Selection and characterization of forest soil metagenome genes encoding lipolytic enzymes

Journal of Microbiology and Biotechnology

Volumn 17, Issue 10, 2007, Pages 1655-1660

  Hong, Kyung Sik ^a   He, Kyoung Lim ^a   Chung, Eu Jin ^b   Park, Eun Jin ^b   Lee, Myung Hwan ^b   Kim, Jin Cheol ^a   Choi, Gyung Ja ^a   Cho, Kwang Yun ^a   Lee, Seon Woo ^b  

^a Korea Research Institute of Chemical Technology   (South Korea)

^b Dong A University   (South Korea)

Author keywords

Forest soil metagenome; GDSL family esterase lipase; Lipolytic enzymes

Indexed keywords

ALPHA HYDROLASE; BACTERIAL ENZYME; BETA HYDROLASE; BUTYRIC ACID 4 NITROPHENYL ESTER; BUTYRIC ACID DERIVATIVE; CARBOXYLESTERASE; HORMONE SENSITIVE LIPASE; HYDROLASE; LYSOPHOSPHOLIPASE; LYSOPHOSPHOLIPASE L1; SERINE PROTEINASE; TRIACYLGLYCEROL LIPASE; TRIBUTYRIN; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL GENOME; BACTERIUM CULTURE; CONTROLLED STUDY; ENZYME ACTIVITY; ENZYME RELEASE; ESCHERICHIA COLI; FOREST SOIL; GENE CLUSTER; GENE LIBRARY; GENETIC DATABASE; GENETIC SCREENING; HYDROLYSIS; LIPOLYSIS; METAGENOME; MOLECULAR CLONING; MOLECULAR PHYLOGENY; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PLASMID; SEQUENCE ANALYSIS; SOIL ANALYSIS; SUPERNATANT;

AMINO ACID SEQUENCE; CLONING, MOLECULAR; GENOME, BACTERIAL; GENOMIC LIBRARY; LIPASE; MOLECULAR SEQUENCE DATA; PHYLOGENY; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY; STEROL ESTERASE;

ESCHERICHIA COLI;

EID: 36048931377     PISSN: 10177825     EISSN: 17388872     Source Type: Journal    
DOI: None     Document Type: Article

References (29)

1. Akoh, C. C., G. C. Lee, Y. C. Liaw, T. H. Huang, and J. F. Shaw. 2004. GDSL family of serine esterases/lipases. Prog. Lipid Res. 43: 534-552.
2. Amann, R. I., W. Ludwig, and K. H. Schleifer. 1995. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59: 143-169.
3. Arpigny, J. L. and K. H. Jaeger. 1999. Bacterial lipolytic enzymes: Classification and properties. Biochem. J. 343: 177-183.
4. Béjà, O., M. T. Suzuki, E. V. Koonin, L. Aravind, A. Hadd, L. P. Nguyen, R. Villacorta, M. Amjadi, C. Garrigues, S. B. Jovanovich, R, A. Feldman, and E. F. DeLong. 2000. Construction and analysis of bacterial artificial chromosome libraries from a marine microbial assemblage. Environ. Microbiol. 2: 516-529.
5. Eom, G. T., J. S. Rhee, and J. K. Song. 2006. An efficient secretion of type I secretion pathway-dependent lipase, TliA, in Escherichia coli: Effect of relative expression levels and timing of passenger protein and ABC transporter. J. Microbiol. Biotechnol. 16: 1422-1428.
6. Fenster, K. M., K. L. Parkin, and J. L. Steele. 2000. Characterization of an arylesterase from Lactobacillus helveticus CNRZ32. J. Appl. Microbiol. 88: 572-583.
7. Handelsman, J. 2004. Metagenomics: Application of genomics to uncultured microorganisms. Microbiol. Mol. Biol. Rev. 68:669-685.
8. Henne, A., R. A. Schmitz, M. Bomeke, G, Gottschalk, and R. Daniel. 2000. Screening of environmental DNA libraries for the presence of genes conferring lipolytic activity of Escherichia coli. Appl. Environ. Microbiol. 66: 3113-3116.
9. Hugenholtz, P. and N. R. Pace. 1996. Identifying microbial diversity in the natural environinent: A molecular phylogenetic approach. Trends Biotechnol. 14: 190-197.
10. Jaeger, K. E., S. Ransac, B. W. Dijkstra, C. Colson, M. van Heuvel, and O. Misset. 1994. Bacterial lipases. FEMS Microbiol. Rev. 15: 29-63.
11. Jaeger, K. E. and T. Eggert. 2002. Lipases for biotechnology. Curr. Opin. Biotechnol. 13: 390-397.
12. Ji, S. C., D. Kim, J.-H. Yoon, T.-K. Oh, and C.-H. Lee. 2006. Sequence-based screening for putative polyketide synthase gene-harboring clones from soil metagenomic library. J. Microbiol. Biotechnol. 16: 153-157.
13. Karasawa, K., K. Yokoyama, M. Setaka, and S. Nojima. 1999. The Escherichia coli pldC gene encoding lysophospholipase L(1) is identical to the apeA and tesA genes encoding protease I and thioesterase I, respectively. J. Biochem. 126: 445-448.
14. Kim, J.-N., M. J. Seo, E. A. Cho, S. J. Lee, S.-B. Kim, C.-I. Cheigh, and Y-R. Pyun. 2005. Screening and characterization of an esterase from a metagenomic library. J. Microbiol. Biotechnol. 15: 1067-1072.
15. Kim, U. J., H. Shizuya, P. J. De Jong, B. Birren, and M. I. Simon. 1992. Stable propagation of cosmid-sized human DNA inserts in an F factor based vector. Nucleic Acids Res. 20: 1083-1085.
16. Kiyasu, T., Y Nagahashi, and T. Hoshino. 2001. Cloning and characterization of biotin biosynthetic genes of Kurthia sp. Gene 265: 103-113.
17. Lee, S. W., K. Won, H. K. Lim, J. C. Kim, G. J. Choi, and K. Y. Cho. 2004. Screening for novel lipolytic enzymes from uncultured soil microorganisms. Appl. Microbiol. Biotechnol. 65:720-726.
18. Lim, H. K., E. J. Chung, J. C. Kim, G. J. Choi, G. S. Jang, Y. R. Chung, K. Y. Cho, and S.-W. Lee. 2005. Characterization of a forest soil metagenome clone that confers indirabin and indigo production on Escherichia coli. Appl. Environ. Microbiol. 71: 7768-7777.
19. Lorenz, P. and C. Schleper. 2002. Metagenome - a challenging source of enzyme discovery. J. Mol. Catal. B Enzym. 19-20: 13-19.
20. Nolling, J., G. Breton, M. V. Omelchenko, K. S. Makarova, O. Zeng, R. Gibson, H. M. Lee, J. Dubois, D. Qiu, J. Hitti, Y. I. Wolf, R. L. Tatusov, F. Sabathe, L. Doucette-Stamm, P. Soucaille, M. J. Daly, G. N. Bennett, E. V. Koonin, and D. R. Smith. 2001. Genome sequence and comparative analysis of the solvent-producing bacterium Clostridium acetobutylicum. J. Bacteriol. 183: 4823-4838.
21. Rondon, M. R., P. R. August, A. D. Bettermann, S. F. Brady, T. H. Grossman, and M. R. Liles. 2000. Cloning the soil metagenome: A strategy for accessing the genetic and functional diversity of uncultured microorganisms. Appl. Environ. Microbiol. 66: 2541-2547.
22. Saitou, N. and M. Nei. 1987. The neighbor-joining method: A new method for constructing phylogenctic trees. Mol. Biol. Evol. 4: 406-425.
23. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular Cloning: A Laboratory Manual, 2nd Ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
24. Tasaki, Y., H. Yoshikawa, and H. Tamura. 2006. Isolation and characterization of an alcohol dehydrogenase gene from the octylphenol polyethoxylate degrader Pseudomonas putida S-5. Biosci. Biotechnol. Biochem. 70: 1855-1863.
25. Thompson, J. D., D. G. Higgins, and T. J. Gibson. 1994. CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Res. 22: 4673-4680.
26. Torsvik, V., F. L. Daae, R. A. Sandaa, and L. Øvreås. 1998. Novel techniques for analyzing microbial diversity in natural and perturbed environments. J. Biotechnol. 64: 53-62.
27. Ueda, K., A. Yamashita, J. Ishikawa, T. O. Watsuji, H. Ikeda, M. Hattori, and T. Beppu. 2004. Genome sequence of Symbiobacterium thermophilum, an uncultivable bacterium that depends on microbial commensalisms. Nucleic Acids Res. 32: 4937-4944.
28. Wei, Y., J. A. Contreras, P. Sheffield, T. Osterlund, U. Derewenda, and R. E. Kneusel. 1999. Crystal structure of brefeldin A esterase, a bacterial homolog of the mammalian hormone-sensitive lipase. Nat. Struct. Biol. 6: 340-345.
29. Zhou, J., M. A. Bruns, and J. M. Tiedje. 1996. DNA recovery from soils of diverse composition Appl. Environ. Microbiol. 62: 316-322.