A new α-galactosidase from symbiotic Flavobacterium sp. TN17 reveals four residues essential for α-galactosidase activity of gastrointestinal bacteria

Applied Microbiology and Biotechnology

Volumn 88, Issue 6, 2010, Pages 1297-1309

  Zhou, Junpei ^a,b   Shi, Pengjun ^a   Huang, Huoqing ^a   Cao, Yanan ^a   Meng, Kun ^a   Yang, Peilong ^a   Zhang, Rui ^a   Chen, Xiaoyan ^a   Yao, Bin ^a  

^a INSTITUTE OF PLANT PROTECTION   (China)

^b YUNNAN NORMAL UNIVERSITY   (China)

Author keywords

Galactosidase; Batocera horsfieldi; Flavobacterium sp. TN17; Site directed mutagenesis; Symbiotic bacteria

Indexed keywords

BATOCERA HORSFIELDI; FLAVOBACTERIUM SP; GALACTOSIDASES; SITE DIRECTED MUTAGENESIS; SYMBIOTIC BACTERIA;

AMINO ACIDS; BACTERIOLOGY; GENES; MUTAGENESIS; SUBSTRATES;

BACTERIA;

ALPHA GALACTOSIDASE; CHYMOTRYPSIN A; COLLAGENASE; PROTEINASE K; TRYPSIN;

AMINO ACID; BACTERIUM; CATALYSIS; ENZYME ACTIVITY; FUNCTIONAL MORPHOLOGY; GENE EXPRESSION; HYDROLYSIS; LARVA; PEPTIDE; PH; PHYLOGENETICS; RECOMBINATION; SYMBIOSIS;

AMINO ACID SEQUENCE; ARTICLE; BACTERIAL METABOLISM; BACTERIAL STRAIN; CARNOBACTERIUM MALTAROMATICUM; ENZYME ACTIVITY; ENZYME ANALYSIS; ENZYME PURIFICATION; FLAVOBACTERIUM; GENE EXPRESSION; MOLECULAR CLONING; NUCLEOTIDE SEQUENCE; PHYLOGENY; PROTEIN MOTIF; SITE DIRECTED MUTAGENESIS;

ALPHA-GALACTOSIDASE; AMINO ACID SEQUENCE; ANIMALS; BEETLES; CATALYTIC DOMAIN; DNA MUTATIONAL ANALYSIS; DNA, BACTERIAL; ENZYME STABILITY; FLAVOBACTERIUM; GASTROINTESTINAL TRACT; HYDROGEN-ION CONCENTRATION; MOLECULAR SEQUENCE DATA; MUTAGENESIS, SITE-DIRECTED; PHYLOGENY; PROTEIN SORTING SIGNALS; RECOMBINANT PROTEINS; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, AMINO ACID; SUBSTRATE SPECIFICITY; TEMPERATURE;

BACTERIA (MICROORGANISMS); BATOCERA HORSFIELDI; CARNOBACTERIUM MALTAROMATICUM; CYAMOPSIS TETRAGONOLOBA; FLAVOBACTERIUM SP.; GLYCINE MAX; PEDOBACTER;

EID: 78649320840     PISSN: 01757598     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00253-010-2809-7     Document Type: Article

References (50)

1. JP Acevedo F Reyes LP Parra O Salazar BA Andrews JA Asenjo 2008 Cloning of complete genes for novel hydrolytic enzymes from Antarctic sea water bacteria by use of an improved genome walking technique J Biotechnol 133 277 286 1:CAS:528:DC%2BD1cXhtlehuw%3D%3D 10.1016/j.jbiotec.2007.10.004 (Pubitemid 350299601)
2. AA Bahar Z Demirbag 2007 Isolation of pathogenic bacteria from Oberea linearis (Coleptera: Cerambycidae) Biologia 62 13 18 1:CAS:528: DC%2BD1cXkvFKqtLk%3D 10.2478/s11756-007-0009-4 (Pubitemid 350104503)
3. F Baucells JF Perez J Morales J Gasa 2000 Effect of α-galactosidase supplementation of cereal-soya-bean-pea diets on the productive performances, digestibility and lower gut fermentation in growing and finishing pigs Anim Sci 71 157 164 1:CAS:528:DC%2BD3cXms1yru7k%3D
4. MM Bradford 1976 A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding Anal Biochem 72 248 254 1:CAS:528:DyaE28XksVehtrY%3D 10.1016/0003-2697(76)90527- 3
5. JA Breznak A Brune 1994 Role of microorganisms in the digestion of lignocellulose by termites Ann Rev Entomol 39 453 487 1:CAS:528: DyaK2cXhsF2itbo%3D 10.1146/annurev.en.39.010194.002321
6. LM Buja 2009 Evaluation of recombinant α-galactosidase A therapy for amelioration of the cardiovascular manifestations of Fabry disease: an important role for endomyocardial biopsy Circulation 119 2539 2541 10.1161/CIRCULATIONAHA.109.861534
7. Y Cao P Yang P Shi Y Wang H Luo K Meng Z Zhang N Wu B Yao Y Fan 2007 Purification and characterization of a novel protease-resistant α-galactosidase from Rhizopus sp. F78 ACCC 30795 Enzyme Microb Technol 41 835 841 1:CAS:528:DC%2BD2sXhtVWmt7zN 10.1016/j.enzmictec.2007.07.005 (Pubitemid 47361332)
8. JH Clarke K Davidson JE Rixon JR Halstead MP Fransen HJ Gilbert GP Hazlewood 2000 A comparison of enzyme-aided bleaching of softwood paper pulp using combinations of xylanase, mannanase and α-galactosidase Appl Microbiol Biotechnol 53 661 667 1:CAS:528:DC%2BD3cXkvVyhuro%3D 10.1007/s002530000344
9. DA Comfort KS Bobrov DR Ivanen KA Shabalin JM Harris AA Kulminskaya H Brumer RM Kelly 2007 Biochemical analysis of Thermotoga maritima GH36 α-galactosidase (TmGalA) confirms the mechanistic commonality of clan GH-D glycoside hydrolases Biochemistry 46 3319 3330 1:CAS:528:DC%2BD2sXitFWgu74%3D 10.1021/bi061521n (Pubitemid 46449152)
10. J Coombs JE Brenchley 2001 Characterization of two new glycosyl hydrolases from the lactic acid bacterium Carnobacterium piscicola strain BA Appl Environ Microbiol 67 5094 5099 1:CAS:528:DC%2BD3MXotlSgu7c%3D 10.1128/AEM.67.11.5094-5099.2001
11. GE Crooks G Hon JM Chandonia SE Brenner 2004 WebLogo: a sequence logo generator Genome Res 14 1188 1190 1:CAS:528:DC%2BD2cXkvFGht7Y%3D 10.1101/gr.849004 (Pubitemid 38811555)
12. R Cruz YK Park 1982 Production of fungal α-galactosidase and its application to the hydrolysis of galactooligosaccharides in soybean milk J Food Sci 47 1973 1975 1:CAS:528:DyaL3sXhsFKqsw%3D%3D 10.1111/j.1365-2621.1982. tb12925.x
13. G Davies B Henrissat 1995 Structures and mechanisms of glycosyl hydrolases Structure 3 853 859 1:CAS:528:DyaK2MXotlWktrY%3D 10.1016/S0969- 2126(01)00220-9
14. IF Denherder AMM Rosell CM Vanzuilen PJ Punt A Vandenhondel 1992 Cloning and expression of a member of the Aspergillus niger gene family encoding α-galactosidase Mol Gen Genet 233 404 410 1:CAS:528:DyaK3sXisVyltLw%3D
15. M Ferrer OV Golyshina TN Chernikova AN Khachane D Reyes-Duarte V Dos Santos C Strompl K Elborough G Jarvis A Neef MM Yakimov KN Timmis PN Golyshin 2005 Novel hydrolase diversity retrieved from a metagenome library of bovine rumen microflora Environ Microbiol 7 1996 2010 1:CAS:528:DC%2BD28Xks1Gisg%3D%3D 10.1111/j.1462-2920.2005.00920.x (Pubitemid 41752387)
16. Z Fujimoto S Kaneko M Momma H Kobayashi H Mizuno 2003 Crystal structure of rice α-galactosidase complexed with d-galactose J Biol Chem 278 20313 20318 1:CAS:528:DC%2BD3sXktVejs7s%3D 10.1074/jbc.M302292200 (Pubitemid 36799230)
17. SC Garman DN Garboczi 2004 The molecular defect leading to Fabry disease: structure of human α-galactosidase J Mol Biol 337 319 335 1:CAS:528:DC%2BD2cXhslemsLs%3D 10.1016/j.jmb.2004.01.035 (Pubitemid 38293402)
18. AM Golubev RAP Nagem JRB Neto KN Neustroev EV Eneyskaya AA Kulminskaya KA Shabalin AN Savel'ev I Polikarpov 2004 Crystal structure of α-galactosidase from Trichoderma reesei and its complex with galactose: implications for catalytic mechanism J Mol Biol 339 413 422 1:CAS:528: DC%2BD2cXjsl2ns7Y%3D 10.1016/j.jmb.2004.03.062 (Pubitemid 38596959)
19. T Goulas A Goulas G Tzortzis G Gibson 2009 A novel α-galactosidase from Βifidobacterium bifidum with transgalactosylating properties: gene molecular cloning and heterologous expression Appl Microbiol Biotechnol 82 471 477 1:CAS:528:DC%2BD1MXhvFWqu7s%3D 10.1007/s00253-008-1750-5
20. KK Graham MS Kerley JD Firman GL Allee 2002 The effect of enzyme treatment of soybean meal on oligosaccharide disappearance and chick growth performance Poult Sci 81 1014 1019 1:STN:280:DC%2BD38vgvVeltA%3D%3D
21. TA Hall 1999 BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT Nucleic Acids Symp Ser 41 95 98 1:CAS:528:DC%2BD3cXhtVyjs7Y%3D
22. S Heo J Kwak HW Oh DS Park KS Bae DH Shin HY Park 2006 Characterization of an extracellular xylanase in Paenibacillus sp. HY-8 isolated from an herbivorous longicorn beetle J Microbiol Biotechnol 16 1753 1759 1:CAS:528:DC%2BD2sXnt1Wqug%3D%3D
23. DA Jones MS DuPont MJ Ambrose J Frias CL Hedley 1999 The discovery of compositional variation for the raffinose family of oligosaccharides in pea seeds Seed Sci Res 9 305 310 1:CAS:528:DC%2BD3cXpvF2rsw%3D%3D 10.1017/S0960258599000318
24. M Kimura 1980 A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences J Mol Evol 16 111 120 1:CAS:528:DyaL3MXmtFSktg%3D%3D 10.1007/BF01731581 (Pubitemid 11166431)
25. Lane DJ (1991) 16S/23S rRNA sequencing. In: Stackebrandt E, Goodfellow M (eds) Nucleic acid techniques in bacterial systematics. Wiley, New York, pp 115-175
26. JC Linden 1982 Immobilized α-d-galactosidase in the sugar-beet industry Enzyme Microb Technol 4 130 136 1:CAS:528:DyaL38XktlOmtrg%3D 10.1016/0141-0229(82)90103-X (Pubitemid 12517345)
27. H Lineweaver D Burk 1934 The determination of enzyme dissociation constants J Am Chem Soc 56 658 666 1:CAS:528:DyaA2cXisF2ltg%3D%3D 10.1021/ja01318a036
28. LG Ljungdahl KE Eriksson 1985 Ecology of microbial cellulose degradation Adv Microb Ecol 8 237 299 1:CAS:528:DyaL2MXltVWmsL4%3D
29. MA Mahowald FE Rey H Seedorf PJ Turnbaugh RS Fulton A Wollam N Shah CY Wang V Magrini RK Wilson BL Cantarel PM Coutinho B Henrissat LW Crock A Russell NC Verberkmoes RL Hettich JI Gordon 2009 Characterizing a model human gut microbiota composed of members of its two dominant bacterial phyla Proc Natl Acad Sci USA 106 5859 5864 1:CAS:528:DC%2BD1MXkvFaqsrc%3D 10.1073/pnas. 0901529106
30. S Mi K Meng Y Wang Y Bai T Yuan H Luo B Yao 2007 Molecular cloning and characterization of a novel α-galactosidase gene from Penicillium sp. F63 CGMCC 1669 and expression in Pichia pastoris Enzyme Microb Technol 40 1373 1380 1:CAS:528:DC%2BD2sXisl2kt7g%3D 10.1016/j.enzmictec.2006.10.017 (Pubitemid 46356551)
31. GL Miller 1959 Use of dinitrosalicylic acid reagent for determination of reducing sugar Anal Chem 31 426 428 1:CAS:528:DyaG1MXmtFKiuw%3D%3D 10.1021/ac60147a030
32. LRS Moreira EXF Filho 2008 An overview of mannan structure and mannan-degrading enzyme systems Appl Microbiol Biotechnol 79 165 178 1:CAS:528:DC%2BD1cXkvFWnu7k%3D 10.1007/s00253-008-1423-4
33. Nei M (1987) Molecular evolutionary genetics. Columbia University Press, New York
34. DS Park HW Oh SY Heo WJ Jeong DH Shin KS Bae HY Park 2007 Characterization of an extracellular lipase in Burkholderia sp. HY-10 isolated from a longicorn beetle J Microbiol 45 409 417 1:CAS:528:DC%2BD2sXhsVanu7%2FN
35. C Provencher G LaPointe S Sirois MR van Calsteren D Roy 2003 Consensus-degenerate hybrid oligonucleotide primers for amplification of priming glycosyltransferase genes of the exopolysaccharide locus in strains of the Lactobacillus casei group Appl Environ Microbiol 69 3299 3307 1:CAS:528:DC%2BD3sXks1GltL4%3D 10.1128/AEM.69.6.3299-3307.2003
36. TM Rose JG Henikoff S Henikoff 2003 CODEHOP (COnsensus-DEgenerate hybrid oligonucleotide primer) PCR primer design Nucleic Acids Res 31 3763 3766 1:CAS:528:DC%2BD3sXltVWjsb4%3D 10.1093/nar/gkg524 (Pubitemid 37442241)
37. N Saitou M Nei 1987 The neighbor-joining method-a new method for reconstructing phylogenetic trees Mol Biol Evol 4 406 425 1:STN:280: DyaL1c7ovFSjsA%3D%3D
38. MA Schell M Karmirantzou B Snel D Vilanova B Berger G Pessi MC Zwahlen F Desiere P Bork M Delley RD Pridmore F Arigoni 2002 The genome sequence of Bifidobacterium longum reflects its adaptation to the human gastrointestinal tract Proc Natl Acad Sci USA 99 14422 14427 1:CAS:528:DC%2BD38XosF2hsrg%3D 10.1073/pnas.212527599 (Pubitemid 35257687)
39. PD Schloss I Delalibera J Handelsman KF Raffa 2006 Bacteria associated with the guts of two wood-boring beetles: Anoplophora glabripennis and Saperda vestita (Cerambycidae) Environ Entomol 35 625 629 10.1603/0046-225X-35.3.625
40. MT Smith PC Tobin J Bancroft GH Li RT Gao 2004 Dispersal and spatiotemporal dynamics of Asian longhorned beetle (Coleoptera: Cerambycidae) in China Environ Entomol 33 435 442 10.1603/0046-225X-33.2.435
41. K Tamura J Dudley M Nei S Kumar 2007 MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0 Mol Biol Evol 24 1596 1599 1:CAS:528:DC%2BD2sXpsVGrsL8%3D 10.1093/molbev/msm092 (Pubitemid 47236692)
42. JD Thompson TJ Gibson F Plewniak F Jeanmougin DG Higgins 1997 The CLUSTAL-X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools Nucleic Acids Res 25 4876 4882 1:CAS:528:DyaK1cXntFyntQ%3D%3D 10.1093/nar/25.24.4876 (Pubitemid 28022245)
43. P Trinder 1969 Determination of blood glucose using an oxidase-peroxidase system with a non-carcinogenic chromogen J Clin Pathol 22 158 161 1:CAS:528:DyaF1MXhtFaht7o%3D 10.1136/jcp.22.2.158
44. LAM van den Broek J Ton JC Verdoes KMJ van Laere AGJ Voragen G Beldman 1999 Synthesis of α-galacto-oligosaccharides by a cloned α-galactosidase from Bifidobacterium adolescentis Biotechnol Lett 21 441 445 10.1023/A:1005542521708 (Pubitemid 29299137)
45. F Warnecke P Luginbuhl N Ivanova M Ghassemian TH Richardson JT Stege M Cayouette AC McHardy G Djordjevic N Aboushadi R Sorek SG Tringe M Podar HG Martin V Kunin D Dalevi J Madejska E Kirton D Platt E Szeto A Salamov K Barry N Mikhailova NC Kyrpides EG Matson EA Ottesen XN Zhang M Hernandez C Murillo LG Acosta I Rigoutsos G Tamayo BD Green C Chang EM Rubin EJ Mathur DE Robertson P Hugenholtz JR Leadbetter 2007 Metagenomic and functional analysis of hindgut microbiota of a wood-feeding higher termite Nature 450 560 565 1:CAS:528:DC%2BD2sXhtlCrtb3J 10.1038/nature06269 (Pubitemid 350190243)
46. J Xu MA Mahowald RE Ley CA Lozupone M Hamady EC Martens B Henrissat PM Coutinho P Minx P Latreille H Cordum A van Brunt K Kim RS Fulton LA Fulton SW Clifton RK Wilson RD Knight JI Gordon 2007 Evolution of symbiotic bacteria in the distal human intestine PLoS Biol 5 1574 1586 1:CAS:528:DC%2BD2sXps1anu7o%3D
47. H Zhao LL Lu M Xiao QP Wang Y Lu CH Liu P Wang H Kumagai K Yamamoto 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 1:CAS:528:DC%2BD1cXhtVersL%2FE 10.1111/j.1574-6968. 2008.01246.x (Pubitemid 352000244)
48. J Zhou H Huang K Meng P Shi Y Wang H Luo P Yang Y Bai Z Zhou B Yao 2009 Molecular and biochemical characterization of a novel xylanase from the symbiotic Sphingobacterium sp. TN19 Appl Microbiol Biotechnol 85 323 333 1:CAS:528:DC%2BD1MXhtlKhtrnE 10.1007/s00253-009-2081-x
49. J Zhou H Huang K Meng P Shi Y Wang H Luo P Yang Y Bai B Yao 2010 Cloning of a new xylanase gene from Streptomyces sp. TN119 using a modified thermal asymmetric interlaced-PCR specific for GC-rich genes and biochemical characterization Appl Biochem Biotechnol 160 1277 1292 1:CAS:528: DC%2BC3cXivVSmtL4%3D 10.1007/s12010-009-8642-8
50. J Zhou K Meng P Yang P Shi Y Wang H Luo B Yao 2010 Characterization of a chromosomal segment showing xylanolytic activity from the symbiotic Sphingobacterium sp. TN19 World J Microbiol Biotechnol 26 761 765 1:CAS:528:DC%2BC3cXjtFKqt7k%3D 10.1007/s11274-009-0220-2