Genetic transplantation: Salmonella enterica serovar typhimurium as a host to study sigma factor and anti-sigma factor interactions in genetically intractable systems

Journal of Bacteriology

Volumn 188, Issue 1, 2006, Pages 103-114

  Karlinsey, Joyce E ^a   Hughes, Kelly T ^a,b  

^a UNIVERSITY OF WASHINGTON   (United States)

^b UNIVERSITY OF UTAH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; PROTEIN FLGM; SIGMA FACTOR; UNCLASSIFIED DRUG; FLGM PROTEIN, BACTERIA; FLIA PROTEIN, BACTERIA;

AQUIFEX AEOLICUS; ARTICLE; BACTERIAL CHROMOSOME; BACTERIAL FLAGELLUM; BACTERIAL GENE; BACTERIAL GROWTH; BACTERIAL STRAIN; BIOGENESIS; CHLAMYDIA TRACHOMATIS; CHROMOSOME STRUCTURE; CONTROLLED STUDY; FLIA GENE; GENE EXPRESSION; GENE LOCATION; GENETIC MANIPULATION; GENETIC RECOMBINATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN FUNCTION; PROTEIN PROTEIN INTERACTION; SALMONELLA ENTERICA; AMINO ACID SEQUENCE; BACTERIUM; CHEMISTRY; DRUG ANTAGONISM; EVALUATION; GENE EXPRESSION REGULATION; GENETIC COMPLEMENTATION; GENETIC PROCEDURES; GENETICS; GROWTH, DEVELOPMENT AND AGING; HEAT; METABOLISM; MOLECULAR GENETICS; MUTATION; PHYSIOLOGY; SALMONELLA TYPHIMURIUM;

AQUIFEX AEOLICUS; BACTERIA (MICROORGANISMS); CHLAMYDIA TRACHOMATIS; SALMONELLA ENTERICA; SALMONELLA ENTERICA SUBSP. ENTERICA SEROVAR TYPHIMURIUM;

AMINO ACID SEQUENCE; BACTERIA; BACTERIAL PROTEINS; CHLAMYDIA TRACHOMATIS; GENE EXPRESSION REGULATION, BACTERIAL; GENETIC COMPLEMENTATION TEST; GENETIC TECHNIQUES; HEAT; MOLECULAR SEQUENCE DATA; MUTATION; RECOMBINATION, GENETIC; SALMONELLA TYPHIMURIUM; SIGMA FACTOR;

EID: 33644885318     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.188.1.103-114.2006     Document Type: Article

References (48)

1. Aldridge, P., and K. T. Hughes. 2002. Regulation of flagellar assembly. Curr. Opin. Microbiol. 5:160-165.
2. Bernstein, H. J. 2000. Recent changes to RasMol, recombining the variants. Trends Biochem. Sci. 25:453-455.
3. Blair, D. F. 1995. How bacteria sense and swim. Annu. Rev. Microbiol. 49:489-522.
4. Chadsey, M. S., and K. T. Hughes. 2001. A multipartite interaction between Salmonella transcription factor sigma28 and its anti-sigma factor FlgM: implications for sigma28 holoenzyme destabilization through stepwise binding. J. Mol. Biol. 306:915-929.
5. Chadsey, M. S., J. E. Karlinsey, and K. T. Hughes. 1998. The flagellar anti-sigma factor FlgM actively dissociates Salmonella typhimurium sigma28 RNA polymerase holoenzyme. Genes Dev. 12:3123-3136.
6. Chenna, R., H. Sugawara, T. Koike, R. Lopez, T. J. Gibson, D. G. Higgins, and J. D. Thompson. 2003. Multiple sequence alignment with the Clustal series of programs. Nucleic Acids Res. 31:3497-3500.
7. Clamp, M., J. Cuff, S. M. Searle, and G. J. Barton. 2004. The Jalview Java alignment editor. Bioinformatics 20:426-427.
8. Datsenko, K. A., and B. L. Wanner. 2000. One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc. Natl. Acad. Sci. USA 97:6640-6645.
9. Daughdrill, G. W., M. S. Chadsey, J. E. Karlinsey, K. T. Hughes, and F. W. Dahlquist. 1997. The C-terminal half of the anti-sigma factor, FlgM, becomes structured when bound to its target, sigma 28. Nat. Struct. Biol. 4:285-291.
10. Davis, R. W., D. Botstein, J. R. Roth, and Cold Spring Harbor N.Y. Laboratory of Quantitative Biology. 1980. Advanced bacterial genetics: a manual for genetic engineering. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
11. Deckert, G., P. V. Warren, T. Gaasterland, W. G. Young, A. L. Lenox, D. E. Graham, R. Overbeek, M. A. Snead, M. Keller, M. Aujay, R. Huber, R. A. Feldman, J. M. Short, G. J. Olsen, and R. V. Swanson. 1998. The complete genome of the hyperthermophilic bacterium Aquifex aeolicus. Nature 392:353-358.
12. Dove, S. L., S. A. Darst, and A. Hochschild. 2003. Region 4 of sigma as a target for transcription regulation. Mol. Microbiol. 48:863-874.
13. Gillen, K. L., and K. T. Hughes. 1991. Negative regulatory loci coupling flagellin synthesis to flagellar assembly in Salmonella typhimurium. J. Bacteriol. 173:2301-2310.
14. BAD promoter. J. Bacteriol. 177:4121-4130.
15. Hughes, K. T., K. L. Gillen, M. J. Semon, and J. E. Karlinsey. 1993. Sensing structural intermediates in bacterial flagellar assembly by export of a negative regulator. Science 262:1277-1280.
16. Hughes, K. T., and K. Mathee. 1998. The anti-sigma factors. Annu. Rev. Microbiol. 52:231-286.
17. Josenhans, C., and S. Suerbaum. 2002. The role of motility as a virulence factor in bacteria. Int. J. Med. Microbiol. 291:605-614.
18. Karlinsey, J. E., S. Tanaka, V. Bettenworth, S. Yamaguchi, W. Boos, S. I. Aizawa, and K. T. Hughes. 2000. Completion of the hook-basal body complex of the Salmonella typhimurium flagellum is coupled to FlgM secretion and fliC transcription. Mol. Microbiol. 37:1220-1231.
19. Kirov, S. M. 2003. Bacteria that express lateral flagella enable dissection of the multifunctional roles of flagella in pathogenesis. FEMS Microbiol. Lett. 224:151-159.
20. Kutsukake, K., S. Iyoda, K. Ohnishi, and T. Iino. 1994. Genetic and molecular analyses of the interaction between the flagellum-specific sigma and anti-sigma factors in Salmonella typhimurium. EMBO J. 13:4568-4576.
21. Kutsukake, K., Y. Ohya, and T. Iino. 1990. Transcriptional analysis of the flagellar regulon of Salmonella typhimurium. J. Bacteriol. 172:741-747.
22. Kuznedelov, K., L. Minakhin, A. Niedziela-Majka, S. L. Dove, D. Rogulja, B. E. Nickels, A. Hochschild, T. Heyduk, and K. Severinov. 2002. A role for interaction of the RNA polymerase flap domain with the sigma subunit in promoter recognition. Science 295:855-857.
23. Laskowski, R. A., V. V. Chistyakov, and J. M. Thornton. 2005. PDBsum more: new summaries and analyses of the known 3D structures of proteins and nucleic acids. Nucleic Acids Res. 33:D266-D268.
24. Lonetto, M., M. Gribskov, and C. A. Gross. 1992. The sigma 70 family: sequence conservation and evolutionary relationships. J. Bacteriol. 174:3843-3849.
25. Macnab, R. M. 1996. Flagella and motility, p. 123-145. In F. C. Neidhardt, R. Curtiss III, J. L. Ingraham, E. C. C. Lin, K. B. Low, B. Magasanik, W. S. Reznikoff, M. Riley, M. Schaechter, and H. E. Umbarger (ed.), Escherichia coli and Salmonella: cellular and molecular biology, 2nd ed. ASM Press, Washington, D.C.
26. Macnab, R. M. 1999. The bacterial flagellum: reversible rotary propellor and type III export apparatus. J. Bacteriol. 181:7149-7153.
27. Maloy, S. R. 1990. Experimental techniques in bacterial genetics. Jones and Bartlett, Boston, Mass.
28. Maloy, S. R., and W. D. Nunn. 1981. Selection for loss of tetracycline resistance by Escherichia coli. J. Bacteriol. 145:1110-1111.
29. Matsudaira, P. 1987. Sequence from picomole quantities of proteins electroblotted onto polyvinylidene difluoride membranes. J. Biol. Chem. 262:10035-10038.
30. Murakami, K. S., S. Masuda, E. A. Campbell, O. Muzzin, and S. A. Darst. 2002. Structural basis of transcription initiation: an RNA polymerase holoenzyme-DNA complex. Science 296:1285-1290.
31. Paget, M. S., and J. D. Helmann. 2003. The sigma70 family of sigma factors. Genome Biol. 4:203.
32. Poteete, A. R. 2001. What makes the bacteriophage lambda Red system useful for genetic engineering: molecular mechanism and biological function. FEMS Microbiol. Lett. 201:9-14.
33. Ramos, H. C., M. Rumbo, and J. C. Sirard. 2004. Bacterial flagellins: mediators of pathogenicity and host immune responses in mucosa. Trends Microbiol. 12:509-517.
34. Rappleye, C. A., and J. R. Roth. 1997. A Tn10 derivative (T-POP) for isolation of insertions with conditional (tetracycline-dependent) phenotypes. J. Bacteriol. 179:5827-5834.
35. Sambrook, J., and W. R. David. 2001. Molecular cloning: a laboratory manual, 3rd. ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
36. Sayle, R. A., and E. J. Milner-White. 1995. RASMOL: biomolecular graphics for all. Trends Biochem. Sci. 20:374.
37. Schachter, J. 1999. Infection and disease epidemiology, p. 139-170. In R. S. Stephens (ed.), Chlamydia: intracellular biology, pathogenesis, and immunity. ASM Press, Washington, D.C.
38. Schagger, H., and G. von Jagow. 1987. Tricine-sodium dodecyl sulfate-polyacrylamide gel electrophoresis for the separation of proteins in the range from 1 to 100 kDa. Anal. Biochem. 166:368-379.
39. Shen, L., M. Li, and Y. X. Zhang. 2004. Chlamydia trachomatis sigma28 recognizes the fliC promoter of Escherichia coli and responds to heat shock in chlamydiae. Microbiology 150:205-215.
40. Sobolev, V., A. Sorokine, J. Prilusky, E. E. Abola, and M. Edelman. 1999. Automated analysis of interatomic contacts in proteins. Bioinformatics 15:327-332.
41. Sorenson, M. K., S. S. Ray, and S. A. Darst. 2004. Crystal structure of the flagellar sigma/anti-sigma complex sigma(28)/FlgM reveals an intact sigma factor in an inactive conformation. Mol. Cell 14:127-138.
42. Starnbach, M. N., and S. Lory. 1992. The fliA (rpoF) gene of Pseudomonas aeruginosa encodes an alternative sigma factor required for flagellin synthesis. Mol. Microbiol. 6:459-469.
43. Stephens, R. S. (ed.). 1999. Chlamydia: intracellular biology, pathogenesis, and immunity. ASM Press, Washington, D.C.
44. Studholme, D. J., and M. Buck. 2000. The alternative sigma factor sigma(28) of the extreme thermophile Aquifex aeolicus restores motility to an Escherichia coli fliA mutant. FEMS Microbiol. Lett. 191:103-107.
45. Vassylyev, D. G., S. Sekine, O. Laptenko, J. Lee, M. N. Vassylyeva, S. Borukhov, and S. Yokoyama. 2002. Crystal structure of a bacterial RNA polymerase holoenzyme at 2.6 A resolution. Nature 417:712-719.
46. Wadhams, G. H., and J. P. Armitage. 2004. Making sense of it all: bacterial chemotaxis. Nat. Rev. Mol. Cell Biol. 5:1024-1037.
47. Way, J. C., M. A. Davis, D. Morisato, D. E. Roberts, and N. Kleckner. 1984. New Tn10 derivatives for transposon mutagenesis and for construction of lacZ operon fusions by transposition. Gene 32:369-379.
48. Yu, D., H. M. Ellis, E. C. Lee, N. A. Jenkins, N. G. Copeland, and D. L. Court. 2000. An efficient recombination system for chromosome engineering in Escherichia coli. Proc. Natl. Acad. Sci. USA 97:5978-5983.