Negative regulation by RpoS: A case of sigma factor competition

Molecular Microbiology

Volumn 29, Issue 4, 1998, Pages 1039-1051

  Farewell, Anne ^a   Kvint, Kristian ^a   Nyström, Thomas ^a  

^a LUND UNIVERSITY   (Sweden)

Author keywords

[No Author keywords available]

Indexed keywords

DNA BINDING PROTEIN; RNA POLYMERASE; SIGMA FACTOR;

ARTICLE; BACTERIAL GENE; ESCHERICHIA COLI; GENE CONTROL; GENE EXPRESSION REGULATION; GENE INDUCTION; GENE LOCUS; GENE REPRESSION; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION;

BACTERIAL PROTEINS; BASE SEQUENCE; BINDING, COMPETITIVE; DNA PRIMERS; DNA, BACTERIAL; DNA-DIRECTED RNA POLYMERASES; ESCHERICHIA COLI; GENE EXPRESSION REGULATION, BACTERIAL; GENES, BACTERIAL; HEAT-SHOCK PROTEINS; INTEGRATION HOST FACTORS; INTERPHASE; MUTATION; PROMOTER REGIONS (GENETICS); REPRESSOR PROTEINS; SIGMA FACTOR; TRANSCRIPTION, GENETIC;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; NEGIBACTERIA;

EID: 0031844376     PISSN: 0950382X     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1365-2958.1998.00990.x     Document Type: Article

References (59)

1. Albertson, N.H., and Nyström, T. (1994) Effects of starvation for exogenous carbon on functional mRNA stability and the rate of peptide chain elongation in Escherichia coli. FEMS Microbiol Lett 117: 181-188.
2. Aldea, M., Garrido, T., Hernández-Chico, C., Vicente, M., and Kushner, S.R. (1989) Induction of a growth-phase-dependent promoter triggers transcription of bolA, an Escherichia coli morphogene. EMBO J 8: 3923-3931.
3. Bedwell, D.M., and Nomura, M. (1986) Feedback regulation of RNA polymerase subunit synthesis after the conditional overproduction of RNA polymerase in Escherichia coli. Mol Gen Genet 204: 17-23.
4. Black, P.N., and DiRusso, C.C. (1994) Molecular and biochemical analyses of fatty acid transport, metabolism, and gene regulation in Escherichia coli. Biochim Biophys Acta 1210: 123-145.
5. Blattner, F.R., Plunkett, III, G., Bloch, C.A., Perna, N.T., Burland, V., Riley, M., et al. (1997) The complete genome sequence of Escherichia coli K-12. Science 277: 1453-1462.
6. 70. J Bacteriol 173: 4482-4492.
7. Bremer, H., and Dennis, P.P. (1996) Modulation of chemical composition and other parameters of the cell by growth rate. In Escherichia coli and Salmonella: Cellular and Molecular Biology. Neidhardt, F.C. (ed.). Washington, DC: American Society of Microbiology Press, pp. 1553-1569.
8. Bremer, H., and Ehrenberg, M. (1995) Guanosine tetraphosphate as a global regulator of bacterial RNA synthesis: a model involving RNA polymerase pausing and queuing. Biochim Biophys Acta 1262: 15-36.
9. Brown, K.L., and Hughes, K.T. (1995) Role of anti-sigma factors in gene regulation. Mol Microbiol 16: 397-404.
10. Churchward, F., Bremer, H., and Young, R. (1982) Transcription in bacteria at different DNA concentrations. J Bacteriol 150: 572-581.
11. Condon, C., Squires, C., and Squires, C.L. (1995) Control of rRNA transcription in Escherichia coli. Microbiol Rev 59: 623-645.
12. Conter, A., Menchon, C., and Gutierrez, C. (1997) Role of DNA supercoiling and RpoS sigma factor in the osmotic and growth phase-dependent induction of the gene osmE of Escherichia coli K-12. J Mol Biol 273: 75-83.
13. Diez, A., Farewell, A., Nannmark, U., and Nyström, T. (1997) A mutation in the ftsK gene of Escherichia coli affects cell-cell separation, stationary phase and stress adaptation and expression of the gene encoding the stress protein UspA. J Bacteriol 179: 5878-5883.
14. 5 holoenzymes. Mol Microbiol 16: 649-656.
15. DiRusso, C., and Nyström, T. (1997) The fats of Escherichia coli during infancy and old age: regulation by global regulators, alarmones and lipid intermediates. Mol Microbiol 27: 1-8.
16. DiRusso, C.C., Metzger, A.K., and Heimert, T.L. (1993) Regulation of transcription of genes required for fatty acid transport and unsaturated fatty acid biosynthesis in E. coli. Mol Microbiol 7: 311-322.
17. Dykxhoorn, D.M., St Pierre, R., and Linn, T. (1996) Synthesis of the β and β′ subunits of Escherichia coli RNA polymerase is autogenously regulated in vivo by both transcriptional and translational mechanisms. Mol Microbiol 19: 483-493.
18. s-dependent promoters. Mol Microbiol 21: 657-659.
19. Farewell, A., Diez, A.A., DiRusso, C.C., and Nyström, T. (1996) Role of the Escherichia coli FadR regulator in stasis survival and growth-phase dependent expression of the uspA fad and fab genes. J Bacteriol 178: 6443-6450.
20. Freestone, P., Nyström, T., Trinei, M., and Norris, V. (1997) The universal stress protein, UspA, of Escherichia coli is phosphorylated in response to stasis. J Mol Biol 274: 318-324.
21. Gross, C.A. (1996) Function and regulation of the heat shock proteins. In Escherichia coli and Salmonella, Cellular and Molecular Biology. Neidhardt, F.C. (ed.). Washington, DC: American Society for Microbiology Press, pp. 1382-1399.
22. Gross, C.A., Grossman, A.D., Liebke, H., Walter, W., and Burgess, R.R. (1984) Effects of a mutant sigma allele rpoD800 on the synthesis of specific macromolecular components of the Escherichia coli K-12 cell. J Mol Biol 172: 283-300.
23. Gross, C.A., Lonetto, M., and Losick, R. (1992) Bacterial sigma factors. In Transcriptional Regulation. McKnight, S.L. et al. (eds). Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press, pp. 129-176.
24. Hengge-Aronis, R. (1996) Regulation of gene expression during entry into stationary phase. In Escherichia coli and Salmonella, Cellular and Molecular Biology. Neidhardt, F.C. (ed.), Washington, DC: American Society for Microbiology Press, pp. 1497-1512.
25. Hicks, K.A., and Grossman, A.D. (1996) Altering the level and regulation of the major sigma subunit of RNA polymerase affects gene expression and development in Bacillus subtilis. Mol Microbiol 20: 201-212.
26. Hoch, J.A. (1993) spoO genes, the phosphorelay, and the initiation of sporulation. In Bacillus subtilis and other Gram-positive Bacteria: Biochemistry, Physiology, and Molecular Genetics. Sonenshein, A.L., Hoch, J.A., and Losick, R. (eds). Washington, DC: American Society for Microbiology Press, pp. 747-756.
27. Jenkins, D.E., Auger, E.A., and Matin, A. (1991) Role of RpoH, a heat shock regulator protein, in Escherichia coli carbon starvation protein synthesis and survival. J Bacteriol 173: 1992-96.
28. Jensen, K.F., and Pedersen, S. (1990) Metabolic growth rate control in Escherichia coli may be a consequence of subsaturation of the macromolecular biosynthetic apparatus with substrates and catalytic components. Microbiol Rev 54: 89-100.
29. 38. J Bacteriol 177: 6832-6835.
30. Jishage, M., Iwata, A., Ueda, S., and Ishihama, A. (1996) Regulation of RNA polymerase sigma subunit synthesis in Escherichia coli: intracellular levels of four species of sigma subunit under various growth conditions. J Bacteriol 178: 5447-5451.
31. Kawakami, K., Saitoh, T., and Ishihama, A. (1979) Biosynthesis of RNA polymerase in Escherichia coli. IX. Growth-dependent variations in the synthesis rate, content and distribution of RNA polymerase. Mol Gen Genet 174: 107-116.
32. Kusano, S., and Ishihama, A. (1997a) Functional interaction of Escherichia coli RNA polymerase with inorganic polyphosphate. Genes Cells 2: 433-441.
33. 38. J Bacteriol 179: 3649-3654.
34. s holoenzymes: effect of DNA supercoiling. J Biol Chem 271: 1998-2004.
35. Lange, R and Hengge-Aronis, R. (1991) Identification of a central regulator of stationary-phase gene expression in Escherichia coli. Mol Microbiol 5: 49-59.
36. Linn, T., and St Pierre, R. (1990) Improved vector system for constructing transcriptional fusions that ensures independent translation of lacZ. J Bacteriol 172: 1077-1084.
37. Miller, J. (1972) Experiments in Molecular Genetics. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
38. Moran, C.P. (1993) RNA polymerase and transcription factors. In Bacillus subtilis and other Gram-positive Bacteria: Biochemistry, Physiology, and Molecular Genetics. Sonenshein, A.L., Hoch, J.A., and Losick, R. (eds). Washington, DC: American Society for Microbiology Press, pp. 653-668.
39. Mulvey, M.R., Sorby, P.A., Triggs-Raine, B.L., and Loewen, P.C. (1988) Cloning and physical characterization of katE and katF required for catalase HPII expression in Escherichia coli. Gene 73: 337-345.
40. Nash, H.A. (1996) The HU and IHF proteins: accessory factors for complex protein-DNA assemblies. In Regulation of Gene Expression in Escherichia coli. Lin, E.C.C., and Lynch, A.S. (eds). Austin, TX: R.G. Landes Co., pp. 149-180.
41. Neidhardt, F.C., Bloch, P.L., and Smith, D.F. (1974) Culture medium for enterobacteria. J Bacteriol 119: 736-747.
42. Nomura, M., Bedwell, D.M., Yamagishi, M., Cole, J.R., and Kolb, J.M. (1987) RNA polymerase and regulation of RNA synthesis in Escherichia coli: RNA polymerase concentration, stringent control, and ribosome feedback regulation. In RNA Polymerase and the Regulation of Transcription. Reznikoff, W.S. et al. (eds). New York: Elsevier Science, pp. 137-149.
43. Nyström, T. (1994a) The glucose-starvation stimulon of Escherichia coli: induced and repressed synthesis of enzymes of central metabolic pathways and role of acetyl phosphate in gene expression and starvation survival. Mol Microbiol 12: 833-843.
44. Nyström, T. (1994b) Role of guanosine tetraphosphate in gene expression and the survival of glucose or seryl-tRNA starved cells of Escherichia coli K-12. Mol Gen Genet 245: 355-362.
45. Nyström, T. (1995a) The trials and tribulations of growth arrest. Trends Microbiol 3: 131-135.
46. Nyström, T. (1995b) Glucose starvation stimulon of Escherichia coli: role of integration host factor in starvation survival and growth phase-dependent protein synthesis. J Bacteriol 177: 5707-5710.
47. Nyström, T., and Neidhardt, F.C. (1992) Cloning, mapping and nucleotide sequencing of a gene encoding a universal stress protein in Escherichia coli. Mol Microbiol 6: 3187-3198.
48. O'Farrell, P.M. (1975) High resolution two-dimensional electrophoresis of proteins. J Biol Chem 250: 4007-4021.
49. O'Neal, C.R., Gabriel, W.M., Turk, A.K., Libby, S.J., Fang, F.C., and Spector, M.P. (1994) RpoS is necessary for both the positive and negative regulation of starvation survival genes during phosphate, carbon, and nitrogen starvation in Salmonella typhimurium. J Bacteriol 176: 4610-4616.
50. Osawa, T., and Yura, T. (1981) Effects of reduced amount of RNA polymerase sigma factor on gene expression and growth of Escherichia coli: studies of the rpoD40 (amber) mutation. Mol Gen Genet 184: 166-174.
51. Pratt, L.A., and Silhavy, T.J. (1996) The response regulator SprE controls the stability of RpoS. Proc Natl Acad Sci USA 93: 2488-2492.
52. s-dependent promoter. J Mol Biol 267: 481-489.
53. Sambrook, J., Fritsch, E.F., and Maniatis, T. (1989) Molecular Cloning. A Laboratory Manual, 2nd edn. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
54. Simons, R.W., Houman, F., and Kleckner, N. (1987) Improved single and multicopy lac-based cloning vectors for protein and operon fusions. Gene 53: 85-96.
55. 54-dependent Po promoter controlling the Pseudomonas-derived (methyl)phenol dmp operon of pVI150. J Bacteriol 178: 3727-3735.
56. VanBogelen, R.A., and Neidhardt, F.C. (1990) Ribosomes as sensors of heat and cold shock in Escherichia coli. Proc Natl Acad Sci USA 87: 5589-5593.
57. Wanner, B.L., Kodaira, R., and Neidhardt, F.C. (1977) Physiological regulation of a decontrolled lac operon. J Bacteriol 130: 212-222.
58. 54 and is modulated by positive and negative feedback mechanisms. Genes Dev 5: 1912-23.
59. 32 with a small deletion in conserved region 3 of σ has reduced affinity for core RNA polymerase. J Bacteriol 174: 5005-5012.