A new esterase EstD2 isolated from plant rhizosphere soil metagenome

Applied Microbiology and Biotechnology

Volumn 88, Issue 5, 2010, Pages 1125-1134

  Lee, Myung Hwan ^a   Hong, Kyung Sik ^b   Malhotra, Shweta ^a   Park, Ji Hye ^a   Hwang, Eul Chul ^a   Choi, Hong Kyu ^a   Kim, Young Sup ^b   Tao, Weixin ^a   Lee, Seon Woo ^a  

^a Dong A University   (South Korea)

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

Author keywords

Esterase; Plant rhizosphere; Soil metagenome

Indexed keywords

DNA SEQUENCE ANALYSIS; ENZYMATIC ACTIVITIES; ESTERASE; HYPOTHETICAL PROTEIN; LIPOLYTIC; LIPOLYTIC ACTIVITY; LIPOLYTIC ENZYMES; METAGENOMES; METAGENOMIC LIBRARIES; MICROBIAL DIVERSITY; OPEN READING FRAME; OPTIMAL ACTIVITY; PHYLOGENETIC ANALYSIS; PLANT RHIZOSPHERE; RECOMBINANT PLASMID; RHIZOSPHERE SOILS;

CATALYSTS; ENZYMES; ESCHERICHIA COLI; METHANOL; PURIFICATION;

SOILS;

BUTANOL; BUTYRIC ACID 4 NITROPHENYL ESTER; ESTD2 ESTERASE; ESTERASE; METHANOL; UNCLASSIFIED DRUG;

COLIFORM BACTERIUM; ENZYME ACTIVITY; ETHANOL; GENETIC ANALYSIS; PHYLOGENETICS; PLASMID; RHIZOSPHERE; SOIL MICROORGANISM;

AMINO ACID SEQUENCE; ARTICLE; DNA SEQUENCE; ENZYME ACTIVITY; ESCHERICHIA COLI; GENE EXPRESSION; LIPOLYSIS; METAGENOME; NUCLEOTIDE SEQUENCE; PHENYLOBACTERIUM ZUCINEUM; PHYLOGENY; RECOMBINANT PLASMID; RHIZOSPHERE; SOIL;

AMINO ACID SEQUENCE; BACTERIAL PROTEINS; BIOTA; BUTYRATES; CAULOBACTERACEAE; CLONING, MOLECULAR; DNA, BACTERIAL; ESCHERICHIA COLI; ESTERASES; GENE EXPRESSION; GENOME, BACTERIAL; GENOMIC LIBRARY; METAGENOME; MOLECULAR SEQUENCE DATA; PHYLOGENY; PLASMIDS; REPUBLIC OF KOREA; RHIZOSPHERE; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY; SUBSTRATE SPECIFICITY;

ESCHERICHIA COLI; PHENYLOBACTERIUM;

EID: 78149409119     PISSN: 01757598     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00253-010-2729-6     Document Type: Article

References (36)

1. RI Amann W Ludwig KH Schleifer 1995 Phylogenetic identification and in situ detection of individual microbial cells without cultivation Microbiol Rev 59 143 169 1:CAS:528:DyaK2MXkvVGmurk%3D
2. JL Arpigny KE Jaeger 1999 Bacterial lipolytic enzymes: classification and properties Biochem J 343 177 183 1:CAS:528:DyaK1MXmvVyju7o%3D 10.1042/0264-6021:3430177
3. D Atkinson CA Watson 2000 The beneficial rhizosphere: a dynamic entity Appl Soil Ecol 15 99 104 10.1016/S0929-1393(00)00084-6
4. A Beloqui M Pita J Polaina A Martíez-Arias OV Golyshina M Zumárraga MM Yakimov H García-Arellano M Alcalde VM Fernández K Elborough JM Andreu A Ballesteros FJ Plou KN Timmis M Ferrer PN Golyshin 2006 Novel polyphenol oxidase mined from a metagenome expression library of bovine rumen: biochemical properties, structural analysis, and phylogenetic relationships J Biol Chem 281 22933 22942 1:CAS:528: DC%2BD28XnvVWjtr0%3D 10.1074/jbc.M600577200
5. EJ Chung HK Lim JC Kim GJ Choi EJ Park MH Lee YR Chung SW Lee 2008 Forest soil metagenome gene cluster involved in antifungal activity expression in Escherichia coli Appl Environ Microbiol 74 723 730 1:CAS:528: DC%2BD1cXhvVSqu7s%3D 10.1128/AEM.01911-07
6. MT Cottrell JA Moore DL Kirchman 1999 Chitinases from uncultured marine microorganisms Appl Environ Microbiol 65 2553 2557 1:CAS:528:DyaK1MXjs12gtr0%3D
7. C Elend C Schmeisser C Leggewie P Babiak JD Carballeria HL Steele JL Reymond KE Jaeger WR Streit 2006 Isolation and biochemical characterization of two novel metagenome-derived esterases Appl Environ Microbiol 72 3637 3645 1:CAS:528:DC%2BD28XkvFWjtrg%3D 10.1128/AEM.72.5.3637-3645.2006
8. M Ferrer OV Golyshina TN Chernikova AN Khachane VAP Martins dos Santos MM Yakimov KN Timmis PN Golyshin 2005 Microbial enzymes mined from the Urania deep-sea hypersaline anoxic basin Chem Biol 12 895 904 1:CAS:528: DC%2BD2MXptVektrw%3D 10.1016/j.chembiol.2005.05.020
9. J Handelsman 2004 Metagenomics: application of genomics to uncultured microorganisms Microbiol Mol Biol Rev 68 669 685 1:CAS:528: DC%2BD2MXjvFSgsQ%3D%3D 10.1128/MMBR.68.4.669-685.2004
10. CJ Harrison JA Langdale 2006 A step by step guide to phylogeny reconstruction Plant J 45 561 572 1:CAS:528:DC%2BD28XislWit7o%3D 10.1111/j.1365-313X.2005.02611.x
11. F Hasan AA Shah A Hameed 2006 Industrial applications of microbial lipases Enzyme Microb Technol 39 235 251 1:CAS:528:DC%2BD28XkslSksbc%3D 10.1016/j.enzmictec.2005.10.016
12. A Henne RA Schmitz M Bömeke G Gottschalk 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 1:CAS:528:DC%2BD3cXkslKltLc%3D 10.1128/AEM.66.7.3113-3116.2000
13. P Hugenholtz NR Pace 1996 Identifying microbial diversity in the natural environment: a molecular phylogenetic approach Trends Biotechnol 14 190 197 1:CAS:528:DyaK28XjsVWitr0%3D 10.1016/0167-7799(96)10025-1
14. KE Jaeger T Eggert 2002 Lipases for biotechnology Curr Opin Biotechnol 13 390 397 1:CAS:528:DC%2BD38XmsFOnsb8%3D 10.1016/S0958-1669(02)00341-5
15. EY Kim KH Oh MH Lee CH Kang TK Oh JH Yoon 2009 Novel cold-adapted alkaline lipase from intertidal flat metagenome and proposal of a new family of bacterial lipase Appl Environ Microbiol 75 257 260 1:CAS:528: DC%2BD1MXktlejurw%3D 10.1128/AEM.01400-08
16. JS Kim HK Lim MH Lee JH Park EC Hwang BJ Moon SW Lee 2009 Production of porphyrin intermediates in Escherichia coli carrying soil metagenomic genes FEMS Microbiol Lett 295 42 49 1:CAS:528:DC%2BD1MXmt1ClsL0%3D 10.1111/j.1574-6968. 2009.01577.x
17. DG Lee JH Jeon MK Jang NY Kim JH Lee JH Lee SJ Kim GD Kim SH Lee 2007 Screening and characterization of a novel fibrinolytic metalloprotease from a metagenomic library Biotechnol Lett 29 465 472 1:CAS:528:DC%2BD2sXhvVehtrw%3D 10.1007/s10529-006-9263-8
18. MH Lee CH Lee TK Oh JK Song JH Yoon 2006 Isolation and characterization of a novel lipase from a metagenomic library of tidal flat sediments: evidence for a new family of bacterial lipases Appl Environ Microbiol 72 7406 7409 1:CAS:528:DC%2BD28Xht1GksrvJ 10.1128/AEM.01157-06
19. SW Lee K Won HK Lim JC Kim GJ Choi KY Cho 2004 Screening for novel lipolytic enzymes from uncultured soil microorganisms Appl Microbiol Biotechnol 65 720 726 1:CAS:528:DC%2BD2cXoslSlu7w%3D 10.1007/s00253-004-1722-3
20. HK Lim EJ Chung JC Kim GJ Choi KS Jang YR Chung KY Cho SW Lee 2005 Characterization of a forest soil metagenome clone that confers indirubin and indigo production on Escherichia coli Appl Environ Microbiol 71 7768 7777 1:CAS:528:DC%2BD2MXhtlehtLrK 10.1128/AEM.71.12.7768-7777.2005
21. Y Luo X Xu Z Ding Z Liu B Zhang Z Yan J Sun S Hu X Hu 2008 Complete genome of Phenylobacterium zucineum-a novel facultative intracellular bacterium isolated from human erythroleukemia cell line K562 BMC Genomics 9 386 10.1186/1471-2164-9-386
22. WC Nierman TV Feldblyum MT Laub IT Paulsen KE Nelson J Eisen JF Heidelberg MRK Alley N Ohta JR Maddock I Potocka WC Nelson A Newton C Stephens ND Phadke B Ely RT DeBoy RJ Dodson SA Durkin ML Gwinn DH Haft JF Kolonay J Smit MB Craven H Khouri J Shetty K Berry T Utterback K Tran A Wolf J Vamathevan M Ermolaeva O White SL Salzberg CJ Venter L Shapiro CM Fraser 2001 Complete genome sequence of Caulobacter crescentus Proc Natl Acad Sci U S A 98 4136 4141 1:CAS:528:DC%2BD3MXis1KhtLw%3D 10.1073/pnas.061029298
23. SY Park JT Kim SG Kang JH Woo JH Lee HT Choi SJ Kim 2007 A new esterase showing similarity to putative dienelactone hydrolase from a strict marine bacterium, Vibrio sp. GMD509 Appl Microbiol Biotechnol 77 107 115 1:CAS:528:DC%2BD2sXhtFGgs7bF 10.1007/s00253-007-1134-2
24. HC Rees S Grant B Jones WD Grant S Heaphy 2003 Detecting cellulase and esterase enzyme activities encoded by novel genes present in environmental DNA libraries Extremophiles 7 415 421 1:CAS:528:DC%2BD3sXnslSnsb0%3D 10.1007/s00792-003-0339-2
25. DE Robertson JA Chaplin G DeSantis M Podar M Madden E Chi T Richardson A Milan M Miller DP Weiner K Wong J McQuaid B Farwell LA Preston X Tan MA Snead M Keller E Mathur PL Kretz MJ Burk JM Short 2004 Exploring nitrilase sequence space for enantioselective catalysis Appl Environ Microbiol 70 2429 2436 1:CAS:528:DC%2BD2cXjtlOhs7g%3D 10.1128/AEM.70.4.2429-2436.2004
26. MR Rondon PR August AD Bettermann SF Brady TH Grossman MR Liles KA Loiacono BA Lynch IA MacNeil C Minor CL Tiong M Gilman MS Osburne J Clardy J Handelsman RM Goodman 2000 Cloning the soil metagenome: a strategy for accessing the genetic and functional diversity of uncultured microorganisms Appl Environ Microbiol 66 2541 2547 1:CAS:528:DC%2BD3cXjvFWns7c%3D 10.1128/AEM.66.6.2541- 2547.2000
27. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning. A laboratory manual, 2nd edn. Cold Spring Harbor Laboratory Press, New York
28. M Sandkvist 2001 Type II secretion and pathogenesis Infect Immun 69 3523 3535 1:STN:280:DC%2BD3MzntFejtg%3D%3D 10.1128/IAI.69.6.3523-3535.2001
29. J Shah 2005 Lipids, lipases, and lipid-modifying enzymes in plant disease resistance Annu Rev Phytopathol 43 229 260 1:CAS:528:DC%2BD2MXhtVOksrrP 10.1146/annurev.phyto.43.040204.135951
30. C Simon R Daniel 2009 Achievements and new knowledge unraveled by metagenomic approaches Appl Microbiol Biotechnol 85 265 276 1:CAS:528: DC%2BD1MXhtlKhtrnK 10.1007/s00253-009-2233-z
31. Swofford DL (2003) PAUP*: Phylogenetic Analysis Using Parsimony (*and Other Methods), Version 4.0b 10. Sunderland, MA: Sinauer Associates
32. JD Thompson TJ Gibson F Plewniak F Jeanmougin DG Hoggins 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
33. JD Thompson DG Higgins TJ 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 1:CAS:528:DyaK2MXitlSgu74%3D 10.1093/nar/22.22.4673
34. X Wang 2004 Lipid signaling Curr Opin Plant Biol 7 329 336 1:CAS:528:DC%2BD2cXjvVamsLk%3D 10.1016/j.pbi.2004.03.012
35. J Yun S Kang S Park H Yoon MJ Kim S Heu S Ryu 2004 Characterization of a novel amylolytic enzyme encoded by a gene from a soil-derived metagenomic library Appl Environ Microbiol 70 7229 7235 1:CAS:528:DC%2BD2cXhtFaitrzI 10.1128/AEM.70.12.7229-7235.2004
36. J Zhou MA Bruns JM Tiedje 1996 DNA recovery from soils of diverse composition Appl Environ Microbiol 62 316 322 1:CAS:528:DyaK28XovVCnsw%3D%3D