Regional organization of gene expression in Streptomyces coelicolor

Gene

Volumn 353, Issue 1, 2005, Pages 53-66

  Karoonuthaisiri, Nitsara ^a   Weaver, David ^a   Huang, Jianqiang ^b   Cohen, Stanley N ^b   Kao, Camilla M ^a  

^a Stanford University   (United States)

^b STANFORD UNIVERSITY   (United States)

Author keywords

Gene expression; Microarrays; S. coelicolor

Indexed keywords

DNA;

ARTICLE; BACTERIUM CULTURE; CELL GROWTH; CHROMOSOME; CHROMOSOME ARM; DNA MICROARRAY; GENE EXPRESSION; GENE IDENTIFICATION; GENETIC TRANSCRIPTION; NONHUMAN; OSMOSIS; PHYSIOLOGY; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; STREPTOMYCES COELICOLOR; STRESS; TEMPERATURE MEASUREMENT; VEGETATIVE GROWTH;

CHROMOSOMES, BACTERIAL; CLUSTER ANALYSIS; ETHANOL; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, BACTERIAL; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PHOSPHATES; STREPTOMYCES COELICOLOR; SUCROSE; TEMPERATURE;

STREPTOMYCES COELICOLOR;

EID: 20444376853     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gene.2005.03.042     Document Type: Article

References (37)

1. J.B. Bae, J.H. Park, M.Y. Hahn, M.S. Kim, and J.H. Roe Redox-dependent changes in RsrA, an anti-sigma factor in Streptomyces coelicolor: zinc release and disulfide bond formation J. Mol. Biol. 335 2004 425 435
2. S.D. Bentley Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2) Nature 417 2002 141 147
3. D. Brekasis, and M.S. Paget A novel sensor of NADH/NAD+ redox poise in Streptomyces coelicolor A3(2) EMBO J. 22 2003 4856 4865
4. G. Bucca, A.M. Brassington, G. Hotchkiss, V. Mersinias, and C.P. Smith Negative feedback regulation of dnaK, clpB and lon expression by the DnaK chaperone machine in Streptomyces coelicolor, identified by transcriptome and in vivo DnaK-depletion analysis Mol. Microbiol. 50 2003 153 166
5. L.V. Bystrykh, M.A. Fernandez-Moreno, J.K. Herrema, F. Malpartida, D.A. Hopwood, and L. Dijkhuizen Production of actinorhodin-related "blue pigments" by Streptomyces coelicolor A3(2) J. Bacteriol. 178 1996 2238 2244
6. G.L. Challis, and D.A. Hopwood Synergy and contingency as driving forces for the evolution of multiple secondary metabolite production by Streptomyces species Proc. Natl. Acad. Sci. U. S. A. 100 2003 14555 14561
7. G.L. Challis, and J. Ravel Coelichelin, a new peptide siderophore encoded by the Streptomyces coelicolor genome: structure prediction from the sequence of its non-ribosomal peptide synthetase FEMS Microbiol. Lett. 187 2000 111 114
8. C.W. Chen, C.H. Huang, H.H. Lee, H.H. Tsai, and R. Kirby Once the circle has been broken: dynamics and evolution of Streptomyces chromosomes Trends Genet. 18 2002 522 529
9. Y.H. Cho, E.J. Lee, B.E. Ahn, and J.H. Roe SigB, an RNA polymerase sigma factor required for osmoprotection and proper differentiation of Streptomyces coelicolor Mol. Microbiol. 42 2001 205 214
10. M.B. Eisen, P.T. Spellman, P.O. Brown, and D. Botstein Cluster analysis and display of genome-wide expression patterns Proc. Natl. Acad. Sci. U. S. A. 95 1998 14863 14868
11. J. Gollub Microarray Database: data access and quality assessment tools Nucleic Acids Res. 31 2003 94 96
12. D.A. Hodgson Primary metabolism and its control in streptomycetes: a most unusual group of bacteria Adv. Microb. Physiol. 42 2000 47 238
13. H.J. Hong, M.S. Paget, and M.J. Buttner A signal transduction system in Streptomyces coelicolor that activates the expression of a putative cell wall glycan operon in response to vancomycin and other cell wall-specific antibiotics Mol. Microbiol. 44 2002 1199 1211
14. H.J. Hong, M.I. Hutchings, J.M. Neu, G.D. Wright, M.S. Paget, and M.J. Buttner Characterization of an inducible vancomycin resistance system in Streptomyces coelicolor reveals a novel gene (vanK) required for drug resistance Mol. Microbiol. 52 2004 1107 1121
15. C.E. Horak, and M. Snyder Global analysis of gene expression in yeast Funct. Integr. Genomics 2 2002 171 180
16. J. Huang, C.J. Lih, K.H. Pan, and S.N. Cohen Global analysis of growth phase responsive gene expression and regulation of antibiotic biosynthetic pathways in Streptomyces coelicolor using DNA microarrays Genes Dev. 15 2001 3183 3192
17. H. Ikeda Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis Nat. Biotechnol. 21 2003 526 531
18. K.S. Jeong, J. Ahn, and A.B. Khodursky Spatial patterns of transcriptional activity in the chromosome of Escherichia coli Genome Biol. 5 2004 R86
19. G.H. Kelemen, P.H. Viollier, J. Tenor, L. Marri, M.J. Buttner, and C.J. Thompson A connection between stress and development in the multicellular prokaryote Streptomyces coelicolor A3(2) Mol. Microbiol. 40 2001 804 814
20. F. Kepes Periodic transcriptional organization of the E. coli genome J. Mol. Biol. 340 2004 957 964
21. T. Kieser, M.J. Bibb, M.J. Buttner, K.F. Chater, and D.A. Hopwood Practical Streptomyces genetics 2000 John Innes Foundation Norwich, England
22. J. Kormanec, and B. Sevcikova The stress-response sigma factor sigma(H) controls the expression of ssgB, a homologue of the sporulation-specific cell division gene ssgA, in Streptomyces coelicolor A3(2) Mol. Genet. Genomics 267 2002 536 543
23. J. Kormanec, and B. Sevcikova Stress-response sigma factor sigma(H) directs expression of the gltB gene encoding glutamate synthase in Streptomyces coelicolor A3(2) Biochim. Biophys. Acta 1577 2002 149 154
24. J. Kormanec, B. Sevcikova, N. Halgasova, R. Knirschova, and B. Rezuchova Identification and transcriptional characterization of the gene encoding the stress-response sigma factor sigma(H) in Streptomyces coelicolor A3(2) FEMS Microbiol. Lett. 189 2000 31 38
25. W. Li, A.R. Bottril, M.J. Bibb, M.J. Buttner, M.S. Paget, and C. Kleanthous The Role of zinc in the disulphide stress-regulated anti-sigma factor RsrA from Streptomyces coelicolor J. Mol. Biol. 333 2003 461 472
26. M.S. Paget, E. Leibovitz, and M.J. Buttner A putative two-component signal transduction system regulates sigmaE, a sigma factor required for normal cell wall integrity in Streptomyces coelicolor A3(2) Mol. Microbiol. 33 1999 97 107
27. M.S. Paget, V. Molle, Y. Aharonowitz, and M.J. Buttner Defining the disulphide stress response in Streptomyces coelicolor A3(2): identification of the sigmaR regulon Mol. Microbiol. 42 2001 1007 1020
28. P.J. Piggot, and R. Losick Sporulation genes and intercompartmental regulation A.L. Sonenshein J.A. Hoch R. Losick Bacillus subtilis and its Closest Relatives: from Genes to Cells 2002 ASM Press Washington, D.C. 483 518
29. A.M. Puglia, J. Vohradsky, and C.J. Thompson Developmental control of the heat-shock stress regulon in Streptomyces coelicolor Mol. Microbiol. 17 1995 737 746
30. D. Schneider, C.J. Bruton, and K. Chater Duplicated gene clusters suggest an interplay of glycogen and trehalose metabolism during sequential stages of aerial mycelium development in Streptomyces coelicolor A3(2) Mol. Gen. Genet. 263 2000 543 553
31. M.A. Singer, and S. Lindquist Multiple effects of trehalose on protein folding in vitro and in vivo Mol. Cell 1 1998 639 648
32. E. Takano, R. Chakraburtty, T. Nihira, Y. Yamada, and M.J. Bibb A complex role for the gamma-butyrolactone SCB1 in regulating antibiotic production in Streptomyces coelicolor A3(2) Mol. Microbiol. 41 2001 1015 1028
33. M. Valens, S. Penaud, M. Rossignol, F. Cornet, and F. Boccard Macrodomain organization of the Escherichia coli chromosome EMBO J. 23 2004 4330 4341
34. P.H. Viollier, G.H. Kelemen, G.E. Dale, K.T. Nguyen, M.J. Buttner, and C.J. Thompson Specialized osmotic stress response systems involve multiple SigB-like sigma factors in Streptomyces coelicolor Mol. Microbiol. 47 2003 699 714
35. J. Vohradsky Developmental control of stress stimulons in Streptomyces coelicolor revealed by statistical analyses of global gene expression patterns J. Bacteriol. 182 2000 4979 4986
36. D. Weaver Genome plasticity in Streptomyces: identification of 1 Mb TIRs in the S. coelicolor A3(2) chromosome Mol. Microbiol. 51 2004 1535 1550
37. T.W. Yu, and D.A. Hopwood Ectopic expression of the Streptomyces coelicolor while genes for polyketide spore pigment synthesis and their interaction with the act genes for actinorhodin biosynthesis Microbiology 141 1995 2779 2791