Isolation and partial characterization of novel genes encoding acidic cellulases from metagenomes of buffalo rumens

Journal of Applied Microbiology

Volumn 107, Issue 1, 2009, Pages 245-256

  Duan, C J ^a   Xian, L ^a   Zhao, G C ^a   Feng, Y ^a   Pang, H ^a   Bai, X L ^a   Tang, J L ^a   Ma, Q S ^a   Feng, J X ^a  

^a GUANGXI UNIVERSITY   (China)

Author keywords

Cellulase; Glycosyl hydrolase; Metagenome; Properties; Ruminal microorganisms

Indexed keywords

CLONING; ENCODING (SYMBOLS); ESCHERICHIA COLI; GENE ENCODING; SIGNAL ENCODING;

CELLULASE; CELLULASE ACTIVITY; CELLULASE GENES; GENES ENCODING; GLYCOSYL HYDROLASES; METAGENOMES; NOVEL GENES; PARTIAL CHARACTERIZATION; PROPERTY; RUMINAL MICROORGANISMS;

ENZYME ACTIVITY;

CELLULASE; DITHIOTHREITOL; GLUCAN SYNTHASE; GLYCOSIDASE; HYALURONIDASE; RECOMBINANT ENZYME;

ACIDITY; DEGRADATION; DIGESTIVE SYSTEM; ENZYME ACTIVITY; GENOME; RECOMBINATION; UNGULATE;

ACIDITY; ANIMAL CELL; ANIMAL EXPERIMENT; ARTICLE; BUFFALO; ENZYME ACTIVITY; ENZYME PURIFICATION; ENZYME STABILITY; ESCHERICHIA COLI; GENE ISOLATION; GENE LIBRARY; GENE OVEREXPRESSION; GENETIC CODE; METAGENOMICS; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; RUMINANT STOMACH;

ESCHERICHIA COLI;

EID: 66849138277     PISSN: 13645072     EISSN: 13652672     Source Type: Journal    
DOI: 10.1111/j.1365-2672.2009.04202.x     Document Type: Article

References (46)

1. Allen, M.S. (1997) Relationship between fermentation acid production in the rumen and the requirement for physically effective fiber. J Dairy Sci 80, 1447 1462. (Pubitemid 127460851)
2. An, D., Dong, X. Dong, Z. (2005) Prokaryote diversity in the rumen of yak (Bos grunniens) and Jinnan cattle (Bos taurus) estimated by 16S rDNA homology analyses. Anaerobe 11, 207 215. (Pubitemid 40724527)
3. Bera, C., Broussolle, V., Forano, E. Gaudet, G. (1996) Gene sequence analysis and properties of EGC, a family E(9) endoglucanase from Fibrobacter succinogenes BL2. FEMS Microbiol Lett 136, 79 84. (Pubitemid 26064617)
4. Bradford, M.M. (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.
5. Calsamiglia, S., Ferret, A. Devant, M. (2002) Effects of pH and pH fluctuations on microbial fermentation and nutrient flow from a dual-flow continuous culture system. J Dairy Sci 85, 574 579. (Pubitemid 38572277)
6. Cerrato-Sanchez, M., Calsamiglia, S. Ferret, A. (2008) Effect of the magnitude of the decrease of rumen pH on rumen fermentation in a dual-flow continuous culture system. J Anim Sci 86, 378 383.
7. Cheng, K.J., Forsberg, C.W., Minato, H. Costerton, J.W. (1991) Microbial ecology and physiology of feed degradation within the rumen. In Physiological Aspects of Digestion and Metabolism in Ruminants ed. Tsuda, T., Sasaki, Y. Kawashima, R. pp. 595 624. Ontario, Canada : Academic Press.
8. Daniel, R. (2005) The metagenomics of soil. Nat Rev Microbiol 3, 470 478. (Pubitemid 40716173)
9. de Vries, R.P. Visser, J. (2001) Aspergillus enzymes involved in degradation of plant cell wall polysaccharides. Microbiol Mol Biol Rev 65, 497 522. (Pubitemid 33123516)
10. Eckert, K. Schneider, E. (2003) A thermoacidophilic endoglucanase (CelB) from Alicyclobacillus acidocaldarius displays high sequence similarity to arabinofuranosidases belonging to family 51 of glycoside hydrolases. Eur J Biochem 270, 3593 3602. (Pubitemid 37046740)
11. Feng, Y., Duan, C.J., Pang, H., Mo, X.C., Wu, C.F., Yu, Y., Hu, Y.L., Wei, J., et al. (2007) Cloning and identification of novel cellulase genes from uncultured microorganisms in rabbit cecum and characterization of the expressed cellulases. Appl Microbiol Biotechnol 75, 319 328. (Pubitemid 46866527)
12. Ferrer, M., Golyshina, O.V., Chernikova, T.N., Khachane, A.N., Reyes-Duarte, D., Santos, V.A., Strompl, C., Elborough, K., et al. (2005) Novel hydrolase diversity retrieved from a metagenome library of bovine rumen microflora. Environ Microbiol 7, 1996 2010. (Pubitemid 41752387)
13. Gao, J., Weng, H., Zhu, D., Yuan, M., Guan, F. Xi, Y. (2008) Production and characterization of cellulolytic enzymes from the thermoacidophilic fungal Aspergillus terreus M11 under solid-state cultivation of corn stover. Bioresour Technol 99, 7623 7629.
14. Gardner, R.G., Wells, J.E., Fields, M.W., Wilson, D.B. Russell, J.B. (1997) A Prevotella ruminicola B(1)4 operon encoding extracellular polysaccharide hydrolases. Curr Microbiol 35, 274 277. (Pubitemid 27494922)
15. Healy, F.G., Ray, R.M., Aldrich, H.C., Wilkie, A.C., Ingram, L.O. Shanmugam, K.T. (1995) Direct isolation of functional genes encoding cellulases from the microbial consortia in a thermophilic, anaerobic digester maintained on lignocellulose. Appl Microbiol Biotechnol 43, 667 674.
16. Inoue, T., Moriya, S., Ohkuma, M. Kudo, T. (2005) Molecular cloning and characterization of a cellulase gene from a symbiotic protist of the lower termite, Coptotermes formosanus. Gene 349, 67 75.
17. Johnson, E.A. Demain, A.L. (1984) Probable involvement of sulfhydryl groups and a metal as essential components of the cellulase of Clostridium thermocellum. Arch Microbiol 137, 135 138. (Pubitemid 14157094)
18. Johnson, E.A., Sakajoh, M., Halliwell, G., Madia, A. Demain, A.L. (1982) Saccharification of complex cellulosic substrates by the cellulase system from Clostridium thermocellum. Appl Environ Microbiol 43, 1125 1132. (Pubitemid 12067117)
19. Kim, S.J., Lee, C.M., Han, B.R., Kim, M.Y., Yeo, Y.S., Yoon, S.H., Koo, B.S. Jun, H.K. (2008) Characterization of a gene encoding cellulase from uncultured soil bacteria. FEMS Microbiol Lett 282, 44 51.
20. Koike, S., Yoshitani, S., Kobayashi, Y. Tanaka, K. (2003) Phylogenetic analysis of fiber-associated rumen bacterial community and PCR detection of uncultured bacteria. FEMS Microbiol Lett 229, 23 30. (Pubitemid 37504999)
21. Krause, K.M. Combs, D.K. (2003) Effects of forage particle size, forage source, and grain fermentability on performance and ruminal pH in midlactation cows. J Dairy Sci 86, 1382 1397. (Pubitemid 39017236)
22. Krause, D.O., Denman, S.E., Mackie, R.I., Morrison, M., Rae, A.L., Attwood, G.T. McSweeney, C.S. (2003) Opportunities to improve fiber degradation in the rumen: microbiology, ecology, and genomics. FEMS Microbiol Rev 27, 663 693. (Pubitemid 37456863)
23. Laemmli, U.K. (1970) Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227, 680 685.
24. Lorenz, P. Eck, J. (2005) Metagenomics and industrial applications. Nat Rev Microbiol 3, 510 516. (Pubitemid 40716178)
25. Lynd, L.R., Weimer, P.J., van Zyl, W.H. Pretorius, I.S. (2002) Microbial cellulose utilization: fundamentals and biotechnology. Microbiol Mol Biol Rev 66, 506 577. (Pubitemid 35005827)
26. Malburg, L.M. Jr., Iyo, A.H. Forsberg, C.W. (1996) A novel family 9 endoglucanase gene (celD), whose product cleaves substrates mainly to glucose, and its adjacent upstream homolog (celE) from Fibrobacter succinogenes S85. Appl Environ Microbiol 62, 898 906. (Pubitemid 26071456)
27. Malburg, S.R., Malburg, L.M., Jr., Liu, T., Iyo, A.H. Forsberg, C.W. (1997) Catalytic properties of the cellulose-binding endoglucanase F from Fibrobacter succinogenes S85. Appl Environ Microbiol 63, 2449 2453. (Pubitemid 27232952)
28. McGavin, M. Forsberg, C.W. (1988) Isolation and characterization of endoglucanases 1 and 2 from Bacteroides succinogenes S85. J Bacteriol 170, 2914 2922. (Pubitemid 18171745)
29. Michalet-Doreau, B., Fernandez, I. Fonty, G. (2002) A comparison of enzymatic and molecular approaches to characterize the cellulolytic microbial ecosystems of the rumen and the cecum. J Anim Sci 80, 790 796. (Pubitemid 41138528)
30. Michalet-Doreau, B., Fernandez, I., Peyron, C., Millet, L. Fonty, G. (2001) Fibrolytic activities and cellulolytic bacterial community structure in the solid and liquid phases of rumen contents. Reprod Nutr Dev 41, 187 194. (Pubitemid 32590892)
31. Miller, G.L. (1959) Use of dinitrosalicyclic acid reagent for determination of reducing sugar. Anal Chem 31, 426 428.
32. Miller, D.N., Bryant, J.E., Madsen, E.L. Ghiorse, W.C. (1999) Evaluation and optimization of DNA extraction and purification procedures for soil and sediment samples. Appl Environ Microbiol 65, 4715 4724.
33. Nocek, J.E., Allman, J.G. Kautz, W.P. (2002) Evaluation of an indwelling ruminal probe methodology and effect of grain level on diurnal pH variation in dairy cattle. J Dairy Sci 85, 422 428. (Pubitemid 38554698)
34. Odoux, E., Escoute, J., Verdeil, J.L. Brillouet, J.M. (2003) Localization of beta-d-glucosidase activity and glucovanillin in vanilla bean (Vanilla planifolia Andrews). Ann Bot (Lond) 92, 437 444. (Pubitemid 41295699)
35. Palackal, N., Lyon, C.S., Zaidi, S., Luginbuhl, P., Dupree, P., Goubet, F., Macomber, J.L. Short, J.M. (2007) A multifunctional hybrid glycosyl hydrolase discovered in an uncultured microbial consortium from ruminant gut. Appl Microbiol Biotechnol 74, 113 124. (Pubitemid 46183475)
36. Parry, N.J., Beever, D.E., Owen, E., Nerinckx, W., Claeyssens, M., Van Beeumen, J. Bhat, M.K. (2002) Biochemical characterization and mode of action of a thermostable endoglucanase purified from Thermoascus aurantiacus. Arch Biochem Biophys 404, 243 253. (Pubitemid 34913555)
37. Rees, H.C., Grant, S., Jones, B., Grant, W.D. Heaphy, S. (2003) Detecting cellulase and esterase enzyme activities encoded by novel genes present in environmental DNA libraries. Extremophiles 7, 415 421. (Pubitemid 41512721)
38. Russell, J.B. Wilson, D.B. (1996) Why are ruminal cellulolytic bacteria unable to digest cellulose at low pH? J Dairy Sci 79, 1503 1509. (Pubitemid 126429194)
39. Sambrook, J. Russell, D.W. (2001) Molecular Cloning: A Laboratory Manual, 3rd edn. Cold Spring Harbor, New York : Cold Spring Harbor Laboratory Press.
40. Tajima, K., Aminov, R.I., Nagamine, T., Ogata, K., Nakamura, M., Matsui, H. Benno, Y. (1999) Rumen bacterial diversity as determined by sequence analysis of 16S rDNA libraries. FEMS Microbiol Ecol 29, 159 169. (Pubitemid 29353212)
41. Voget, S., Steele, H.L. Streit, W.R. (2006) Characterization of a metagenome-derived halotolerant cellulase. J Biotechnol 126, 26 36. (Pubitemid 44402764)
42. Voget, S., Leggewie, C., Uesbeck, A., Raasch, C., Jaeger, K.E. Streit, W.R. (2003) Prospecting for novel biocatalysts in a soil metagenome. Appl Environ Microbiol 69, 6235 6242. (Pubitemid 37280349)
43. Wales, W.J., Kolver, E.S., Thorne, P.L. Egan, A.R. (2004) Diurnal variation in ruminal pH on the digestibility of highly digestible perennial ryegrass during continuous culture fermentation. J Dairy Sci 87, 1864 1871. (Pubitemid 38893320)
44. Warnecke, F., Luginbuhl, P., Ivanova, N., Ghassemian, M., Richardson, T.H., Stege, J.T., Cayouette, M., McHardy, A.C., et al. (2007) Metagenomic and functional analysis of hindgut microbiota of a wood-feeding higher termite. Nature 450, 560 565. (Pubitemid 350190243)
45. Wood, T.M. (1971) The cellulase of Fusarium solani. Purification and specificity of the β-(1-4)-glucanase and the β-d-glucosidase components. Biochem J 121, 353 362.
46. Yang, W.Z., Beauchemin, K.A. Rode, L.M. (2001) Effects of grain processing, forage to concentrate ratio, and forage particle size on rumen pH and digestion by dairy cows. J Dairy Sci 84, 2203 2216. (Pubitemid 33614549)