Recently published Streptomyces genome sequences

Microbial Biotechnology

Volumn 7, Issue 5, 2014, Pages 373-380

  Harrison, James ^a   Studholme, David J ^a  

^a UNIVERSITY OF EXETER   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

LIGNIN; BACTERIAL DNA;

ARTICLE; BACTERIAL GROWTH; DRUG MANUFACTURE; ENZYME DEGRADATION; GENE CLUSTER; GENE SEQUENCE; GENOME SIZE; NONHUMAN; SECONDARY METABOLISM; STREPTOMYCES; STREPTOMYCES VIOLACEUSNIGER; BACTERIAL GENOME; CHEMISTRY; DNA SEQUENCE; GENETICS; GENOMICS; MOLECULAR GENETICS;

DNA, BACTERIAL; GENOME, BACTERIAL; GENOMICS; MOLECULAR SEQUENCE ANNOTATION; SEQUENCE ANALYSIS, DNA; STREPTOMYCES;

EID: 84905504592     PISSN: 17517907     EISSN: 17517915     Source Type: Journal    
DOI: 10.1111/1751-7915.12143     Document Type: Article

References (46)

1. Akshatha, V.J., Nalini, M.S., D'Souza, C., and Prakash, H.S. (2014) Streptomycete endophytes from anti-diabetic medicinal plants of the Western Ghats inhibit alpha-amylase and promote glucose uptake. Lett Appl Microbiol 58: 433-439.
2. Alikhan, N.-F., Petty, N.K., Ben Zakour, N.L., and Beatson, S.A. (2011) BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons. BMC Genomics 12: 402.
3. Altschul, S.F., Gish, W., Miller, W., Myers, E.W., and Lipman, D.J. (1990) Basic local alignment search tool. J Mol Biol 215: 403-410.
4. Baranasic, D., Gacesa, R., Starcevic, A., Zucko, J., Blazic, M., Horvat, M., etal. (2013) Draft genome sequence of Streptomyces rapamycinicus strain NRRL 5491, the producer of the immunosuppressant rapamycin. Genome Announc 1: e00581-13.
5. Barbe, V., Bouzon, M., Mangenot, S., Badet, B., Poulain, J., Segurens, B., etal. (2011) Complete genome sequence of Streptomyces cattleya NRRL 8057, a producer of antibiotics and fluorometabolites. J Bacteriol 193: 5055-5056.
6. Bentley, S.D., Chater, K.F., Cerdeño-Tárraga, A.-M., Challis, G.L., Thomson, N.R., James, K.D., etal. (2002) Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2). Nature 417: 141-147.
7. Bignell, D.R.D., Seipke, R.F., Huguet-Tapia, J.C., Chambers, A.H., Parry, R.J., and Loria, R. (2010) Streptomyces scabies 87-22 contains a coronafacic acid-like biosynthetic cluster that contributes to plant-microbe interactions. Mol Plant Microbe Interact 23: 161-175.
8. Blin, K., Medema, M.H., Kazempour, D., Fischbach, M.A., Breitling, R., Takano, E., and Weber, T. (2013) antiSMASH 2.0-a versatile platform for genome mining of secondary metabolite producers. Nucleic Acids Res 41: W204-W212.
9. Brown, M.E., and Chang, M.C. (2014) Exploring bacterial lignin degradation. Curr Opin Chem Biol 19C: 1-7.
10. Bugg, T.D.H., Ahmad, M., Hardiman, E.M., and Singh, R. (2011) The emerging role for bacteria in lignin degradation and bio-product formation. Curr Opin Biotechnol 22: 394-400.
11. Chen, X., Zhang, B., Zhang, W., Wu, X., Zhang, M., Chen, T., etal. (2013) Genome sequence of Streptomyces violaceusniger strain SPC6, a halotolerant streptomycete that exhibits rapid growth and development. Genome Announc 1: e00494-13.
12. Claesen, J., and Bibb, M. (2010) Genome mining and genetic analysis of cypemycin biosynthesis reveal an unusual class of posttranslationally modified peptides. Proc Natl Acad Sci USA 107: 16297-16302.
13. Davis, J.R., Goodwin, L., Teshima, H., Detter, C., Tapia, R., Han, C., eal. (2013) Genome sequence of Streptomyces viridosporus strain T7A ATCC 39115, a lignin-degrading actinomycete. Genome Announc 1: e00416-13.
14. Dodd, A., Swanevelder, D., Featherston, J., and Rumbold, K. (2013) Draft Genome sequence of Streptomyces albulus strain CCRC 11814, an ε-poly-L-lysine-producing actinomycete. Genome Announc 1: e00696-13.
15. Flinspach, K., Rückert, C., Kalinowski, J., Heide, L., and Apel, A.K. (2014) Draft genome sequence of Streptomyces niveus NCIMB 11891, producer of the aminocoumarin antibiotic novobiocin. Genome Announc 2: e01146-13.
16. Gomez-Escribano, J.P., and Bibb, M.J. (2014) Heterologous expression of natural product biosynthetic gene clusters in Streptomyces coelicolor: from genome mining to manipulation of biosynthetic pathways. J Ind Microbiol Biotechnol 41: 425-431.
17. Grüning, B.A., Erxleben, A., Hähnlein, A., and Günther, S. (2013) Draft genome sequence of Streptomyces viridochromogenes strain Tu57, producer of avilamycin. Genome Announc 1: e00384-13.
18. Hoefler, B.C., Konganti, K., and Straight, P.D.P. (2013) De novo assembly of the Streptomyces sp. strain Mg1 genome using PacBio single-molecule sequencing. Genome Announc 1: 1-2.
19. Ikeda, H., Ishikawa, J., Hanamoto, A., Shinose, M., Kikuchi, H., Shiba, T., etal. (2003) Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis. Nat Biotechnol 21: 526-531.
20. Jankowitsch, F., Schwarz, J., Rückert, C., Gust, B., Szczepanowski, R., Blom, J., etal. (2012) Genome sequence of the bacterium Streptomyces davawensis JCM 4913 and heterologous production of the unique antibiotic roseoflavin. J Bacteriol 194: 6818-6827.
21. Kanehisa, M., Goto, S., Sato, Y., Furumichi, M., and Tanabe, M. (2012) KEGG for integration and interpretation of large-scale molecular data sets. Nucleic Acids Res 40: D109-D114.
22. Kirby, R., Sangal, V., Tucker, N.P., Zakrzewska-Czerwinska, J., Wierzbicka, K., Herron, P.R., etal. (2012) Draft genome sequence of the human pathogen Streptomyces somaliensis, a significant cause of actinomycetoma. J Bacteriol 194: 3544-3545.
23. Kumar, S., Kaur, N., Singh, N.N.K., Raghava, G.P.S., and Mayilraj, S. (2013) Draft genome sequence of Streptomyces gancidicus strain BKS 13-15. Genome Announc 1: e0015013.
24. Liu, W.-B., Yu, W.-B., Gao, S.-H., and Ye, B.-C. (2013) Genome sequence of saccharopolyspora erythraea D, a hyperproducer of erythromycin. Genome Announc 1: e00718-13.
25. Martínez, V., Hormigo, D., del Cerro, C., Gómez de Santos, P., García-Hidalgo, J., Arroyo, M., etal. (2014) Genome sequence of Streptomyces exfoliatus DSMZ 41693, a source of Poly(3-Hydroxyalkanoate)-Degrading enzymes. Genome Announc 2: e01272-13.
26. Myronovskyi, M., Tokovenko, B., Manderscheid, N., Petzke, L., and Luzhetskyy, A. (2013) Complete genome sequence of Streptomyces fulvissimus. J Biotechnol 168: 117-118.
27. Ohnishi, Y., Ishikawa, J., Hara, H., Suzuki, H., Ikenoya, M., Ikeda, H., etal. (2008) Genome sequence of the streptomycin-producing microorganism Streptomyces griseus IFO 13350. J Bacteriol 190: 4050-4060.
28. Omura, S., Ikeda, H., Ishikawa, J., Hanamoto, A., Takahashi, C., Shinose, M., etal. (2001) Genome sequence of an industrial microorganism Streptomyces avermitilis: deducing the ability of producing secondary metabolites. Proc Natl Acad Sci USA 98: 12215-12220.
29. Ostash, B., Saghatelian, A., and Walker, S. (2007) A streamlined metabolic pathway for the biosynthesis of moenomycin A. Chem Biol 14: 257-267.
30. Ostash, B., Doud, E.H., Lin, C., Ostash, I., Perlstein, D.L., Fuse, S., etal. (2009) Complete characterization of the seventeen step moenomycin biosynthetic pathway. Biochemistry 48: 8830-8841.
31. Pethick, F.E., Macfadyen, A.C., Tang, Z., Sangal, V., Liu, T.-T., Chu, J., etal. (2013) Draft genome sequence of the oxytetracycline-producing bacterium Streptomyces rimosus ATCC 10970. Genome Announc 1: e00063-13.
32. Pullan, S.T., Chandra, G., Bibb, M.J., and Merrick, M. (2011) Genome-wide analysis of the role of GlnR in Streptomyces venezuelae provides new insights into global nitrogen regulation in actinomycetes. BMC Genomics 12: 175.
33. Rückert, C., Szczepanowski, R., Albersmeier, A., Goesmann, A., Iftime, D., Musiol, E.M., etal. (2013) Complete genome sequence of the kirromycin producer Streptomyces collinus Tü 365 consisting of a linear chromosome and two linear plasmids. J Biotechnol 168: 739-740.
34. Rückert, C., Kalinowski, J., Heide, L., and Apel, A.K. (2014) Draft genome sequence of Streptomyces roseochromogenes subsp. oscitans DS 12.976, producer of the aminocoumarin antibiotic clorobiocin. Genome Announc 2: e01147-13.
35. Subramaniam-Niehaus, B., Schneider, T., Metzger, J.W., and Wohlleben, W. (1997) Isolation and analysis of moenomycin and its biosynthetic intermediates from Streptomyces ghanaensis (ATCC 14672) wildtype and selected mutants. Z Naturforsch [C] 52: 217-226.
36. Tamura, K., Stecher, G., Peterson, D., Filipski, A., and Kumar, S. (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30: 2725-2729.
37. Thomas, L., and Crawford, D.L. (1998) Cloning of clustered Streptomyces viridosporus T7A lignocellulose catabolism genes encoding peroxidase and endoglucanase and their extracellular expression in Pichia pastoris. Can J Microbiol 44: 364-372.
38. Toft, C., and Andersson, S.G.E. (2010) Evolutionary microbial genomics: insights into bacterial host adaptation. Nat Rev Genet 11: 465-475.
39. Wang, X.-J., Yan, Y.-J., Zhang, B., An, J., Wang, J.-J., Tian, J., etal. (2010) Genome sequence of the milbemycin-producing bacterium Streptomyces bingchenggensis. J Bacteriol 192: 4526-4527.
40. Wu, H., Qu, S., Lu, C., Zheng, H., Zhou, X., Bai, L., and Deng, Z. (2012) Genomic and transcriptomic insights into the thermo-regulated biosynthesis of validamycin in Streptomyces hygroscopicus 5008. BMC Genomics 13: 337.
41. Xu, Z., Xia, J., Feng, X., Li, S., Xu, H., Bo, F., and Sun, Z. (2014) Genome sequence of Streptomyces albulus PD-1, a productive strain for epsilon-poly-L-lysine and poly-L-diaminopropionic acid. Genome Announc 2: e00297-14.
42. Yang, H., He, T., Wu, W., Zhu, W., Lu, B., and Sun, W. (2013) Whole-genome shotgun assembly and analysis of the genome of Streptomyces mobaraensis DSM 40847, a strain for industrial production of microbial transglutaminase. Genome Announc 1: e0014313.
43. Yang, H., Zhang, Z., Yan, R., Wang, Y., and Zhu, D. (2014) Draft genome sequence of Streptomyces sp. Strain PRh5, a novel endophytic actinomycete isolated from dongxiang wild rice root. Genome Announc 2: e12-e14.
44. Zaburannyi, N., Rabyk, M., Ostash, B., Fedorenko, V., and Luzhetskyy, A. (2014) Insights into naturally minimised Streptomyces albus J1074 genome. BMC Genomics 15: 97.
45. Zhang, H., Zhou, W., Zhuang, Y., Liang, X., and Liu, T. (2013) Draft genome sequence of Streptomyces bottropensis ATCC 25435, a bottromycin-producing actinomycete. Genome Announc 1: 2012-2013.
46. Zhou, Z., Gu, J., Li, Y.-Q., and Wang, Y. (2012) Genome plasticity and systems evolution in Streptomyces. BMC Bioinformatics 13 (Suppl. 1): S8.