Characterization of the Salmonella enterica serovar typhimurium ydcI gene, which encodes a conserved DNA Binding protein required for full acid stress resistance

Journal of Bacteriology

Volumn 193, Issue 9, 2011, Pages 2208-2217

  Jennings, Matthew E ^a   Quick, Laura N ^a   Soni, Anjali ^a   Davis, Richard R ^b   Crosby, Kathleen ^a   Ott, C Mark ^c   Nickerson, Cheryl A ^b   Wilson, James W ^a  

^a VILLANOVA UNIVERSITY   (United States)

^b ARIZONA STATE UNIVERSITY   (United States)

^c NASA JOHNSON SPACE CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CARBOXYLIC ACID; DNA BINDING PROTEIN; INORGANIC ACID;

ACIDITY; ARTICLE; AUTOREGULATION; BACTERIAL GENE; BACTERIAL GENETICS; BACTERIAL MUTATION; BACTERIAL STRAIN; BIOFILM; CELL CULTURE; CONSERVATION GENETICS; CONTROLLED STUDY; DNA PROBE; GENE EXPRESSION; GENE RPOS; GENE YDCI; GENETIC ANALYSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN BINDING; PROTEIN EXPRESSION; PROTEIN PURIFICATION; REGULON; SALMONELLA ENTERICA; SALMONELLA TYPHIMURIUM; SEQUENCE HOMOLOGY; STIMULON; WILD TYPE;

AMINO ACID SEQUENCE; BACTERIAL PROTEINS; BIOFILMS; CONSERVED SEQUENCE; DNA, BACTERIAL; GENE EXPRESSION REGULATION, BACTERIAL; MOLECULAR SEQUENCE ANNOTATION; MUTATION; SALMONELLA TYPHIMURIUM; STRESS, PHYSIOLOGICAL;

BACTERIA (MICROORGANISMS); NEGIBACTERIA; PROKARYOTA; SALMONELLA ENTERICA SUBSP. ENTERICA SEROVAR TYPHIMURIUM;

EID: 79955541766     PISSN: 00219193     EISSN: 10985530     Source Type: Journal    
DOI: 10.1128/JB.01335-10     Document Type: Article

References (56)

1. Altschul, S. F., W. Gish, W. Miller, E. W. Myers, and D. J. Lipman. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410.
2. Ausubel, F., and et al. 1996. Current protocols in molecular biology. John Wiley and Sons, Inc., New York, NY.
3. Bannister, S. R., et al. 2002. Shear force modulates osteoblast response to surface roughness. J. Biomed. Mater. Res. 60:167-174.
4. Beeson, J. G., et al. 2000. Adhesion of Plasmodium falciparum-infected erythrocytes to hyaluronic acid in placental malaria. Nat. Med. 6:86-90.
5. Cai, Z., J. Xin, D. M. Pollock, and J. S. Pollock. 2000. Shear stress-mediated NO production in inner medullary collecting duct cells. Am. J. Physiol. Renal Physiol. 279:F270-F274.
6. Crabbé, A., et al. 2008. Use of the rotating wall vessel technology to study the effect of shear stress on growth behaviour of Pseudomonas aeruginosa PA01. Environ. Microbiol. 10:2098-2110.
7. Crabbé, A., et al. 2010. Response of Pseudomonas aeruginosa PAO1 to low shear modelled microgravity involves AlgU regulation. Environ. Microbiol. 12:1545-1564.
8. Crawford, R. W., D. L. Gibson, W. W. Kay, and J. S. Gunn. 2008. Identification of a bile-induced exopolysaccharide required for Salmonella biofilm formation on gallstone surfaces. Infect. Immun. 76:5341-5349.
9. Crawford, R. W., K. E. Reeve, and J. S. Gunn. 2010. Flagellated but not hyperfimbriated Salmonella enterica serovar Typhimurium attaches to and forms biofilms on cholesterol-coated surfaces. J. Bacteriol. 192:2981-2990.
10. Curtiss, R., III, et al. 2009. Salmonella enterica serovar Typhimurium strains with regulated delayed attenuation in vivo. Infect. Immun. 77:1071-1082.
11. Curtiss, R., III, et al. 2010. New technologies in using recombinant attenuated Salmonella vaccine vectors. Crit. Rev. Immunol. 30:255-270.
12. 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. U. S. A. 97:6640-6645.
13. Ellermeier, C. D., A. Janakiraman, and J. M. Slauch. 2002. Construction of targeted single copy lac fusions using lambda Red and FLP-mediated sitespecific recombination in bacteria. Gene 290:153-161.
14. Fang, A., D. L. Pierson, D. W. Koenig, S. K. Mishra, and A. L. Demain. 1997. Effect of simulated microgravity and shear stress on microcin B17 production by Escherichia coli and on its excretion into the medium. Appl. Environ. Microbiol. 63:4090-4092.
15. Fang, A., D. L. Pierson, S. K. Mishra, and A. L. Demain. 2000. Growth of Streptomyces hygroscopicus in rotating-wall bioreactor under simulated microgravity inhibits rapamycin production. Appl. Microbiol. Biotechnol. 54: 33-36.
16. Fang, F. C., et al. 1992. The alternative sigma factor katF (rpoS) regulates Salmonella virulence. Proc. Natl. Acad. Sci. U. S. A. 89:11978-11982.
17. Felix, A., and R. M. Pitt. 1951. The pathogenic and immunogenic activities of Salmonella typhi in relation to its antigenic constituents. J. Hyg. (Lond.) 49:92-110.
18. Galán, J. E. 2001. Salmonella interactions with host cells: type III secretion at work. Annu. Rev. Cell Dev. Biol. 17:53-86.
19. Galán, J. E., and A. Collmer. 1999. Type III secretion machines: bacterial devices for protein delivery into host cells. Science 284:1322-1328.
20. Galán, J. E., and H. Wolf-Watz. 2006. Protein delivery into eukaryotic cells by type III secretion machines. Nature 444:567-573.
21. Gao, H., P. S. Ayyaswamy, and P. Ducheyne. 1997. Dynamics of a microcarrier particle in the simulated microgravity environment of a rotating-wall vessel. Microgravity Sci. Technol. 10:154-165.
22. Gulig, P. A., and R. Curtiss III. 1987. Plasmid-associated virulence of Salmonella typhimurium. Infect. Immun. 55:2891-2901.
23. Guo, P., A. M. Weinstein, and S. Weinbaum. 2000. A hydrodynamic mechanosensory hypothesis for brush border microvilli. Am. J. Physiol.-Renal Physiol. 279:F698-F712.
24. Guzman, L. M., D. Belin, M. J. Carson, and J. Beckwith. 1995. Tight regulation, modulation, and high-level expression by vectors containing the arabinose PBAD promoter. J. Bacteriol. 177:4121-4130.
25. Hammond, T. G., and J. M. Hammond. 2001. Optimized suspension culture: the rotating-wall vessel. Am. J. Physiol. Renal Physiol. 281:F12-25.
26. Hengge-Aronis, R. 2000. The general stress response in Escherichia coli, p. 161-168. In G. Storz and R. Hengge-Aronis (ed.), Bacterial stress responses. ASM Press, Washington, D.C.
27. Jonas, K., et al. 2007. Roles of curli, cellulose and BapA in Salmonella biofilm morphology studied by atomic force microscopy. BMC Microbiol. 7:70.
28. Kim, S. H., and C. I. Wei. 2009. Molecular characterization of biofilm formation and attachment of Salmonella enterica serovar typhimurium DT104 on food contact surfaces. J. Food Prot. 72:1841-1847.
29. Klauck, E., A. Typas, and R. Hengge. 2007. The sigmaS subunit of RNA polymerase as a signal integrator and network master regulator in the general stress response in Escherichia coli. Sci. Prog. 90:103-127.
30. Klaus, D. M., P. Todd, and A. Schatz. 1998. Functional weightlessness during clinorotation of cell suspensions. Adv. Space Res. 21:1315-1318.
31. Latasa, C., et al. 2005. BapA, a large secreted protein required for biofilm formation and host colonization of Salmonella enterica serovar Enteritidis. Mol. Microbiol. 58:1322-1339.
32. Li, Y., et al. 2009. Evaluation of new generation Salmonella enterica serovar Typhimurium vaccines with regulated delayed attenuation to induce immune responses against PspA. Proc. Natl. Acad. Sci. U. S. A. 106:593-598.
33. Lynch, S. V., K. Mukundakrishnan, M. R. Benoit, P. S. Ayyaswamy, and A. Matin. 2006. Escherichia coli biofilms formed under low-shear modeled microgravity in a ground-based system. Appl. Environ. Microbiol. 72:7701-7710.
34. MacLean, A. M., M. I. Anstey, and T. M. Finan. 2008. Binding site determinants for the LysR-type transcriptional regulator PcaQ in the legume endosymbiont Sinorhizobium meliloti. J. Bacteriol. 190:1237-1246.
35. Miller, J. H. 1992. A short course in bacterial genetics: a laboratory manual and handbook for Escherichia coli and related bacteria. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
36. Nauman, E. A., et al. 2007. Novel quantitative biosystem for modeling physiological fluid shear stress on cells. Appl. Environ. Microbiol. 73:699-705.
37. Neph, S., and M. Tompa. 2006. MicroFootPrinter: a tool for phylogenetic footprinting in prokaryotic genomes. Nucleic Acids Res. 34:W366-W368.
38. Nickerson, C. A., and R. Curtiss III. 1997. Role of sigma factor RpoS in initial stages of Salmonella typhimurium infection. Infect. Immun. 65:1814-1823.
39. Nickerson, C. A., et al. 2000. Microgravity as a novel environmental signal affecting Salmonella enterica serovar Typhimurium virulence. Infect. Immun. 68:3147-3152.
40. Nickerson, C. A., et al. 2003. Low-shear modeled microgravity: a global environmental regulatory signal affecting bacterial gene expression, physiology, and pathogenesis. J. Microbiol. Methods 54:1-11.
41. Nickerson, C. A., C. M. Ott, J. W. Wilson, R. Ramamurthy, and D. L. Pierson. 2004. Microbial responses to microgravity and other low-shear environments. Microbiol. Mol. Biol. Rev. 68:345-361.
42. O'Sullivan, L. E., C. A. Nickerson, and J. W. Wilson. 2010. A series of IncQ-based reporter plasmids for use in a range of Gram negative genera. J. Microbiol. Biotechnol. 20:871-874.
43. O'Toole, G. A., and R. Kolter. 1998. Initiation of biofilm formation in Pseudomonas fluorescens WCS365 proceeds via multiple, convergent signalling pathways: a genetic analysis. Mol. Microbiol. 28:449-461.
44. Parsek, M. R., R. W. Ye, P. Pun, and A. M. Chakrabarty. 1994. Critical nucleotides in the interaction of a LysR-type regulator with its target promoter region catBC promoter activation by CatR. J. Biol. Chem. 269:11279-11284.
45. Quick, L. N., A. Shah, and J. W. Wilson. 2010. A series of vectors with alternative antibiotic resistance markers for use in lambda Red recombination. J. Microbiol. Biotechnol. 20:666-669.
46. Thompson, J. D., D. G. Higgins, and T. J. Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.
47. Tralau, T., J. Mampel, A. M. Cook, and J. Ruff. 2003. Characterization of TsaR, an oxygen-sensitive LysR-type regulator for the degradation of ptoluenesulfonate in Comamonas testosteroni T-2. Appl. Environ. Microbiol. 69:2298-2305.
48. Tucker, D. L., et al. 2007. Characterization of Escherichia coli MG1655 grown in a low-shear modeled microgravity environment. BMC Microbiol. 7:15.
49. Wilson, J. W., C. Coleman, and C. A. Nickerson. 2007. Cloning and transfer of the Salmonella pathogenicity island 2 type III secretion system for studies of a range of gram-negative genera. Appl. Environ. Microbiol. 73:5911-5918.
50. Wilson, J. W., and C. A. Nickerson. 2006. Cloning of a functional Salmonella SPI-1 type III secretion system and development of a method to create mutations and epitope fusions in the cloned genes. J. Biotechnol. 122:147-160.
51. Wilson, J. W., and C. A. Nickerson. 2006. A new experimental approach for studying bacterial genomic island evolution identifies island genes with bacterial host-specific expression patterns. BMC Evol. Biol. 6:2.
52. Wilson, J. W., C. M. Ott, K. Honer zu Bentrup, et al. 2007. Space flight alters bacterial gene expression and virulence and reveals a role for global regulator Hfq. Proc. Natl. Acad. Sci. U. S. A. 104:16299-16304.
53. Wilson, J. W., C. M. Ott, L. Quick, R. Davis, K. Honer zu Bentrup, et al. 2008. Media ion composition controls regulatory and virulence response of Salmonella in spaceflight. PLoS One 3:e3923.
54. Wilson, J. W., et al. 2002. Low-shear modeled microgravity alters the Salmonella enterica serovar Typhimurium stress response in an RpoS-independent manner. Appl. Environ. Microbiol. 68:5408-5416.
55. Wilson, J. W., et al. 2002. Microarray analysis identifies Salmonella genes belonging to the low-shear modeled microgravity regulon. Proc. Natl. Acad. Sci. U. S. A. 99:13807-13812.
56. Yanisch-Perron, C., J. Vieira, and J. Messing. 1985. Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene 33:103-119.