Streptomyces coelicolor as an expression host for heterologous gene clusters

Methods in Enzymology

Volumn 517, Issue , 2012, Pages 279-300

  Gomez Escribano, Juan Pablo ^a   Bibb, Mervyn J ^a  

^a JOHN INNES CENTRE   (United Kingdom)

Author keywords

Gene cluster; Genome mining; Heterologous expression; Heterologous host; Secondary metabolite; Streptomyces coelicolor

Indexed keywords

ACTINORHODINE; CHLORAMPHENICOL; DEFEROXAMINE; FERRIOXAMINE; FORMIC ACID; FUNGAL DNA; GEOSMIN; KALAFUNGIN; METACYCLINE; NATURAL PRODUCT;

ANTENNA; ANTIMICROBIAL ACTIVITY; ARTICLE; BACTERIAL ARTIFICIAL CHROMOSOME; CONJUGATION; COSMID; CULTURE MEDIUM; DATA ANALYSIS; DNA INTEGRATION; DNA METHYLATION; DNA SEQUENCE; FROZEN SECTION; FUNGAL GENOME; FUNGAL STRAIN; FUNGUS SPORE; GENE CLUSTER; GENE LIBRARY; HETEROLOGOUS EXPRESSION; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; INOCULATION; LIQUID CHROMATOGRAPHY; LIQUID CULTURE; MASS SPECTROMETRY; METABOLITE; MOLECULAR CLONING; MYCELIUM; NONHUMAN; PARTICLE SIZE; PRESERVATION; PRIORITY JOURNAL; STREPTOMYCES ALBUS; STREPTOMYCES AVERMITILIS; STREPTOMYCES COELICOLOR; STREPTOMYCES LIVIDANS; STREPTOMYCES VENEZUELAE;

EID: 84867628983     PISSN: 00766879     EISSN: 15577988     Source Type: Book Series    
DOI: 10.1016/B978-0-12-404634-4.00014-0     Document Type: Chapter

References (58)

1. S. Alt, N. Burkard, A. Kulik, S. Grond, and L. Heide An artificial pathway to 3,4-dihydroxybenzoic acid allows generation of new aminocoumarin antibiotic recognized by catechol transporters of E. coli Chemistry & Biology 18 2011 304 313
2. R.H. Baltz Renaissance in antibacterial discovery from actinomycetes Current Opinion in Pharmacology 8 2008 557 563
3. J.J. Banik, and S.F. Brady Recent application of metagenomic approaches toward the discovery of antimicrobials and other bioactive small molecules Current Opinion in Microbiology 13 2010 603 609
4. F. Barona-Gómez, S. Lautru, F.-X. Francou, P. Leblond, J.-L. Pernodet, and G.L. Challis Multiple biosynthetic and uptake systems mediate siderophore-dependent iron acquisition in Streptomyces coelicolor A3(2) and Streptomyces ambofaciens ATCC 23877 Microbiology 152 2006 3355 3366 (Pubitemid 44734338)
5. F. Barona-Gómez, U. Wong, A.E. Giannakopulos, P.J. Derrick, and G.L. Challis Identification of a cluster of genes that directs desferrioxamine biosynthesis in Streptomyces coelicolor M145 Journal of the American Chemical Society 126 2004 16282 16283 (Pubitemid 40081901)
6. S.D. Bentley, K.F. Chater, A.-M. Cerdeño-Tárraga, G.L. Challis, N.R. Thomson, and K.D. James Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2) Nature 417 2002 141 147 (Pubitemid 34506788)
7. M.J. Bibb, and A. Hesketh Analyzing the regulation of antibiotic production in streptomycetes Methods in Enzymology 458 2009 93 116
8. M.J. Bibb, J.M. Ward, and D.A. Hopwood Transformation of plasmid DNA into Streptomyces at high frequency Nature 274 1978 398 400 (Pubitemid 8387348)
9. S. Boakes, J. Cortés, A.N. Appleyard, B.A.M. Rudd, and M.J. Dawson Organization of the genes encoding the biosynthesis of actagardine and engineering of a variant generation system Molecular Microbiology 72 2009 1126 1136
10. L.V. Bystrykh, M.A. Fernández-Moreno, J.K. Herrema, F. Malpartida, D.A. Hopwood, and L. Dijkhuizen Production of actinorhodin-related "blue pigments" by Streptomyces coelicolor A3(2) Journal of Bacteriology 178 1996 2238 2244
11. G.L. Challis Mining microbial genomes for new natural products and biosynthetic pathways Microbiology (Reading, England) 154 2008 1555 1569
12. G.L. Challis, and D.A. Hopwood Synergy and contingency as driving forces for the evolution of multiple secondary metabolite production by Streptomyces species Proceedings of the National Academy of Sciences of the United States of America 100 2003 14555 14561 (Pubitemid 37499281)
13. Y. Chen, E. Wendt-Pienkowski, and B. Shen Identification and utility of FdmR1 as a Streptomyces antibiotic regulatory protein activator for fredericamycin production in Streptomyces griseus ATCC 49344 and heterologous hosts Journal of Bacteriology 190 2008 5587 5596
14. J. Claesen, and M. Bibb Genome mining and genetic analysis of cypemycin biosynthesis reveal an unusual class of posttranslationally modified peptides Proceedings of the National Academy of Sciences of the United States of America 107 2010 16297 16302
15. P. Combes, R. Till, S. Bee, and M.C.M. Smith The Streptomyces genome contains multiple pseudo-attB sites for the phiC31-encoded site-specific recombination system Journal of Bacteriology 184 2002 5746 5752
16. A.S. Eustáquio, B. Gust, U. Galm, S.M. Li, K.F. Chater, and L. Heide Heterologous expression of novobiocin and clorobiocin biosynthetic gene clusters Applied and Environmental Microbiology 71 2005 2452 2459 (Pubitemid 40646988)
17. E.A. Felnagle, M.R. Rondon, A.D. Berti, H.A. Crosby, and M.G. Thomas Identification of the biosynthetic gene cluster and an additional gene for resistance to the antituberculosis drug capreomycin Applied and Environmental Microbiology 73 2007 4162 4170 (Pubitemid 47068153)
18. F. Flett, V. Mersinias, and C.P. Smith High efficiency intergeneric conjugal transfer of plasmid DNA from Escherichia coli to methyl DNA-restricting streptomycetes FEMS Microbiology Letters 155 1997 223 229 (Pubitemid 28248232)
19. K. Flinspach, L. Westrich, L. Kaysser, S. Siebenberg, J.P. Gomez-Escribano, and M. Bibb Heterologous expression of the biosynthetic gene clusters of coumermycin A(1), clorobiocin and caprazamycins in genetically modified Streptomyces coelicolor strains Biopolymers 93 2010 823 832
20. B. Floriano, and M. Bibb afsR is a pleiotropic but conditionally required regulatory gene for antibiotic production in Streptomyces coelicolor A3(2) Molecular Microbiology 21 1996 385 396 (Pubitemid 26291543)
21. L.C. Foulston, and M.J. Bibb Microbisporicin gene cluster reveals unusual features of lantibiotic biosynthesis in actinomycetes Proceedings of the National Academy of Sciences of the United States of America 107 2010 13461 13466
22. J.P. Gomez-Escribano, and M.J. Bibb Engineering Streptomyces coelicolor for heterologous expression of secondary metabolite gene clusters Microbial Biotechnology 4 2011 207 215
23. J.P. Gomez-Escribano, L. Song, D.J. Fox, V. Yeo, M.J. Bibb, and G.L. Challis Structure and biosynthesis of the unusual polyketide alkaloid coelimycin P1, a metabolic product of the cpk gene cluster of Streptomyces coelicolor M145 Chemical Science 3 2012 2716 2720
24. G. González-Cerón, O.J. Miranda-Olivares, and L. Servín-González Characterization of the methyl-specific restriction system of Streptomyces coelicolor A3(2) and of the role played by laterally acquired nucleases FEMS Microbiology Letters 301 2009 35 43
25. M. Gottelt, S. Kol, J.P. Gomez-Escribano, M. Bibb, and E. Takano Deletion of a regulatory gene within the cpk gene cluster reveals novel antibacterial activity in Streptomyces coelicolor A3(2) Microbiology (Reading, England) 156 2010 2343 2353
26. M.A. Gregory, R. Till, and M.C.M. Smith Integration site for Streptomyces phage phiBT1 and development of site-specific integrating vectors Journal of Bacteriology 185 2003 5320 5323 (Pubitemid 37021998)
27. B. Gust Cloning and analysis of natural product pathways Methods in Enzymology 458 2009 159 180
28. B. Gust, G.L. Challis, K. Fowler, T. Kieser, and K.F. Chater PCR-targeted Streptomyces gene replacement identifies a protein domain needed for biosynthesis of the sesquiterpene soil odor geosmin Proceedings of the National Academy of Sciences of the United States of America 100 2003 1541 1546 (Pubitemid 36254483)
29. B. Gust, G. Chandra, D. Jakimowicz, T. Yuqing, C.J. Bruton, and K.F. Chater Lambda red-mediated genetic manipulation of antibiotic-producing Streptomyces Advances in Applied Microbiology 54 2004 107 128 (Pubitemid 38891904)
30. L. Heide Aminocoumarins mutasynthesis, chemoenzymatic synthesis, and metabolic engineering Methods in Enzymology 459 2009 437 455
31. Z. Hojati, C. Milne, B. Harvey, L. Gordon, M. Borg, and F. Flett Structure, biosynthetic origin, and engineered biosynthesis of calcium-dependent antibiotics from Streptomyces coelicolor Chemistry & Biology 9 2002 1175 1187 (Pubitemid 35348272)
32. H. Hu, Q. Zhang, and K. Ochi Activation of antibiotic biosynthesis by specified mutations in the rpoB gene (encoding the RNA polymerase beta subunit) of Streptomyces lividans Journal of Bacteriology 184 2002 3984 3991 (Pubitemid 34705457)
33. J. Jiang, X. He, and D.E. Cane Biosynthesis of the earthy odorant geosmin by a bifunctional Streptomyces coelicolor enzyme Nature Chemical Biology 3 2007 711 715 (Pubitemid 47609110)
34. C. Kempter, D. Kaiser, S. Haag, G. Nicholson, V. Gnau, and T. Walk CDA: Calcium-dependent peptide antibiotics from Streptomyces coelicolor A3(2) containing unusual residues Angewandte Chemie International Edition in English 36 1997 498 501
35. T. Kieser, M.J. Bibb, M.J. Buttner, K.F. Chater, and D.A. Hopwood Practical streptomyces genetics 2000 John Innes Centre, Norwich Research Park, Colney, Norwich NR4 7UH, England
36. M. Komatsu, T. Uchiyama, S. Omura, D.E. Cane, and H. Ikeda Genome-minimized Streptomyces host for the heterologous expression of secondary metabolism Proceedings of the National Academy of Sciences of the United States of America 107 2010 2646 2651
37. L. Laureti, L. Song, S. Huang, C. Corre, P. Leblond, and G.L. Challis Identification of a bioactive 51-membered macrolide complex by activation of a silent polyketide synthase in Streptomyces ambofaciens Proceedings of the National Academy of Sciences of the United States of America 108 2011 6258 6263
38. S. Lautru, R.J. Deeth, L.M. Bailey, and G.L. Challis Discovery of a new peptide natural product by Streptomyces coelicolor genome mining Nature Chemical Biology 1 2005 265 269
39. X. Lin, R. Hopson, and D.E. Cane Genome mining in Streptomyces coelicolor: Molecular cloning and characterization of a new sesquiterpene synthase Journal of the American Chemical Society 128 2006 6022 6023
40. F. Lombó, A. Velasco, A. Castro, F. de la Calle, A.F. Brańa, and J.M. Sáanchez-Puelles Deciphering the biosynthesis pathway of the antitumor thiocoraline from a marine actinomycete and its expression in two Streptomyces species ChemBioChem 7 2006 366 376 (Pubitemid 43220952)
41. D.J. MacNeil, K.M. Gewain, C.L. Ruby, G. Dezeny, P.H. Gibbons, and T. MacNeil Analysis of Streptomyces avermitilis genes required for avermectin biosynthesis utilizing a novel integration vector Gene 111 1992 61 68
42. F. Malpartida, and D.A. Hopwood Molecular cloning of the whole biosynthetic pathway of a Streptomyces antibiotic and its expression in a heterologous host Nature 309 1984 462 464 (Pubitemid 14102453)
43. A. Martinez, S.J. Kolvek, C.L.T. Yip, J. Hopke, K.A. Brown, and I.A. MacNeil Genetically modified bacterial strains and novel bacterial artificial chromosome shuttle vectors for constructing environmental libraries and detecting heterologous natural products in multiple expression hosts Applied and Environmental Microbiology 70 2004 2452 2463 (Pubitemid 38500551)
44. R. McDaniel, S. Ebert-Khosla, D.A. Hopwood, and C. Khosla Engineered biosynthesis of novel polyketides Science 262 1993 1546 1550 (Pubitemid 24036782)
45. S. Mo, P.K. Sydor, C. Corre, M.M. Alhamadsheh, A.E. Stanley, and S.W. Haynes Elucidation of the Streptomyces coelicolor pathway to 2-undecylpyrrole, a key intermediate in undecylprodiginine and streptorubin B biosynthesis Chemistry & Biology 15 2008 137 148 (Pubitemid 351253614)
46. K. Osoegawa, P.J. de Jong, E. Frengen, and P.A. Ioannou Construction of bacterial artificial chromosome (BAC/PAC) libraries Current Protocols in Human Genetics 2001 chap. 5, unit 5.15
47. M. Redenbach, H.M. Kieser, D. Denapaite, A. Eichner, J. Cullum, and H. Kinashi A set of ordered cosmids and a detailed genetic and physical map for the 8 Mb Streptomyces coelicolor A3(2) chromosome Molecular Microbiology 21 1996 77 96 (Pubitemid 26233084)
48. E. Rodriguez, H.G. Menzella, and H. Gramajo Heterologous production of polyketides in bacteria Methods in Enzymology 459 2009 339 365
49. J. Shima, A. Hesketh, S. Okamoto, S. Kawamoto, and K. Ochi Induction of actinorhodin production by rpsL (encoding ribosomal protein S12) mutations that confer streptomycin resistance in Streptomyces lividans and Streptomyces coelicolor A3(2) Journal of Bacteriology 178 1996 7276 7284 (Pubitemid 26424645)
50. S. Siebenberg, P.M. Bapat, A.E. Lantz, B. Gust, and L. Heide Reducing the variability of antibiotic production in Streptomyces by cultivation in 24-square deepwell plates Journal of Bioscience and Bioengineering 109 2010 230 234
51. L. Song, F. Barona-Gomez, C. Corre, L. Xiang, D.W. Udwary, and M.B. Austin Type III polyketide synthase beta-ketoacyl-ACP starter unit and ethylmalonyl-CoA extender unit selectivity discovered by Streptomyces coelicolor genome mining Journal of the American Chemical Society 128 2006 14754 14755 (Pubitemid 44851585)
52. M. Sosio, E. Bossi, and S. Donadio Assembly of large genomic segments in artificial chromosomes by homologous recombination in Escherichia coli Nucleic Acids Research 29 2001 E37
53. M. Sosio, F. Giusino, C. Cappellano, E. Bossi, A.M. Puglia, and S. Donadio Artificial chromosomes for antibiotic-producing actinomycetes Nature Biotechnology 18 2000 343 345 (Pubitemid 30159490)
54. T. Taguchi, K. Itou, Y. Ebizuka, F. Malpartida, D.A. Hopwood, and C.M. Surti Chemical characterisation of disruptants of the Streptomyces coelicolor A3(2) actVI genes involved in actinorhodin biosynthesis Journal of Antibiotics 53 2000 144 152 (Pubitemid 30135871)
55. S.W. Tsao, B.A. Rudd, X.G. He, C.J. Chang, and H.G. Floss Identification of a red pigment from Streptomyces coelicolor A3(2) as a mixture of prodigiosin derivatives Journal of Antibiotics 38 1985 128 131 (Pubitemid 15152736)
56. K. Yanai, T. Murakami, and M.J. Bibb Amplification of the entire kanamycin biosynthetic gene cluster during empirical strain improvement of Streptomyces kanamyceticus Proceedings of the National Academy of Sciences of the United States of America 103 2006 9661 9666 (Pubitemid 43955881)
57. B. Zhao, X. Lin, L. Lei, D.C. Lamb, S.L. Kelly, and M.R. Waterman Biosynthesis of the sesquiterpene antibiotic albaflavenone in Streptomyces coelicolor A3(2) Journal of Biological Chemistry 283 2008 8183 8189
58. R. Ziermann, and M.C. Betlach Recombinant polyketide synthesis in Streptomyces: Engineering of improved host strains Biotechniques 26 1999 106 110 (Pubitemid 29031576)