Spx-RNA Polymerase Interaction and Global Transcriptional Control during Oxidative Stress

Journal of Bacteriology

Volumn 186, Issue 7, 2004, Pages 1911-1918

  Zuber, Peter ^a  

^a OREGON HEALTH AND SCIENCE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BINDING PROTEIN; PROTEIN SPX; RNA POLYMERASE; UNCLASSIFIED DRUG;

GENE ACTIVATION; GENE MUTATION; GENE REPRESSION; GRAM POSITIVE BACTERIUM; NONHUMAN; OXIDATIVE STRESS; PRIORITY JOURNAL; PROTEIN DEGRADATION; PROTEIN PROTEIN INTERACTION; SHORT SURVEY; SIGNAL TRANSDUCTION; TRANSCRIPTION REGULATION;

AMINO ACID SEQUENCE; BACTERIAL PROTEINS; DNA-DIRECTED RNA POLYMERASES; GENE EXPRESSION REGULATION, BACTERIAL; GRAM-POSITIVE BACTERIA; MOLECULAR SEQUENCE DATA; OXIDATIVE STRESS; REPRESSOR PROTEINS; TRANSCRIPTION, GENETIC;

BACTERIA (MICROORGANISMS); POSIBACTERIA;

EID: 1642352469     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.186.7.1911-1918.2004     Document Type: Short Survey

References (68)

1. Ahn, S. G., and D. J. Thiele. 2003. Redox regulation of mammalian heat shock factor 1 is essential for Hsp gene activation and protection from stress. Genes Dev. 17:516-528.
2. Antelmann, H., C. Scharf, and M. Hecker. 2000. Phosphate starvation-inducible proteins of Bacillus subtilis: proteomics and transcriptional analysis. J. Bacteriol. 182:4478-4490.
3. Arima, K., A. Kakinuma, and G. Tamura. 1968. Surfactin, a crystalline peptide lipid surfactant produced by Bacillus subtilis: isolation, characterization, and its inhibition of fibrin clot formation. Biochem. Biophys. Res. Commun. 31:488-494.
4. Bains, G., and E. Freire. 1991. Calorimetric determination of cooperative interactions in high affinity binding processes. Anal. Biochem. 192:203-206.
5. Banecki, B., A. Wawrzynow, J. Puzewicz, C. Georgopoulos, and M. Zylicz. 2001. Structure-function analysis of the zinc-binding region of the ClpX molecular chaperone. J. Biol. Chem. 276:18843-18848.
6. Bartel, P. L., C.-T. Chien, R. Sternglanz, and S. Fields. 1993. Using the two-hybrid system to detect protein-protein interactions, p. 153-179. In D. A. Hartley (ed.), Cellular interactions in development: a practical approach. Oxford University Press, Oxford, United Kingdom.
7. Bsat, N., A. Herbig, L. Casillas-Martinez, P. Setlow, and J. D. Heimann. 1998. Bacillus subtilis contains multiple Fur homologues: identification of the iron uptake (Fur) and peroxide regulon (PerR) repressors. Mol. Microbiol. 29:189-198.
8. Cosmina, P., F. Rodriguez, F. de Ferra, G. Grandi, M. Perego, G. Venema, and D. van Sinderen. 1993. Sequence and analysis of the genetic locus responsible for surfactin synthesis in Bacillus subtilis. Mol. Microbiol. 8:821-831.
9. 2 sensing through oxidation of the Yap1 transcription factor. EMBO J. 19:5157-5166.
10. Derre, I., G. Rapoport, K. Devine, M. Rose, and T. Msadek. 1999. ClpE, a novel type of HSP100 ATPase, is part of the CtsR heat shock regulon of Bacillus subtilis. Mol. Microbiol. 32:581-593.
11. D'Souza, C., M. M. Nakano, and P. Zuber. 1994. Identification of comS, a gene of the srfA operon that regulates the establishment of genetic competence in Bacillus subtilis. Proc. Natl. Acad. Sci. 91:9397-9401.
12. H). J. Bacteriol. 170:1054-1062.
13. Duwat, P., S. D. Ehrlich, and A. Gruss. 1999. Effects of metabolic flux on stress response pathways in Lactococcus lactis. Mol. Microbiol. 31:845-858.
14. Frees, D., P. Varmanen, and H. Ingmer. 2001. Inactivation of a gene that is highly conserved in Gram-positive bacteria stimulates degradation of non-native proteins and concomitantly increases stress tolerance in Lactococcus lactis. Mol. Microbiol. 41:93-103.
15. Fuangthong, M., S. Atichartpongkul, S. Mongkolsuk, and J. D. Helmann. 2001. OhrR is a repressor of ohrA, a key organic hydroperoxide resistance determinant in Bacillus subtilis. J. Bacteriol. 183:4134-4141.
16. Gaal, T., W. Ross, E. E. Blatter, H. Tang, X. Jia, V. V. Krishnan, N. Assa-Munt, R. H. Ebright, and R. L. Gourse. 1996. DNA-binding determinants of the alpha subunit of RNA polymerase: novel DNA-binding domain architecture. Genes Dev. 10:16-26.
17. Gasch, A. P., P. T. Spellman, C. M. Kao, O. Carmel-Harel, M. B. Eisen, G. Storz, D. Botstein, and P. O. Brown. 2000. Genomic expression programs in the response of yeast cells to environmental changes. Mol. Biol. Cell 11: 4241-4257.
18. Gerth, U., E. Kruger, I. Derre, T. Msadek, and M. Hecker. 1998. Stress induction of the Bacillus subtilis clpP gene encoding a homologue of the proteolytic component of the Clp protease and the involvement of ClpP and ClpX in stress tolerance. Mol. Microbiol. 28:787-802.
19. a of the essential Cys-12 residue of the ArsC arsenate reductase of plasmid R773. J. Biol. Chem. 271:33256-33260.
20. Gottesman, S., W. P. Clark, V. de Crecy-Lagard, and M. R. Maurizi. 1993. ClpX, an alternative subunit for the ATP-dependent Clp protease of Escherichia coli. Sequence and in vivo activities. J. Biol. Chem. 268:22618-22626.
21. Gottesman, S., E. Roche, Y. Zhou, and R. T. Sauer. 1998. The ClpXP and ClpAP proteases degrade proteins with carboxy-terminal peptide tails added by the SsrA-tagging system. Genes Dev. 12:1338-1347.
22. Graf, P. C., and U. Jakob. 2002. Redox-regulated molecular chaperones. Cell. Mol. Life Sci. 59:1624-1631.
23. Grundy, F. J., and T. M. Henkin. 1990. Cloning and analysis of the Bacillus subtilis rpsD gene, encoding ribosomal protein S4. J. Bacteriol. 172:6372-6379.
24. Hamoen, L. W., H. Eshuis, J. Jongbloed, G. Venema, and D. van Sinderen. 1995. A small gene, designated comS, located within the coding region of the fourth amino acid-activation domain of srfA, is required for competence development in Bacillus subtilis. Mol. Microbiol. 15:55-63.
25. Jakob, U., M. Eser, and J. C. Bardwell. 2000. Redox switch of Hsp33 has a novel zinc-binding motif. J. Biol. Chem. 275:38302-38310.
26. Kang, J. G., M. S. Paget, Y. J. Seok, M. Y. Hahn, J. B. Bae, J. S. Hahn, C. Kleanthous, M. J. Buttner, and J. H. Roe. 1999. RsrA, an anti-sigma factor regulated by redox change. EMBO J. 18:4292-4298.
27. Kim, S. O., K. Merchant, R. Nudelman, W. F. Beyer, Jr., T. Keng, J. DeAngelo, A. Hausladen, and J. S. Stamler. 2002. OxyR: a molecular code for redox-related signaling. Cell 109:383-396.
28. Kruger, E., U. Volker, and M. Hecker. 1994. Stress induction of clpC in Bacillus subtilis and its involvement in stress tolerance. J. Bacteriol. 176: 3360-3367.
29. Kuge, S., N. Jones, and A. Nomoto. 1997. Regulation of yAP-1 nuclear localization in response to oxidative stress. EMBO J. 16:1710-1720.
30. Liu, J., W. M. Cosby, and P. Zuber. 1999. Role of Lon and ClpX in the post-translational regulation of a sigma subunit of RNA polymerase required for cellular differentiation of Bacillus subtilis. Mol. Microbiol. 33:415-428.
31. Liu, J., and P. Zuber. 2000. The ClpX protein of Bacillus subtilis indirectly influences RNA polymerase holoenzyme composition and directly stimulates sigma H-dependent transcription. Mol. Microbiol. 37:885-897.
32. Magnuson, R., J. Solomon, and A. D. Grossman. 1994. Biochemical and genetic characterization of a competence pheromone from Bacillus subtilis. Cell 77:207-216.
33. Martin, P., S. DeMel, J. Shi, T. Gladysheva, D. L. Gatti, B. P. Rosen, and B. F. Edwards. 2001. Insights into the structure, solvation, and mechanism of ArsC arsenate reductase, a novel arsenic detoxification enzyme. Structure (Cambridge) 9:1071-1081.
34. Mongkolsuk, S., and J. D. Helmann. 2002. Regulation of inducible peroxide stress responses. Mol. Microbiol. 45:9-15.
35. Nakano, M. M., F. Hajarizadeh, Y. Zhu, and P. Zuber. 2001. Loss-of-function mutations in yjbD result in ClpX- and ClpP-independent competence development of Bacillus subtilis. Mol. Microbiol. 42:383-394.
36. Nakano, M. M., R. Magnuson, A. Myers, J. Curry, A. D. Grossman, and P. Zuber. 1991. srfA is an operon required for surfactin production, competence development, and efficient sporulation in Bacillus subtilis. J. Bacteriol. 173: 1770-1778.
37. Nakano, M. M., S. Nakano, and P. Zuber. 2002. Spx (YjbD), a negative effector of competence in Bacillus subtilis, enhances ClpC-MecA-ComK interaction. Mol. Microbiol. 44:1341-1349.
38. Nakano, M. M., L. Xia, and P. Zuber. 1991. Transcription initiation region of the srfA operon which is controlled by the comP-comA signal transduction system in Bacillus subtilis. J. Bacteriol. 173:5487-5493.
39. Nakano, M. M., Y. Zhu, J. Liu, D. Y. Reyes, H. Yoshikawa, and P. Zuber. 2000. Mutations conferring amino acid residue substitutions in the carboxyterminal domain of RNA polymerase α can suppress clpX and clpP with respect to developmentally regulated transcription in Bacillus subtilis. Mol. Microbiol. 37:869-884.
40. Nakano, M. M., and P. Zuber. 1993. Mutational analysis of the regulatory region of the srfA operon in Bacillus subtilis. J. Bacteriol. 175:3188-3191.
41. Nakano, M. M., P. Zuber, P. Glaser, A. Danchin, and F. M. Hulett. 1996. Two-component regulatory proteins ResD-ResE are required for transcriptional activation of fnr upon oxygen limitation in Bacillus subtilis. J. Bacteriol. 178:3796-3802.
42. Nakano, S., E. Küster-Schöck, A. D. Grossman, and P. Zuber. 2003. Spx-dependent global transcriptional control is induced by thiol-specific oxidative stress in Bacillus subtilis. Proc. Natl. Acad. Sci. 100:13603-13608.
43. Nakano, S., M. M. Nakano, Y. Zhang, M. Leelakriangsak, and P. Zuber. 2003. A regulatory protein that interferes with activator-stimulated transcription in bacteria. Proc. Natl. Acad. Sci. 100:4233-4238.
44. Nakano, S., G. Zheng, M. M. Nakano, and P. Zuber. 2002. Multiple pathways of Spx (YjbD) proteolysis in Bacillus subtilis. J. Bacteriol. 184: 3664-3670.
45. Paget, M. S. B., J.-B. Bae, M.-Y. Hahn, W. Li, C. Kleanthous, J.-H. Roe, and M. J. Buttner. 2001. Mutational analysis of RsrA, a zinc-binding anti-sigma factor with a thiol-disulphide redox switch. Mol. Microbiol. 39:1036-1047.
46. R, an RNA polymerase sigma factor that modulates expression of the thioredoxin system in response to oxidative stress in Streptomyces coelicolor A3(2). EMBO J. 19:5776-5782.
47. R regulon. Mol. Microbiol. 42:1007-1020.
48. Pan, Q., D. A. Garsin, and R. Losick. 2001. Self-reinforcing activation of a cell-specific transcription factor by proteolysis of an anti-σ factor in B. subtilis. Mol. Cell 8:873-883.
49. 70 subunit of Escherichia coli RNA polymerase. J. Bacteriol. 184:3957-3964.
50. Pollastri, G., D. Przybylski, B. Rost, and P. Baldi. 2002. Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles. Proteins 47:228-235.
51. Roggiani, M., and D. Dubnau. 1993. ComA, a phosphorylated response regulator protein of Bacillus subtilis, binds to the promoter region of srfA. J. Bacteriol. 175:3182-3187.
52. Savery, N. J., G. S. Lloyd, S. J. Busby, M. S. Thomas, R. H. Ebright, and R. L. Gourse. 2002. Determinants of the C-terminal domain of the Escherichia coli RNA polymerase alpha subunit important for transcription at class I cyclic AMP receptor protein-dependent promoters. J. Bacteriol. 184:2273-2280.
53. Savijoki, K., H. Ingmer, D. Frees, F. K. Vogensen, A. Palva, and P. Varmanen. 2003. Heat and DNA damage induction of the LexA-like regulator HdiR from Lactococcus lactis is mediated by RecA and ClpP. Mol. Microbiol. 50:609-621.
54. Shi, J., R. Mukhopadhyay, and B. P. Rosen. 2003. Identification of a triad of arginine residues in the active site of the ArsC arsenate reductase of plasmid R773. FEMS Microbiol. Lett. 227:295-301.
55. Storz, G., and J. A. Imlay. 1999. Oxidative stress. Curr. Opin. Microbiol. 2:188-194.
56. Storz, G., L. A. Tartaglia, and B. N. Ames. 1990. Transcriptional regulator of oxidative stress-inducible genes: direct activation by oxidation. Science 248: 189-194.
57. Sun, G., E. Sharkova, R. Chesnut, S. Birkey, M. F. Duggan, A. Sorokin, P. Pujic, S. D. Ehrlich, and F. M. Hulett. 1996. Regulators of aerobic and anaerobic respiration in Bacillus subtilis. J. Bacteriol. 178:1374-1385.
58. Turgay, K., J. Hahn, J. Burghoorn, and D. Dubnau. 1998. Competence in Bacillus subtilis is controlled by regulated proteolysis of a transcription factor. EMBO J. 17:6730-6738.
59. Turgay, K., L. W. Hamoen, G. Venema, and D. Dubnau. 1997. Biochemical characterization of a molecular switch involving the heat shock protein ClpC, which controls the activity of ComK, the competence transcription factor of Bacillus subtilis. Genes Dev. 11:119-128.
60. van Sinderen, D., G. Galli, P. Cosmina, F. de Ferra, S. Withoff, G. Venema, and G. Grandi. 1993. Characterization of the srfA locus of Bacillus subtilis: only the valine-activating domain of srfA is involved in the establishment of genetic competence. Mol. Microbiol. 8:833-841.
61. van Sinderen, D., A. Luttinger, L. Kong, D. Dubnau, G. Venema, and L. Hamoen. 1995. comK encodes the competence transcription factor, the key regulatory protein for competence development in Bacillus subtilis. Mol. Microbiol. 15:455-462.
62. van Sinderen, D., and G. Venema. 1994. comK acts as an autoregulatroy control switch in the signal transduction route to competence in Bacillus subtilis. J. Bacteriol. 176:5762-5770.
63. Weinrauch, Y., R. Penchev, E. Dubnau, I. Smith, and D. Dubnau. 1990. A Bacillus subtilis regulatory gene product for genetic competence and sporulation resembles sensor protein members of the bacterial two-component signal-transduction systems. Genes Dev. 4:860-872.
64. Wiegert, T., and W. Schumann. 2001. SsrA-mediated tagging in Bacillus subtilis. J. Bacteriol. 183:3885-3889.
65. Wojtkowiak, D., C. Georgopoulos, and M. Zylicz. 1993. Isolation and characterization of ClpX, a new ATP-dependent specificity component of the Clp protease of Escherichia coli. J. Biol. Chem. 268:22609-22617.
66. Yan, C., L. H. Lee, and L. I. Davis. 1998. Crmlp mediates regulated nuclear export of a yeast AP-1-like transcription factor. EMBO J. 17: 7416-7429.
67. Zheng, M., F. Aslund, and G. Storz. 1998. Activation of the OxyR transcription factor by reversible disulfide bond formation. Science 279:1718-1721.
68. Zheng, M., and G. Storz. 2000. Redox sensing by prokaryotic transcription factors. Biochem. Pharmacol. 59:1-6.