Regulation of conjugative transfer of plasmids and integrative conjugative elements

Plasmid

Volumn 91, Issue , 2017, Pages 82-89

  Bañuelos Vazquez, Luis Alfredo ^a   Torres Tejerizo, Gonzalo ^b,c   Brom, Susana ^a  

^a INSTITUTO DE CIENCIAS FÍSICAS   (Mexico)

^b BIELEFELD UNIVERSITY   (Germany)

^c FACULTAD DE CIENCIAS EXACTAS   (Argentina)

Author keywords

Conjugative transfer; Ice; Plasmid; Regulation

Indexed keywords

ANTIBIOTIC AGENT; CARBON; ANTIINFECTIVE AGENT; BACTERIAL DNA;

ANTIBIOTIC RESISTANCE; BACTERIAL SURVIVAL; CARBON UTILIZATION; CONJUGATION; GENE EXPRESSION; GENE TRANSFER; HORIZONTAL GENE TRANSFER; NONHUMAN; PATHOGENESIS; PATHOGENICITY ISLAND; PLASMID; QUORUM SENSING; REGULATORY MECHANISM; REVIEW; SYMBIOSIS; BACTERIAL CHROMOSOME; BACTERIUM; BACTERIUM CONJUGATION; CHEMISTRY; DRUG EFFECTS; GENE EXPRESSION REGULATION; GENE LOCUS; GENETICS; METABOLISM; MULTIDRUG RESISTANCE; TRANSPOSON;

ANTI-BACTERIAL AGENTS; BACTERIA; CHROMOSOMES, BACTERIAL; CONJUGATION, GENETIC; DNA TRANSPOSABLE ELEMENTS; DNA, BACTERIAL; DRUG RESISTANCE, MULTIPLE, BACTERIAL; GENE EXPRESSION REGULATION, BACTERIAL; GENE TRANSFER, HORIZONTAL; GENETIC LOCI; MUTAGENESIS, INSERTIONAL; PLASMIDS; QUORUM SENSING;

EID: 85018295148     PISSN: 0147619X     EISSN: 10959890     Source Type: Journal    
DOI: 10.1016/j.plasmid.2017.04.002     Document Type: Review

References (110)

1. Alvarez-Martinez, C.E., Christie, P.J., Biological diversity of prokaryotic type IV secretion systems. Microbiol. Mol. Biol. Rev. 73 (2009), 775–808.
2. Aminov, R.I., Horizontal gene exchange in environmental microbiota. Front. Microbiol., 2, 2011, 158.
3. Auchtung, J.M. et al., Biology of ICEBs1, an integrative and conjugative element in Bacillus subtilis. Plasmid 86 (2016), 14–25.
4. Aviv, G. et al., Horizontal transfer of the Salmonella enterica serovar infantis resistance and virulence plasmid pESI to the gut microbiota of warm-blooded hosts. MBio, 7, 2016.
5. Bannam, T.L. et al., Functional identification of conjugation and replication regions of the tetracycline resistance plasmid pCW3 from Clostridium perfringens. J. Bacteriol. 188 (2006), 4942–4951.
6. Baquero, F. et al., Antibiotic resistance shaping multi-level population biology of bacteria. Front. Microbiol., 4, 2013, 15.
7. Bell, K.S. et al., Genome sequence of the enterobacterial phytopathogen Erwinia carotovora subsp. atroseptica and characterization of virulence factors. Proc. Natl. Acad. Sci. U. S. A. 101 (2004), 11105–11110.
8. Blanca-Ordóñez, H. et al., pSymA-dependent mobilization of the Sinorhizobium meliloti pSymB megaplasmid. J. Bacteriol. 192 (2010), 6309–6312.
9. Bose, B., Grossman, A.D., Regulation of horizontal gene transfer in Bacillus subtilis by activation of a conserved site-specific protease. J. Bacteriol. 193 (2011), 22–29.
10. Brom, S. et al., In Rhizobium etli symbiotic plasmid transfer, nodulation competitivity and cellular growth require interaction among different replicons. Plasmid 44 (2000), 34–43.
11. Brom, S. et al., Transfer of the symbiotic plasmid of Rhizobium etli CFN42 requires cointegration with p42a, which may be mediated by site-specific recombination. J. Bacteriol. 186 (2004), 7538–7548.
12. Brom, S. et al., Boundaries for conjugative transfer of rhizobial plasmids: restraining and releasing factors. Katsy, I.E., (eds.) Plasticity in Plant-Growth-Promoting and Phytopathogenic Bacteria, 2014, Springer New York, New York, NY.
13. Camacho, E.M., Casadesus, J., Conjugal transfer of the virulence plasmid of Salmonella enterica is regulated by the leucine-responsive regulatory protein and DNA adenine methylation. Mol. Microbiol. 44 (2002), 1589–1598.
14. Camacho, E.M. et al., Regulation of conjugal transfer by Lrp and Dam methylation in plasmid R100. Int. Microbiol. 8 (2005), 279–285.
15. Carraro, N. et al., Unraveling the regulatory network of IncA/C plasmid mobilization: when genomic islands hijack conjugative elements. Mob. Genet. Elem. 5 (2015), 1–5.
16. Carraro, N. et al., IncA/C conjugative plasmids mobilize a new family of multidrug resistance islands in clinical Vibrio cholerae non-O1/non-O139 isolates from Haiti. MBio, 7, 2016.
17. Carter, M.Q. et al., The Pseudomonas aeruginosa pathogenicity island PAPI-1 is transferred via a novel type IV pilus. J. Bacteriol. 192 (2010), 3249–3258.
18. Celli, J., Trieu-Cuot, P., Circularization of Tn916 is required for expression of the transposon-encoded transfer functions: characterization of long tetracycline-inducible transcripts reading through the attachment site. Mol. Microbiol. 28 (1998), 103–117.
19. Celli, J. et al., Use of an excision reporter plasmid to study the intracellular mobility of the conjugative transposon Tn916 in gram-positive bacteria. Microbiology 143:Pt 4 (1997), 1253–1261.
20. Cervantes, L. et al., The conjugative plasmid of a bean-nodulating Sinorhizobium fredii strain is assembled from sequences of two Rhizobium plasmids and the chromosome of a Sinorhizobium strain. BMC Microbiol., 11, 2011, 149.
21. Cheng, Q. et al., Identification of genes required for excision of CTnDOT, a Bacteroides conjugative transposon. Mol. Microbiol. 41 (2001), 625–632.
22. Cho, H. et al., Transsexuality in the rhizosphere: quorum sensing reversibly converts Agrobacterium tumefaciens from phenotypically female to male. J. Bacteriol. 191 (2009), 3375–3383.
23. Cook, L.C., Federle, M.J., Peptide pheromone signaling in Streptococcus and Enterococcus. FEMS Microbiol. Rev. 38 (2014), 473–492.
24. Danino, V.E. et al., Recipient-induced transfer of the symbiotic plasmid pRL1JI in Rhizobium leguminosarum bv. viciae is regulated by a quorum-sensing relay. Mol. Microbiol. 50 (2003), 511–525.
25. Dejonghe, W. et al., Effect of dissemination of 2,4-dichlorophenoxyacetic acid (2,4-D) degradation plasmids on 2,4-D degradation and on bacterial community structure in two different soil horizons. Appl. Environ. Microbiol. 66 (2000), 3297–3304.
26. Ding, H., Hynes, M.F., Plasmid transfer systems in the rhizobia. Can. J. Microbiol. 55 (2009), 917–927.
27. Ding, H. et al., Genetic characterization of a novel rhizobial plasmid conjugation system in R. leguminosarum bv. viciae strain VF39SM. J. Bacteriol. 195 (2013), 328–339.
28. Don, R.H., Pemberton, J.M., Properties of six pesticide degradation plasmids isolated from Alcaligenes paradoxus and Alcaligenes eutrophus. J. Bacteriol. 145 (1981), 681–686.
29. Dunny, G.M., The peptide pheromone-inducible conjugation system of Enterococcus faecalis plasmid pCF10: cell-cell signalling, gene transfer, complexity and evolution. Philos. Trans. R. Soc. Lond. Ser. B Biol. Sci. 362 (2007), 1185–1193.
30. Dunny, G.M., Berntsson, R.P., Enterococcal sex pheromones: evolutionary pathways to complex, two-signal systems. J. Bacteriol. 198 (2016), 1556–1562.
31. Dunny, G.M. et al., Induced cell aggregation and mating in Streptococcus faecalis: evidence for a bacterial sex pheromone. Proc. Natl. Acad. Sci. U. S. A. 75 (1978), 3479–3483.
32. Eberhard, A., Inhibition and activation of bacterial luciferase synthesis. J. Bacteriol. 109 (1972), 1101–1105.
33. Fang, L. et al., Co-spread of metal and antibiotic resistance within ST3-IncHI2 plasmids from E. coli isolates of food-producing animals. Sci. Rep., 6, 2016, 25312.
34. Frost, L.S. et al., Mobile genetic elements: the agents of open source evolution. Nat. Rev. Microbiol. 3 (2005), 722–732.
35. Gelvin, S.B., Agrobacterium and plant genes involved in T-DNA transfer and integration. Annu. Rev. Plant Physiol. Plant Mol. Biol. 51 (2000), 223–256.
36. Goessweiner-Mohr, N. et al., Conjugation in gram-positive bacteria. Microbiol. Spectr., 2, 2014 (PLAS-0004-2013).
37. Gohlke, J., Deeken, R., Plant responses to Agrobacterium tumefaciens and crown gall development. Front. Plant Sci., 5, 2014, 155.
38. Gonzalez, V. et al., Conserved symbiotic plasmid DNA sequences in the multireplicon pangenomic structure of Rhizobium etli. Appl. Environ. Microbiol. 76 (2010), 1604–1614.
39. Gubbins, M.J. et al., The positive regulator, TraJ, of the Escherichia coli F plasmid is unstable in a cpxA* background. J. Bacteriol. 184 (2002), 5781–5788.
40. Han, X. et al., Functional analysis of a bacitracin resistance determinant located on ICECp1, a novel Tn916-like element from a conjugative plasmid in Clostridium perfringens. Antimicrob. Agents Chemother. 59 (2015), 6855–6865.
41. Haskett, T.L. et al., Assembly and transfer of tripartite integrative and conjugative genetic elements. Proc. Natl. Acad. Sci. U. S. A. 113 (2016), 12268–12273.
42. He, X. et al., Quorum sensing in Rhizobium sp. strain NGR234 regulates conjugal transfer (tra) gene expression and influences growth rate. J. Bacteriol. 185 (2003), 809–822.
43. Heuer, H., Smalla, K., Plasmids foster diversification and adaptation of bacterial populations in soil. FEMS Microbiol. Rev. 36 (2012), 1083–1104.
44. Hu, Y. et al., The bacterial mobile resistome transfer network connecting the animal and human microbiomes. Appl. Environ. Microbiol. 82 (2016), 6672–6681.
45. Johnson, C.M., Grossman, A.D., Integrative and conjugative elements (ICEs): what they do and how they work. Annu. Rev. Genet. 49 (2015), 577–601.
46. Jones, K.M. et al., How rhizobial symbionts invade plants: the Sinorhizobium-Medicago model. Nat. Rev. Microbiol. 5 (2007), 619–633.
47. Kado, C.I., Historical account on gaining insights on the mechanism of crown gall tumorigenesis induced by Agrobacterium tumefaciens. Front. Microbiol., 5, 2014, 340.
48. Kinkle, B.K. et al., Plasmids pJP4 and r68.45 can be transferred between populations of Bradyrhizobia in nonsterile soil. Appl. Environ. Microbiol. 59 (1993), 1762–1766.
49. Klumper, U. et al., Metal stressors consistently modulate bacterial conjugal plasmid uptake potential in a phylogenetically conserved manner. ISME J. 11 (2017), 152–165.
50. Koonin, E.V., Horizontal gene transfer: essentiality and evolvability in prokaryotes, and roles in evolutionary transitions. F1000Res, 5, 2016.
51. Koraimann, G., Wagner, M.A., Social behavior and decision making in bacterial conjugation. Front. Cell. Infect. Microbiol., 4, 2014, 54.
52. Kulinska, A. et al., Global transcriptional regulation of backbone genes in broad-host-range plasmid RA3 from the IncU group involves segregation protein KorB (ParB family). Appl. Environ. Microbiol. 82 (2016), 2320–2335.
53. Landeta, C. et al., Plasmids with a chromosome-like role in rhizobia. J. Bacteriol. 193 (2011), 1317–1326.
54. Lang, J., Faure, D., Functions and regulation of quorum-sensing in Agrobacterium tumefaciens. Front. Plant Sci., 5, 2014, 14.
55. Li, J. et al., Toxin plasmids of Clostridium perfringens. Microbiol. Mol. Biol. Rev. 77 (2013), 208–233.
56. Ling, J. et al., Plant nodulation inducers enhance horizontal gene transfer of Azorhizobium caulinodans symbiosis island. Proc. Natl. Acad. Sci. U. S. A. 113 (2016), 13875–13880.
57. Loftie-Eaton, W. et al., Evolutionary paths that expand plasmid host-range: implications for spread of antibiotic resistance. Mol. Biol. Evol. 33 (2016), 885–897.
58. Lopez-Fuentes, E. et al., Genes encoding conserved hypothetical proteins localized in the conjugative transfer region of plasmid pRet42a from Rhizobium etli CFN42 participate in modulating transfer and affect conjugation from different donors. Front. Microbiol., 5, 2015, 793.
59. Ludwiczak, M. et al., Global transcriptional regulator KorC coordinates expression of three backbone modules of the broad-host-range RA3 plasmid from IncU incompatibility group. Plasmid 70 (2013), 131–145.
60. Ma, H., Bryers, J.D., Non-invasive determination of conjugative transfer of plasmids bearing antibiotic-resistance genes in biofilm-bound bacteria: effects of substrate loading and antibiotic selection. Appl. Microbiol. Biotechnol. 97 (2013), 317–328.
61. McAnulla, C. et al., Quorum-sensing-regulated transcriptional initiation of plasmid transfer and replication genes in Rhizobium leguminosarum biovar viciae. Microbiology 153 (2007), 2074–2082.
62. Mhedbi-Hajri, N. et al., Transcriptome analysis revealed that a quorum sensing system regulates the transfer of the pAt megaplasmid in Agrobacterium tumefaciens. BMC Genomics, 17, 2016, 661.
63. Monchy, S. et al., Plasmids pMOL28 and pMOL30 of Cupriavidus metallidurans are specialized in the maximal viable response to heavy metals. J. Bacteriol. 189 (2007), 7417–7425.
64. Nealson, K.H. et al., Cellular control of the synthesis and activity of the bacterial luminescent system. J. Bacteriol. 104 (1970), 313–322.
65. Nogales, J. et al., Conjugal transfer of the Sinorhizobium meliloti 1021 symbiotic plasmid is governed through the concerted action of one- and two-component signal transduction regulators. Environ. Microbiol. 15 (2013), 811–821.
66. O'Brien, F.G. et al., Origin-of-transfer sequences facilitate mobilisation of non-conjugative antimicrobial-resistance plasmids in Staphylococcus aureus. Nucleic Acids Res. 43 (2015), 7971–7983.
67. Ochman, H. et al., Lateral gene transfer and the nature of bacterial innovation. Nature 405 (2000), 299–304.
68. Ohtsubo, Y. et al., Conjugal transfer of polychlorinated biphenyl/biphenyl degradation genes in Acidovorax sp. strain KKS102, which are located on an integrative and conjugative element. J. Bacteriol. 194 (2012), 4237–4248.
69. Pérez-Mendoza, D. et al., Identification of the rctA gene, which is required for repression of conjugative transfer of rhizobial symbiotic megaplasmids. J. Bacteriol. 187 (2005), 7341–7350.
70. Piper, K.R. et al., Conjugation factor of Agrobacterium tumefaciens regulates Ti plasmid transfer by autoinduction. Nature 362 (1993), 448–450.
71. Pistorio, M. et al., Identification of a transmissible plasmid from an Argentine Sinorhizobium meliloti strain which can be mobilised by conjugative helper functions of the European strain S. meliloti GR4. FEMS Microbiol. Lett. 225 (2003), 15–21.
72. Pistorio, M. et al., rptA, a novel gene from Ensifer (Sinorhizobium) meliloti involved in conjugal transfer. FEMS Microbiol. Lett. 345 (2013), 22–30.
73. Poulin-Laprade, D. et al., The extended regulatory networks of SXT/R391 integrative and conjugative elements and IncA/C conjugative plasmids. Front. Microbiol., 6, 2015, 837.
74. Qiu, X. et al., Interstrain transfer of the large pathogenicity island (PAPI-1) of Pseudomonas aeruginosa. Proc. Natl. Acad. Sci. U. S. A. 103 (2006), 19830–19835.
75. Ramsay, J.P. et al., Excision and transfer of the Mesorhizobium loti R7A symbiosis island requires an integrase IntS, a novel recombination directionality factor RdfS, and a putative relaxase RlxS. Mol. Microbiol. 62 (2006), 723–734.
76. Ramsay, J.P. et al., A LuxRI-family regulatory system controls excision and transfer of the Mesorhizobium loti strain R7A symbiosis island by activating expression of two conserved hypothetical genes. Mol. Microbiol. 73 (2009), 1141–1155.
77. Ramsay, J.P. et al., A widely conserved molecular switch controls quorum sensing and symbiosis island transfer in Mesorhizobium loti through expression of a novel antiactivator. Mol. Microbiol. 87 (2013), 1–13.
78. Ramsay, J.P. et al., An updated view of plasmid conjugation and mobilization in Staphylococcus. Mob. Genet. Elem., 6, 2016, e1208317.
79. Ravatn, R. et al., Low-frequency horizontal transfer of an element containing the chlorocatechol degradation genes from Pseudomonas sp. strain B13 to Pseudomonas putida F1 and to indigenous bacteria in laboratory-scale activated-sludge microcosms. Appl. Environ. Microbiol. 64 (1998), 2126–2132.
80. Romero, D., Brom, S., Phillips, G., Funnell, B., (eds.) The Symbiotic Plasmids of the Rhizobiaceae, 2004, Plasmid Biology ASM Press, Washington DC.
81. Sentchilo, V. et al., Unusual integrase gene expression on the clc genomic island in Pseudomonas sp. strain B13. J. Bacteriol. 185 (2003), 4530–4538.
82. Sentchilo, V. et al., Characterization of two alternative promoters for integrase expression in the clc genomic island of Pseudomonas sp. strain B13. Mol. Microbiol. 49 (2003), 93–104.
83. Sepúlveda, E. et al., Transcriptional interference and repression modulate the conjugative ability of the symbiotic plasmid of Rhizobium etli. J. Bacteriol. 190 (2008), 4189–4197.
84. Sepulveda, E. et al., A septal chromosome segregator protein evolved into a conjugative DNA-translocator protein. Mob. Genet. Elem. 1 (2011), 225–229.
85. Showsh, S.A., Andrews, R.E. Jr., Tetracycline enhances Tn916-mediated conjugal transfer. Plasmid 28 (1992), 213–224.
86. Smets, B.F. et al., Plasmid introduction in metal-stressed, subsurface-derived microcosms: plasmid fate and community response. Appl. Environ. Microbiol. 69 (2003), 4087–4097.
87. Subramoni, S. et al., Agrobacterium tumefaciens responses to plant-derived signaling molecules. Front. Plant Sci., 5, 2014, 322.
88. Sullivan, J.T., Ronson, C.W., Evolution of rhizobia by acquisition of a 500-kb symbiosis island that integrates into a phe-tRNA gene. Proc. Natl. Acad. Sci. U. S. A. 95 (1998), 5145–5149.
89. Sullivan, J.T. et al., Nodulating strains of Rhizobium loti arise through chromosomal symbiotic gene transfer in the environment. Proc. Natl. Acad. Sci. U. S. A. 92 (1995), 8985–8989.
90. Summers, A.O. et al., Mercury released from dental “silver” fillings provokes an increase in mercury- and antibiotic-resistant bacteria in oral and intestinal floras of primates. Antimicrob. Agents Chemother. 37 (1993), 825–834.
91. Sutanto, Y. et al., Factors required in vitro for excision of the Bacteroides conjugative transposon, CTnDOT. Plasmid 52 (2004), 119–130.
92. Thoma, L., Muth, G., Conjugative DNA-transfer in Streptomyces, a mycelial organism. Plasmid 87-88 (2016), 1–9.
93. Thomas, C.M., Nielsen, K.M., Mechanisms of, and barriers to, horizontal gene transfer between bacteria. Nat. Rev. Microbiol. 3 (2005), 711–721.
94. Thomas, C.M., Summers, D., Bacterial Plasmids. eLS. 2008, John Wiley & Sons, Ltd.
95. Top, E.M. et al., Characterization of diverse 2,4-dichlorophenoxyacetic acid-degradative plasmids isolated from soil by complementation. Appl. Environ. Microbiol. 61 (1995), 1691–1698.
96. Top, E.M. et al., Enhancement of 2,4-dichlorophenoxyacetic acid (2,4-D) degradation in soil by dissemination of catabolic plasmids. Antonie Van Leeuwenhoek 73 (1998), 87–94.
97. Torres Tejerizo, G. et al., First genomic analysis of the broad-host-range Rhizobium sp. LPU83 strain, a member of the low-genetic diversity Oregon-like Rhizobium sp. group. J. Biotechnol. 155 (2011), 3–10.
98. Torres Tejerizo, G. et al., Rhizobial plasmid pLPU83a is able to switch between different transfer machineries depending on its genomic background. FEMS Microbiol. Ecol. 88 (2014), 565–578.
99. Torres, O.R. et al., The conjugative transposon Tn925: enhancement of conjugal transfer by tetracycline in Enterococcus faecalis and mobilization of chromosomal genes in Bacillus subtilis and E. faecalis. Mol. Gen. Genet. 225 (1991), 395–400.
100. Tun-Garrido, C. et al., Conjugative transfer of p42a from Rhizobium etli CFN42, which is required for mobilization of the symbiotic plasmid, is regulated by quorum sensing. J. Bacteriol. 185 (2003), 1681–1692.
101. Vanga, B.R. et al., Mobilization of horizontally acquired island 2 is induced in planta in the phytopathogen Pectobacterium atrosepticum SCRI1043 and involves the putative relaxase ECA0613 and quorum sensing. Environ. Microbiol. 17 (2015), 4730–4744.
102. Veluthambi, K. et al., Opines stimulate induction of the vir genes of the Agrobacterium tumefaciens Ti plasmid. J. Bacteriol. 171 (1989), 3696–3703.
103. Whittle, G. et al., Characterization of the 13-kilobase ermF region of the Bacteroides conjugative transposon CTnDOT. Appl. Environ. Microbiol. 67 (2001), 3488–3495.
104. Whittle, G. et al., Characterization of genes involved in modulation of conjugal transfer of the Bacteroides conjugative transposon CTnDOT. J. Bacteriol. 184 (2002), 3839–3847.
105. Wisniewski, J.A., Rood, J.I., The Tcp conjugation system of Clostridium perfringens. Plasmid 91 (2017), 28–36.
106. Wisniewski, J.A. et al., TcpM: a novel relaxase that mediates transfer of large conjugative plasmids from Clostridium perfringens. Mol. Microbiol. 99 (2016), 884–896.
107. Wood, M.M., Gardner, J.F., The integration and excision of CTnDOT. Microbiol Spectr., 3, 2015 (MDNA3-0020-2014).
108. Wozniak, R.A., Waldor, M.K., Integrative and conjugative elements: mosaic mobile genetic elements enabling dynamic lateral gene flow. Nat. Rev. Microbiol. 8 (2010), 552–563.
109. Wyrsch, E.R. et al., Genomic microbial epidemiology is needed to comprehend the global problem of antibiotic resistance and to improve pathogen diagnosis. Front. Microbiol., 7, 2016, 843.
110. Zhang, P.Y. et al., Combined treatment with the antibiotics kanamycin and streptomycin promotes the conjugation of Escherichia coli. FEMS Microbiol. Lett. 348 (2013), 149–156.