Tailoring specialized metabolite production in streptomyces

Advances in Applied Microbiology

Volumn 91, Issue , 2015, Pages 237-255

  Hiltner, Jana K ^a   Hunter, Iain S ^a   Hoskisson, Paul A ^a  

^a UNIVERSITY OF STRATHCLYDE   (United Kingdom)

Author keywords

Antibiotics; Evolution; Metabolic engineering; Metabolism; Streptomyces

Indexed keywords

2 OXOGLUTARIC ACID; ACETYL COENZYME A; ACTINORHODINE; MALATE DEHYDROGENASE; MALATE DEHYDROGENASE (DECARBOXYLATING); OXALOACETIC ACID; PHOSPHOENOLPYRUVATE; PHOSPHOENOLPYRUVATE CARBOXYLASE; PHOSPHOPYRUVATE CARBOXYLASE; POLYKETIDE; PYRUVATE CARBOXYLASE; PYRUVATE DEHYDROGENASE; PYRUVATE DEHYDROGENASE COMPLEX; PYRUVATE KINASE; PYRUVATE PHOSPHATE DIKINASE; PYRUVIC ACID;

ARTICLE; BACTERIAL METABOLISM; BIOSYNTHESIS; CARBON METABOLISM; CARBON SOURCE; CATALYSIS; CITRIC ACID CYCLE; ENZYME ACTIVITY; GENE FUNCTION; METABOLIC ENGINEERING; METABOLITE; MOLECULAR EVOLUTION; NONHUMAN; SECONDARY METABOLISM; STREPTOMYCES; STREPTOMYCES COELICOLOR; SYNTHETIC BIOLOGY; BACTERIAL GENOME; GENETICS; METABOLISM;

STREPTOMYCES; STREPTOMYCINEAE;

GENOME, BACTERIAL; METABOLIC ENGINEERING; METABOLIC NETWORKS AND PATHWAYS; STREPTOMYCES; SYNTHETIC BIOLOGY;

EID: 84928213157     PISSN: 00652164     EISSN: None     Source Type: Book Series    
DOI: 10.1016/bs.aambs.2015.02.002     Document Type: Article

References (57)

1. Abraham E.P., Chain E. An enzyme from bacteria able to destroy penicillin. Reviews of Infectious Diseases 1940, 10:677-678.
2. Avignone Rossa C., White J., Kuiper A., Postma P.W., Bibb M., Teixeira de Mattos M.J. Carbon flux distribution in antibiotic-producing chemostat cultures of Streptomyces lividans. Metabolic Engineering 2002, 4:138-150.
3. Becker J., Klopprogge C., Wittmann C. Metabolic responses to pyruvate kinase deletion in lysine producing Corynebacterium glutamicum. Microbial Cell Factories 2008, 7:8.
4. Bentley S.D., Chater K.F., Cerdeno-Tarraga A.M., Challis G.L., Thomson N.R., James K.D., et al. Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2). Nature 2002, 417:141-147.
5. Bérdy J. Bioactive Microbial Metabolites. The Journal of Antibiotics 2005, 58(1):1-26.
6. Blombach B., Arndt A., Auchter M., Eikmanns B.J. l-valine production during growth of pyruvate dehydrogenase complex-deficient Corynebacterium glutamicum in the presence of ethanol or by inactivation of the transcriptional regulator SugR. Applied and Environmental Microbiology 2009, 75:1197-1200.
7. Borodina I., Siebring J., Zhang J., Smith C.P., van Keulen G., Dijkhuizen L., et al. Antibiotic overproduction in Streptomyces coelicolor A3(2) mediated by phosphofructokinase deletion. The Journal of Biological Chemistry 2008, 283:25186-25199.
8. Bramwell H., Nimmo H.G., Hunter I.S., Coggins J.R. Phosphoenolpyruvate carboxylase from Streptomyces coelicolor A3(2): purification of the enzyme, cloning of the ppc gene and over-expression of the protein in a streptomycete. Biochemical Journal 1993, 293(Pt 1):131-136.
9. Buchholz J., Schwentner A., Brunnenkan B., Gabris C., Grimm S., Gerstmeir R., et al. Platform engineering of Corynebacterium glutamicum with reduced pyruvate dehydrogenase complex activity for improved production of l-lysine, l-valine, and 2-ketoisovalerate. Applied and Environmental Microbiology 2013, 79:5566-5575.
10. Butler M.J., Bruheim P., Jovetic S., Marinelli F., Postma P.W., Bibb M.J. Engineering of primary carbon metabolism for improved antibiotic production in Streptomyces lividans. Applied and Environmental Microbiology 2002, 68:4731-4739.
11. Challis G.L., Hopwood D.A. Synergy and contingency as driving forces for the evolution of multiple secondary metabolite production by Streptomyces species. Proceedings of the National Academy of Sciences USA 2003, 100(Suppl. 2):14555-14561.
12. Chandra G., Chater K.F. Developmental biology of Streptomyces from the perspective of 100 actinobacterial genome sequences. FEMS Microbiology Reviews 2013, 38. n/a-n/a.
13. Clark L.C., Hoskisson P.A. Duplication and evolution of devA-like genes in Streptomyces has resulted in distinct developmental roles. PLoS One 2011, 6:e25049.
14. Copley S.D. Enzymes with extra talents: moonlighting functions and catalytic promiscuity. Current Opinion in Chemical Biology 2003, 7:265-272.
15. Copley S.D. Moonlighting is mainstream: paradigm adjustment required. Bioessays 2012, 34:578-588.
16. Copley S.D. An evolutionary perspective on protein moonlighting. Biochemical Society Transactions 2014, 42:1684-1691.
17. Copley S.D. An evolutionary biochemist's perspective on promiscuity 1-7 2015, Elsevier Ltd.
18. Davies J. Specialized microbial metabolites: functions and origins. The Journal of Antibiotics 2013, 66:361-364.
19. Davies J., Davies D. Origins and evolution of antibiotic resistance. Microbiology and Molecular Biology Reviews 2010, 74:417-433.
20. Eikmanns B.J., Blombach B. The pyruvate dehydrogenase complex of Corynebacterium glutamicum: an attractive target for metabolic engineering. Journal of Biotechnology 2014, 192(Pt B):339-345.
21. Firn R.D., Jones C.G. A Darwinian view of metabolism: molecular properties determine fitness. Journal of Experimental Botany 2009, 60:719-726.
22. Flärdh K., Buttner M.J. Streptomyces morphogenetics: dissecting differentiation in a filamentous bacterium. Nature Reviews Microbiology 2009, 7:36-49.
23. Girard G., Traag B.A., Sangal V., Mascini N., Hoskisson P.A., Goodfellow M., et al. A novel taxonomic marker that discriminates between morphologically complex actinomycetes. Open Biology 2013, 3:130073.
24. Gomez-Escribano J.P., Bibb M.J. Engineering Streptomyces coelicolor for heterologous expression of secondary metabolite gene clusters. Microbial Biotechnology 2011, 4:207-215.
25. Gomez-Escribano J.P., Bibb M.J. Streptomyces coelicolor as an expression host for heterologous gene clusters. Methods in Enzymology 2012, 517:279-300.
26. Hartmann T. The lost origin of chemical ecology in the late 19th century. Proceedings of the National Academy of Sciences USA 2008, 105(12):4541-4546.
27. Hobbs G., Obanye A.I., Petty J., Mason J.C., Barratt E., Gardner D.C., et al. An integrated approach to studying regulation of production of the antibiotic methylenomycin by Streptomyces coelicolor A3(2). Journal of Bacteriology 1992, 174:1487-1494.
28. Hoskisson P.A., Hobbs G., Sharples G.P. Response of Micromonospora echinospora (NCIMB 12744) spores to heat treatment with evidence of a heat activation phenomenon. Letters in Applied Microbiology 2000, 30:114-117.
29. Hyeon J.E., Kang D.H., Kim Y.I., You S.K., Han S.O. GntR-type transcriptional regulator PckR negatively regulates the expression of phosphoenolpyruvate carboxykinase in Corynebacterium glutamicum. Journal of Bacteriology 2012, 194:2181-2188.
30. Jenke-Kodama H. Evolutionary implications of bacterial polyketide synthases. Molecular Biology and Evolution 2005, 22:2027-2039.
31. van Keulen G., Dyson P.J. Production of specialized metabolites by Streptomyces coelicolor A3(2). Advances in Applied Microbiology 2014, 89:217-266.
32. Kim J., Copley S.D. Why metabolic enzymes are essential or nonessential for growth of Escherichia coli K12 on glucose. Biochemistry 2007, 46:12501-12511.
33. Koffas M., Stephanopoulos G. Strain improvement by metabolic engineering: lysine production as a case study for systems biology. Current Opinion in Biotechnology 2005, 16:361-366.
34. Li R., Townsend C.A. Rational strain improvement for enhanced clavulanic acid production by genetic engineering of the glycolytic pathway in Streptomyces clavuligerus. Metabolic Engineering 2006, 8:240-252.
35. Lucas X., Senger C., Erxleben A., Grüning B.A., Döring K., Mosch J., et al. StreptomeDB: a resource for natural compounds isolated from Streptomyces species. Nucleic Acids Research 2013, 41:D1130-D1136.
36. Medema M.H., Blin K., Cimermancic P., de Jager V., Zakrzewski P., Fischbach M.A., et al. antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. Nucleic Acids Research 2011, 39:W339-W346.
37. Meza E., Becker J., Bolivar F., Gosset G., Wittmann C. Consequences of phosphoenolpyruvate:sugar phosphotranferase system and pyruvate kinase isozymes inactivation in central carbon metabolism flux distribution in Escherichia coli. Microbial Cell Factories 2012, 11:127.
38. Muñoz E., Ponce E. Pyruvate kinase: current status of regulatory and functional properties. Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology 2003, 135:197-218. Elsevier.
39. Noda-García L., Barona-Gómez F. Enzyme evolution beyond gene duplication: a model for incorporating horizontal gene transfer. Mobile Genetic Elements 2013, 3:e26439.
40. Noda-García L., Camacho-Zarco A.R., Medina-Ruíz S., Gaytán P., Carrillo-Tripp M., Fülöp V., et al. Evolution of substrate specificity in a recipient's enzyme following horizontal gene transfer. Molecular Biology and Evolution 2013, 30:2024-2034.
41. Obanye A.I.C., Hobbs G., Gardner D.C.J., Oliver S.G. Correlation between carbon flux through the pentose phosphate pathway and production of the antibiotic methylenomycin in Streptomyces coelicolor A3(2). Microbiology 1996, 142:133-137.
42. Olano C., Méndez C., Salas J.A. Post-PKS tailoring steps in natural product-producing actinomycetes from the perspective of combinatorial biosynthesis. Natural Product Reports 2010, 27:571-616.
43. Peters-Wendisch P.G., Kreutzer C., Kalinowski J., Pátek M., Sahm H., Eikmanns B.J. Pyruvate carboxylase from Corynebacterium glutamicum: characterization, expression and inactivation of the pyc gene. Microbiology 1998, 144(Pt 4):915-927.
44. Peters-Wendisch P.G., Schiel B., Wendisch V.F., Katsoulidis E., Möckel B., Sahm H., et al. Pyruvate carboxylase is a major bottleneck for glutamate and lysine production by Corynebacterium glutamicum. Journal of Molecular Microbiology and Biotechnology 2001, 3:295-300.
45. Projan S.J. Why is big Pharma getting out of antibacterial drug discovery?. Current Opinion in Microbiology 2003, 6:427-430.
46. Reddy T.B.K., Thomas A.D., Stamatis D., Bertsch J., Isbandi M., Jansson J., et al. The Genomes OnLine Database (GOLD) v.5: a metadata management system based on a four level (meta)genome project classification. Nucleic Acids Research 2015, 43:D1099-D1106.
47. Ridley C.P., Lee H.Y., Khosla C. Evolution of polyketide synthases in bacteria. Proceedings of the National Academy of Sciences USA 2008, 105:4595-4600.
48. Riedel C., Rittmann D., Dangel P., Möckel B., Petersen S., Sahm H., et al. Characterization of the phosphoenolpyruvate carboxykinase gene from Corynebacterium glutamicum and significance of the enzyme for growth and amino acid production. Journal of Molecular Microbiology and Biotechnology 2001, 3:573-583.
49. Rodriguez E., Navone L., Casati P., Gramajo H. Impact of malic enzymes on antibiotic and triacylglycerol production in Streptomyces coelicolor. Applied and Environmental Microbiology 2012, 78:4571-4579.
50. Ryu Y.G., Butler M.J., Chater K.F., Lee K.J. Engineering of primary carbohydrate metabolism for increased production of actinorhodin in Streptomyces coelicolor. Applied and Environmental Microbiology 2006, 72:7132-7139.
51. Sauer U., Eikmanns B.J. The PEP-pyruvate-oxaloacetate node as the switch point for carbon flux distribution in bacteria. FEMS Microbiology Reviews 2005, 29:765-794.
52. Stirrett K., Denoya C., Westpheling J. Branched-chain amino acid catabolism provides precursors for the Type II polyketide antibiotic, actinorhodin, via pathways that are nutrient dependent. Journal of Industrial Microbiology and Biotechnology 2009, 36:129-137.
53. Treangen T.J., Rocha E.P.C. Horizontal transfer, not duplication, drives the expansion of protein families in prokaryotes. PLoS Genetics 2011, 7:e1001284.
54. Ventura M., Canchaya C., Tauch A., Chandra G., Fitzgerald G.F., Chater K.F., et al. Genomics of actinobacteria: tracing the evolutionary history of an ancient phylum. Microbiology and Molecular Biology Reviews 2007, 71:495-548.
55. Wentzel A., Sletta H., Consortium S., Ellingsen T.E., Bruheim P. Intracellular metabolite pool changes in response to nutrient depletion induced metabolic switching in Streptomyces coelicolor. Metabolites 2012, 2:178-194.
56. Wu Y.J. Highlights of semi-synthetic developments from erythromycin A. Current Pharmaceutical Design 2000, 6:181-223.
57. Wu J., Zhang Q., Deng W., Qian J., Zhang S., Liu W. Toward improvement of erythromycin A production in an industrial Saccharopolyspora erythraea strain via facilitation of genetic manipulation with an artificial attB site for specific recombination. Applied and Environmental Microbiology 2011, 77:7508-7516.