Article thumbnail

Genome sequence of adherent-invasive Escherichia coli and comparative genomic analysis with other E. coli pathotypes

By John HE Nash, Andre Villegas, Andrew M Kropinski, Renan Aguilar-Valenzuela, Paulina Konczy, Mariola Mascarenhas, Kim Ziebell, Alfredo G Torres, Mohamed A Karmali and Brian K Coombes
Topics: Research Article
Publisher: BioMed Central
OAI identifier: oai:pubmedcentral.nih.gov:3091784
Provided by: PubMed Central

To submit an update or takedown request for this paper, please submit an Update/Correction/Removal Request.

Suggested articles

Citations

  1. (2003). A: Global analysis of genes regulated by EvgA of the two-component regulatory system in Escherichia coli.
  2. (2002). Adherent-invasive Escherichia coli: a putative new E. coli pathotype associated with Crohn’s disease.
  3. (2008). AG: Escherichia coli isolated from a Crohn’s disease patient adheres, invades, and induces inflammatory responses in polarized intestinal epithelial cells.
  4. (2002). al: The Bioperl toolkit: Perl modules for the life sciences. Genome Research
  5. (2008). al: The pangenome structure of Escherichia coli: comparative genomic analysis of E. coli commensal and pathogenic isolates.
  6. (2005). AutoFACT: an automatic functional annotation and classification tool.
  7. (2001). Bacteria as the cause of ulcerative colitis. Gut
  8. (2007). Bonacorsi S: A new O-antigen gene cluster has a key role in the virulence of the Escherichia coli meningitis clone O45:K1:H7. J Bacteriol
  9. (2009). Browning GF: The conserved portion of the putative virulence region contributes to virulence of avian pathogenic Escherichia coli.
  10. (2009). Circos: an information aesthetic for comparative genomics. Genome Research
  11. (2010). coli secreted protein F promotes EPEC invasion of intestinal epithelial cells via an SNX9-dependent mechanism. Cell Microbiol
  12. (2004). Colombel JF: High prevalence of adherent-invasive Escherichia coli associated with ileal mucosa in Crohn’s disease. Gastroenterology
  13. (1998). Colombel JF: Presence of adherent Escherichia coli strains in ileal mucosa of patients with Crohn’s disease. Gastroenterology
  14. (1937). Colorimetric determination of the components of 3,4-dihydroxyphenylalaninetyrosine mixtures.
  15. (2010). Coombes BK: Identification of the regulatory logic controlling Salmonella pathoadaptation by the SsrA-SsrB two-component system. PLoS Genet
  16. (1995). Current concepts of the etiology and pathogenesis of ulcerative colitis and Crohn’s disease. Gastroenterol Clin North Am
  17. (2007). Darfeuille-Michaud A: Adherent-invasive Escherichia coli and Crohn’s disease. Curr Opin Gastroenterol
  18. (2007). Darfeuille-Michaud A: Adherent-invasive Escherichia coli in inflammatory bowel disease. Inflamm Bowel Dis
  19. (2005). Darfeuille-Michaud A: HtrA stress protein is involved in intramacrophagic replication of adherent and invasive Escherichia coli strain LF82 isolated from a patient with Crohn’s disease. Infect Immun
  20. (2004). Darfeuille-Michaud A: Involvement of lipoprotein NlpI in the virulence of adherent invasive Escherichia coli strain LF82 isolated from a patient with Crohn’s disease. Infect Immun
  21. (2010). Darfeuille-Michaud A: Role of decreased levels of Fis histone-like protein in Crohn’s diseaseassociated adherent invasive Escherichia coli LF82 bacteria interacting with intestinal epithelial cells.
  22. (2005). Darfeuille-Michaud A: Strong decrease in invasive ability and outer membrane vesicle release in Crohn’s diseaseassociated adherent-invasive Escherichia coli strain LF82 with the yfgL gene deleted.
  23. (2007). Darfeuille-Michaud A: The oxidoreductase DsbA plays a key role in the ability of the Crohn’s disease-associated adherent-invasive Escherichia coli strain LF82 to resist macrophage killing.
  24. (2001). Darfeuille-Michaud A: Type 1 pili-mediated adherence of Escherichia coli strain LF82 isolated from Crohn’s disease is involved in bacterial invasion of intestinal epithelial cells. Mol Microbiol
  25. (1994). Diseases due to Escherichia coli in poultry.
  26. (2009). DW: Genomic islands: tools of bacterial horizontal gene transfer and evolution. FEMS Microbiol Rev
  27. (2004). Enhanced Escherichia coli adherence and invasion in Crohn’s disease and colon cancer. Gastroenterology
  28. (2009). et al: Antimicrobial resistance-conferring plasmids with similarity to virulence plasmids from avian pathogenic Escherichia coli strains in Salmonella enterica serovar Kentucky isolates from poultry. Applied and Environmental Microbiology
  29. (2002). et al: Extensive mosaic structure revealed by the complete genome sequence of uropathogenic Escherichia coli. Proc Natl Acad Sci USA
  30. (2009). et al: Pathogenic adaptation of intracellular bacteria by rewiring a cis-regulatory input function. Proc Natl Acad Sci USA
  31. (2009). Ewers C: Adhesive threads of extraintestinal pathogenic Escherichia coli. Gut Pathog
  32. (2009). F: Coordinated regulation of virulence during systemic infection of Salmonella enterica serovar Typhimurium. PLoS Pathog
  33. (2010). Finlay BB: Molecular mechanisms of Escherichia coli pathogenicity. Nat Rev Microbiol
  34. (2009). FSL: IslandViewer: an integrated interface for computational identification and visualization of genomic islands. Bioinformatics
  35. (2009). G: The T3SS effector EspT defines a new category of invasive enteropathogenic E. coli (EPEC) which form intracellular actin pedestals. PLoS Pathog
  36. (2009). Groisman EA: Control of Salmonella pathogenicity island-2 gene expression. Curr Opin Microbiol
  37. (2000). Groisman EA: Lateral gene transfer and the nature of bacterial innovation.
  38. (2003). Hardt WD: Pretreatment of mice with streptomycin provides a Salmonella enterica serovar Typhimurium colitis model that allows analysis of both pathogen and host. Infect Immun
  39. (2002). Helmann JD: Recognition of DNA by Fur: a reinterpretation of the Fur box consensus sequence.
  40. (2004). HL: Pathogenic Escherichia coli.
  41. (1999). Invasive ability of an Escherichia coli strain isolated from the ileal mucosa of a patient with Crohn’s disease. Infect Immun
  42. (2008). Karmali MA: Genomic O island 122, locus for enterocyte effacement, and the evolution of virulent verocytotoxin-producing Escherichia coli.
  43. (1995). KE: I-CeuI reveals conservation of the genome of independent strains of Salmonella typhimurium.
  44. (1990). Lipman DJ: Basic local alignment search tool.
  45. (2008). Mande SS: Identification and functional characterization of gene components of Type VI Secretion system in bacterial genomes. PLoS ONE
  46. (2006). Mekalanos JJ: Identification of a conserved bacterial protein secretion system in Vibrio cholerae using the Dictyostelium host model system. Proc Natl Acad Sci USA
  47. (2009). Mekalanos JJ: Translocation of a Vibrio cholerae type VI secretion effector requires bacterial endocytosis by host cells. Cell Host Microbe
  48. (2007). Mobley HL: Uropathogenic Escherichia coli outer membrane antigens expressed during urinary tract infection. Infect Immun
  49. (2009). Nucleoid-associated proteins and bacterial physiology.
  50. (2003). Pathogenesis of bacterial meningitis: From bacteraemia to neuronal injury. Nature Reviews Neuroscience
  51. (2004). Peng HL: Sequencing and analysis of the large virulence plasmid pLVPK of Klebsiella pneumoniae CG43. Gene
  52. (2009). Pestana de Castro AF: Atypical enteropathogenic Escherichia coli genomic background allows the acquisition of non-EPEC virulence factors.
  53. (1970). Phaff HJ: Rhodotorulic acid from species of Leucosporidium, Rhodosporidium, Rhodotorula, Sporidiobolus, and Sporobolomyces, and a new alanine-containing ferrichrome from Cryptococcus melibiosum.
  54. (2009). Phylogenetic analysis of inflammatory bowel disease associated Escherichia coli and the fimH virulence determinant. Inflamm Bowel Dis
  55. (2007). Postle K: Studies on colicin B translocation: FepA is gated by TonB. Mol Microbiol
  56. (2000). Proposal for a new inclusive designation for extraintestinal pathogenic isolates of Escherichia coli:
  57. (2005). Ramachandran S: SPAAN: a software program for prediction of adhesins and adhesin-like proteins using neural networks. Bioinformatics
  58. (2002). RS: The immunology of mucosal models of inflammation. Annu Rev Immunol
  59. (2007). S: MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol
  60. (1999). Salzberg SL: Improved microbial gene identification with GLIMMER.
  61. (2009). Similarity and divergence among adherent-invasive Escherichia coli and extraintestinal pathogenic E. coli strains.
  62. (2005). SM: Iron and fur regulation in Vibrio cholerae and the role of fur in virulence. Infect Immun
  63. (2001). SM: TonB-dependent systems of uropathogenic Escherichia coli: aerobactin and heme transport and TonB are required for virulence in the mouse. Infect Immun
  64. (2009). ST: The type VI secretion system: translocation of effectors and effector-domains. Curr Opin Microbiol
  65. (2008). Tamura K: MEGA: a biologist-centric software for evolutionary analysis of DNA and protein sequences. Brief Bioinformatics
  66. (2007). TD: Discovery of Fur binding site clusters in Escherichia coli by information theory models. Nucleic Acids Res
  67. (2010). Testing the efficacy and toxicity of adenylyl cyclase inhibitors against enteric pathogens using in vitro and in vivo models of infection. Infect Immun
  68. (2008). The CGView Server: a comparative genomics tool for circular genomes. Nucleic Acids Res
  69. (2007). The fundamental basis of inflammatory bowel disease.
  70. (2010). The GimA locus of extraintestinal pathogenic E. coli: does reductive evolution correlate with habitat and pathotype? PLoS ONE
  71. (2008). Type VI secretion: a beginner’s guide. Curr Opin Microbiol
  72. (1999). Tytgat G: The intestinal mucus layer from patients with inflammatory bowel disease harbors high numbers of bacteria compared with controls. Gastroenterology
  73. (2007). Unravelling the pathogenesis of inflammatory bowel disease. Nature
  74. (1992). Virulence properties of Escherichia coli strains isolated from patients with inflammatory bowel disease. Gut
  75. (2010). VP: Pan-genome sequence analysis using Panseq: an online tool for the rapid analysis of core and accessory genomic regions.
  76. (2005). Wishart DS: Circular genome visualization and exploration using CGView. Bioinformatics