Construction and functional screening of a metagenomic library using a T7 RNA polymerase-based expression cosmid vector

Journal of Industrial Microbiology and Biotechnology

Volumn 38, Issue 9, 2011, Pages 1321-1328

  Lussier, François Xavier ^a   Chambenoit, Olivier ^a   Côté, Amélie ^a   Hupé, Jean François ^a   Denis, François ^a   Juteau, Pierre ^a   Beaudet, Réjean ^a   Shareck, François ^a  

^a INRS INSTITUT ARMAND FRAPPIER   (Canada)

Author keywords

Biomass enrichment; Functional screening; Metagenomics; pFX583

Indexed keywords

DNA; PROTEINASE; RNA POLYMERASE; TRIACYLGLYCEROL LIPASE;

ARTICLE; BIOMASS; CONTROLLED STUDY; COSMID VECTOR; ENZYME ACTIVITY; ESCHERICHIA COLI; GENETIC TRANSCRIPTION; LIPOLYSIS; METAGENOMICS; MOLECULAR CLONING; MOLECULAR LIBRARY; NONHUMAN; PROTEIN DEGRADATION; STREPTOMYCES LIVIDANS;

AMINO ACID SEQUENCE; CLONING, MOLECULAR; COSMIDS; DNA-DIRECTED RNA POLYMERASES; ESCHERICHIA COLI; GENOMIC LIBRARY; HIGH-THROUGHPUT SCREENING ASSAYS; LIPASE; METAGENOMICS; MOLECULAR SEQUENCE DATA; STREPTOMYCES LIVIDANS; VIRAL PROTEINS;

ESCHERICHIA COLI; STREPTOMYCES LIVIDANS;

EID: 80052513291     PISSN: 13675435     EISSN: 14765535     Source Type: Journal    
DOI: 10.1007/s10295-010-0915-2     Document Type: Article

References (43)

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 7535888 1:CAS:528:DyaK2MXkvVGmurk%3D
2. JL Arpigny KE Jaeger 1999 Bacterial lipolytic enzymes: classification and properties Biochem J 343 177 183 10493927 10.1042/0264-6021:3430177 1:CAS:528:DyaK1MXmvVyju7o%3D (Pubitemid 29473893)
3. GC Barnard GE Henderson S Srinivasan TU Gerngross 2004 High level recombinant protein expression in Ralstonia eutropha using T7 RNA polymerase based amplification Protein Expr Purif 38 264 271 15555942 10.1016/j.pep.2004. 09.001 1:CAS:528:DC%2BD2cXhtVSnt7jK (Pubitemid 39527265)
4. C Binnie JD Cossar DI Stewart 1997 Heterologous biopharmaceutical protein expression in Streptomyces Trends Biotechnol 15 315 320 9263479 10.1016/S0167-7799(97)01062-7 1:CAS:528:DyaK2sXlt1Cns7c%3D (Pubitemid 27330627)
5. JS Bond PE Butler 1987 Intracellular proteases Annu Rev Biochem 56 333 364 3304137 10.1146/annurev.bi.56.070187.002001 1:CAS:528:DyaL2sXkvFagtb8%3D
6. B Conrad RS Savchenko R Breves J Hofemeister 1996 A T7 promoter-specific, inducible protein expression system for Bacillus subtilis Mol Gen Genet 250 230 236 8628223 1:CAS:528:DyaK28XhsFOktbw%3D
7. S Courtois CM Cappellano M Ball FX Francou P Normand G Helynck A Martinez SJ Kolvek J Hopke MS Osburne PR August R Nalin M Guerineau P Jeannin P Simonet JL Pernodet 2003 Recombinant environmental libraries provide access to microbial diversity for drug discovery from natural products Appl Environ Microbiol 69 49 55 12513976 10.1128/AEM.69.1.49-55.2003 1:CAS:528:DC%2BD3sXkvVahtA%3D%3D (Pubitemid 36077456)
8. R Daniel 2004 The soil metagenome-a rich resource for the discovery of novel natural products Curr Opin Biotechnol 15 199 204 15193327 10.1016/j.copbio.2004.04.005 1:CAS:528:DC%2BD2cXkvV2guro%3D (Pubitemid 38749041)
9. R Daniel 2005 The metagenomics of soil Nat Rev Microbiol 3 470 478 15931165 10.1038/nrmicro1160 1:CAS:528:DC%2BD2MXksFKmsL8%3D (Pubitemid 40716173)
10. T Drepper S Arvani F Rosenau S Wilhelm KE Jaeger 2005 High-level transcription of large gene regions: a novel T(7) RNA-polymerase-based system for expression of functional hydrogenases in the phototrophic bacterium Rhodobacter capsulatus Biochem Soc Trans 33 56 58 15667263 10.1042/BST0330056 1:CAS:528:DC%2BD2MXovFOrsA%3D%3D (Pubitemid 40313760)
11. C Elend C Schmeisser C Leggewie P Babiak JD Carballeira 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 16672512 10.1128/AEM.72.5.3637-3645.2006 1:CAS:528:DC%2BD28XkvFWjtrg%3D (Pubitemid 43728020)
12. O Elroy-Stein B Moss 1990 Cytoplasmic expression system based on constitutive synthesis of bacteriophage T7 RNA polymerase in mammalian cells Proc Natl Acad Sci USA 87 6743 6747 2204064 10.1073/pnas.87.17.6743 1:CAS:528:DyaK3cXlvVKjsr4%3D
13. P Entcheva W Liebl A Johann T Hartsch WR Streit 2001 Direct cloning from enrichment cultures, a reliable strategy for isolation of complete operons and genes from microbial consortia Appl Environ Microbiol 67 89 99 11133432 10.1128/AEM.67.1.89-99.2001 1:CAS:528:DC%2BD3MXjtVWhtg%3D%3D (Pubitemid 32044406)
14. M Ferrer OV Golyshina TN Chernikova AN Khachane VA 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 16125101 10.1016/j.chembiol.2005.05.020 1:CAS:528:DC%2BD2MXptVektrw%3D (Pubitemid 41206803)
15. EM Gabor EJ de Vries DB Janssen 2004 Construction, characterization, and use of small-insert gene banks of DNA isolated from soil and enrichment cultures for the recovery of novel amidases Environ Microbiol 6 948 958 15305920 10.1111/j.1462-2920.2004.00643.x 1:CAS:528:DC%2BD2cXnvFWls70%3D (Pubitemid 39123249)
16. M Gamer D Frode R Biedendieck S Stammen D Jahn 2009 A T7 RNA polymerase-dependent gene expression system for Bacillus megaterium Appl Microbiol Biotechnol 82 1195 1203 19308404 10.1007/s00253-009-1952-5 1:CAS:528:DC%2BD1MXjvFeisrc%3D
17. M Golomb M Chamberlin 1974 Characterization of T7-specific ribonucleic acid polymerase. IV. Resolution of the major in vitro transcripts by gel electrophoresis J Biol Chem 249 2858 2863 4828324 1:CAS:528:DyaE2cXksVKrs70%3D
18. J Handelsman 2004 Metagenomics: application of genomics to uncultured microorganisms Microbiol Mol Biol Rev 68 669 685 15590779 10.1128/MMBR.68.4.669- 685.2004 1:CAS:528:DC%2BD2MXjvFSgsQ%3D%3D (Pubitemid 39628532)
19. KE Jaeger BW Dijkstra MT Reetz 1999 Bacterial biocatalysts: molecular biology, three-dimensional structures, and biotechnological applications of lipases Annu Rev Microbiol 53 315 351 10547694 10.1146/annurev.micro.53.1.315 1:CAS:528:DyaK1MXmvVOnsb4%3D (Pubitemid 29503734)
20. P Juteau D Tremblay CB Ould-Moulaye JG Bisaillon R Beaudet 2004 Swine waste treatment by self-heating aerobic thermophilic bioreactors Water Res 38 539 546 14723922 10.1016/j.watres.2003.11.001 1:CAS:528:DC%2BD2cXit1SrtQ%3D%3D (Pubitemid 38068225)
21. Y Kang MS Son TT Hoang 2007 One step engineering of T7-expression strains for protein production: increasing the host-range of the T7-expression system Protein Expr Purif 55 325 333 17716915 10.1016/j.pep.2007.06.014 1:CAS:528:DC%2BD2sXhtVWit7rE (Pubitemid 47369662)
22. N Katzke S Arvani R Bergmann F Circolone A Markert V Svensson KE Jaeger A Heck T Drepper 2010 A novel T7 RNA polymerase dependent expression system for high-level protein production in the phototrophic bacterium Rhodobacter capsulatus Protein Expr Purif 69 137 146 19706327 10.1016/j.pep.2009.08.008 1:CAS:528:DC%2BD1MXhsVaisrzK
23. Kieser T, Bibb MJ, Buttner MJ, Chater KF, Hopwood DA (2000) Practical Streptomyces genetics. The John Innes Foundation, Norwich
24. A Knietsch T Waschkowitz S Bowien A Henne R Daniel 2003 Construction and screening of metagenomic libraries derived from enrichment cultures: generation of a gene bank for genes conferring alcohol oxidoreductase activity on Escherichia coli Appl Environ Microbiol 69 1408 1416 12620823 10.1128/AEM.69.3.1408-1416.2003 1:CAS:528:DC%2BD3sXitlCmu7Y%3D (Pubitemid 36314275)
25. MA Larkin G Blackshields NP Brown R Chenna PA McGettigan H McWilliam F Valentin IM Wallace A Wilm R Lopez JD Thompson TJ Gibson DG Higgins 2007 Clustal W and Clustal X version 2.0 Bioinformatics 23 2947 2948 17846036 10.1093/bioinformatics/btm404 1:CAS:528:DC%2BD2sXhtlaqsL%2FM (Pubitemid 350162903)
26. C Leggewie H Henning C Schmeisser WR Streit KE Jaeger 2006 A novel transposon for functional expression of DNA libraries J Biotechnol 123 281 287 16414138 10.1016/j.jbiotec.2005.12.010 1:CAS:528:DC%2BD28XksVais7o%3D
27. Y Li M Wexler DJ Richardson PL Bond AW Johnston 2005 Screening a wide host-range, waste-water metagenomic library in tryptophan auxotrophs of Rhizobium leguminosarum and of Escherichia coli reveals different classes of cloned trp genes Environ Microbiol 7 1927 1936 16309391 10.1111/j.1462-2920. 2005.00853.x 1:CAS:528:DC%2BD28Xks1Gjtw%3D%3D (Pubitemid 41752382)
28. P Lorenz J Eck 2005 Metagenomics and industrial applications Nat Rev Microbiol 3 510 516 15931168 10.1038/nrmicro1161 1:CAS:528:DC%2BD2MXksFKmsLg%3D (Pubitemid 40716178)
29. FX Lussier F Denis F Shareck 2010 Adaptation of the highly productive T7 expression system to Streptomyces lividans Appl Environ Microbiol 76 967 970 20023105 10.1128/AEM.02186-09 1:CAS:528:DC%2BC3cXisVCjtrg%3D
30. A Martinez SJ Kolvek CL Yip J Hopke KA Brown IA MacNeil MS Osburne 2004 Genetically modified bacterial strains and novel bacterial artificial chromosome shuttle vectors for constructing environmental libraries and detecting heterologous natural products in multiple expression hosts Appl Environ Microbiol 70 2452 2463 15066844 10.1128/AEM.70.4.2452-2463.2004 1:CAS:528:DC%2BD2cXjtlOhs7c%3D (Pubitemid 38500551)
31. WT McAllister C Morris AH Rosenberg FW Studier 1981 Utilization of bacteriophage T7 late promoters in recombinant plasmids during infection J Mol Biol 153 527 544 7040687 10.1016/0022-2836(81)90406-X 1:CAS:528: DyaL38XhslGisL4%3D (Pubitemid 12180289)
32. C Meilleur JF Hupe P Juteau F Shareck 2009 Isolation and characterization of a new alkali-thermostable lipase cloned from a metagenomic library J Ind Microbiol Biotechnol 36 853 861 19333634 10.1007/s10295-009-0562-7 1:CAS:528:DC%2BD1MXmtlKhtr4%3D
33. Reddy CA, Beveridge TJ, Breznak JA, Marzluf G, Schmidt TM, Snyder LR (2007) Methods for general and molecular microbiology, 3rd edn. ASM Press, Washington, DC
34. 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 12845554 10.1007/s00792-003-0339-2 1:CAS:528:DC%2BD3sXnslSnsb0%3D (Pubitemid 41512721)
35. PD Schloss J Handelsman 2003 Biotechnological prospects from metagenomics Curr Opin Biotechnol 14 303 310 12849784 10.1016/S0958-1669(03)00067-3 1:CAS:528:DC%2BD3sXltVSqs70%3D (Pubitemid 36782660)
36. S Sigurgísladóttir M Konráòsdóttir Á Jónsson JK Kristjánsson E Matthiasson 1993 Lipase activity of thermophilic bacteria from icelandic hot springs Biotechnol Lett 15 361 366 10.1007/BF00128277 (Pubitemid 23135596)
37. HL Steele KE Jaeger R Daniel WR Streit 2009 Advances in recovery of novel biocatalysts from metagenomes J Mol Microbiol Biotechnol 16 25 37 18957860 10.1159/000142892 1:CAS:528:DC%2BD1cXht12kurfK
38. FW Studier BA Moffatt 1986 Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned genes J Mol Biol 189 113 130 3537305 10.1016/0022-2836(86)90385-2 1:CAS:528:DyaL28XktlKrsr4%3D
39. Surzycki S (2000) Basic techniques in molecular biology. Springer, Berlin
40. R Verger 1997 'Interfacial activation' of lipases: facts and artifacts Trends Biotechnol 15 32 38 10.1016/S0167-7799(96)10064-0 1:CAS:528: DyaK2sXhtFCiu7c%3D (Pubitemid 27067151)
41. C Wandersman 1989 Secretion, processing and activation of bacterial extracellular proteases Mol Microbiol 3 1825 1831 2695751 10.1111/j.1365-2958. 1989.tb00169.x 1:CAS:528:DyaK3cXhtFGgu7c%3D (Pubitemid 20023262)
42. GY Wang E Graziani B Waters W Pan X Li J McDermott G Meurer G Saxena RJ Andersen J Davies 2000 Novel natural products from soil DNA libraries in a streptomycete host Org Lett 2 2401 2404 10956506 10.1021/ol005860z 1:CAS:528:DC%2BD3cXlsFCksL8%3D
43. M Wexler PL Bond DJ Richardson AW Johnston 2005 A wide host-range metagenomic library from a waste water treatment plant yields a novel alcohol/aldehyde dehydrogenase Environ Microbiol 7 1917 1926 16309390 10.1111/j.1462-2920.2005.00854.x 1:CAS:528:DC%2BD28Xks1Gjtg%3D%3D (Pubitemid 41752381)