Embedded elements in the IncPβ plasmids R772 and R906 can be mobilized and can serve as a source of diverse and novel elements

Microbiology

Volumn 157, Issue 6, 2011, Pages 1714-1725

  Petrovski, Steve ^a   Stanisich, Vilma A ^a  

^a LA TROBE UNIVERSITY   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

TRANSPOSASE; BACTERIAL DNA;

ARTICLE; BACTERIAL MUTATION; EMBEDDING; EXPERIMENTAL PIG; INCP BETA PLASMID; MICROBIAL DIVERSITY; NONHUMAN; PLASMID; PRIORITY JOURNAL; PROTEOBACTERIA; STRUCTURE ANALYSIS; TRANSPOSON; DNA SEQUENCE; ESCHERICHIA COLI; GENETICS; MOLECULAR EVOLUTION; MOLECULAR GENETICS;

BACTERIA (MICROORGANISMS); PROTEOBACTERIA; SUS;

DNA TRANSPOSABLE ELEMENTS; DNA, BACTERIAL; ESCHERICHIA COLI; EVOLUTION, MOLECULAR; MOLECULAR SEQUENCE DATA; PLASMIDS; PROTEOBACTERIA; SEQUENCE ANALYSIS, DNA; TRANSPOSASES;

EID: 79958153463     PISSN: 13500872     EISSN: None     Source Type: Journal    
DOI: 10.1099/mic.0.047761-0     Document Type: Article

References (68)

1. Adamczyk, M. & Jagura-Burdzy, G. (2003). Spread and survival of promiscuous IncP-1 plasmids. Acta Biochim Pol 50, 425-453.
2. Baek, C.-H., Farrand, S. K., Park, D.-K., Lee, K. E., Hwang, W. & Kim, K.-S. (2005). Genes for utilization of deoxyfructosyl glutamine (DFG), an amadori compound, are widely dispersed in the family Rhizobiaceae. FEMS Microbiol Ecol 53, 221-233.
3. Bahl, M. I., Burmølle, M., Meisner, A., Hansen, L. H. & Sørensen, S. J. (2009). All IncP-1 plasmid subgroups, including the novel e subgroup, are prevalent in the influent of a Danish wastewater treatment plant. Plasmid 62, 134-139.
4. Barkay, T., Miller, S. M. & Summers, A. O. (2003). Bacterial mercury resistance from atoms to ecosystems. FEMS Microbiol Rev 27, 355-384.
5. Bennett, P. M., Grinsted, J. & Richmond, M. H. (1977). Transposition of TnA does not generate deletions. Mol Gen Genet 154, 205-211.
6. Bolivar, F., Rodriguez, R. L., Greene, P. J., Betlach, M. C., Heyneker, H. L., Boyer, H. W., Crosa, J. H. & Falkow, S. (1977). Construction and characterization of new cloning vehicles. II. A multipurpose cloning system. Gene 2, 95-113.
7. Boyd, D. A., Tyler, S., Christianson, S., McGeer, A., Muller, M. P., Willey, B. M., Bryce, E., Gardam, M., Nordmann, P., Mulvey, M. R. & Canadian Nosocomial Infection Surveillance Program, Health Canada (2004). Complete nucleotide sequence of a 92-kilobase plasmid harboring the CTX-M-15 extended-spectrum beta-lactamase involved in an outbreak in long-term-care facilities in Toronto, Canada. Antimicrob Agents Chemother 48, 3758-3764.
8. Brockman, F. J. & Bezdicek, D. F. (1989). Diversity within serogroups of Rhizobium leguminosarum biovar viceae in the Palouse region of Eastern Washington as indicated by plasmid profiles, intrinsic antibiotic resistance, and topography. Appl Environ Microbiol 55, 109-115.
9. Chiou, C.-S. & Jones, A. L. (1993). Nucleotide sequence analysis of a transposon (Tn5393) carrying streptomycin resistance genes in Erwinia amylovora and other Gram-negative bacteria. J Bacteriol 175, 732-740.
10. Coetzee, J. N. (1978). Mobilization of the Proteus mirabilis chromosome by R plasmid R772. J Gen Microbiol 108, 103-109.
11. Cole, M. A. & Elkan, G. H. (1979). Multiple antibiotic resistance in Rhizobium japonicum. Appl Environ Microbiol 37, 867-870.
12. Davies, J. (1994). Inactivation of antibiotics and the dissemination of resistance genes. Science 264, 375-382.
13. De Gelder, L. F., Vandecasteele, F. P., Brown, C. J., Forney, L. J. & Top, E. M. (2005). Plasmid donor affects host range of promiscuous IncP-1b plasmid pB10 in an activated-sludge microbial community. Appl Environ Microbiol 71, 5309-5317.
14. De Gelder, L., Ponciano, J. M., Joyce, P. & Top, E. M. (2007). Stability of a promiscuous plasmid in different hosts: no guarantee for a longterm relationship. Microbiology 153, 452-463.
15. de la Cruz, F. & Grinsted, J. (1982). Genetic and molecular characterization of Tn21, a multiple resistance transposon from R100.1. J Bacteriol 151, 222-228.
16. Di Gioia, D., Peel, M., Fava, F. & Wyndham, R. C. (1998). Structures of homologous composite transposons carrying cbaABC genes from Europe and North America. Appl Environ Microbiol 64, 1940-1946.
17. Grinsted, J., de la Cruz, F. & Schmitt, R. (1990). The Tn21 subgroup of bacterial transposable elements. Plasmid 24, 163-189.
18. Hamlett, N. V., Landale, E. C., Davis, B. H. & Summers, A. O. (1992). Roles of the Tn21 merT, merP, and merC gene products in mercury resistance and mercury binding. J Bacteriol 174, 6377-6385.
19. Hanahan, D. (1983). Studies on transformation of Escherichia coli with plasmids. J Mol Biol 166, 557-580.
20. Hedges, R. W., Datta, N., Coetzee, J. N. & Dennison, S. (1973). R factors from Proteus morganii. J Gen Microbiol 77, 249-259.
21. Hedges, R. W., Jacob, A. E. & Smith, J. T. (1974). Properties of an R factor from Bordetella bronchiseptica. J Gen Microbiol 84, 199-204.
22. Hille, J., van Kan, J., Klasen, I. & Schilperoort, R. (1983). Site-directed mutagenesis in Escherichia coli of a stable R772: Ti cointegrate plasmid from Agrobacterium tumefaciens. J Bacteriol 154, 693-701.
23. Hobman, J. L. & Brown, N. L. (1996). Overexpression of MerT, the mercuric ion transport protein of transposon Tn501, and genetic selection of mercury hypersensitivity mutations. Mol Gen Genet 250, 129-134.
24. Kamachi, K., Sota, M., Tamai, Y., Nagata, N., Konda, T., Inoue, T., Top, E. M. & Arakawa, Y. (2006). Plasmid pBP136 from Bordetella pertussis represents an ancestral form of IncP-1b plasmids without accessory mobile elements. Microbiology 152, 3477-3484.
25. Kamali-Moghaddam, M. & Sundström, L. (2000). Transposon targeting determined by resolvase. FEMS Microbiol Lett 186, 55-59.
26. Kim, C., Cha, J. Y., Yan, H., Vakulenko, S. B. & Mobashery, S. (2006). Hydrolysis of ATP by aminoglycoside 39-phosphotransferases: an unexpected cost to bacteria for harboring an antibiotic resistance enzyme. J Biol Chem 281, 6964-6969.
27. Kovach, M. E., Elzer, P. H., Hill, D. S., Robertson, G. T., Farris, M. A., Roop, R. M., II & Peterson, K. M. (1995). Four new derivatives of the broad-host-range cloning vector pBBR1MCS, carrying different antibiotic-resistance cassettes. Gene 166, 175-176.
28. Krishnapillai, V. (1988). Molecular genetic analysis of bacterial plasmid promiscuity. FEMS Microbiol Rev 4, 223-237.
29. Kung, V. L., Ozer, E. A. & Hauser, A. R. (2010). The accessory genome of Pseudomonas aeruginosa. Microbiol Mol Biol Rev 74, 621-641.
30. L'Abée-Lund, T. M. & Sørum, H. (2000). Functional Tn5393-like transposon in the R plasmid pRAS2 from the fish pathogen Aeromonas salmonicida subspecies salmonicida isolated in Norway. Appl Environ Microbiol 66, 5533-5535.
31. Liebert, C. A., Wireman, J., Smith, T. & Summers, A. O. (1997). Phylogeny of mercury resistance (mer) operons of Gram-negative bacteria isolated from the fecal flora of primates. Appl Environ Microbiol 63, 1066-1076.
32. Liebert, C. A., Hall, R. M. & Summers, A. O. (1999). Transposon Tn21, flagship of the floating genome. Microbiol Mol Biol Rev 63, 507-522.
33. Lund, P. A. & Brown, N. L. (1987). Role of the merT and merP gene products of transposon Tn501 in the induction and expression of resistance to mercuric ions. Gene 52, 207-214.
34. Ma, Y.-F., Wu, J.-F., Wang, S.-Y., Jiang, C.-Y., Zhang, Y., Qi, S.-W., Liu, L., Zhao, G.-P. & Liu, S.-J. (2007). Nucleotide sequence of plasmid pCNB1 from Comamonas strain CNB-1 reveals novel genetic organization and evolution for 4-chloronitrobenzene degradation. Appl Environ Microbiol 73, 4477-4483.
35. Mantengoli, E. & Rossolini, G. M. (2005). Tn5393d, a complex Tn5393 derivative carrying the PER-1 extended-spectrum b-lactamase gene and other resistance determinants. Antimicrob Agents Chemother 49, 3289-3296.
36. Minakhina, S., Kholodii, G., Mindlin, S., Yurieva, O. & Nikiforov, V. (1999). Tn5053 family transposons are res site hunters sensing plasmidal res sites occupied by cognate resolvases. Mol Microbiol 33, 1059-1068.
37. Mindlin, S. Z., Petrova, M. A., Bass, I. A. & Gorlenko, Zh. M. (2006). Origin, evolution, and migration of drug resistance genes. Russ J Genet 42, 1257-1272.
38. Ng, S. P., Davis, B., Palombo, E. A. & Bhave, M. (2009). A Tn5051-like mer-containing transposon identified in a heavy metal tolerant strain Achromobacter sp. AO22. BMC Res Notes 2, 38
39. Palombo, E. A., Yusoff, K., Stanisich, V. A., Krishnapillai, V. & Willetts, N. S. (1989). Cloning and genetic analysis of tra cistrons of the Tra 2/Tra 3 region of plasmid RP1. Plasmid 22, 59-69.
40. Pansegrau, W., Lanka, E., Barth, P. T., Figurski, D. H., Guiney, D. G., Haas, D., Helinski, D. R., Schwab, H., Stanisich, V. A. & Thomas, C. M. (1994). Complete nucleotide sequence of Birmingham IncPa plasmids. Compilation and comparative analysis. J Mol Biol 239, 623-663.
41. Partridge, S. R. & Hall, R. M. (2003). The IS1111 family members IS4321 and IS5075 have subterminal inverted repeats and target the terminal inverted repeats of Tn21 family transposons. J Bacteriol 185, 6371-6384.
42. Petrovski, S. & Stanisich, V. A. (2010). Tn502 and Tn512 are res site hunters that provide evidence of resolvase-independent transposition to random sites. J Bacteriol 192, 1865-1874.
43. Rinkel, M., Hubert, J.-C., Roux, B. & Lett, M.-C. (1994a). Identification of a new transposon Tn5403 in a Klebsiella pneumoniae strain isolated from a polluted aquatic environment. Curr Microbiol 29, 249-254.
44. Rinkel, M., Hubert, J.-C., Roux, B. & Lett, M.-C. (1994b). Transposon Tn5403, a mobilizable-helper element: complete nucleotide sequence and distribution in aquatic strains. FEMS Microbiol Ecol 15, 89-95.
45. Ruppé, E., Woerther, P.-L., Diop, A., Sene, A.-M., Da Costa, A., Arlet, G., Andremont, A. & Rouveix, B. (2009). Carriage of CTX-M-15-producing Escherichia coli isolates among children living in a remote village in Senegal. Antimicrob Agents Chemother 53, 3135-3137.
46. Sambrook, J., Fritsch, E. F. & Maniatis, T. (1989). Molecular Cloning: a Laboratory Manual, 2nd edn. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory.
47. Sanchez, J., Bennett, P. M. & Richmond, M. H. (1982). Expression of elt-B, the gene encoding the B subunit of the heat-labile enterotoxin of Escherichia coli, when cloned in pACYC184. FEMS Microbiol Lett 14, 1-5.
48. Schlüter, A., Heuer, H., Szczepanowski, R., Forney, L. J., Thomas, C. M., Pühler, A. & Top, E. M. (2003). The 64 508 bp IncP-1b antibiotic multiresistance plasmid pB10 isolated from a waste-water treatment plant provides evidence for recombination between members of different branches of the IncP-1b group. Microbiology 149, 3139-3153.
49. Schlüter, A., Szczepanowski, R., Pühler, A. & Top, E. M. (2007). Genomics of IncP-1 antibiotic resistance plasmids isolated from wastewater treatment plants provides evidence for a widely accessible drug resistance gene pool. FEMS Microbiol Rev 31, 449-477.
50. Sen, D., Yano, H., Suzuki, H., Król, J. E., Rogers, L., Brown, C. J. & Top, E. M. (2010). Comparative genomics of pAKD4, the prototype IncP-1d plasmid with a complete backbone. Plasmid 63, 98-107.
51. Smalla, K., Krögerrecklenfort, E., Heuer, H., Dejonghe, W., Top, E., Osborn, M., Niewint, J., Tebbe, C., Barr, M. & other authors (2000). PCR-based detection of mobile genetic elements in total community DNA. Microbiology 146, 1256-1257.
52. Smith, C. A. & Thomas, C. M. (1987). Comparison of the organisation of the genomes of phenotypically diverse plasmids of incompatibility group P: members of the IncP b sub-group are closely related. Mol Gen Genet 206, 419-427.
53. Smith, C. A. & Thomas, C. M. (1989). Relationships and evolution of IncP plasmids. In Promiscuous Plasmids of Gram-Negative Bacteria, pp. 57-77. Edited by C. M. Thomas. London: Academic Press.
54. Smith, C. A., Pinkney, M., Guiney, D. G. & Thomas, C. M. (1993). The ancestral IncP replication system consisted of contiguous oriV and trfA segments as deduced from a comparison of the nucleotide sequences of diverse IncP plasmids. J Gen Microbiol 139, 1761-1766.
55. Sota, M., Yano, H., Nagata, Y., Ohtsubo, Y., Genka, H., Anbutsu, H., Kawasaki, H. & Tsuda, M. (2006). Functional analysis of unique class II insertion sequence IS1071. Appl Environ Microbiol 72, 291-297.
56. Sota, M., Tsuda, M., Yano, H., Suzuki, H., Forney, L. J. & Top, E. M. (2007). Region-specific insertion of transposons in combination with selection for high plasmid transferability and stability accounts for the structural similarity of IncP-1 plasmids. J Bacteriol 189, 3091-3098.
57. Sundin, G. W., Monks, D. E. & Bender, C. L. (1995). Distribution of the streptomycin-resistance transposon Tn5393 among phylloplane and soil bacteria from managed agricultural habitats. Can J Microbiol 41, 792-799.
58. Terakado, N. & Mitsuhashi, S. (1974). Properties of R factors from Bordetella bronchiseptica. Antimicrob Agents Chemother 6, 836-840.
59. Thomas, C. M. (2000). The Horizontal Gene Pool-Bacterial Plasmids and Gene Spread. Amsterdam: Harwood Academic Publishers.
60. Thomas, C. M. & Smith, C. A. (1987). Incompatibility group P plasmids: genetics, evolution, and use in genetic manipulation. Annu Rev Microbiol 41, 77-101.
61. Thorsted, P. B., Macartney, D. P., Akhtar, P., Haines, A. S., Ali, N., Davidson, P., Stafford, T., Pocklington, M. J., Pansegrau, W. & other authors (1998). Complete sequence of the IncPb plasmid R751: implications for evolution and organisation of the IncP backbone. J Mol Biol 282, 969-990.
62. Trefault, N., De la Iglesia, R., Molina, A. M., Manzano, M., Ledger, T., Pérez-Pantoja, D., Sánchez, M. A., Stuardo, M. & González, B. (2004). Genetic organization of the catabolic plasmid pJP4 from Ralstonia eutropha JMP134 (pJP4) reveals mechanisms of adaptation to chloroaromatic pollutants and evolution of specialized chloroaromatic degradation pathways. Environ Microbiol 6, 655-668.
63. Vakulenko, S. B. & Mobashery, S. (2003). Versatility of aminoglycosides and prospects for their future. Clin Microbiol Rev 16, 430-450.
64. Villarroel, R., Hedges, R. W., Maenhaut, R., Leemans, J., Engler, G., Van Montagu, M. & Schell, J. (1983). Heteroduplex analysis of Pplasmid evolution: the role of insertion and deletion of transposable elements. Mol Gen Genet 189, 390-399.
65. Wang, G., Xu, X., Chen, J. M., Berg, D. E. & Berg, C. M. (1994). Inversions and deletions generated by a mini-cd (Tn1000) transposon. J Bacteriol 176, 1332-1338.
66. Wyndham, R. C., Cashore, A. E., Nakatsu, C. H. & Peel, M. C. (1994). Catabolic transposons. Biodegradation 5, 323-342.
67. Yano, H., Garruto, C. E., Sota, M., Ohtsubo, Y., Nagata, Y., Zylstra, G. J., Williams, P. A. & Tsuda, M. (2007). Complete sequence determination combined with analysis of transposition/ site-specific recombination events to explain genetic organization of IncP-7 TOL plasmid pWW53 and related mobile genetic elements. J Mol Biol 369, 11-26.
68. Yurieva, O., Kholodii, G., Minakhin, L., Gorlenko, Z., Kalyaeva, E., Mindlin, S. & Nikiforov, V. (1997). Intercontinental spread of promiscuous mercury-resistance transposons in environmental bacteria. Mol Microbiol 24, 321-329.