Chapter 29 : Gene Regulation

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is thought to experience little or no competition from other microorganisms in its gastric niche. Only four proteins have a perfect match to helix-turn-helix motifs, which are characteristic of DNA-binding proteins, or more specifically, for transcription factors. However, environmental changes such as varying pH levels, immunological responses, and temperature and nutrient fluctuations due to food intake by the host do occur in the gastric mucus. Therefore, like every other microorganism, has to adapt to these changes by regulating its gene expression to allow successful and persistent colonization of the stomach. Metal ions such as iron, nickel, and copper are essential elements for all organisms, where they function in basic cell metabolism. Nickel is of particular importance for , as the urease enzyme, which is produced in large amounts, requires nickel as a cofactor. Phase variation is the apparently random on- and off-switching of gene expression, and this mechanism of gene regulation is often encountered in bacterial surface-exposed structures such as flagella, adhesins, and lipopolysaccharide (LPS). Phase variation in methylase genes can provide an extra dimension to gene regulation by . The application of novel techniques and approaches such as DNA microarrays and proteomics will hopefully lead to the identification of additional environmentally regulated genes, while further characterization of the two-component systems will give insight into how responds to its environment and is able to cause disease.

Citation: de Vries N, Van Vliet A, Kusters J. 2001. Gene Regulation, p 321-334. In Mobley H, Mendz G, Hazell S (ed), . ASM Press, Washington, DC. doi: 10.1128/9781555818005.ch29
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Figure 1

The ferric uptake regulator homolog (Fur) as a putative global regulator. Fur is thought to be involved in a range of processes in , depicted in boxes, and responds to a variety of environmental stimuli, indicated above the arrows.

Citation: de Vries N, Van Vliet A, Kusters J. 2001. Gene Regulation, p 321-334. In Mobley H, Mendz G, Hazell S (ed), . ASM Press, Washington, DC. doi: 10.1128/9781555818005.ch29
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Figure 2

.Regulation of chaperone genes. Structural organization of the chaperone genes is according to Tomb et al. ( ). Solid arrows indicate regulation by HspR confirmed by experimental data of Spohn and Scarlato ( ). Dashed arrows indicate putative regulatory pathways. Increase, decrease, or no change of expression under either heat stress or osmotic stress is shown by ↑, ↓ or =, respectively. Question marks indicate that no data are available. Chaperone genes are marked in white, regulatory genes are marked in black, and the HP1026 gene, encoding a conserved hypothetical helicase-like protein ( ), is in gray.

Citation: de Vries N, Van Vliet A, Kusters J. 2001. Gene Regulation, p 321-334. In Mobley H, Mendz G, Hazell S (ed), . ASM Press, Washington, DC. doi: 10.1128/9781555818005.ch29
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Figure 3

Schematic representation of a two-component signal transduction system. Signal transduction occurs through autophosphorylation of the histidine kinase sensor (HKS) upon binding of a ligand from the environment. The subsequent transfer of the phos phoryl group (P) activates the response regulator (RR). In , the functions of two two-component systems have been identified. The system involved in the chemotactic response comprises the CheA HKS and the CheY RR. The system regulating flagellar biogenesis involves the HP0244 HKS and the FlgR RR. For further details see text.

Citation: de Vries N, Van Vliet A, Kusters J. 2001. Gene Regulation, p 321-334. In Mobley H, Mendz G, Hazell S (ed), . ASM Press, Washington, DC. doi: 10.1128/9781555818005.ch29
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Figure 4

Schematic representation of regulation of flagellar biogenesis. For explanation see text.

Citation: de Vries N, Van Vliet A, Kusters J. 2001. Gene Regulation, p 321-334. In Mobley H, Mendz G, Hazell S (ed), . ASM Press, Washington, DC. doi: 10.1128/9781555818005.ch29
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Figure 5

Schematic representation of the CheA-CheY two-component system for regulation of the chemotactic response. Putative homologs are written in the lower parts of the respective boxes. For further explanation see text.

Citation: de Vries N, Van Vliet A, Kusters J. 2001. Gene Regulation, p 321-334. In Mobley H, Mendz G, Hazell S (ed), . ASM Press, Washington, DC. doi: 10.1128/9781555818005.ch29
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1. Akada, J. K.,, M. Shirai,, H. Takeuchi,, M. Tsuda,, and T. Nakazawa. 2000. Identification of the urease operon in Helicobacter pylori and its control by mRNA decay in response to pH. Mol. Microbiol. 36: 1071 1084.
2. Alm, R. A.,, L. S. Ling,, D. T. Moir,, B. L. King,, E. D. Brown,, P. C. Doig,, D. R. Smith,, B. Noonan,, B. C. Guild,, B. L. deJonge,, G. Carmel,, P. J. Tummino,, A. Caruso,, M. Uria-Nickelsen,, D. M. Mills,, C. Ives,, R. Gibson,, D. Merberg,, S. D. Mills,, Q. Jiang,, D. E. Taylor,, G. F. Vovis,, and T. J. Trust. 1999. Genomic-sequence comparison of two unrelated isolates of the human gastric pathogen Helicobacter pylori. Nature 397: 176 180.
3. Andrews, S. C. 1998. Iron storage in bacteria. Adv. Microb. Physiol. 40: 281 351.
4. Appelmelk, B. J.,, S. L. Martin,, M. A. Monteiro,, C. A. Clayton,, A. A. McColm,, P. Zheng,, T. Verboom,, J. J. Maaskant,, D. H. van den Eijnden,, C. H. Hokke,, M. B. Perry,, C. M. Vandenbroucke-Grauls,, and J. G. Kusters. 1999. Phase variation in Helicobacter pylori lipopolysaccharide. due to changes in the lengths of poly(C) tracts in alpha3-fucosyltransferase genes. Infect. Immun. 67: 5361 5366.
5. Appelmelk, B. J.,, B. Shiberu,, C. Trinks,, N. Tapsi,, P. Y. Zheng,, T. Verboom,, J. Maaskant,, C. H. Hokke,, W. E. Schiphorst,, D. Blanchard,, I. M. Simoons-Smit,, D. H. van den Eijnden,, and C. M. Vandenbroucke-Grauls. 1998. Phase variation in Helicobacter pylori lipopolysaccharide. Infect. Immun. 66: 70 76.
6. Bauerfeind, P.,, R. M. Garner,, and L. T. Mobley. 1996. Allelic exchange mutagenesis of nixA in Helicobacter pylori results in reduced nickel transport and urease activity. Infect. Immun. 64: 2877 2880.
7. Bearson, B. L.,, L. Wilson,, and J. W. Foster. 1998. A low pH-inducible, PhoPQ-dependent acid tolerance response protects Salmonella typbimurium against inorganic acid stress. J. Bacteriol. 180: 2409 2417.
8. Beier, D.,, and R. Frank. 2000. Molecular characterization of two-component systems of Helicobacter pylori. J. Bacteriol. 182: 2068 2076.
9. Beier, D.,, G. Spohn,, R. Rappuoli,, and V. Scarlato. 1997. Identification and characterization of an operon of Helicobacter pylori that is involved in motility and stress adaptation. J. Bacteriol. 179: 4676 4683.
10. Beier, D.,, G. Spohn,, R. Rappuoli,, and V. Scarlato. 1998. Functional analysis of the Helicobacter pylori principal sigma subunit of RNA polymerase reveals that the spacer region is important for efficient transcription. Mol. Microbiol. 30: 121 134.
11. Beiland, R. J.,, S. G. Morrison,, J. H. Carlson,, and D. M. Hogan. 1997. Promoter strength influences phase variation of neisserial opa genes. Mol. Microbiol. 23: 123 135.
12. Bereswill, S.,, S. Greiner,, A. H. M. van Vliet,, B. Waidner,, F. Fassbinder,, E. Schiltz,, J. G. Kusters,, and M. Kist. 2000. Regulation of ferritin-mediated cytoplasmic iron storage by the ferric uptake regulator homolog (Fur) of Helicobacter pylori. J. Bacteriol. 182: 5948 5953.
13. Bereswill, S.,, F. Lichte,, S. Greiner,, B. Waidner,, F. Fassbinder,, and M. Kist. 1999. The ferric uptake regulator (Fur) homologue of Helicobacter pylori: functional analysis of the coding gene and controlled production of the recombinant protein in Escherichia coli. Med. Microbiol. Immunol. (Berlin) 188: 31 40.
14. Bereswill, S.,, F. Lichte,, T. Vey,, F. Fassbinder,, and M. Kist. 1998. Cloning and characterization of the fur gene from Helicobacter pylori. FEMS Microbiol. Lett. 159: 193 200.
15. Bereswill, S.,, O. Neuner,, S. Strobel,, and M. Kist. 2000. Identification and molecular analysis of superoxide dismutase isoforms in Helicobacter pylori. FEMS Microbiol. Lett. 183: 241 245.
16. Berg, D. E.,, P. S. Hoffman,, B. J. Appelmelk,, and J. G. Kusters. 1997. The Helicobacter pylori genome sequence: genetic factors for long life in the gastric mucosa. Trends Microbiol. 5: 468 474.
17. Bijlsma, J. J. E. 2000. Hp dna and pH. The acid resistance of Helicobacter pylori. Ph.D. thesis. Vrije Universiteit, Amsterdam, The Netherlands.
18. Blyn, L. B.,, B. A. Braaten,, and D. A. Low. 1990. Regulation of pap pilin phase variation by a mechanism involving differential dam methylation states. EMBO J. 9: 4045 4054.
19. Brahms, G.,, S. Brahms,, and B. Magasanik. 1995. A sequence-induced superhelical DNA segment serves as transcriptional enhancer. J. Mol. Biol. 246: 35 42.
20. Braun, V.,, and H. Killmann. 1999. Bacterial solutions to the iron-supply problem. Trends Biochem. Sci. 24: 104 109.
21. Bsat, N.,, A. Herbig,, I. Casillas-Martinez,, P. Setlow,, and J. D. Helmann. 1998. Bacillus subtilis contains multiple Fur homologues: identification of the iron uptake (Fur) and peroxide regulon (PerR) repressors. Mol. Microbiol. 29: 189 198.
22. Bucca, G.,, Z. Hindle,, and C. P. Smith. 1997. Regulation of the dnaK operon of Streptomyces coelicolor A3(2) is governed by HspR, an autoregulatory repressor protein. J. Bacteriol. 179: 5999 6004.
23. Bukau, B. 1993. Regulation of the Escherichia coli heat-shock response. Mol. Microbiol. 9: 671 680.
24. Chiang, S. L.,, J. J. Mekalanos,, and D. W. Holden. 1999. In vivo genetic analysis of bacterial virulence. Annu. Rev. Microbiol. 53: 129 154.
25. Chivers, P. T.,, and R. T. Sauer. 2000. Regulation of high-affinity nickel uptake in bacteria: Ni 2+-dependent interaction of NikR with wild-type and mutant operator sites. J. Biol. Chem. 275: 19735 19741.
26. Clyne, M.,, A. Labigne,, and B. Drumm. 1995. Helicobacter pylori requires an acidic environment to survive in the presence of urea. Infect. Immun. 63: 1669 1673.
27. Clyne, M.,, T. O'Croinin,, S. Suerbaum,, C. Josenhans,, and B. Drumm. 2000. Adherence of isogenic flagellum-negative mutants of Helicobacter pylori and Helicobacter mustelae to human and ferret gastric epithelial cells. Infect. Immun. 68: 4335 4339.
28. Compan, I.,, and D. Touati. 1993. Interaction of six global transcription regulators in expression of manganese superoxide dismutase in Escherichia coli K-12. J. Bacteriol. 175: 1687 1696.
29. Csonka, L. N.,, and W. Epstein,. 1996. Osmoregulation, p. 1210 1223. 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..
30. Deitsch, K. W.,, E. R. Moxon,, and T. E. Wellems. 1997. Shared themes of antigenic variation and virulence in bacterial, protozoal, and fungal infections. Microbiol. Mol. Biol. Rev. 61: 281 293.
31. de Kievit, T. R.,, and B. H. Iglewski. 2000. Bacterial quorum sensing in pathogenic relationships. Infect. Immun. 68: 4839 4849.
32. De Pina, K.,, V. Desjardin,, M. A. Mandrand-Berthelot,, G. Giordano,, and L. F. Wu. 1999. Isolation and characterization of the nikR gene encoding a nickel-responsive regulator in Escherichia coli. J. Bacteriol. 181: 670 674.
33. de Vries, N.,, D. Duinsbergen,, E. J. Kuipers,, P. Wiesenekker,, C. M. J. E. Vandenbroucke-Grauls,, and J. G. Kusters. 2000. Phase variation in a type III restriction-modification system oí Helicobacter pylori. Gastroenterology 118:( Part 1, Suppl. 2): A736.
34. de Vries, N.,, E. J. Kuipers,, N. E. Kramer,, A. H. M. van Vliet,, J. J. E. Bijlsma,, M. Kist,, S. Bereswill,, C. M. J. E. Vanden broucke-Grauls,, and J. G. Kusters. Identification of environmental stress-regulated genes in Helicobacter pylori by a lacZ reporter gene fusion system. Submitted for publication.
35. Donahue, J. P.,, R. M. Peek,, L. J. Van Doom,, S. A. Thompson,, Q. Xu,, M. J. Blaser,, and G. G. Miller. 2000. Analysis of iceA1 transcription in Helicobacter pylori. Helicobacter 5: 1 12.
36. Drlica, K. 1992. Control of bacterial DNA supercoiling. Mol. Microbiol. 6: 425 433.
37. Dubrac, S.,, and D. Touati. 2000. Fur positive regulation of iron superoxide dismutase in Escherichia coli: functional analysis of the sodB promoter. J. Bacteriol. 182: 3802 3808.
38. Eaton, K. A.,, S. Suerbaum,, C. Josenhans,, and S. Krakowka. 1996. Colonization of gnotobiotic piglets by Helicobacter pylori deficient in two flagellin genes. Infect. Immun. 64: 2445 2448.
39. Escolar, L.,, J. Perez-Martin,, and V. de Lorenzo. 1999. Opening the iron-box: transcriptional metalloregulation by the Fur protein. J. Bacteriol. 181: 6223 6229.
40. Evans, D. J.,, D. G. Evans,, L. Engstrand,, and D. Y. Graham. 1992. Urease-associated heat shock protein of Helicobacter pylori. Infect. Immun. 60: 2125 2127.
41. Fabret, C.,, V. A. Feher,, and J. A. Hoch. 1999. Two-component signal transduction in Bacillus subtilis: how one organism sees its world. J. Bacteriol. 181: 1983.
42. Fang, F. C.,, S. J. Libby,, N. A. Buchmeier,, P. C. Loewen,, J. Switala,, J. Harwood,, and D. G. Guiney. 1992. The alternative sigma factor katF (rpoS) regulates Salmonella virulence. Broc. Natl. Acad. Sci. USA 89: 11978 11982.
43. Field, D.,, and C. Wills. 1998. Abundant microsatellite polymorphism in Saccharomyces cerevisiae, and the different distributions of microsatellites in eight prokaryotes and S. cerevisiae, result from strong mutation pressures and a variety of selective forces. Broc. Natl. Acad. Sci. USA. 95: 1647 1652.
44. Fleischmann, R. D.,, M. D. Adams,, O. White,, R. A. Clayton,, E. F. Kirkness,, A. R. Kerlavage,, C. J. Bult,, J. F. Tomb,, B. A. Dougherty,, and J. M. Merrick. 1995. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science 269: 496 512.
45. Forsyth, M. H.,, and T. L. Cover. 2000. Intercellular communication in Helicobacter pylori: luxS is essential for the production of an extracellular signaling molecule. Infect. Immun. 68: 3193 3199.
46. Foster, J. W.,, and H. K. Hall. 1992. Effect of Salmonella typhimurium ferric uptake regulator (fur) mutations on iron-and pH-regulated protein synthesis. J. Bacteriol. 174: 4317 4323.
47. Foynes, S.,, N. Dorreil,, S. J. Ward,, R. A. Stabler,, A. A. McColm,, A. N. Rycroft,, and B. W. Wren. 2000. Helicobacter pylori possesses two CheY response regulators and a histidine kinase sensor, CheA, which are essential for Chemotaxis and colonization of the gastric mucosa. Infect. Immun. 68: 2016 2023.
48. Görden, J.,, and C. P. Smith. 1993. Acid resistance in enteric bacteria. Infect. Immun. 61: 364 367.
49. Grandvalet, C.,, V. Crecy-Lagard,, and P. Mazodier. 1999. The ClpB ATPase of Streptomyces albus G belongs to the HspR heat shock regulon. Mol. Microbiol. 31: 521 532.
50. Grandvalet, C.,, G. Rapoport,, and P. Mazodier. 1998. hrcA, encoding the repressor of the groEL genes in Streptomyces albus G, is associated with a second dnaj gene. J. Bacteriol. 180: 5129 5134.
51. Greenberg, J. T.,, P. A. Monach,, J. H. Chou,, P. D. Josephy,, and B. Demple. 1990. Positive control of a global antioxidant defense regulon activated by superoxide-generating agents in Escherichia coli. Proc. Natl. Acad. Sci. USA 87: 6181 6185.
52. Gygi, D.,, M. J. Bailey,, C. Allison,, and C. Hughes. 1995. Requirement for FlhA in flagella assembly and swarm-cell differentiation by Froteus mirabilis. Mol. Microbiol. 15: 761 769.
53. Hall, H. K.,, and J. W. Foster. 1996. The role of fur in the acid tolerance response of Salmonella typhimurium is physiologically and genetically separable from its role in iron acquisition. J. Bacteriol. 178: 5683 5691.
54. Hammerschmidt, S.,, A. Müller,, H. Sillmann,, M. Muhlenhoff,, R. Borrow,, A. Fox,, J. van Putten,, W. D. Zollinger,, R. Ger-ardy-Schahn,, and M. Frosch. 1996. Capsule phase variation in Neisseria meningitidis serogroup B by slipped-strand mis-pairing in the polysialyltransferase gene (siaD): correlation with bacterial invasion and the outbreak of meningococcal disease. Mol. Microbiol. 20: 1211 1220.
55. Handfield, M.,, L. J. Brady,, A. Progulske-Fox,, and J. D. Hill-man. 2000. IVIAT: a novel method to identify microbial genes expressed specifically during human infections. Trends Microbiol. 8: 336 339.
56. Hazell, S. L.,, D. J. Evans,, and D. Y. Graham. 1991. Helicobacter pylori catalase. J. Gen. Microbiol. 137: 57 61.
57. Heithoff, D. M.,, R. L. Sinsheimer,, D. A. Low,, and M. J. Mahan. 1999. An essential role for DNA adenine methylation in bacterial virulence. Science 284: 967 970.
58. Henderson, I. R.,, P. Owen,, and J. P. Nataro. 1999. Molecular switches—the on and off of bacterial phase variation. Mol. Microbiol. 33: 919 932.
59. Hendricks, J. K.,, and H. L. Mobley. 1997. Helicobacter pylori ABC transporter: effect of allelic exchange mutagenesis on urease activity. J. Bacteriol. 179: 5892 5902.
60. Hengge-Aronis, R. 1996. Back to log phase: sigma S as a global regulator in the osmotic control of gene expression in Escherichia coli. Mol. Microbiol. 21: 887 893.
61. Hesterkamp, T.,, and B. Bukau. 1998. Role of the DnaK and HscA homologs of Hsp70 chaperones in protein folding in Escherichia coli. EMBO J. 17: 4818 4828.
62. Heyde, M.,, and R. Portalier. 1990. Acid shock proteins of Escherichia coli. FEMS Microbiol. Lett. 57: 19 26.
63. Hoffman, P. S.,, and R. A. Garduño. 1999. Surface-associated heat shock proteins of Legionella pneumophila and Helicobacter pylori: roles in pathogenesis and immunity. Infect. Dis. Obstet. Gynecol. 7: 58 63.
64. Homuth, G.,, S. Domm,, D. Kleiner,, and W. Schumann. 2000. Transcriptional analysis of major heat shock genes of Helicobacter pylori. J. Bacteriol. 182: 4257 4263.
65. Hood, D. W.,, M. E. Deadman,, M. P. Jennings,, M. Bisercic,, R. D. Fleischmann,, J. C. Venter,, and E. R. Moxon. 1996. DNA repeats identify novel virulence genes in Haemophilus influenzae. Proc. Natl. Acad. Sci. USA 93: 11121 11125.
66. Huesca, M.,, S. Borgia,, P. Hoffman,, and C. A. Lingwood. 1996. Acidic pH changes receptor binding specificity of Helicobacter pylori: a binary adhesion model in which surface heat shock (stress) proteins mediate sulfatide recognition in gastric colonization. Infect. Immun. 64: 2643 2648.
67. Huesca, M.,, A. Goodwin,, A. Bhagwansingh,, P. Hoffman,, and C. A. Lingwood. 1998. Characterization of an acidic-pH-inducible stress protein (hsp70), a putative sulfatide binding adhesin, from Helicobacter pylori. Infect. Immun. 66: 4061 4067.
68. Husson, M. O.,, D. Legrand,, G. Spik,, and H. Leclerc. 1993. bon acquisition by Helicobacter pylori: importance of human lactoferrin. Infect. Immun. 61: 2694 2697.
69. Illingworth, D. S.,, K. S. Walter,, P. L. Griffiths,, and R. Barclay. 1993. Siderophore production and iron-regulated envelope proteins of Helicobacter pylori. Int. I. Med. Microbiol. Virol. Parasitol. Infect. Dis. 280: 113 119.
70. Josenhans, C.,, K. A. Eaton,, T. Thevenot,, and S. Suerbaum. 2000. Switching of flagellar motility in Helicobacter pylori by reversible length variation of a short homopolymeric sequence repeat in fliP, a gene encoding a basal body protein. Infect. Immun. 68: 4598 4603.
71. Joyce, E. A.,, B. L. Bassler,, and A. Wright. 2000. Evidence for a signaling system in Helicobacter pylori: detection of a luxS-encoded autoinducer. J. Bacteriol. 182: 3638 3643.
72. Jungblut, P. R.,, D. Bumann,, G. Haas,, U. Zimny-Arndt,, P. Holland,, S. Lamer,, F. Siejak,, A. Aebischer,, and T. F. Meyer. 2000. Comparative proteome analysis of Helicobacter pylori. Mol. Microbiol. 36: 710 725.
72a.. Kansau, I.,, F. Guillain,, J. M. Thiberge,, and A. Labigne. 1996. Nickel-binding and immunological properties of the C-terminal domain of the H. pylori GroES homolog (HspA). Mol. Microbiol. 22: 1013 1023.
73. Kansau, I.,, and A. Labigne. 1996. Heat shock proteins of Helicobacter pylori. Aliment. Pharmacol. Ther. 10(Suppl.): 51 56.
74. Karita, M.,, M. K. Tummuru,, H. P. Wirth,, and M. J. Blaser. 1996. Effect of growth phase and acid shock on Helicobacter pylori cagA expression. Infect. Immun. 64: 4501 4507.
75. Kustu, S.,, A. K. North,, and D. S. Weiss. 1991. Prokaryotic transcriptional enhancers and enhancer-binding proteins. Trends Biochem. Sci. 16: 397 402.
76. Lee, I. S.,, J. Lin,, H. K. Hall,, B. Bearson,, and J. W. Foster. 1995. The stationary-phase sigma factor sigma S (RpoS) is required for a sustained acid tolerance response in virulent Salmonella typhimurium. Mol. Microbiol. 17: 155 167.
77. Lee, I. S.,, J. L. Slonczewski,, and J. W. Foster. 1994. A low-pH-inducible, stationary-phase acid tolerance response in Salmonella typhimurium. J. Bacteriol. 176: 1422 1426.
78. Leying, H.,, S. Suerbaum,, G. Geis,, and R. Haas. 1992. Cloning and genetic characterization of a Helicobacter pylori flagellin gene. Mol. Microbiol. 6: 2863 2874.
79. Lim, J. K.,, N. W. Gunther,, H. Zhao,, D. E. Johnson,, S. K. Keay,, and H. L. Mobley. 1998. In vivo phase variation of Escherichia colt type I fimbrial genes in women with urinary tract infection. Infect. Immun. 66: 3303 3310.
80. Lin, J.,, I. S. Lee,, J. Frey,, J. L. Slonczewski,, and J. W. Foster. 1995. Comparative analysis of extreme acid survival in Salmonella typhimurium, Shigella flexneri, and Escherichia coli. J. Bacteriol. 177: 4097 4104.
81. Macnab, R. M., 1996. Flagella and motility, p. 123 145. In F. C. Neidhardt,, R. Curtiss III,, J. I., 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..
82. Mager, W. H.,, and A. J. De Kruijff. 1995. Stress-induced transcriptional activation. Microbiol. Rev. 59: 506 531.
83. Manos, J.,, T. Kolesnikow,, and S. L. Hazell. 1998. An investigation of the molecular basis of the spontaneous occurrence of a catalase-negative phenotype in Helicobacter pylori. Helicobacter 3: 28 38.
84. McGee, D. J.,, C. A. May,, R. M. Garner,, J. M. Himpsl,, and H. L. Mobley. 1999. Isolation of Helicobacter pylori genes that modulate urease activity. J. Bacteriol. 181: 2477 2484.
85. McGowan, C. C.,, T. L. Cover,, and >M. J. Blaser. 1996. Helicobacter pylori and gastric acid: biological and therapeutic implications. Gastroenterology 110: 926 938.
86. McGowan, C. C.,, A. Necheva,, S. A. Thompson,, T. L. Cover,, and M. J. Blaser. 1998. Acid-induced expression of an LPS-associated gene in Helicobacter pylori. Mol. Microbiol. 30: 19 31.
87. Miller, S.,, E. C. Pesci,, and C. L. Pickett. 1993. A Campylobacter jejuni homolog of the LcrD/FlbF family of proteins is necessary for flagellar biogenesis. Infect. Immun. 61: 2930 2936.
88. Minamino, T.,, T. lino, and K. Kutsukake. 1994. Molecular characterization of the Salmonella typhimurium flhB operon and its protein products. J. Bacteriol. 176: 7630 7637.
89. Mizote, T.,, H. Yoshiyama,, and T. Nakazawa. 1997. Urease-independent chemotactic responses of Helicobacter pylori to urea, urease inhibitors, and sodium bicarbonate. Infect. Immun. 65: 1519 1521.
90. Mizuno, T. 1997. Compilation of all genes encoding two-component phosphotransfer signal transducers in the genome of Escherichia coli. DNA Res. 4: 161 168.
91. Mobley, H. L.,, R. M. Garner,, and P. Bauerfeind. 1995. Helicobacter pylori nickel-transport gene nix A: synthesis of cata-lytically active urease in Escherichia coli independent of growth conditions. Mol. Microbiol. 16: 97 109.
92. Murphy, G. L.,, T. D. Connell,, D. S. Barritt,, M. Koomey,, and J. G. Cannon. 1989. Phase variation of gonococcal protein II: regulation of gene expression by slipped-strand mispairing of a repetitive DNA sequence. Cell 56: 539 547.
93. Narberhaus, F. 1999. Negative regulation of bacterial heat shock genes. Mol. Microbiol. 31: 1 8.
94. Niederhoffer, E. C.,, C. M. Naranjo,, K. L. Bradley,, and J. A. Fee. 1990. Control of Escherichia colt superoxide dismutase (sodA and sodB) genes by the ferric uptake regulation (fur) locus. J. Bacteriol. 172: 1930 1938.
95. Nunoshiba, T. 1996. Two-stage gene regulation of the superoxide stress response soxRS system in Escherichia coli. Crit. Rev. Eukaryot. Gene Expr. 6: 377 389.
96. Odenbreit, S.,, B. Wieland,, and R. Haas. 1996. Cloning and genetic characterization of Helicobacter pylori catalase and construction of a catalase-deficient mutant strain. J. Bacteriol. 178: 6960 6967.
97. Parkhill, J.,, B. W. Wren,, K. Mungall,, J. M. Ketley,, C. Churcher,, D. Basham,, T. Chillingworth,, R. M. Davies,, T. Feltwell,, S. Holroyd,, K. Jagels,, A. V. Karlyshev,, S. Moule,, M. J. Pallen,, C. W. Penn,, M. A. Quail,, M. A. Rajandream,, K. M. Rutherford,, A. H. van Vliet,, S. Whitehead,, and B. G. Barrell. 2000. The genome sequence of the food-borne pathogen Campylobacter jejuni reveals hypervariable sequences. Nature 403: 665 668.
98. Peck, B.,, M. Ortkamp,, K. D. Diehl,, E. Hundt,, and B. Knapp. 1999. Conservation, localization and expression of HopZ, a protein involved in adhesion of Helicobacter pylori. Nucleic Acids Res. 27: 3325 3333.
99. Peek, R. M.,, S. A. Thompson,, J. P. Donahue,, K. T. Tham,, J. C. Atherton,, M. J. Blaser,, and G. G. Miller. 1998. Adherence to gastric epithelial cells induces expression of a Helicobacter pylori gene, iceA, that is associated with clinical outcome. Proc. Assoc. Am. Physicians 110: 531 544.
100. Peterson, S. N., C. C. Bailey,, J. S. Jensen,, M. B. Borre,, E. S. King,, K. F. Bott,, and C. A. Hutchison III. 1995. Characterization of repetitive DNA in the Mycoplasma genitalium genome: possible role in the generation of antigenic variation. Proc. Natl. Acad. Sci. USA 92: 11829 11833.
101. Ramakrishnan, G.,, J.-L. Zhao,, and A. Newton. 1991. The cell cycle-regulated flagellar gene flbF of Caulobacter cres-centus is homologous to a virulence locus of Yersinia pestis. ]. Bacteriol. 173: 7283 7292.
102. Romeo, T. 1998. Global regulation by the small RNA-bind-ing protein CsrA and the non-coding RNA molecule CsrB. Mol. Microbiol. 29: 1321 1330.
103. Russo, F.,, and T. J. Silhavy. 1991. EnvZ controls the concentration of phosphorylated OmpR to mediate osmoregulation of the porin genes. J. Mol. Biol. 222: 567 580.
104. Sanders, L. A.,, S. van Way,, and D. A. Mullin. 1992. Characterization of the Caulobacter crescentus flbF promoter and identification of the inferred FlbF product as a homolog of the LcrD protein from a Yersinia enterocolitis virulence plasmid. J. Bacteriol. 174: 857 866.
105. Sarkari, J.,, N. Pandit,, E. R. Moxon,, and M. Achtman. 1994. Variable expression of the Opc outer membrane protein in Neisseria meningitidis is caused by size variation of a promoter containing poly-cytidine. Mol. Microbiol. 13: 207 217.
106. Saunders, N. J.,, J. F. Peden,, D. W. Hood,, and E. R. Moxon. 1998. Simple sequence repeats in the Helicobacter pylori genome. Mol. Microbiol. 27: 1091 1098.
107. Schmitz, A.,, C. Josenhans,, and S. Suerbaum. 1997. Cloning and characterization of the Helicobacter pylori flbA gene, which codes for a membrane protein involved in coordinated expression of flagellar genes. J. Bacteriol. 179: 987 997.
108. Schulz, A.,, and W. Schumann. 1996. hrcA, the first gene of B. subtilis dnaK operon encodes a negative regulator of class I heat shock genes. J. Bacteriol. 178: 1088 1093.
109. Segal, E.,, E. Billyard,, M. So,, S. Storzbach,, and T. F. Meyer. 1985. Role of chromosomal rearrangement in N. gonorrhoeae pilus phase variation. Cell 40: 293 300.
110. Silver, S.,, and L. T. Phung. 1996. Bacterial heavy metal resistance: new surprises. Annu. Rev. Microbiol. 50: 753 789.
111. Small, P.,, D. Blankenborn,, D. Welty,, E. Zinser,, and J. L. Slonczewski. 1994. Acid and base resistance in Escherichia coli and Shigella flexneri: role of RpoS and growth pH. J. Bacteriol. 176: 1729 1737.
112. Sperandio, V.,, J. L. Mellies,, W. Nguyen,, S. Shin,, and J. B. Kaper. 1999. Quorum sensing controls expression of the type III secretion gene transcription and protein secretion in enterohemorrhagic and enteropathogenic Escherichia coli. Proc. Natl. Acad. Sei. USA 96: 15196 15201.
113. Spohn, G.,, and V. Scarlato. 1999. Motility of Helicobacter pylori is coordinately regulated by the transcriptional activator FlgR, an NtrC homolog. J. Bacteriol. 181: 593 599.
114. Spohn, G.,, and V. Scarlato. 1999. The autoregulatory HspR repressor protein governs chaperone gene transcription in Helicobacter pylori. Mol. Microbiol. 34: 663 674.
115. Stock, J. B.,, and M. G. Surette,. 1996. Chemotaxis, p. 1103 1129. 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..
116. Storz, G.,, and J. A. Imlay. 1999. Oxidative stress. Curr. Opin. Microbiol. 2: 188 194.
117. Suerbaum, S.,, C. Josenhans,, and A. Labigne. 1993. Cloning and genetic characterization of the Helicobacter pylori and Helicobacter mustelae flaB flagellin genes and construction of H. pylori flaA- and flaB-negative mutants by electroporation-mediated allelic exchange. J. Bacteriol. 175: 3278 3288.
118. Suerbaum, S.,, J. M. Thiberge,, I. Kansau,, R. L. Ferrero,, and A. Labigne. 1994. Helicobacter pylori hspA-hspB heat-shock gene cluster: nucleotide sequence, expression, putative function and immunogenicity. Mol. Microbiol. 14: 959 974.
119. Surette, M. G.,, M. B. Miller,, and B. L. Bassler. 1999. Quorum sensing in Escherichia coli, Salmonella typhimurium, and Vibrio harveyi: a new family of genes responsible for autoin-ducer production. Proc. Natl. Acad. Sci. USA 96: 1639 1644.
120. Szczebara, F.,, L. Dhaenens,, S. Armand,, and M. O. Husson. 1999. Regulation of the transcription of genes encoding different virulence factors in Helicobacter pylori by free iron. FEMS Microbiol. Lett. 175: 165 170.
121. Thies, F. L.,, H. Karch,, H. P. Härtung,, and G. Giegerich. 1999. Cloning and expression of the dnaK gene of Campylobacter jejuni and antigenicity of heat shock protein 70. Infect. Immun. 67: 1194 1200.
122. Thies, F. L.,, A. Weishaupt,, H. Karch,, H. P. Härtung,, and G. Giegerich. 1999. Cloning, sequencing and molecular analysis of the Campylobacter jejuni groESL bicistronic operon. Microbiology 145(Pt l): 89 98.
123. Tomb, J. F.,, O. White,, A. R. Kerlavage,, R. A. Clayton,, G. G. Sutton,, R. D. Fleischmann,, K. A. Ketchum,, H. P. Klenk,, S. Gill,, B. A. Dougherty,, K. Nelson,, J. Quackenbush,, L. Zhou,, E. F. Kirkness,, S. Peterson,, B. Loftus,, D. Richardson,, R. Dodson,, H. G. Khalak,, A. Glodek,, K. McKenney,, L. M. Fitzegerald,, N. Lee,, M. D. Adams, et al. 1997. The complete genome sequence of the gastric pathogen Helicobacter pylori. Nature 388: 539 547.
124. van Belkum, A.,, S. Scherer,, L. van Alphen,, and H. Verbrugh. 1998. Short-sequence DNA repeats in prokaryotic genomes. Microbiol. Mol. Biol. Rev. 62: 275 293.
125. van der Ende, A.,, C. T. Hopman,, S. Zaat,, B. B. Essink,, B. Berkhout,, and J. Dankert. 1995. Variable expression of class 1 outer membrane protein in Neisseria meningitidis is caused by variation in the spacing between the -10 and -35 regions of the promoter. J. Bacteriol. 177: 2475 2480.
126. Vanet, A.,, L. Marsan,, A. Labigne,, and M. F. Sagot. 2000. Inferring regulatory elements from a whole genome. An analysis of Helicobacter pylori sigma(80) family of promoter signals. J. Mol. Biol. 297: 335 353.
127. van Putten, J. P. 1993. Phase variation of lipopolysaccharide directs interconversion of invasive and immuno-resistant phe-notypes of Neisseria gonorrhoeae. EMBO J. 12: 4043 4051.
128. van Vliet, A. H. M.,, M. L. A. Bâillon,, C. W. Penn,, and J. M. Ketley. 1999. Campylobacter jejuni contains two Fur homo-logs: characterisation of iron-responsive regulation of peroxide stress defence genes by the PerR repressor. J. Bacteriol. 181: 6371 6376.
129. van Vliet, A. H. M.,, N. de Vries,, S. Bereswill,, M. Kist,, E. J. Kuipers,, C. M. J. E. Vandenbroucke-Grauls,, and J. G. Kusters. 1999. T he role of the ferric uptake regulator (Fur) protein in Helicobacter pylori iron uptake. Gut 45( S3): A27.
130. van Vliet, A. H. M.,, S. Bereswill,, B. Waidner,, E. J. Kuipers,, C. M. J. E. Vandenbroucke-Grauls,, and J. G. Kusters. 2000. Fur-mediated nickel-responsive regulation of urease expression in Helicobacter pylori. Gut 47( S1): A17 A18.
131. van Vliet, A. H. M.,, K. G. Wooldridge,, and J. M. Ketley. 1998. Iron-responsive gene regulation in a Campylobacter jejuni fur mutant. J. Bacteriol. 180: 5291 5298.
132. Walker, G. C., 1996. The SOS response of Escherichia coli, p. 1400 1416. 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 typhimurium: Cellular and Molecular Biology, 1st ed. ASM Press, Washington, D.C..
133. Walkup, L. K. B., and T. Kogoma. 1989. Escherichia coli proteins inducible by oxidative stress mediated by the superoxide radical. J. Bacteriol. 171: 1479 1484.
134. Wang, G.,, D. A. Rasko,, R. Sherburne,, and D. E. Taylor. 1999. Molecular genetic basis for the variable expression of Lewis Y antigen in Helicobacter pylori: analysis of the alpha (1,2) fucosyltransferase gene. Mol. Microbiol. 31: 1265 1274.
135. Wei, B.,, S. Shin,, D. LaPorte,, A. J. Wolfe,, and T. Romeo. 2000. Global regulatory mutations in csrA and rpoS cause severe central carbon stress in Escherichia coli in the presence of acetate. J. Bacteriol. 182: 1632 1640.
136. Whitely, M.,, K. M. Lee,, and E. P. Greenberg. 1999. Identification of genes controlled by quorum sensing in Pseudomonas aeruginosa. Proc. Natl. Acad. Sei. USA 96: 13904 13909.
137. Wooldridge, K. G.,, and P. H. Williams. 1993. Iron uptake mechanisms of pathogenic bacteria. FEMS Microbiol. Rev. 12: 325 348.
138. Worst, D. J.,, B.R. Otto,, and J. de Graaff. 1995. Iron-repressible outer membrane proteins of Helicobacter pylori involved in heme uptake. Infect. Immun. 63: 4161 4165.
139. Wu, J.,, and A. Newton. 1997. Regulation of the Caulobacter flagellar gene hierarchy: not just for motility. Mol. Microbiol. 24: 233 239.
140. Yamaguchi, H.,, T. Osaki,, N. Kurihara,, H. Taguchi,, T. Hanawa,, T. Yamamoto,, and S. Kamiya. 1997. Heat-shock protein 60 homologue of Helicobacter pylori is associated with adhesion of H. pylori to human gastric epithelial cells. J. Med. Microbiol. 46: 825 831.
141. Yamaguchi, H.,, T. Osaki,, H. Taguchi,, T. Hanawa,, T. Yamamoto,, and S. Kamiya. 1996. Induction and epitope analysis of Helicobacter pylori heat shock protein. J. Gastroenterol. 31(Suppl. 9): 12 15.
142. Yamaoka, Y.,, D. H. Kwon,, and D. Y. Graham. 2000. A Mr 34,000 proinflammatory outer membrane protein (oipA) of Helicobacter pylori. Proc. Natl. Acad. Set. USA 97: 7533 7538.
143. Yokota, K.,, Y. Hirai,, M. Haque,, S. Hayashi,, H. Isogai,, T. Sugiyama,, E. Nagamachi,, Y. Tsukada,, N. Fujii,, and K. Oguma. 1994. Heat shock protein produced by Helicobacter pylori. Microbiol. Immunol. 38: 403 405.
144. Zheng, M.,, B. Doan,, T. D. Schneider,, and G. Storz. 1999. OxyR and SoxRS regulation of fur. J. Bacteriol. 181: 4639 4643.


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Table 1

Regulators of , their putative functions, and stimuli

Citation: de Vries N, Van Vliet A, Kusters J. 2001. Gene Regulation, p 321-334. In Mobley H, Mendz G, Hazell S (ed), . ASM Press, Washington, DC. doi: 10.1128/9781555818005.ch29

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