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CTXφ Replication Depends on the Histone-Like HU Protein and the UvrD Helicase


One of the major strategies to prevent Cholera epidemics is the development of oral vaccines based on live attenuated Vibrio cholerae strains. The most promising vaccine strains have been obtained by deletion of the cholera toxin genes, which are harboured in the genome of an integrated phage, CTXϕ. However, they can re-acquire the cholera toxin genes when re-infected by CTXϕ or by hybrid phages between CTXϕ and other vibrio phages, which raised safety concerns about their use. Here, we developed a screening strategy to identify non-essential host factors implicated in CTXϕ replication. We show that the histone-like HU protein and the UvrD helicase are both absolutely required for its replication. We further show that they are essential for the replication of VGJϕ, a representative member of a family of phages that can form hybrids with CTXϕ. Accordingly, we demonstrate that the disruption of the two subunits of HU and/or of UvrD prevents infection of the V. cholerae by CTXϕ and VGJϕ. In addition, we show that it limits CTXϕ horizontal transmission. Taken together, these results indicate that HU- and/or UvrD- cells are promising candidates for the development of safer live attenuated cholera vaccine.


Vyšlo v časopise: CTXφ Replication Depends on the Histone-Like HU Protein and the UvrD Helicase. PLoS Genet 11(5): e32767. doi:10.1371/journal.pgen.1005256
Kategorie: Research Article
prolekare.web.journal.doi_sk: https://doi.org/10.1371/journal.pgen.1005256

Souhrn

One of the major strategies to prevent Cholera epidemics is the development of oral vaccines based on live attenuated Vibrio cholerae strains. The most promising vaccine strains have been obtained by deletion of the cholera toxin genes, which are harboured in the genome of an integrated phage, CTXϕ. However, they can re-acquire the cholera toxin genes when re-infected by CTXϕ or by hybrid phages between CTXϕ and other vibrio phages, which raised safety concerns about their use. Here, we developed a screening strategy to identify non-essential host factors implicated in CTXϕ replication. We show that the histone-like HU protein and the UvrD helicase are both absolutely required for its replication. We further show that they are essential for the replication of VGJϕ, a representative member of a family of phages that can form hybrids with CTXϕ. Accordingly, we demonstrate that the disruption of the two subunits of HU and/or of UvrD prevents infection of the V. cholerae by CTXϕ and VGJϕ. In addition, we show that it limits CTXϕ horizontal transmission. Taken together, these results indicate that HU- and/or UvrD- cells are promising candidates for the development of safer live attenuated cholera vaccine.


Zdroje

1. Ali M, Lopez AL, You YA, Kim YE, Sah B, Maskery B, et al. The global burden of cholera. Bull World Health Organ. 2012;90: 209–218A. doi: 10.2471/BLT.11.093427 22461716

2. Sack DA, Sack RB, Nair GB, Siddique A. Cholera. The Lancet. 2004;363: 223–233. doi: 10.1016/S0140-6736(03)15328-7 14738797

3. Kaper JB, Morris JG, Levine MM. Cholera. Clin Microbiol Rev. 1995;8: 48–86. 7704895

4. Herrington DA, Hall RH, Losonsky G, Mekalanos JJ, Taylor RK, Levine MM. Toxin, toxin-coregulated pili, and the toxR regulon are essential for Vibrio cholerae pathogenesis in humans. J Exp Med. 1988;168: 1487–1492. doi: 10.1084/jem.168.4.1487 2902187

5. Waldor MK, Mekalanos JJ. Lysogenic conversion by a filamentous phage encoding cholera toxin. Science. 1996;272: 1910–4. 8658163

6. Mutreja A, Kim DW, Thomson NR, Connor TR, Lee JH, Kariuki S, et al. Evidence for multiple waves of global transmission in the seventh cholera pandemic. Nature. 2011;477: 462–5. nature10392 [pii] doi: 10.1038/nature10392 21866102

7. Chun J, Grim CJ, Ha0073an NA, Lee JH, Choi SY, Haley BJ, et al. Comparative genomics reveals mechanism for short-term and long-term clonal transitions in pandemic Vibrio cholerae. Proc Natl Acad Sci U A. 2009;106: 15442–7. 0907787106 [pii] doi: 10.1073/pnas.0907787106 19720995

8. Kim EJ, Lee D, Moon SH, Lee CH, Kim SJ, Lee JH, et al. Molecular Insights Into the Evolutionary Pathway of Vibrio cholerae O1 Atypical El Tor Variants. PLoS Pathog. 2014;10: e1004384. doi: 10.1371/journal.ppat.1004384 25233006

9. Heilpern AJ, Waldor MK. CTXφ Infection of Vibrio cholerae Requires the tolQRA Gene Products. J Bacteriol. 2000;182: 1739–1747. doi: 10.1128/JB.182.6.1739–1747.2000 10692381

10. Khan SA. Plasmid rolling-circle replication: highlights of two decades of research. Plasmid. 2005;53: 126–36. 15737400

11. Moyer KE, Kimsey HH, Waldor MK. Evidence for a rolling-circle mechanism of phage DNA synthesis from both replicative and integrated forms of CTXphi. Mol Microbiol. 2001;41: 311–23. 11489120

12. Huber KE, Waldor MK. Filamentous phage integration requires the host recombinases XerC and XerD. Nature. 2002;417: 656–9. 12050668

13. Das B, Martínez E, Midonet C, Barre F-X. Integrative mobile elements exploiting Xer recombination. Trends Microbiol. 2013;21: 23–30. doi: 10.1016/j.tim.2012.10.003 23127381

14. Val M-E, Kennedy SP, El Karoui M, Bonne L, Chevalier F, Barre F-X. FtsK-dependent dimer resolution on multiple chromosomes in the pathogen Vibrio cholerae. PLoS Genet. 2008;4. doi: 10.1371/journal.pgen.1000201

15. Midonet C, Barre F- X. Xer Site Specific Recombination: Promoting vertical and horizontal transmission of genetic information. Mobile DNA III. ASM press. Waschington: Nancy Craig;

16. Val M-E, Bouvier M, Campos J, Sherratt D, Cornet F, Mazel D, et al. The Single-Stranded Genome of Phage CTX Is the Form Used for Integration into the Genome of Vibrio cholerae. Mol Cell. 2005;19: 559–566. doi: 10.1016/j.molcel.2005.07.002 16109379

17. Das B, Bischerour J, Val M-E, Barre F-X. Molecular keys of the tropism of integration of the cholera toxin phage. Proc Natl Acad Sci. 2010;107: 4377–4382. doi: 10.1073/pnas.0910212107 20133778

18. Bischerour J, Spangenberg C, Barre F-X. Holliday junction affinity of the base excision repair factor Endo III contributes to cholera toxin phage integration. EMBO J. 2012;31: 3757–3767. doi: 10.1038/emboj.2012.219 22863778

19. Rakonjac J, Bennett NJ, Spagnuolo J, Gagic D, Russel M. Filamentous bacteriophage: biology, phage display and nanotechnology applications. Curr Issues Mol Biol. 2011;13: 51–76. 21502666

20. Quinones M, Kimsey HH, Waldor MK. LexA cleavage is required for CTX prophage induction. Mol Cell. 2005;17: 291–300. 15664197

21. Waldor MK, Rubin EJ, Pearson GDN, Kimsey H, Mekalanos JJ. Regulation, replication, and integration functions of the Vibrio cholerae CTXφ are encoded by region RS2. Mol Microbiol. 1997;24: 917–926. doi: 10.1046/j.1365-2958.1997.3911758.x 9220000

22. Chandler M, Cruz F de la, Dyda F, Hickman AB, Moncalian G, Ton-Hoang B. Breaking and joining single-stranded DNA: the HUH endonuclease superfamily. Nat Rev Microbiol. 2013;11. doi: 10.1038/nrmicro3067

23. Davis BM, Lawson EH, Sandkvist M, Ali A, Sozhamannan S, Waldor MK. Convergence of the Secretory Pathways for Cholera Toxin and the Filamentous Phage, CTXϕ. Science. 2000;288: 333–335. doi: 10.1126/science.288.5464.333 10764646

24. Grove A. Functional evolution of bacterial histone-like HU proteins. Curr Issues Mol Biol. 2011;13: 1–12. 20484776

25. Dillingham MS. Superfamily I helicases as modular components of DNA-processing machines. Biochem Soc Trans. 2011;39: 413–423. doi: 10.1042/BST0390413 21428912

26. Takahashi s, Hours C, Iwaya M, Lane H E D, Denhardt D T. The Escherichia Coli Rep Gene in the Single-Stranded DNA Phages. Denhardt D.T., Dressler D.H., and Ray D.S. (eds). Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press,. pp. 393–400.

27. Colasanti J, Denhardt DT. The Escherichia coli rep mutation. X. Consequences of increased and decreased Rep protein levels. Mol Gen Genet MGG. 1987;209: 382–390. 2959842

28. Lane HE, Denhardt DT. The rep mutation. IV. Slower movement of replication forks in Escherichia coli rep strains. J Mol Biol. 1975;97: 99–112. 1100854

29. Bruand C, Ehrlich SD. UvrD-dependent replication of rolling-circle plasmids in Escherichia coli. Mol Microbiol. 2000;35: 204–210. doi: 10.1046/j.1365-2958.2000.01700.x 10632890

30. Caron PR, Kushner SR, Grossman L. Involvement of helicase II (uvrD gene product) and DNA polymerase I in excision mediated by the uvrABC protein complex. Proc Natl Acad Sci. 1985;82: 4925–4929. 3161077

31. Bidnenko V, Lestini R, Michel B. The Escherichia coli UvrD helicase is essential for Tus removal during recombination-dependent replication restart from Ter sites. Mol Microbiol. 2006;62: 382–396. doi: 10.1111/j.1365-2958.2006.05382.x 17020578

32. Florés M-J, Sanchez N, Michel B. A fork-clearing role for UvrD. Mol Microbiol. 2005;57: 1664–1675. doi: 10.1111/j.1365-2958.2005.04753.x 16135232

33. Lestini R, Michel B. UvrD controls the access of recombination proteins to blocked replication forks. EMBO J. 2007;26: 3804–3814. doi: 10.1038/sj.emboj.7601804 17641684

34. Arthur HM, Eastlake PB. Transcriptional control of the uvrD gene of Escherichia coli. Gene. 1983;25: 309–316. 6319240

35. Finch P, Emmerson PT. Nucleotide sequence of the regulatory region of the uvrD gene of Escherichia coli. Gene. 1983;25: 317–323. 6319241

36. Moyer KE, Kimsey HH, Waldor MK. Evidence for a rolling-circle mechanism of phage DNA synthesis from both replicative and integrated forms of CTXφ. Mol Microbiol. 2001;41: 311–323. doi: 10.1046/j.1365-2958.2001.02517.x 11489120

37. Davis BM, Kimsey HH, Kane AV, Waldor MK. A satellite phage-encoded antirepressor induces repressor aggregation and cholera toxin gene transfer. Embo J. 2002;21: 4240–9. 12169626

38. Kamruzzaman M, Robins WP, Bari SMN, Nahar S, Mekalanos JJ, Faruque SM. RS1 Satellite Phage Promotes Diversity of Toxigenic Vibrio cholerae by Driving CTX Prophage Loss and Elimination of Lysogenic Immunity. Infect Immun. 2014;82: 3636–3643. doi: 10.1128/IAI.01699-14 24935981

39. Campos J, Martínez E, Marrero K, Silva Y, Rodríguez BL, Suzarte E, et al. Novel Type of Specialized Transduction for CTXφ or Its Satellite Phage RS1 Mediated by Filamentous Phage VGJφ in Vibrio cholerae. J Bacteriol. 2003;185: 7231–7240. doi: 10.1128/JB.185.24.7231–7240.2003 14645284

40. Das B, Bischerour J, Barre F-X. VGJɸ integration and excision mechanisms contribute to the genetic diversity of Vibrio cholerae epidemic strains. Proc Natl Acad Sci. 2011;108: 2516–2521. doi: 10.1073/pnas.1017061108 21262799

41. Midonet C, Das B, Paly E, Barre F-X. XerD-mediated FtsK-independent integration of TLCϕ into the Vibrio cholerae genome. Proc Natl Acad Sci. 2014;111: 16848–53. doi: 10.1073/pnas.1404047111 25385643

42. Hassan F, Kamruzzaman M, Mekalanos JJ, Faruque SM. Satellite phage TLCphi enables toxigenic conversion by CTX phage through dif site alteration. Nature. 2010;467: 982–5. nature09469 [pii] doi: 10.1038/nature09469 20944629

43. Rubin EJ, Lin W, Mekalanos JJ, Waldor MK. Replication and integration of a Vibrio cholerae cryptic plasmid linked to the CTX prophage. Mol Microbiol. 1998;28: 1247–54. 9680213

44. Castaing B, Zelwer C, Laval J, Boiteux S. HU Protein of Escherichia coli Binds Specifically to DNA That Contains Single-strand Breaks or Gaps. J Biol Chem. 1995;270: 10291–10296. doi: 10.1074/jbc.270.17.10291 7730334

45. Kamashev D, Rouviere-Yaniv J. The histone-like protein HU binds specifically to DNA recombination and repair intermediates. EMBO J. 2000;19: 6527–6535. doi: 10.1093/emboj/19.23.6527 11101525

46. Rouvière-Yaniv J, Gros F. Characterization of a novel, low-molecular-weight DNA-binding protein from Escherichia coli. Proc Natl Acad Sci U S A. 1975;72: 3428–3432. 1103148

47. Ogawa T, Wada M, Kano Y, Imamoto F, Okazaki T. DNA replication in Escherichia coli mutants that lack protein HU. J Bacteriol. 1989;171: 5672–5679. 2676987

48. Kano Y, Ogawa T, Ogura T, Hiraga S, Okazaki T, Imamoto F. Participation of the histone-like protein HU and of IHF in minichromosomal maintenance in Escherichia coli. Gene. 1991;103: 25–30. 1879696

49. Dixon NE, Kornberg A. Protein HU in the enzymatic replication of the chromosomal origin of Escherichia coli. Proc Natl Acad Sci U S A. 1984;81: 424–428. 6364143

50. Bramhill D, Kornberg A. Duplex opening by dnaA protein at novel sequences in initiation of replication at the origin of the E. coli chromosome. Cell. 1988;52: 743–755. doi: 10.1016/0092-8674(88)90412-6 2830993

51. Ogura T, Niki H, Kano Y, Imamoto F, Hiraga S. Maintenance of plasmids in HU and IHF mutants of Escherichia coli. Mol Gen Genet MGG. 1990;220: 197–203. 2183003

52. Wada M, Kohno K, Imamoto F, Kano Y. Participation of hup gene product in ori2-dependent replication of fertility plasmid F. Gene. 1988;70: 393–397. 3063607

53. Hillyard DR, Edlund M, Hughes KT, Marsh M, Higgins NP. Subunit-specific phenotypes of Salmonella typhimurium HU mutants. J Bacteriol. 1990;172: 5402–5407. 2168381

54. Yasukawa H, Ozaki E, Nakahama K, Masamune Y. HU protein binding to the replication origin of the rolling-circle plasmid pKYM enhances DNA replication. Mol Gen Genet MGG. 1997;254: 548–554. 9197414

55. Rasched I, Oberer E. Ff coliphages: structural and functional relationships. Microbiol Rev. 1986;50: 401. 3540571

56. Gros MF, te Riele H, Ehrlich SD. Replication origin of a single-stranded DNA plasmid pC194. EMBO J. 1989;8: 2711–2716. 2583127

57. Novick RP. Staphylococcal Plasmids and their Replication. Annu Rev Microbiol. 1989;43: 537–563. doi: 10.1146/annurev.mi.43.100189.002541 2679362

58. Lohman TM, Bjornson KP. Mechanisms of Helicase-Catalyzed DNA Unwinding. Annu Rev Biochem. 1996;65: 169–214. doi: 10.1146/annurev.bi.65.070196.001125 8811178

59. Yarranton GT, Gefter ML. Enzyme-catalyzed DNA unwinding: Studies on Escherichia coli rep protein. Proc Natl Acad Sci U S A. 1979;76: 1658–1662. 221901

60. Matson SW. Escherichia coli helicase II (urvD gene product) translocates unidirectionally in a 3’ to 5’ direction. J Biol Chem. 1986;261: 10169–10175. 2942537

61. Guy CP, Atkinson J, Gupta MK, Mahdi AA, Gwynn EJ, Rudolph CJ, et al. Rep provides a second motor at the replisome to promote duplication of protein-bound DNA. Mol Cell. 2009;36: 654–666. doi: 10.1016/j.molcel.2009.11.009 19941825

62. Boubakri H, de Septenville AL, Viguera E, Michel B. The helicases DinG, Rep and UvrD cooperate to promote replication across transcription units in vivo. EMBO J. 2010;29: 145–157. doi: 10.1038/emboj.2009.308 19851282

63. Michel B, Ehrlich SD, Uzest M. DNA double-strand breaks caused by replication arrest. EMBO J. 1997;16: 430–438. 9029161

64. Iyer RR, Pluciennik A, Burdett V, Modrich PL. DNA Mismatch Repair: Functions and Mechanisms. Chem Rev. 2006;106: 302–323. doi: 10.1021/cr0404794 16464007

65. Reardon JT, Sancar A. Nucleotide Excision Repair. In: Moldave Kivie, editor. Progress in Nucleic Acid Research and Molecular Biology. Academic Press; 2005. pp. 183–235. Available: http://www.sciencedirect.com/science/article/pii/S0079660304790042 16096029

66. Veaute X, Delmas S, Selva M, Jeusset J, Le Cam E, Matic I, et al. UvrD helicase, unlike Rep helicase, dismantles RecA nucleoprotein filaments in Escherichia coli. EMBO J. 2005;24: 180–189. doi: 10.1038/sj.emboj.7600485 15565170

67. Yasukawa H, Hase T, Sakai A, Masamune Y. Rolling-circle replication of the plasmid pKYM isolated from a gram-negative bacterium. Proc Natl Acad Sci U S A. 1991;88: 10282–10286. 1835091

68. Mekalanos JJ, Swartz DJ, Pearson GD, Harford N, Groyne F, de Wilde M. Cholera toxin genes: nucleotide sequence, deletion analysis and vaccine development. Nature. 1983;306: 551–557. 6646234

69. Kaper JB, Lockman H, Baldini MM, Levine MM. Recombinant nontoxinogenic Vibrio cholerae strains as attenuated cholera vaccine candidates. Nature. 1984;308: 655–658. 6324005

70. Valle E, Ledón T, Cedré B, Campos J, Valmaseda T, Rodríguez B, et al. Construction and Characterization of a Nonproliferative El Tor Cholera Vaccine Candidate Derived from Strain 638. Infect Immun. 2000;68: 6411–6418. doi: 10.1128/IAI.68.11.6411–6418.2000 11035753

71. Liang W, Wang S, Yu F, Zhang L, Qi G, Liu Y, et al. Construction and Evaluation of a Safe, Live, Oral Vibrio cholerae Vaccine Candidate, IEM108. Infect Immun. 2003;71: 5498–5504. doi: 10.1128/IAI.71.10.5498–5504.2003 14500467

72. Dubuisson J-F, Vianney A, Hugouvieux-Cotte-Pattat N, Lazzaroni JC. Tol-Pal proteins are critical cell envelope components of Erwinia chrysanthemi affecting cell morphology and virulence. Microbiology. 2005;151: 3337–3347. doi: 10.1099/mic.0.28237–0 16207916

73. Gerding MA, Ogata Y, Pecora ND, Niki H, De Boer PAJ. The trans-envelope Tol–Pal complex is part of the cell division machinery and required for proper outer-membrane invagination during cell constriction in E. coli. Mol Microbiol. 2007;63: 1008–1025. doi: 10.1111/j.1365-2958.2006.05571.x 17233825

74. Vinés ED, Marolda CL, Balachandran A, Valvano MA. Defective O-Antigen Polymerization in tolA and pal Mutants of Escherichia coli in Response to Extracytoplasmic Stress. J Bacteriol. 2005;187: 3359–3368. doi: 10.1128/JB.187.10.3359–3368.2005 15866920

75. Llamas MA, Ramos JL, Rodríguez-Herva JJ. Mutations in Each of the tol Genes ofPseudomonas putida Reveal that They Are Critical for Maintenance of Outer Membrane Stability. J Bacteriol. 2000;182: 4764–4772. doi: 10.1128/JB.182.17.4764–4772.2000 10940016

76. Prouty AM, Velkinburgh JCV, Gunn JS. Salmonella enterica Serovar Typhimurium Resistance to Bile: Identification and Characterization of the tolQRA Cluster. J Bacteriol. 2002;184: 1270–1276. doi: 10.1128/JB.184.5.1270–1276.2002 11844755

77. Kimsey HH, Waldor MK. CTXφ immunity: Application in the development of cholera vaccines. Proc Natl Acad Sci. 1998;95: 7035–7039. 9618534

78. Raychoudhuri A, Patra T, Ghosh K, Ramamurthy T, Nandy RK, Takeda Y, et al. Classical ctxB in Vibrio cholerae O1, Kolkata, India. Emerg Infect Dis. 2009;15: 131–2. doi: 10.3201/eid1501.080543 19116078

79. Nguyen DT, Nguyen BM, Tran HH, Ngo TC, Le TH, Nguyen HT, et al. Filamentous vibriophage fs2 encoding the rstC gene integrates into the same chromosomal region as the CTX phage [corrected]. FEMS Microbiol Lett. 2008;284: 225–30. FML1200 [pii] doi: 10.1111/j.1574-6968.2008.01200.x 18503544

80. Campos J, Martínez E, Izquierdo Y, Fando R. VEJφ, a novel filamentous phage of Vibrio cholerae able to transduce the cholera toxin genes. Microbiology. 2010;156: 108–115. doi: 10.1099/mic.0.032235–0 19833774

81. Campos J, Martínez E, Suzarte E, Rodríguez BL, Marrero K, Silva Y, et al. VGJφ, a Novel Filamentous Phage of Vibrio cholerae, Integrates into the Same Chromosomal Site as CTXφ. J Bacteriol. 2003;185: 5685–5696. doi: 10.1128/JB.185.19.5685–5696.2003 13129939

82. Udden SM, Zahid MS, Biswas K, Ahmad QS, Cravioto A, Nair GB, et al. Acquisition of classical CTX prophage from Vibrio cholerae O141 by El Tor strains aided by lytic phages and chitin-induced competence. Proc Natl Acad Sci U A. 2008;105: 11951–6. 0805560105 [pii] doi: 10.1073/pnas.0805560105 18689675

83. Method for constructing an attenuated mutant strain of pathogenic bacteria, vaccine, vaccine vector and use of said vaccine [Internet]. Available: http://www.google.com/patents/WO2012142684A1

84. Davies BW, Bogard RW, Dupes NM, Gerstenfeld TAI, Simmons LA, Mekalanos JJ. DNA Damage and Reactive Nitrogen Species are Barriers to Vibrio cholerae Colonization of the Infant Mouse Intestine. PLoS Pathog. 2011;7. doi: 10.1371/journal.ppat.1001295

85. O’Toole GA, Kolter R. Initiation of biofilm formation in Pseudomonas fluorescens WCS365 proceeds via multiple, convergent signalling pathways: a genetic analysis. Mol Microbiol. 1998;28: 449–61. 9632250

86. Iwanaga M, Yamamoto K, Higa N, Ichinose Y, Nakasone N, Tanabe M. Culture conditions for stimulating cholera toxin production by Vibrio cholerae O1 El Tor. Microbiol Immunol. 1986;30: 1075–1083. 3543624

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