A novel cold-active xylanase gene from the environmental DNA of goat rumen contents: Direct cloning, expression and enzyme characterization

Bioresource Technology

Volumn 102, Issue 3, 2011, Pages 3330-3336

  Wang, Guozeng ^a   Luo, Huiying ^a   Wang, Yaru ^a   Huang, Huoqing ^a   Shi, Pengjun ^a   Yang, Peilong ^a   Meng, Kun ^a   Bai, Yingguo ^a   Yao, Bin ^a  

^a INSTITUTE OF PLANT PROTECTION   (China)

Author keywords

Cold active; Environmental DNA; Glycosyl hydrolase (GH) family 10; Goat rumen; Xylanase

Indexed keywords

COLD-ACTIVE; ENVIRONMENTAL DNA; GLYCOSYL HYDROLASES; GOAT RUMEN; XYLANASES;

DNA; ENZYMES; ESCHERICHIA COLI; GENE EXPRESSION; HYDROGEN BONDS; INDUSTRIAL APPLICATIONS; INDUSTRIAL RESEARCH;

CLONING;

DNA; ENVIRONMENTAL DNA; GLYCOSIDASE; HYDROGEN; POLYPEPTIDE; RECOMBINANT ENZYME; UNCLASSIFIED DRUG; XYLAN; XYLAN ENDO 1,3 BETA XYLOSIDASE; XYNGR40 PROTEIN;

CATALYSIS; COLIFORM BACTERIUM; DNA; ENZYME ACTIVITY; GENE EXPRESSION; LOW TEMPERATURE; MICROBIAL ACTIVITY; PEPTIDE; PHYLOGENETICS; RECOMBINATION; RUMINANT;

ARTICLE; BACTERIUM; BACTEROIDES; BACTEROIDES CELLULOSILYTICUS; BACTEROIDES INTESTINALIS; CATALYSIS; CONTROLLED STUDY; CRYPTOCOCCUS; CRYPTOCOCCUS ADELIENSIS; ENZYME ACTIVE SITE; ENZYME ANALYSIS; ENZYME SPECIFICITY; ESCHERICHIA COLI; FLAVOBACTERIUM; GASTROINTESTINAL TRACT; GENE EXPRESSION; GEOBACILLUS STEAROTHERMOPHILUS; GLACIECOLA MESOPHILA; GOAT; HYDROGEN BOND; HYDROLYSIS; MESOPHILE; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; PENICILLIUM CHRYSOGENUM; PHYLOGENY; PRIORITY JOURNAL; PROTEIN DOMAIN; RUMINANT STOMACH; SEQUENCE ANALYSIS; SPHINGOBACTERIUM; STRUCTURE ANALYSIS; TEMPERATURE; THERMOPHILE;

AMINO ACID SEQUENCE; ANIMALS; CLONING, MOLECULAR; DNA, BACTERIAL; ENDO-1,4-BETA XYLANASES; ENZYME ACTIVATION; ENZYME STABILITY; ESCHERICHIA COLI; GOATS; MALE; MOLECULAR SEQUENCE DATA; RUMEN; TEMPERATURE;

CAPRA HIRCUS; ESCHERICHIA COLI;

EID: 78650821698     PISSN: 09608524     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.biortech.2010.11.004     Document Type: Article

References (35)

1. Arnold K., Bordoli L., Kopp J., Schwede T. The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling. Bioinformatics 2006, 22:195-201.
2. Bastawde K.B. Xylan structure, microbial xylanases, and their mode of action. World J. Microbiol. Biotechnol. 1992, 8:353-368.
3. Blanco A., Diaz P., Martinez J., Lopez O., Soler C., Pastor F.I. Cloning of a Bacillus sp. BP-23 gene encoding a xylanase with high activity against aryl xylosides. FEMS Microbiol. Lett. 1996, 137:285-290.
4. Bradford M.M. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem. 1976, 72:248-254.
5. Brady S.F. Construction of soil environmental DNA cosmid libraries and screening for clones that produce biologically active small molecules. Nat. Protoc. 2007, 2:1297-1305.
6. Collins T., Meuwis M.A., Stals I., Claeyssens M., Feller G., Gerday C. A novel family 8 xylanase, functional and physicochemical characterization. J. Biol. Chem. 2002, 277:35133-35139.
7. Collins T., Gerday C., Feller G. Xylanases, xylanase families and extremophilic xylanases. FEMS Microbiol. Rev. 2005, 29:3-23.
8. Edwards J.E., McEwan N.R., Travis A.J., John Wallace R. 16S rDNA library-based analysis of ruminal bacterial diversity. Antonie Van Leeuwenhoek 2004, 86:263-281.
9. Eisenberg D., Luthy R., Bowie J.U. VERIFY3D: assessment of protein models with three-dimensional profiles. Methods Enzymol. 1997, 277:396-404.
10. Ferrer M., Golyshina O.V., Chernikova T.N., Khachane A.N., Reyes-Duarte D., Santos V.A., Strompl C., Elborough K., Jarvis G., Neef A., Yakimov M.M., Timmis K.N., Golyshin P.N. Novel hydrolase diversity retrieved from a metagenome library of bovine rumen microflora. Environ. Microbiol. 2005, 7:1996-2010.
11. Flint H.J., Bayer E.A. Plant cell wall breakdown by anaerobic microorganisms from the Mammalian digestive tract. Ann. N. Y. Acad. Sci. 2008, 1125:280-288.
12. Flint H.J., Bayer E.A., Rincon M.T., Lamed R., White B.A. Polysaccharide utilization by gut bacteria: potential for new insights from genomic analysis. Nat. Rev. Microbiol. 2008, 6:121-131.
13. Guo B., Chen X.L., Sun C.Y., Zhou B.C., Zhang Y.Z. Gene cloning, expression and characterization of a new cold-active and salt-tolerant endo-β-1, 4-xylanase from marine Glaciecola mesophila KMM 241. Appl. Microbiol. Biotechnol. 2009, 84:1107-1115.
14. Haegeman A., Vanholme B., Gheysen G. Characterization of a putative endoxylanase in the migratory plant-parasitic nematode Radopholus similis. Mol. Plant Pathol. 2009, 10:389-401.
15. Hou Y.H., Wang T.H., Long H., Zhu H.Y. Novel cold-adaptive Penicillium strain FS010 secreting thermo-labile xylanase isolated from Yellow Sea. Acta Biochim. Biophys. Sin. 2006, 38:142-149.
16. Hu Y., Zhang G., Li A., Chen J., Ma L. Cloning and enzymatic characterization of a xylanase gene from a soil-derived metagenomic library with an efficient approach. Appl. Microbiol. Biotechnol. 2008, 80:823-830.
17. Huang H., Wang G., Zhao Y., Shi P., Luo H., Yao B. Direct and efficient cloning of full-length genes from environmental DNA by RT-qPCR and modified TAIL-PCR. Appl. Microbiol. Biotechnol. 2010, 87:1141-1149.
18. Ihsanawati, Kumasaka T., Kaneko T., Morokuma C., Yatsunami R., Sato T., Nakamura S., Tanaka N. Structural basis of the substrate subsite and the highly thermal stability of xylanase 10B from Thermotoga maritima MSB8. Proteins 2005, 61:999-1009.
19. Khandeparkar R., Bhosle N.B. Application of thermoalkalophilic xylanase from Arthrobacter sp. MTCC 5214 in biobleaching of kraft pulp. Bioresour. Technol. 2007, 98:897-903.
20. Lee C.C., Smith M., Kibblewhite-Accinelli R.E., Williams T.G., Wagschal K., Robertson G.H., Wong D.W. Isolation and characterization of a cold-active xylanase enzyme from Flavobacterium sp. Curr. Microbiol. 2006, 52:112-116.
21. Lee C., Kibblewhite-Accinelli R., Wagschal K., Robertson G., Wong D. Cloning and characterization of a cold-active xylanase enzyme from an environmental DNA library. Extremophiles 2006, 10:295-300.
22. Liu J.R., Yu B., Lin S.H., Cheng K.J., Chen Y.C. Direct cloning of a xylanase gene from the mixed genomic DNA of rumen fungi and its expression in intestinal Lactobacillus reuteri. FEMS Microbiol. Lett. 2005, 251:233-241.
23. Lorenz P., Schleper C. Metagenome-a challenging source of enzyme discovery. J. Mol. Catal. B Enzym. 2002, 19-20:13-19.
24. Luo H., Yang J., Li J., Shi P., Huang H., Bai Y., Fan Y., Yao B. Molecular cloning and characterization of the novel acidic xylanase XYLD from Bispora sp. MEY-1 that is homologous to family 30 glycosyl hydrolases. Appl. Microbiol. Biotechnol. 2010, 86:1829-1839.
25. Menon V., Prakash G., Prabhune A., Rao M. Biocatalytic approach for the utilization of hemicellulose for ethanol production from agricultural residue using thermostable xylanase and thermotolerant yeast. Bioresour. Technol. 2010, 101:5366-5373.
26. Miller G.L., Blum R., Glennon W.E., Burton A.L. Measurement of carboxymethylcellulase activity. Anal. Biochem. 1960, 1:127-132.
27. Petrescu I., Lamotte-Brasseur J., Chessa J.P., Ntarima P., Claeyssens M., Devreese B., Marino G., Gerday C. Xylanase from the psychrophilic yeast Cryptococcus adeliae. Extremophiles 2000, 4:137-144.
28. Prade R.A. Xylanases: from biology to biotechnology. Biotechnol. Genet. Eng. Rev. 1996, 13:101-131.
29. Russell N.J. Toward a molecular understanding of cold activity of enzymes from psychrophiles. Extremophiles 2000, 4:83-90.
30. Siddiqui K.S., Cavicchioli R. Cold-adapted enzymes. Annu. Rev. Biochem. 2006, 75:403-433.
31. Solomon V., Teplitsky A., Shulami S., Zolotnitsky G., Shoham Y., Shoham G. Structure-specificity relationships of an intracellular xylanase from Geobacillus stearothermophilus. Acta Crystallogr. D Biol. Crystallogr. 2007, 63:845-859.
32. Tamura K., Dudley J., Nei M., Kumar S. MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol. Biol. Evol. 2007, 24:1596-1599.
33. Turkiewicz M., Kalinowska H., Zielinska M., Bielecki S. Purification and characterization of two endo-1,4-β-xylanases from Antarctic krill, Euphausia superba Dana. Comp. Biochem. Physiol. B Biochem. Mol. Biol. 2000, 127:325-335.
34. Wang G., Wang Y., Yang P., Luo H., Huang H., Shi P., Meng K., Yao B. Molecular detection and diversity of xylanase genes in alpine tundra soil. Appl. Microbiol. Biotechnol. 2010, 87:1383-1393.
35. Zhou J., Huang H., Meng K., Shi P., Wang Y., Luo H., Yang P., Bai Y., Zhou Z., Yao B. Molecular and biochemical characterization of a novel xylanase from the symbiotic Sphingobacterium sp. TN19. Appl. Microbiol. Biotechnol. 2009, 85:323-333.