The distribution of insertion sequences in the genome of Shigella flexneri strain 2457T

FEMS Microbiology Letters

Volumn 277, Issue 2, 2007, Pages 197-204

  Zaghloul, Lamia ^a,b   Tang, Chaka ^a   Chin, Hui Yee ^a   Bek, Emily J ^a   Lan, Ruiting ^a   Tanaka, Mark M ^a  

^a UNIVERSITY OF NEW SOUTH WALES   (Australia)

^b Laboratoire Joliot Curie   (France)

Author keywords

Evolution; Insertion seqeuences; Shigella flexneri

Indexed keywords

ARTICLE; BACTERIAL STRAIN; CELL MOTILITY; CHROMOSOMAL LOCALIZATION; EVOLUTIONARY ADAPTATION; GENE CLUSTER; GENE DISRUPTION; GENE INSERTION; GENE INSERTION SEQUENCE; GENE LOCATION; GENE SEQUENCE; GENE TARGETING; GENOME; NATURAL SELECTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; SHIGELLA FLEXNERI; SIGNAL TRANSDUCTION;

ESCHERICHIA COLI; SHIGELLA; SHIGELLA FLEXNERI;

EID: 36348942279     PISSN: 03781097     EISSN: 15746968     Source Type: Journal    
DOI: 10.1111/j.1574-6968.2007.00957.x     Document Type: Article

References (37)

1. Andersson S Kurland C (1998) Ancient and recent horizontal transfer events: the origins of mitochondria. APMIS 84 (Suppl) : 5 14.
2. Bernales I, Mendiola M de la Cruz F (1999) Intramolecular transposition of insertion sequence IS91 results in second-site simple insertions. Mol Microbiol 33 : 223 234.
3. Boyd E Hartl D (1997) Nonrandom location of IS1 elements in the genomes of natural isolates of Escherichia coli. Mol Biol Evol 14 : 725 732.
4. Chandler M Mahillon J (2002) Insertion sequences revisited. Mobile DNA II (Craig NL, Craigie R, Gellert M Lambowitz AM, eds), pp. 305 366. American Society for Microbiology Press, Washington, DC.
5. Cole S, Eiglmeier K, Parkhill J et al 2001) Massive gene decay in the leprosy bacillus. Nature 409 : 1007 1011.
6. Cooper V Lenski R (2000) The population genetics of ecological specialization in evolving Escherichia coli populations. Nature 407 : 736 739.
7. Duval-Valentin G, Marty-Cointin B Chandler M (2004) Requirement of IS911 replication before integration defines a new bacterial transposition pathway. EMBO J 23 : 3897 3906.
8. Ewing WH (1986) Edwards and Ewing's Identification of the Enterobacteriaceae, 4th edn. Elsevier Science Publishers, Amsterdam, the Netherlands.
9. Feller W (1971) An Introduction to Probability Theory and its Applications, 509 pp John Wiley & Sons, New York.
10. Fukiya S, Mizoguchi H, Tobe T Mori H (2004) Extensive genomic diversity in pathogenic Escherichia coli and Shigella strains revealed by comparative genomic hybridization microarray. J Bacteriol 186 : 3911 3921.
11. Gordon JJ, Towsey MW, Hogan JM, Mathews SA Timms P (2006) Improved prediction of bacterial transcription start sites. Bioinformatics 22 : 142 148.
12. Jin Q, Yuan Z, Xu J et al 2002) Genome sequence of Shigella flexneri 2a: insights into pathogenicity through comparison with genomes of Escherichia coli K12 and O157. Nucleic Acids Res 30 : 4432 4441.
13. Kitamura K, Torii Y, Matsuoka C Yamamoto K (1995) DNA sequence changes in mutations in the tonB gene on the chromosome of Escherichia coli K12: insertion elements dominate the spontaneous spectra. Jpn J Genet 70 : 35 46.
14. Lan R Reeves P (2002) Escherichia coli in disguise: molecular origins of Shigella. Microb Infect 4 : 1125 1132.
15. Lan R, Alles M, Donohoe K, Martinez M Reeves P (2004) Molecular evolutionary relationships of enteroinvasive Escherichia coli and Shigella spp. Infect Immun 72 : 5080 5088.
16. Lawrence J (2005) Common themes in the genome strategies of pathogens. Curr Opin Genet Dev 15 : 584 588.
17. Lawrence J, Hendrix R Casjens S (2001) Where are the pseudogenes in bacterial genomes? Trends Microbiol 9 : 535 540.
18. Maurelli A, Fernandez R, Bloch C, Rode C Fasano A (1998) "Black holes" and bacterial pathogenicity: a large genomic deletion that enhances the virulence of Shigella spp. and enteroinvasive Escherichia coli. Proc Natl Acad Sci USA 95 : 3943 3948.
19. Mendiola M, Bernales I Cruz F (1994) Differential roles of the transposon termini in IS91 transposition. Proc Natl Acad Sci USA 91 : 1922 1926.
20. Moran N (1996) Accelerated evolution and Muller's rachet in endosymbiotic bacteria. Proc Natl Acad Sci USA 93 : 2873 2878.
21. Moran N Plague G (2004) Genomic changes following host restriction in bacteria. Curr Opin Genet Dev 14 : 627 633.
22. Pupo G, Lan R Reeves P (2000) Multiple independent origins of Shigella clones of Escherichia coli and convergent evolution of many of their characteristics. Proc Natl Acad Sci USA 97 : 10567 10572.
23. Rezwan F, Lan R Reeves P (2004) Molecular basis of the indole-negative reaction in Shigella strains: extensive damages to the tna operon by insertion sequences. J Bacteriol 186 : 7460 7465.
24. Rodriguez H, Snow ET, Bhat U Loechler EL (1992) An Escherichia coli plasmid-based, mutational system in which supF mutants are selectable: insertion elements dominate the spontaneous spectra. Mutat Res 270 : 219 231.
25. Rousseau P, Normand C, Loot C, Turlan C, Alazard R, Dvual-Valentin G Chandler M (2002) Transposition of IS911. Mobile DNA II (Craig NL, Craigie R, Gellert M Lambowitz AM, eds), pp. 367 383. American Society for Microbiology Press, Washington, DC.
26. Sawyer SA, Dykhuizen DE, DuBose RF, Green L, Mutangadura-Mhlanga T, Wolczyk DF Hartl DL (1987) Distribution and abundance of insertion sequences among natural isolates of Escherichia coli. Genetics 115 : 51 63.
27. Siguier P, Filee J Chandler M (2006a) Insertion sequences in prokaryotic genomes. Curr Opin Micobiol 9 : 1 6.
28. Siguier P, Perochon J, Lestrade L, Mahillon J Chandler M (2006b) ISfinder: the reference centre for bacterial insertion sequences. Nucleic Acids Res 34 : D32 D36.
29. Skovgaard M, Jensen LJ, Brunak S, Ussery D Krogh A (2001) On the total number of genes and their length distribution in complete microbial genomes. Trends Genet 17 : 425 428.
30. Tatusov R, Koonin E Lipman D (1997) A genomic perspective on protein families. Science 278 : 631 637.
31. Tatusov R, Galperin M, Natale D Koonin E (2000) The COG database: a tool for genome-scale analysis of protein functions and evolution. Nucleic Acids Res 28 : 33 36.
32. Tominaga A, Lan R Reeves P (2005) Evolutionary changes of the flhDC flagellar master operon in Shigella strains. J Bacteriol 187 : 4295 4302.
33. Wagner A (2006) Cooperation is fleeting in the world of transposable elements. PLoS Comput Biol 2 : e162.
34. Wei J, Goldberg M, Burland V et al 2003) Complete genome sequence and comparative genomics of Shigella flexneri serotype 2a strain 2457T. Infect Immun 71 : 2775 2786.
35. Yang F, Yang J, Zhang X et al 2005) Genome dynamics and diversity of Shigella species, the etiologic agents of bacillary dysentery. Nucleic Acids Res 33 : 6445 6458.
36. Yang J, Chen L, Yu J, Sun L Jin Q (2006) ShiBASE: an integrated database for comparative genomics of Shigella. Nucleic Acids Res 34 : D398 D401.
37. Yang J, Nie H, Chen L, Zhang X, Yang F, Xu X, Zhu Y, Yu J Jin Q (2007) Revisiting the molecular evolutionary history of Shigella spp. J Mol Evol 64 : 71 79.