title: Complete genome sequence and comparative metabolic profiling of the prototypical enteroaggregative Escherichia coli strain 042.
abstract: BACKGROUND
  Escherichia coli can experience a multifaceted life, in some cases acting as a commensal while in other cases causing intestinal and/or extraintestinal disease. Several studies suggest enteroaggregative E. coli are the predominant cause of E. coli-mediated diarrhea in the developed world and are second only to Campylobacter sp. as a cause of bacterial-mediated diarrhea. Furthermore, enteroaggregative E. coli are a predominant cause of persistent diarrhea in the developing world where infection has been associated with malnourishment and growth retardation.
  
  
  METHODS
  In this study we determined the complete genomic sequence of E. coli 042, the prototypical member of the enteroaggregative E. coli, which has been shown to cause disease in volunteer studies. We performed genomic and phylogenetic comparisons with other E. coli strains revealing previously uncharacterised virulence factors including a variety of secreted proteins and a capsular polysaccharide biosynthetic locus. In addition, by using Biolog Phenotype Microarrays we have provided a full metabolic profiling of E. coli 042 and the non-pathogenic lab strain E. coli K-12. We have highlighted the genetic basis for many of the metabolic differences between E. coli 042 and E. coli K-12.
  
  
  CONCLUSIONS
  This study provides a genetic context for the vast amount of experimental and epidemiological data published thus far and provides a template for future diagnostic and intervention strategies.
authors.affiliation: Department of Veterinary Medicine, University of Cambridge, Cambridge, United Kingdom.
authors.forename: Roy R
authors.initials: RR
authors.lastname: Chaudhuri
authors.forename: Mohammed
authors.initials: M
authors.lastname: Sebaihia
authors.forename: Jon L
authors.initials: JL
authors.lastname: Hobman
authors.forename: Mark A
authors.initials: MA
authors.lastname: Webber
authors.forename: Denisse L
authors.initials: DL
authors.lastname: Leyton
authors.forename: Martin D
authors.initials: MD
authors.lastname: Goldberg
authors.forename: Adam F
authors.initials: AF
authors.lastname: Cunningham
authors.forename: Anthony
authors.initials: A
authors.lastname: Scott-Tucker
authors.forename: Paul R
authors.initials: PR
authors.lastname: Ferguson
authors.forename: Christopher M
authors.initials: CM
authors.lastname: Thomas
authors.forename: Gad
authors.initials: G
authors.lastname: Frankel
authors.forename: Christoph M
authors.initials: CM
authors.lastname: Tang
authors.forename: Edward G
authors.initials: EG
authors.lastname: Dudley
authors.forename: Ian S
authors.initials: IS
authors.lastname: Roberts
authors.forename: David A
authors.initials: DA
authors.lastname: Rasko
authors.forename: Mark J
authors.initials: MJ
authors.lastname: Pallen
authors.forename: Julian
authors.initials: J
authors.lastname: Parkhill
authors.forename: James P
authors.initials: JP
authors.lastname: Nataro
authors.forename: Nicholas R
authors.initials: NR
authors.lastname: Thomson
authors.forename: Ian R
authors.initials: IR
authors.lastname: Henderson
mesh_terms: D000595:Amino Acid Sequence; D000900:Anti-Bacterial Agents / Q000494:pharmacology; D001425:Bacterial Outer Membrane Proteins / Q000737:chemistry; D001483:Base Sequence; D002244:Carbon / Q000378:metabolism; D017931:DNA Primers; D004926:Escherichia coli / Q000145:classification / Q000187:drug effects / Q000235:genetics* / Q000378:metabolism; D004927:Escherichia coli Infections / Q000382:microbiology; D029968:Escherichia coli Proteins / Q000737:chemistry; D016680:Genome, Bacterial; D054884:Host-Pathogen Interactions; D006801:Humans; D007501:Iron / Q000378:metabolism; D008826:Microbial Sensitivity Tests; D008969:Molecular Sequence Data; D010802:Phylogeny
chemical_list: D000900:Anti-Bacterial Agents; D001425:Bacterial Outer Membrane Proteins; D017931:DNA Primers; D029968:Escherichia coli Proteins; C517387:YtfM protein, E coli; D002244:Carbon; D007501:Iron