Whole-genome analysis of extraintestinal Escherichia coli sequence type 73 from a single hospital over a 2 year period identified different circulating clonal groups. Issue 1 (27th February 2019)

• Record Type: Journal Article
• Authors: Bogema, D. R.; McKinnon, J.; Liu, M.; Hitchick, N.; Miller, N.; Venturini, C.; Iredell, J.; Darling, A. E.; Roy Chowdury, P.; Djordjevic, S. P.
• Is Part Of: Microbial genomics. Volume 6:Issue 1(2020)
• Publication Date: 2019-02-27
• Subjects: uropathogenic Escherichia coli -- class 1 integron; Microbial genomics -- Periodicals; 572.8629
• DOI: 10.1099/mgen.0.000255
• Languages: English
• ISSNs: 2057-5858

Abstract

Abstract : Sequence type (ST)73 has emerged as one of the most frequently isolated extraintestinal pathogenic Escherichia coli . To examine the localized diversity of ST73 clonal groups, including their mobile genetic element profile, we sequenced the genomes of 16 multiple-drug resistant ST73 isolates from patients with urinary tract infection from a single hospital in Sydney, Australia, between 2009 and 2011. Genome sequences were used to generate a SNP-based phylogenetic tree to determine the relationship of these isolates in a global context with ST73 sequences ( n =210) from public databases. There was no evidence of a dominant outbreak strain of ST73 in patients from this hospital, rather we identified at least eight separate groups, several of which reoccurred, over a 2 year period. The inferred phylogeny of all ST73 strains ( n =226) including the ST73 clone D i2 reference genome shows high bootstrap support and clusters into four major groups that correlate with serotype. The Sydney ST73 strains carry a wide variety of virulence-associated genes, but the presence of iss, pic and several iron-acquisition operons was notable.