Genetic structure and distribution of the colibactin genomic island among members of the family Enterobacteriaceae

Infection and Immunity

Volumn 77, Issue 11, 2009, Pages 4696-4703

  Putze, Johannes ^a   Hennequin, Claire ^b   Nougayrède, Jean Philippe ^c,d   Zhang, Wenlan ^e   Homburg, Stefan ^a   Karch, Helge ^e   Bringer, Marie Agnés ^f   Fayolle, Corinne ^f   Carniel, Elisabeth ^f   Rabsch, Wolfgang ^g   Oelschlaeger, Tobias A ^a   Oswald, Eric ^c,d   Forestier, Christiane ^b   Hacker, Jörg ^a,g   Dobrindt, Ulrich ^a  

^a UNIVERSITY OF WÜRZBURG   (Germany)

^b UNIVERSITÉ CLERMONT AUVERGNE   (France)

^c IHAP   (France)

^d UNIVERSITÉ DE TOULOUSE   (France)

^e UNIVERSITY OF MÜNSTER   (Germany)

^f INSTITUT PASTEUR   (France)

^g ROBERT KOCH INSTITUTE   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; BACTERIAL RNA; SPACER DNA; TRANSFER RNA; YERSINIABACTIN;

ARTICLE; BACTERIAL GENE; BACTERIUM ISOLATION; CHROMOSOME INSERTION; CITROBACTER KOSERI; COLIBACTIN GENE; CONTROLLED STUDY; ENTEROBACTER AEROGENES; ENTEROBACTERIACEAE; ESCHERICHIA COLI; GENE CLUSTER; GENE LOCUS; GENETIC VARIABILITY; GENOMIC ISLAND; HUMAN; HUMAN CELL; KLEBSIELLA PNEUMONIAE; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PLASMID; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; VARIABLE NUMBER OF TANDEM REPEAT;

BASE SEQUENCE; DNA, BACTERIAL; ENTEROBACTERIACEAE; ESCHERICHIA COLI PROTEINS; FLOW CYTOMETRY; FLUORESCENT ANTIBODY TECHNIQUE; GENE TRANSFER, HORIZONTAL; GENES, BACTERIAL; GENOMIC ISLANDS; HELA CELLS; HUMANS; MICROSCOPY, CONFOCAL; MOLECULAR SEQUENCE DATA; PHENOTYPE; POLYMERASE CHAIN REACTION;

EID: 70350439157     PISSN: 00199567     EISSN: 10985522     Source Type: Journal    
DOI: 10.1128/IAI.00522-09     Document Type: Article

References (38)

1. Ahmed, N., U. Dobrindt, J. Hacker, and S. E. Hasnain. 2008. Genomic fluidity and pathogenic bacteria: applications in diagnostics, epidemiology, and intervention. Nat. Rev. Microbiol. 6:387-394.
2. Altschul, S. F., T. L. Madden, A. A. Schaffer, J. Zhang, Z. Zhang, W. Miller, and D. J. Lipman. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
3. Bach, S., A. de Almeida, and E. Carniel. 2000. The Yersinia high-pathogenicity island is present in different members of the family Enterobacteriaceae. FEMS Microbiol. Lett. 183:289-294. (Pubitemid 30079663)
4. Boyd, E. F., S. Almagro-Moreno, and M. A. Parent. 2009. Genomic islands are dynamic, ancient integrative elements in bacterial evolution. Trends Microbiol. 17:47-53.
5. Bronowski, C., S. L. Smith, K. Yokota, J. E. Corkill, H. M. Martin, B. J. Campbell, J. M. Rhodes, C. A. Hart, and C. Winstanley. 2008. A subset of mucosa-associated Escherichia coli isolates from patients with colon cancer, but not Crohn's disease, share pathogenicity islands with urinary pathogenic E. coli. Microbiology 154:571-583. (Pubitemid 351292311)
6. Buchrieser, C., R. Brosch, S. Bach, A. Guiyoule, and E. Carniel. 1998. The high-pathogenicity island of Yersinia pseudotuberculosis can be inserted into any of the three chromosomal asn tRNA genes. Mol. Microbiol. 30:965-978. (Pubitemid 28550121)
7. Burrus, V., J. Marrero, and M. K. Waldor. 2006. The current ICE age: biology and evolution of SXT-related integrating conjugative elements. Plasmid 55:173-183.
8. Burrus, V., G. Pavlovic, B. Decaris, and G. Guedon. 2002. Conjugative transposons: the tip of the iceberg. Mol. Microbiol. 46:601-610.
9. Carniel, E. 2001. The Yersinia high-pathogenicity island: an iron-uptake island. Microbes Infect. 3:561-569.
10. Carver, T. J., K. M. Rutherford, M. Berriman, M. A. Rajandream, B. G. Barrell, and J. Parkhill. 2005. ACT: the Artemis Comparison Tool. Bioinformatics 21:3422-3423.
11. Chang, C. H., Y. C. Chang, A. Underwood, C. S. Chiou, and C. Y. Kao. 2007. VNTRDB: a bacterial variable number tandem repeat locus database. Nucleic Acids Res. 35:D416-D421. (Pubitemid 46056243)
12. Chen, Y. T., H. Y. Chang, Y. C. Lai, C. C. Pan, S. F. Tsai, and H. L. Peng. 2004. Sequencing and analysis of the large virulence plasmid pLVPK of Klebsiella pneumoniae CG43. Gene 337:189-198.
13. Crosa, J. H., and C. T. Walsh. 2002. Genetics and assembly line enzymology of siderophore biosynthesis in bacteria. Microbiol. Mol. Biol. Rev. 66:223-249.
14. Dobrindt, U., B. Hochhut, U. Hentschel, and J. Hacker. 2004. Genomic islands in pathogenic and environmental microorganisms. Nat. Rev. Microbiol. 2:414-424.
15. Grozdanov, L., C. Raasch, J. Schulze, U. Sonnenborn, G. Gottschalk, J. Hacker, and U. Dobrindt. 2004. Analysis of the genome structure of the nonpathogenic probiotic Escherichia coli strain Nissle 1917. J. Bacteriol. 186:5432-5441.
16. Hejnova, J., U. Dobrindt, R. Nemcova, C. Rusniok, A. Bomba, L. Frangeul, J. Hacker, P. Glaser, P. Sebo, and C. Buchrieser. 2005. Characterization of the flexible genome complement of the commensal Escherichia coli strain A0 34/86 (O83:K24:H31). Microbiology 151:385-398.
17. Homburg, S., E. Oswald, J. Hacker, and U. Dobrindt. 2007. Expression analysis of the colibactin gene cluster coding for a novel polyketide in Escherichia coli. FEMS Microbiol. Lett. 275:255-262. (Pubitemid 47437858)
18. Johnson, J. R., B. Johnston, M. A. Kuskowski, J. P. Nougayrède, and E. Oswald. 2008. Molecular epidemiology and phylogenetic distribution of the Escherichia coli pks genomic island. J. Clin. Microbiol. 46:3906-3911.
19. Le Gall, T., O. Clermont, S. Gouriou, B. Picard, X. Nassif, E. Denamur, and O. Tenaillon. 2007. Extraintestinal virulence is a coincidental by-product of commensalism in B2 phylogenetic group Escherichia coli strains. Mol. Biol. Evol. 24:2373-2384.
20. Lin, T. L., C. Z. Lee, P. F. Hsieh, S. F. Tsai, and J. T. Wang. 2008. Characterization of integrative and conjugative element ICEKp1-associated genomic heterogeneity in a Klebsiella pneumoniae strain isolated from a primary liver abscess. J. Bacteriol. 190:515-526.
21. Moran, N. A. 2002. Microbial minimalism: genome reduction in bacterial pathogens. Cell 108:583-586.
22. Nakamura, Y., M. Leppert, P. O'Connell, R. Wolff, T. Holm, M. Culver, C. Martin, E. Fujimoto, M. Hoff, E. Kumlin, et al. 1987. Variable number of tandem repeat (VNTR) markers for human gene mapping. Science 235: 1616-1622. (Pubitemid 17050143)
23. Nougayrède, J. P., S. Homburg, F. Taieb, M. Boury, E. Brzuszkiewicz, G. Gottschalk, C. Buchrieser, J. Hacker, U. Dobrindt, and E. Oswald. 2006. Escherichia coli induces DNA double-strand breaks in eukaryotic cells. Science 313:848-851.
24. Ochman, H., F. J. Ayala, and D. L. Hartl. 1993. Use of polymerase chain reaction to amplify segments outside boundaries of known sequences. Methods Enzymol. 218:309-321. (Pubitemid 23216119)
25. Ochman, H., J. G. Lawrence, and E. A. Groisman. 2000. Lateral gene transfer and the nature of bacterial innovation. Nature 405:299-304. (Pubitemid 30337055)
26. Oelschlaeger, T. A., D. Zhang, S. Schubert, E. Carniel, W. Rabsch, H. Karch, and J. Hacker. 2003. The high-pathogenicity island is absent in human pathogens of Salmonella enterica subspecies I but present in isolates of subspecies III and VI. J. Bacteriol. 185:1107-1111.
27. Oswald, E., J. P. Nougayrède, F. Taieb, and M. Sugai. 2005. Bacterial toxins that modulate host cell cycle progression. Curr. Opin. Microbiol. 8:83-91.
28. Pelludat, C., A. Rakin, C. A. Jacobi, S. Schubert, and J. Heesemann. 1998. The yersiniabactin biosynthetic gene cluster of Yersinia enterocolitica: organization and siderophore-dependent regulation. J. Bacteriol. 180:538-546.
29. Pfeifer, B. A., C. C. Wang, C. T. Walsh, and C. Khosla. 2003. Biosynthesis of yersiniabactin, a complex polyketide-nonribosomal peptide, using Escherichia coli as a heterologous host. Appl. Environ. Microbiol. 69:6698-6702.
30. Rutherford, K., J. Parkhill, J. Crook, T. Horsnell, P. Rice, M. A. Rajandream, and B. Barrell. 2000. Artemis: sequence visualization and annotation. Bioinformatics 16:944-945.
31. Schubert, S., S. Cuenca, D. Fischer, and J. Heesemann. 2000. High-pathogenicity island of Yersinia pestis in Enterobacteriaceae isolated from blood cultures and urine samples: prevalence and functional expression. J. Infect. Dis. 182:1268-1271.
32. Schubert, S., P. Darlu, O. Clermont, A. Wieser, G. Magistro, C. Hoffmann, K. Weinert, O. Tenaillon, I. Matic, and E. Denamur. 2009. Role of intraspecies recombination in the spread of pathogenicity islands within the Escherichia coli species. PLoS Pathog. 5:e1000257.
33. Schubert, S., S. Dufke, J. Sorsa, and J. Heesemann. 2004. A novel integrative and conjugative element (ICE) of Escherichia coli: the putative progenitor of the Yersinia high-pathogenicity island. Mol. Microbiol. 51:837-848.
34. Soler Bistué, A. J., D. Birshan, A. P. Tomaras, M. Dandekar, T. Tran, J. Newmark, D. Bui, N. Gupta, K. Hernandez, R. Sarno, A. Zorreguieta, L. A. Actis, and M. E. Tolmasky. 2008. Klebsiella pneumoniae multiresistance plasmid pMET1: similarity with the Yersinia pestis plasmid pCRY and integrative conjugative elements. PLoS ONE 3:e1800.
35. Song, Y., Z. Tong, J. Wang, L. Wang, Z. Guo, Y. Han, J. Zhang, D. Pei, D. Zhou, H. Qin, X. Pang, Y. Han, J. Zhai, M. Li, B. Cui, Z. Qi, L. Jin, R. Dai, F. Chen, S. Li, C. Ye, Z. Du, W. Lin, J. Wang, J. Yu, H. Yang, J. Wang, P. Huang, and R. Yang. 2004. Complete genome sequence of Yersinia pestis strain 91001, an isolate avirulent to humans. DNA Res. 11:179-197.
36. Taieb, F., J. P. Nougayrède, C. Watrin, A. Samba-Louaka, and E. Oswald. 2006. Escherichia coli cyclomodulin Cif induces G2 arrest of the host cell cycle without activation of the DNA-damage checkpoint-signaling pathway. Cell Microbiol. 8:1910-1921.
37. Touchon, M., C. Hoede, O. Tenaillon, V. Barbe, S. Baeriswyl, P. Bidet, E. Bingen, S. Bonacorsi, C. Bouchier, O. Bouvet, A. Calteau, H. Chiapello, O. Clermont, S. Cruveiller, A. Danchin, M. Diard, C. Dossat, M. E. Karoui, E. Frapy, L. Garry, J. M. Ghigo, A. M. Gilles, J. Johnson, C. Le Bouguenec, M. Lescat, S. Mangenot, V. Martinez-Jehanne, I. Matic, X. Nassif, S. Oztas, M. A. Petit, C. Pichon, Z. Rouy, C. S. Ruf, D. Schneider, J. Tourret, B. Vacherie, D. Vallenet, C. Medigue, E. P. Rocha, and E. Denamur. 2009. Organized genome dynamics in the Escherichia coli species results in highly diverse adaptive paths. PLoS Genet. 5:e1000344.
38. Tullus, K., B. Ayling-Smith, I. Kuhn, W. Rabsch, R. Reissbrodt, and L. G. Burman. 1992. Nationwide spread of Klebsiella oxytoca K55 in Swedish neonatal special care wards. APMIS 100:1008-1014.