . 2006. Modulation of rat cecal microbiota by administration of raffinose and encapsulated Bifidobacterium breve. Appl Environ Microbiol 72:784–792.
   PubMedGoogle Scholar
• Fernandez-Leiro R, Pereira-Rodriguez A, Cerdan ME, Becerra M, Sanz-Aparicio J. 2010. Structural analysis of Saccharomyces cerevisiae α-galactosidase and its complexes with natural substrates reveals new insights into substrate specificity of GH27 glycosidases. J Biol Chem 285:28020–28133.
   PubMed Web of Science ®Google Scholar
• Fialho LD, Guimaraes VM, Callegari CM, Reis AP, Barbosa DS, Borges EED, Moreira MA, de Rezende ST. 2008. Characterization and biotechnological application of an acid α-galactosidase from Tachigali multijuga Benth. seeds. Phytochemistry 69:2579–2585.
   PubMedGoogle Scholar
• Fortina MG, Ricci G, Mora D, Guglielmetti S, Manachini PL. 2003. Unusual organization for lactose and galactose gene clusters in Lactobacillus helveticus. Appl Environ Microbiol 69: 3238–3243.
   Google Scholar
• Fredslund F, Abou Hachem M, Jonsgaard Larsen R, Gerd Sørensen P, Coutinho PM, Lo Leggio L, Svensson B. 2011. Crystal structure of α-galactosidase from Lactobacillus acidophilus NCFM: insight into tetramer formation and substrate binding. J Mol Biol 412: 466–480.
   PubMed Web of Science ®Google Scholar
• Fridjonsson O, Watzlawick H, Gehweiler A, Mattes R. 1999a. Thermostable α-galactosidase from Bacillus stearothermophilus NUB3621: cloning, sequencing and characterization. FEMS Microbiol Lett 176:147–153.
   PubMed Web of Science ®Google Scholar
• Fridjonsson O, Watzlawick H, Gehweiler A, Rohrhirsch T, Mattes R. 1999b. Cloning of the gene encoding a novel thermostable α-galactosidase from Thermus brockianus ITI360. Appl Environ Microbiol 65:3955–3963.
   PubMed Web of Science ®Google Scholar
• Fujimoto Z, Kaneko S, Kim WD, Park GG, Momma M, Kobayashi H. 2009. The tetramer structure of the glycoside hydrolase family 27 α-galactosidase I from Umbelopsis vinacea. Biosci. Biotechnol. Biochem 73:2360–2364.
   Google Scholar
• Fujimoto Z, Kaneko S, Momma M, Kobayashi H, Mizuno H. 2003. Crystal structure of rice α-galactosidase complexed with d-galactose. J Biol Chem 278:20313–20318.
   PubMed Web of Science ®Google Scholar
• Garman SC, Garboczi DN. 2004. The molecular defect leading to Fabry disease: structure of human α-galactosidase. J Mol Biol 337:319–335.
   PubMed Web of Science ®Google Scholar
• Garro MS, Degiori GS, Devaldez GF, Oliver G. 1993. Characterisation of α-galactosidase from Lactobacillus fermentum. J Appl Bacteriol 75:485–488.
   Google Scholar
• Golubev AM, Nagem RAP, Neto JRB, Neustroev KN, Eneyskaya EV, Kulminskaya AA, . 2004. Crystal structure of α-galactosidase from Trichoderma reesei and its complex with galactose: implications for catalytic mechanism. J Mol Biol 339:413–422.
   PubMed Web of Science ®Google Scholar
• Goulas T, Goulas A, Tzortzis G, Gibson GR. 2009. A novel α-galactosidase from Bifidobacterium bifidum with transgalactosylating properties: gene molecular cloning and heterologous expression. Appl Microbiol Biotechnol 82:471–477.
   PubMed Web of Science ®Google Scholar
• Ishizuka S, Iwama A, Dinoto A, Suksomcheep A, Maeta K, Kasai T, Hara H, Yokota A. 2009. Synbiotic promotion of epithelial proliferation by orally ingested encapsulated Bifidobacterium breve and raffinose in the small intestine of rats. Mol Nutr Food Res 53:S62–S67.
   Google Scholar
• Kim SM, Penner MH. 2004. Trichoderma reesei α-galactosidase activity on locust bean and guar galactomannans. J Food Biochem 28:293–303.
   Google Scholar
• King MR, Yernool DA, Eveleigh DE, Chassy BM. 1998. Thermostable α-galactosidase from Thermotoga neapolitana: cloning, sequencing and expression. FEMS Microbiol Lett 163:37–42.
   PubMed Web of Science ®Google Scholar
• Leder S, Hartmeier W, Marx SP. 1999. α-Galactosidase of Bifidobacterium adolescentis DSM 20083. Curr Microbiol 38: 101–106.
   PubMedGoogle Scholar
• Lesley SA, Kuhn P, Godzik A, Deacon AM, Mathews I, Kreusch A, . 2002. Structural genomics of the Thermotoga maritima proteome implemented in a high-throughput structure determination pipeline. Proc Natl Acad Sci USA 99: 11664–11669.
   PubMed Web of Science ®Google Scholar
• Martinez-Villaluenga C, Frias J, Vidal-Valverde C. 2008. α-galactosides: antinutritional factors or functional ingredients? Crit Rev Food Sci Nutr 48:301–316.
   PubMed Web of Science ®Google Scholar
• Nakai H, Baumann MJ, Petersen BO, Westphal Y, Abou Hachem M, Dilokpimol A, Duus JO, Schols HA, Svensson B. 2010. Aspergillus nidulans α-galactosidase of glycoside hydrolase family 36 catalyses the formation of α-galacto-oligosaccharides by transglycosylation. FEBS J 277:3538–3551.
   PubMed Web of Science ®Google Scholar
• Ojala T, Kuparinen V, Koskinen JP, Alatalo E, Holm L, Auvinen P, . 2010. Genome Sequence of Lactobacillus crispatus ST1. J Bacteriol 192:3547–3548.
   Google Scholar
• Pridmore RD, Berger B, Desiere F, Vilanova D, Barretto C, Pittet AC, . 2004. The genome sequence of the probiotic intestinal bacterium Lactobacillus johnsonii NCC 533. Proc Natl Acad Sci USA 101:2512–2517.
   PubMed Web of Science ®Google Scholar
• Sanders ME, Klaenhammer TR. 2001. Invited review: the scientific basis of Lactobacillus acidophilus NCFM functionality as a probiotic. J Dairy Sci 84:319–331.
   PubMed Web of Science ®Google Scholar
• Shankar SK, Dhananjay SK, Mulimani VH. 2009. Purification and characterization of thermostable α-galactosidase from Aspergillus terreus (GR). Appl Biochem Biotechnol 152: 275–285.
   PubMed Web of Science ®Google Scholar
• Shibuya H, Kobayashi H, Sato T, Kim WS, Yoshida S, Kaneko S, Kasamo K, Kusakabe I. 1997. Purification, characterization, and cDNA cloning of a novel α-galactosidase from Mortierella vinacea. Biosci Biotechnol Biochem 61:592–598.
   PubMed Web of Science ®Google Scholar
• Silvestroni A, Connes C, Sesma F, de Giori GS, Piard JC. 2002. Characterization of the melA locus for α-galactosidase in Lactobacillus plantarum. Appl Environ Microbiol 68: 5464–5471.
   PubMed Web of Science ®Google Scholar
• Stam MR, Danchin EGJ, Rancurel C, Coutinho PM, Henrissat B. 2006. Dividing the large glycoside hydrolase family 13 into subfamilies: towards improved functional annotations of α-amylase-related proteins. Protein Eng Des Sel 19:555–562.
   PubMed Web of Science ®Google Scholar
• Su P, Henriksson A, Mitchell H. 2007. Selected prebiotics support the growth of probiotic mono-cultures in vitro. Anaerobe 13:134–139.
   PubMed Web of Science ®Google Scholar
• Wegmann U, Overweg K, Horn N, Goesmann A, Narbad A, Gasson MJ, Shearman C. 2009. Complete Genome Sequence of Lactobacillus johnsonii FI9785, a competitive exclusion agent against pathogens in poultry. J Bacteriol 191:7142–7143.
   Google Scholar
• Willfor S, Sundberg K, Tenkanen M, Holmbom B. 2008. Spruce-derived mannans – A potential raw material for hydrocolloids and novel advanced natural materials. Carbohyd Polym 72:197–210.
   Web of Science ®Google Scholar
• Zhang ZY, Liu C, Zhu YZ, Zhong Y, Zhu YQ, Zheng HJ, . 2009. Complete genome sequence of Lactobacillus plantarum JDM1. J Bacteriol 191:5020–5021.
   Google Scholar
• Zhao H, Lu LL, Xiao M, Wang QP, Lu Y, Liu CH, Wang P, Kumagai H, Yamamoto K. 2008. Cloning and characterization of a novel α-galactosidase from Bifidobacterium breve 203 capable of synthesizing Gal-α-1,4 linkage. FEMS Microbiol Lett 285:278–283.
   PubMed Web of Science ®Google Scholar