Abstract
Living organisms are defined by the genes they possess. Control of expression of this gene set, both temporally and in response to the environment, determines whether an organism can survive changing conditions and can compete for the resources it needs to reproduce. Bacteria are no exception; changes to the genome will, in general, threaten the ability of the microbe to survive, but acquisition of new genes may enhance its chances of survival by allowing growth in a previously hostile environment. For example, acquisition of an antibiotic resistance gene by a bacterial pathogen can permit it to thrive in the presence of an antibiotic that would otherwise kill it; this may compromise clinical treatments. Many forces, chemical and genetic, can alter the genetic content of DNA by locally changing its nucleotide sequence. Notable for genetic change in bacteria are transposable elements and site-specific recombination systems such as integrons. Many of the former can mobilize genes from one replicon to another, including chromosome-plasmid translocation, thus establishing conditions for interspecies gene transfer. Balancing this, transposition activity can result in loss or rearrangement of DNA sequences. This chapter discusses bacterial DNA transfer systems, transposable elements and integrons, and the contributions each makes towards the evolution of bacterial genomes, particularly in relation to bacterial pathogenesis. It highlights the variety of phylogenetically distinct transposable elements, the variety of transposition mechanisms, and some of the implications of rearranging DNA, and addresses the effects of genetic change on the fitness of the microbe.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Deng, W., Burland, V., Plunkett III, G., Boutin, A., Mayhew, G. F., Liss, P., et al. (2002) Genome sequence of Yersinia pestis KIM. J. Bacteriol. 184, 4601–4611.
Welch, R. A., Burland, V., Plunkett III, G., Redford, P., Roesch, P., Rasko, D., et al. (2002) Extensive mosaic structure revealed by the complete genome sequence of uropathogenic Escherichia coli. Proc. Nat. Acad. Sci. USA 99, 17,020–17,024.
Hayashi, T., Makino, K., Ohnishi, M., Kurokawa, K., Ishii, K., Yokoyama, K., et al. (2001) Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K12. DNA Res. 8, 11–22.
Parkhill, J., Dougan, G., James, K. D., Thomson, N. R., Pickard, D., Wain, J., et al. (2001) Complete genome sequence of a multiple drug resistant Salmonella enterica serovar Typhi CT18. Nature 413, 848–852.
Lawrence, J. G. and Roth, J. R. (1999) Genomic flux: genome evolution by gene loss and acquisition. In Organization of the Prokaryotic Genome (Charlebois, R. L., ed.), ASM Press, Washington, DC, pp. 263–289.
Waldor, M. and Mekalanos, J. (1996) Lysogenic conversion by a filamentous phage encoding cholera toxin. Science 272, 1910–1914.
Waldor, M. K. (1998) Bacteriophage biology and bacterial virulence. Trend Microbiol. 6, 295–297.
Thomas, C. M., ed. (2000) The Horizontal Gene Pool: Bacterial Plasmids and Gene Spread, Harwood Academic Publishers, The Netherlands.
Syvanen, M. and Kado, C. I., eds. (1998) Horizontal Gene Transfer, Chapman & Hall, London.
Broda, P., ed. (1979) Plasmids, W. H. Freeman & Co., Oxford.
Burrus, V., Pavlovic, G., Decaris, B., and Guédon, G. (2002) Conjugative transposons: the tip of the iceberg. Mol. Microbiol. 46, 601–610.
Salyers, A. A., Shoemaker, N. B., Stevens, A. M., and Li, L. Y. (1995) Conjugative transposons: an unusual and diverse set of integrated gene transfer elements. Microbiol. Rev. 59, 579–590.
Scott, J. R. and Churchward, G. G. (1995) Conjugative transposition. Ann. Rev. Microbiol. 49, 367–397.
Zechner, E. L., de la Cruz, F., Eisenbrandt, R., Grahn, A. M., Koraimann, G., Lanka, E., et al. (2000) Conjugative-DNA transfer processes, in The Horizontal Gene Pool: Bacterial Plasmids and Gene Spread (Thomas, C. M.,ed.), Harwood Academic Publishers, Amsterdam, pp. 87–174.
Wilkins, B. M. (1995) Gene transfer by bacterial conjugation: diversity of systems and functional specializations, in Society for General Microbiology Symposium 52, Population Genetics of Bacteria (Baumberg, S., Young, J. P. W., Wellington, E. M. H., and Saunders, J. R.,eds.), Cambridge University Press, pp. 59–88.
Masters, M. (1996) Generalized transduction, in Escherichia coli and Salmonella: Cellular and Molecular Biology, 2nd ed. (Neidhardt, F. C.,ed.), ASM Press, Washington, DC, pp. 2421–2441.
Weisberg, R. A. (1996) Specialized transduction, in Escherichia coli and Salmonella: Cellular and Molecular Biology, 2nd ed. (Neidhardt, F. C.,ed.), ASM Press, Washington, DC, pp. 2442–2448.
Dubnau, D. (1999) DNA uptake in bacteria. Ann. Rev. Microbiol. 53, 217–244.
Griffith, F. (1928) Significance of pneumococcal types. J. Hyg. 27, 113–159.
Lorenz, M. G. and Wackernagel, W. (1994) Bacterial gene transfer by natural genetic transformation in the environment. Microbiol. Rev. 58, 563–602.
Kowalczykowski, S. C., Dixon, D. A., Eggleston, A. K., Lauder, S. D., and Rehrauer, W. M. (1994) Biochemistry of homologous recombination in Escherichia coli. Microbiol. Rev. 58, 401–465.
Dowson, C. G., Coffey, T. J., and Spratt, B. G. (1994) Origin and molecular epidemiology of penicillin-binding-protein-mediated resistance to-lactam antibiotics. Trend. Microbiol. 2, 361–366.
Stanisich, V. A., Bennett, P. M., and Ortiz, J. M. (1976) A molecular analysis of transductional marker rescue involving P-group plasmids in Pseudomonas aeruginosa. Mol. Gen. Genet. 143, 333–337.
Craig, N. L. (1996) Transposition, in Escherichia coli and Salmonella: Cellular and Molecular Biology, 2nd ed. (Neidhardt, F. C.,ed.), ASM Press, Washington, DC, pp. 2339–2362.
Davies, D. R., Goryshin, I. Y., Reznikoff, W. S., and Rayment, I. (2000) Threedimensional structure of the Tn5 synaptic complex transposition intermediate. Science 289, 77–85.
Savilahti, H., Rice, P. A., and Mizuuchi, K. (1995) The phage Mu transpososome core: DNA requirements for assembly and function. EMBO J. 14, 4893–4903.
Chandler, M. and Mahillon, J. (2002) Insertion sequences revisited, in Mobile DNA II (Craig, N. L., Craigie, R., Gellert, M., and Lambowitz, A. M.,eds.), ASM Press, Washington, DC, pp. 305–366.
Chandler, M. and Mahillion, J. (2000) Insertion sequence nomenclature. ASM News 66, 324.
Mahillon, J. and Chandler, M. (1998) Insertion sequences. Microbiol. Mol. Biol. Rev. 62, 725–774.
Toussaint, A. and Résibois, A. (1983) Phage Mu: transposition as a life-style, in Mobile Genetic Elements (Shapiro, J. A.,ed.), Academic Press, New York, pp. 103–158.
Grindley, N. D. F. (2002) The movement of Tn3-like elements: transposition and cointegrate resolution, in Mobile DNA II (Craig, N. L., Craigie, R., Gellert, M., and Lambowitz, A. M., eds.), ASM Press, Washington, DC, pp. 272–304.
Grinsted, J., de la Cruz, F., and Schmitt, R. (1990) The Tn21 subgroup of bacterial transposable elements. Plasmid 24, 163–189.
Sherratt, D. (1989) Tn3 and related transposable elements: site-specific recombination and transposition, in Mobile DNA (Berg, D. and Howe, M.,eds.), ASM Press, Washington, DC, pp. 163–184.
Garcillán-Barcia, M. P., Bernales, I., Mendiola, V., and de la Cruz, F. (2002) IS91 rolling-circle transposition, in Mobile DNA II (Craig, N. L., Craigie, R., Gellert, M., and Lambowitz, A. M.,eds), ASM Press, Washington, DC, pp. 891–904.
Taylor, A. L. (1963) Bacteriophage-induced mutations in E. coli. Proc. Nat. Acad. Sci. USA 50, 1043–1051.
McClintock, B. (1956) Controlling elements and the gene. Cold Spring Harb. Symp. Quant. Biol. 21, 197–216.
Hirsch, H. J., Saedler, H., and Starlinger, P. (1972) Insertion mutations in the control region of the galactose operon of E. coli II. Physical characterization of the mutations. Mol. Gen. Genet. 115, 266–276.
Barth, P. T., Datta, N., Hedges, R. W., and Grinter, N. J. (1976) Transposition of a deoxyribonucleic acid sequence encoding trimethoprim and streptomycin resistances from R483 to other replicons. J. Bacteriol. 125, 800–810.
Berg, D. E., Davies, J., Allet, B., and Rochaix, J.-D. (1975) Transposition of R factor genes to bacteriophage λ. Proc. Nat. Acad. Sci. USA 72, 3628–3632.
Foster, T. J., Howe, T. G. B., and Richmond, K. M. V. (1975) Translocation of the tetracycline resistance determinant from R100-1 to the Escherichia coli K12 chromosome. J. Bacteriol. 124, 1153–1158.
Kleckner, N., Chan, R. K., Tye, B.-K., and Botstein, D. (1975) Mutagenesis by insertion of a drug-resistance element carrying an inverted repetition. J. Mol. Biol. 97, 561–575.
Hedges, R. W. and Jacob, A. (1974) Transposition of ampicillin resistance from RP4 to other replicons. Mol. Gen. Genet. 132, 31–40.
Reznikoff, W. S. (2002) Tn5 transposition, in Mobile DNA II (Craig, N. L., Craigie, R., Gellert, M., and Lambowitz, A. M., eds.), ASM Press, Washington, DC, pp. 403–422.
Haniford, D. B. (2002) Transposon Tn10, in Mobile DNA II (Craig, N. L., Craigie, R., Gellert, M., and Lambowitz, A. M., eds.), ASM Press, Washington, DC, pp. 457–483.
Lorenzo, V de, Herrero, M., Jakubzik, U., and Timmis, K. N. (1990) Mini-Tn5 transposon derivatives for insertion mutagenesis, promoter probing, and chromosomal insertion of cloned DNA in Gram-negative bacteria. J. Bacteriol. 172, 6568–6572.
Allmeier, H., Cresnar, B., Greck, M., and Schmitt, R. (1992) Complete nucleotide sequence of Tn1721: gene organization and a novel gene product with features of a chemotaxis protein. Gene 111, 11–20.
Nakatsu, C., Ng, J., Singh, R., Straus, N., and Wyndham, C. (1991) Chlorobenzoate catabolic transposon Tn5271 is a composite class I element with flanking class II insertion sequences. Proc. Nat. Acad. Sci. USA 88, 8312–8316.
Bennett, P. M. (1989) Bacterial transposons and transposition: flexibility and limitations, in Genetic Transformation and Expression (Butler, L. O., Harwood, C., and Moseley, B. E. B., eds.), Intercept, Andover, UK, pp. 283–303.
Dobritsa, A. P., Dobritsa, S. V., Popov, E. I., and Fedoseeva, V. B. (1981) Transposition of DNA fragment flanked by two inverted Tn1 sequences. Gene 14, 217–225.
Lederberg, E. M. (1981) Plasmid reference centre registry of transposon (Tn) allocations through July 1981. Gene 16, 59–61.
Jordan, E., Saedler, H., and Starlinger, P. (1968) 0° and strong polar mutations in the gal operon are insertions. Mol. Gen. Genet. 102, 353–365.
Shapiro, J. A. (1969) Mutations caused by the insertion of genetic material into the galactose operon of E. coli. J. Mol. Biol. 40, 93–105.
Malamy, M. H. (1970) Some properties of insertion mutations in the lac operon, in The Lactose Operon (Beckwith, J. R. and Zipser, D., eds.), Cold Spring Harbor Laboratory, p. 359.
Habermann, P. and Starlinger, P. (1982) Bidirectional deletions associated with IS4. Mol. Gen. Genet. 185, 216–222.
Reif, H. J. and Saedler, H. (1975) IS1 is involved in deletion formation in the gal region of E. coli K12. Mol. Gen. Genet. 137, 17–28.
Saedler, H., Reif, H. J., Hu, S., and Davidson, N. (1974) IS2, a genetic element for turn-off and turn-on of gene activity in E. coli. Mol. Gen. Genet. 132, 265–289.
Starlinger, P. (1980) IS elements and transposons. Plasmid 3, 241–259.
Sekine, Y. and Ohtsubo, E. (1989) Frameshifting is required for production of the transposase encoded by insertion sequence 1. Proc. Nat. Acad. Sci. USA 86, 4609–4613.
Sekine, Y., Eisaki, N., and Ohtsubo, E. (1994) Translational control in production of transposase and in transposition of insertion sequence IS 3. J Mol. Biol. 235, 1406–1420.
Chalmers, R. M. and Kleckner, N. (1994) Tn10/IS10 transposase purification, activation, and in vitro reaction. J. Biol. Chem. 269, 8029–8035.
Weinreich, M. D., Mahnke-Braam, L., and Reznikoff, W. S. (1994) A functional analysis of the Tn5 transposase: identification of domains required for DNA binding and multimerization. J. Mol. Biol. 241, 166–177.
Mendiola, M. V., Jubete, Y., and de la Cruz, F. (1992) DNA sequence of IS91 and identification of the transposase gene. J. Bacteriol. 174, 1345–1351.
Derbyshire, K. M. and Grindley, N. D. (1992) Binding of the IS903 transposase to its inverted repeat in vitro. EMBO J. 11, 3449–3455.
Johnsrud, L. (1979) DNA sequence of the transposable element IS1. Mol. Gen. Genet. 169, 213–218.
Ohtsubo, H. and Ohtsubo, E. (1978) Nucleotide sequence of an insertion element, IS1. Proc. Nat. Acad. Sci. USA 75, 615–619.
Escoubas, J. M., Prère, M. F., Fayet, O., Salvignol, I., Galas, D., Zerbib, D., et al. (1991) Translational control of transposition activity of the bacterial insertion sequence IS1. EMBO J. 10, 705–712.
Zerbib, D., Prentki, P., Gamas, P., Freund, E., Galas, D. J., and Chandler, M. (1990) Functional organization of the ends of IS1: specific binding site for an IS1-encoded protein. Mol. Microbiol. 4, 1477–1486.
Machida, C. and Machida, Y. (1989) Regulation of IS1 transposition by the insA gene product. J. Mol. Biol. 208, 567–574.
Chandler, M. and Fayet, O. (1993) Translational frameshifting in the control of transposition in bacteria. Mol. Microbiol. 7, 497–503.
Grindley, N. D. (1978) IS1 insertion generates duplication of a nine base pair sequence at its target site. Cell 13, 419–426.
Grindley, N. D. F. (1983) Transposition of Tn3 and related transposons. Cell 32, 3–5.
Tavakoli, N., Comanducci, A., Dodd, H. M., Lett, M. C., Albiger, B., and Bennett, P. M. (2000) IS1294, a DNA element that transposes by RC transposition. Plasmid 44, 66–84.
Mendiola, M. V., Bernales, I., and de la Cruz, F. (1994) Differential roles of the transposon termini in IS91 transposition. Proc. Nat. Acad. Sci. USA 91, 1922–1926.
Craig, N. L. (1995) Unity in transposition reactions. Science 270, 253–254.
Ton-Hoang, B., Polard, P., and Chandler, M. (1998) Efficient transposition of IS911 circles in vitro. EMBO J. 17, 1169–1181.
Polard, P., Prère, M.-F., Fayet, O., and Chandler, M. (1992) Transposase-induced excision and circularization of the bacterial insertion sequence IS911. EMBO J. 11, 5079–5090.
Polard, P., Prère, M.-F., Chandler, M., and Fayet, O. (1991) Programmed translational frameshifting and initiation at an AUU codon in gene expression of bacterial insertion sequence IS911. J. Mol. Biol. 222, 465–477.
Ton-Hoang, B., Betermier, M., Polard, P., and Chandler, M. (1997) Assembly of a strong promoter following IS911 circularization and the role of circles in transposition. EMBO J. 16, 3357–3371.
Richter, G. Y., Björklöf, K., Romantschuk, M., and Mills, D. (1998) Insertion specificity and trans-activation of IS801. Mol. Gen. Genet. 260, 381–387.
DĂaz-Aroca, E., Mendiola, M. V., Zabala, J. C., and de la Cruz, F. (1987) Transposition of IS91 does not generate a target duplication. J. Bacteriol. 169, 442–443.
Mendiola, M. V. and de la Cruz, F. (1992) IS91 transposase is related to the rolling-circle-type replication proteins of the pUB110 family of plasmids. Nucl. Acids Res. 20, 3521.
Comanducci, A., Dodd, H. M., and Bennett, P. M. (1989) pUB2380: an R plasmid encoding a unique, natural one-ended transposition system, in Genetic Transformation and Expression (Butler, L. O., Harwood, C., and Moseley, B. E. B., eds.), Intercept, Andover, UK, pp. 305–311.
Poirel, L., Decousser, J.-W., and Nordmann, P. (2003) Insertion sequence ISEcp1B is involved in expression and mobilization of a bla CTX-M β-lactamase gene. Antimicrob. Agents Chemother. 47, 2938–2945.
Chalmers, R., Sewitz, K., Lipkow, K., and Crellin, P. (2000) Complete nucleotide sequence of Tn10. J. Bacteriol. 182, 2970–2972.
Reznikoff, W. S. (1993) The Tn5 transposon. Ann. Rev. Microbiol. 47, 945–963.
Oka, A., Sugisaki, H., and Takanami, M. (1981) Nucleotide sequence of the kanamycin resistance transposon Tn903. J. Mol. Biol. 147, 217–226.
Grindley, N. D. and Joyce, C. M. (1980) Genetic and DNA sequence analysis of the kanamycin resistance transposon Tn903. Proc. Nat. Acad. Sci. USA 77, 7176–7180.
Krebs, M. P. and Reznikoff, W. S. (1986) Transcriptional and translational sites of IS50. Control of transposase and inhibitor expression. J. Mol. Biol. 192, 781–791.
Kleckner, N., Chalmers, R. M., Kwon, D., Sakai, J., and Bolland, S. (1996) Tn10 and IS10 transposition and chromosome rearrangements; mechanism and regulation in vivo and in vitro. Curr. Topic. Microbiol. Immunol. 204, 49–82.
Derbyshire, K. M., Kramer, M., and Grindley, N. D. (1990) Role of instability in the cis action of the insertion sequence IS903 transposase. Proc. Nat. Acad. Sci. USA 87, 4048–4052.
Heffron, F., McCarthy, B. J., Ohtsubo, H., and Ohtsubo, E. (1979) DNA sequence analysis of the transposon Tn3: three genes and three sites involved in transposition of Tn3. Cell 18, 1153–1163.
Mahillon, J. and Lereclus, D. (1988) Structural and functional analysis of Tn4430: identification of an integrase-like protein involved in the co-integrate resolution process. EMBO J. 7, 1515–1526.
Gill, R. E., Heffron, F., and Falkow, S. (1979) Identification of the protein encoded by the transposable element Tn3 which is required for its transposition. Nature 282, 797–801.
Shapiro, J. A. (1979) Molecular model for the transposition and replication of bacteriophage Mu and other transposable elements. Proc. Nat. Acad. Sci. USA 76, 1933–1937.
Arthur, A. and Sherratt, D. J. (1979) Dissection of the transposition process. Mol. Gen. Genet. 175, 267–274.
Heritage, J. and Bennett, P. M. (1985) Plasmid fusions mediated by one end of TnA. J. Gen. Microbiol. 131, 1131–1140.
Avila, P., de la Cruz, F., Ward, E., and Grinsted, J. (1984) Plasmids containing one inverted repeat of Tn21 can fuse with other plasmids in the presence of Tn21 transposase. Mol. Gen. Genet. 195, 288–293.
Mötsch, S. and Schmitt, R. (1984) Replicon fusion mediated by a single-ended derivative of transposon Tn1721. Mol. Gen. Genet. 195, 281–287.
Robinson, M. K., Bennett, P. M., and Richmond, M. H. (1977) Inhibition of TnA translocation by TnA. J. Bacteriol. 129, 407–414.
Lee, C.-H., Bhagwhat, A., and Heffron, F. (1983) Identification of a transposon Tn3 sequence required for transposition immunity. Proc. Nat. Acad. Sci. USA 80, 6765–6769.
Arciszewska, L. K., Drake, D., and Craig, N. L. (1989) Transposon Tn7 cis-acting sequences in transposition and transposition immunity. J. Mol. Biol. 207, 35–52.
Mizuuchi, K. (1992) Transpositional recombination: mechanistic insights from studies of Mu and other elements. Ann. Rev. Biochem. 61, 1011–1051.
Stokes, H. W. and Hall, R. M. (1989) A novel family of potentially mobile DNA elements encoding site-specific gene-integration functions: integrons. Mol. Microbiol. 3, 1669–1683.
Recchia, G. D. and Hall, R. M. (1995) Gene cassettes: a new class of mobile element. Microbiol. 141, 3015–3027.
Bennett, P. M. (1999) Integrons and gene cassettes: a genetic construction kit for bacteria. J. Antimicrob. Chemother. 43, 1–4.
Stokes, H. W., Gorman, D. B., Recchia, G. D., Parsekhian, M., and Hall, R. M. (1997) Structure and function of 59-base element recombination sites associated with mobile gene cassettes. Mol. Microbiol. 26, 731–745.
Naas, T., Mikami, Y., Imai, T., Poirel, L., and Nordmann, P. (2001) Characterization of In53, a class 1 plasmid-and composite-transposon-located integron of Escherichia coli which carries an unusual array of gene cassettes. J. Bacteriol. 183, 235–249.
Rowe-Magnus, D. A., Guerout, A. M., and Mazel, D. (1999) Super-integrons. Res. Microbiol. 150, 641–651.
Mazel, D., Dychinco, B., Webb, V. A., and Davies, J. (1998) A distinctive class of integron in the Vibrio cholerae genome. Science 280, 605–608.
Nield, B. S., Holmes, A. J., Gillings, M. R., Recchia, G. D., Mabbutt, B. C., Nevalainen, et al. (2001) Recovery of new integron classes from environmental DNA. FEMS Microbiol. Lett. 195, 59–65.
Rowe-Magnus, D. A., Guerout, A. M., Ploncard, P., Dychinco, B., Davies, J., and Mazel, D. (2001) The evolutionary history of chromosomal super-integrons provides an ancestry for multiresistant integrons. Proc. Nat. Acad. Sci. USA 98, 652–657.
Vaisvila, R., Morgan, R. D., Posfai, J., and Raleigh, E. A. (2001) Discovery and distribution of super-integrons among pseudomonads. Mol. Microbiol. 42, 587–601.
Hansson, K., Sundstrom, L., Pelletier, A., and Roy, P. H. (2002) IntI2 integron integrase in Tn7. J. Bacteriol. 184, 1712–1721.
Collis, C. M., Kim, M. J., Partridge, S. R., Stokes, H. W., and Hall, R. M. (2002) Characterization of the class 3 integron and the site-specific recombination system it determines. J. Bacteriol. 184, 3017–3026.
Walsh, T. R., Toleman, M. A., Hryniewicz, W., Bennett, P. M., and Jones, R. N. (2003) Evolution of an integron carrying bla VIM-2 in Eastern Europe: report from the SENTRY antimicrobial surveillance program. J. Antimicrob. Chemother. 52, 116–119.
Clewell, D. B. and Gawron-Burke, C. (1986) Conjugative transposons and the dissemination of antibiotic resistance. Ann. Rev. Microbiol. 40, 635–659.
Salyers, A. A., Shoemaker, N. B., and Li, L. Y. (1995) In the driver’s seat: the Bacteroides conjugative transposons and the elements they mobilize. J. Bacteriol. 177, 5727–5731.
Osborn, A. M. and Böltner, D. (2002) When Phage, plasmids, and transposons collide: genomic islands, and conjugative-and mobilizable-transposons as a mosaic continuum. Plasmid 48, 202–212.
Böltner, D. and Osborn, A. M. (2004) Structural comparison of the integrative and conjugative elements R391, pMERPH, R997, and SXT. Plasmid 51, 12–23.
Hochhut, B., Lotfi, Y., Mazel, D., Faruque, S. M., Woodgate, R., and Waldor, M. K. (2001) Molecular analysis of antibiotic resistance gene clusters in Vibrio cholerae O139 and O1 SXT constins. Antimicrob. Agents Chemother. 45, 2991–3000.
Beaber, J. W., Burrus, V., Hochhut, B., and Waldor, M. K. (2002) Comparison of SXT and R391, two conjugative integrating elements: definition of a genetic backbone for the mobilization of resistance determinants. Cell. Molec. Life Sci. 59, 2065–2070.
Franke, A. E. and Clewell, D. B. (1981) Evidence for a chromosome-borne resistance transposon (Tn916) in Streptococcus faecalis that is capable of conjugative transfer in the absence of a conjugative plasmid. J. Bacteriol. 145, 494–502.
Churchward, G. (2002) Conjugative transposons and related mobile elements, in Mobile DNA II (Craig, N. L., Craigie, R., Gellert, M., and Lambowitz, A. M, eds.), ASM Press, Washington, DC, pp. 177–191.
Flannagan, S. E., Zitzow, L. A., Su, Y. A., and Clewell, D. B. (1994) Nucleotide sequence of the 18-kb conjugative transposon Tn916 from Enterococcus faecalis. Plasmid 32, 350–354.
Senghas, E., Jones, J. M., Yamamoto, M., Gawron-Burke, C., and Clewell, D. B. (1988) Genetic organization of the bacterial conjugative transposon Tn916. J. Bacteriol. 170, 245–249.
Storrs, M. J., Carlier, C., Poyart-Salmeron, C., Trieu-Cuot, P., and Courvalin, P. (1991) Conjugative transposition of Tn916 requires the excisive and integrative activities of the transposon-encoded integrase. J. Bacteriol. 173, 4347–4352.
Craig, N. L. (1988) The mechanism of conservative site-specific recombination. Ann. Rev. Genet. 22, 77–105.
Nash, H. A. (1981) Integration and excision of bacteriophage lambda: the mechanism of conservative site specific recombination. Ann. Rev. Genet. 15, 143–167.
Craig, N. L. (1997) Target site selection in transposition. Ann. Rev. Biochem. 66, 437–474.
Craig, N. L. (1991) Tn7: a target site-specific transposon. Mol. Microbiol. 5, 2569–2573.
Gay, N. J., Tybulewicz, V. L., and Walker, J. E. (1986) Insertion of transposon Tn7 into the Escherichia coli glmS transcriptional terminator. Biochem. J. 234, 111–117.
Craig, N. L. (2002) Tn7, in Mobile DNA II (Craig, N. L., Craigie, R., Gellert, M., and Lambowitz, A. M., eds.), ASM Press, Washington, DC, pp. 423–456.
Bainton, R. J., Kubo, K. M., Feng, J.-N., and Craig, N. L. (1993) Tn7 transposition: target DNA recognition is mediated by multiple Tn7-encoded proteins in a purified in vitro system. Cell 72, 931–943.
Bainton, R., Gamas, P., and Craig, N. L. (1991) Tn7 transposition in vitro proceeds through an excised transposon intermediate generated by staggered breaks in DNA. Cell 65, 805–816.
Stanisich, V. A., Arwas, R., Bennett, P. M., and de la Cruz, F. (1989) Characterization of Pseudomonas mercury-resistance transposon Tn502, which has a preferred insertion site in RP1. J. Gen. Microbiol. 135, 2909–2915.
Carmo de Freire Bastos, M. D. and Murphy, E. (1988) Transposon Tn544 encodes three products required for transposition. EMBO J. 7, 2935–2941.
Murphy, E. and Lofdahl, S. (1984) Transposition of Tn544 does not generate a target duplication. Nature 307, 292–295.
Pato, M. L. (1989) Bacteriophage Mu, in Mobile DNA (Berg, D. E. and Howe, M. M., eds.), ASM Press, Washington, DC, pp. 23–52.
Hacker, J. and Kaper, J. B. (2000) Pathogenicity islands and the evolution of microbes. Ann. Rev. Microbiol. 54, 641–679.
Davis, B. M. and Waldor, M. K. (2002) Mobile genetic elements and bacterial pathogenesis, in Mobile DNA II (Craig, N. L., Craigie, R., Gellert, M., and Lambowitz, A. M., eds.), ASM Press, Washington, DC, pp. 1040–1059.
Lindsay, J. A., Ruzin, A., Ross, H. F., Kurepina, N., and Novick, R. P. (1998) The gene for toxic shock toxin is carried by a family of mobile pathogenicity islands in Staphylococcus aureus. Mol. Microbiol. 29, 527–543.
Karaolis, D. K. R., Somara, S., Maneval, D. R. Jr., Johnson, J. A., and Kaper, J. B. (1999) A bacteriophage encoding a pathogenicity island, a type IV pilus and a phage receptor in cholera bacteria. Nature 399, 375–379.
Rankin, A., Schubert, S., Pelludat, C., Brem, D., and Hessemann, J. (1999) The high-pathogenicity island of Yersinia, in Pathogenicity Islands and Other Mobile Virulence Elements (Kaper, J. B. and Hacker, J., eds.), ASM Press, Washington, DC, pp. 77–90.
Hiramatsu, K., Cui, L., Kuroda, M., and Ito, T. (2001) The emergence and evolution of methicillin-resistant Staphylococcus aureus. Trends Microbiol. 9, 486–493.
Ma, X. X., Ito, T., Tiensasitorn, C., Jamklang, M., Chongtrakool, P., Boyle-Vavra, S., et al. (2002) Novel type of staphylococcal cassette chromosome mec identified in community-acquired methicillin-resistant Staphylococcus aureus strains. Antimicrob. Agents Chemother. 46, 1147–1152.
Katayama, Y., Ito, T., and Hiramatsu, K. (2000) A new class of genetic element, Staphylococcus Cassette Chromosome mec, encodes methicillin resistance in Staphylococcus aureus. Antimicrob. Agents Chemother. 44, 1549–1555.
Katayama, Y., Takeuchi, F., Ito, T., Ma, X. X., Ui-Mizutani, Y., Kobayashi, I., and Hiramatsu, K. (2003) Identification in methicillin-susceptible Staphylococcus hominis of an active primordial mobile genetic element for the staphylococcal cassette chromosome mec of methicillin-resistant Staphylococcus aureus. J. Bacteriol. 185, 2711–2722.
Groisman, E. A. and Casadaban, M. J. (1986) Mini-Mu bacteriophage with plasmid replicons for in vivo cloning and lac gene fusions. J. Bacteriol. 168, 357–364.
Van Gijsegem, F. and Toussaint, A. (1982) Chromosome transfer and R-prime formation by an RP4::mini-Mu derivative in Escherichia coli, Salmonella typhimurium, Klebsiella pneumoniae, and Proteus mirabilis. Plasmid 7, 30–44.
Koch, C., Mertens, G., Rudt, F., Kahmann, R., Kanaar, R., Plasterk, R. H., et al. (1987) The invertible G segment, in Phage Mu (Symonds, N., Toussaint, A., van de Putte, P., and Howe, M. M., eds.), Cold Spring Harbor Laboratory, Cold Spring Harbor, NY, pp. 75–91.
Toussaint, A., Lefebvre, N., Scott, J. R., Cowan, J. A., de Bruijn, F., and Bukhari, A. I. (1978) Relationships between temperate phages Mu and P1. Virology 89, 146–161.
Zieg, J. and Simon, M. (1980) Analysis of the nucleotides sequence of an invertible controlling element. Proc. Nat. Acad. Sci. USA 77, 4196–4200.
Sharp, P. A., Cohen, S. N., and Davidson, N. (1973) Electron microscope heteroduplex studies of sequence relations among plasmids of Escherichia coli II. Structure of drug resistance (R) factors and F factors. J. Mol. Biol. 75, 235–255.
Rownd, R. and Mickel, S. (1971) Dissociation and reassociation of RTF and r-determinant of the R-factor NR1 in Proteus mirabilis. Nature New Biol. 234, 40–43.
Clowes, R. C. (1972) Molecular structure of bacterial plasmids. Bacteriol. Rev. 36, 361–405.
Bennett, P. M. and Richmond, M. H. (1978) Plasmids and their possible influence on bacterial evolution, in The Bacteria: A Treatise on Structure and Function (Gunsalus, I. C., ed.), Academic Press, NY, pp. 1–69.
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2004 Humana Press Inc.
About this protocol
Cite this protocol
Bennett, P.M. (2004). Genome Plasticity. In: Woodford, N., Johnson, A.P. (eds) Genomics, Proteomics, and Clinical Bacteriology. Methods in Molecular Biology™, vol 266. Humana Press. https://doi.org/10.1385/1-59259-763-7:071
Download citation
DOI: https://doi.org/10.1385/1-59259-763-7:071
Publisher Name: Humana Press
Print ISBN: 978-1-58829-218-6
Online ISBN: 978-1-59259-763-5
eBook Packages: Springer Protocols