Draft genome sequence of a CTX-M-8, CTX-M-55 and FosA3 co-producing Escherichia coli ST117/B2 isolated from an asymptomatic carrier

Miriam R Fernandes; Fábio P Sellera; Quézia Moura; Tiago A Souza; Nilton Lincopan

doi:10.1016/j.jgar.2018.01.015

Draft genome sequence of a CTX-M-8, CTX-M-55 and FosA3 co-producing Escherichia coli ST117/B2 isolated from an asymptomatic carrier

J Glob Antimicrob Resist. 2018 Mar:12:183-184. doi: 10.1016/j.jgar.2018.01.015. Epub 2018 Feb 22.

Authors

Miriam R Fernandes¹, Fábio P Sellera², Quézia Moura³, Tiago A Souza⁴, Nilton Lincopan⁵

Affiliations

¹ Department of Clinical Analysis, Faculty of Pharmaceutical Sciences, University of São Paulo, São Paulo, Brazil. Electronic address: miriamrfernandes@usp.br.
² Department of Internal Medicine, School of Veterinary Medicine and Animal Science, University of São Paulo, São Paulo, Brazil.
³ Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil.
⁴ Genome Investigation and Analysis Laboratory (GENIAL), Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil.
⁵ Department of Internal Medicine, School of Veterinary Medicine and Animal Science, University of São Paulo, São Paulo, Brazil; Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil. Electronic address: lincopan@usp.br.

PMID: 29412182
DOI: 10.1016/j.jgar.2018.01.015

Abstract

Objectives: Asymptomatic carriers can act as reservoirs of multidrug-resistant (MDR) bacteria. The aim of this study was to describe the draft genome sequence of a MDR Escherichia coli lineage recovered from a faecal sample of a healthy carrier.

Methods: Genomic DNA was sequenced on an Illumina NextSeq platform. Sequence reads were de novo assembled using CLC Genomics Workbench and the whole genome sequence was evaluated through bioinformatics tools available from the Center of Genomic Epidemiology as well as additional in silico analysis.

Results: The genome size was calculated as 5178340 bp, with 5442 protein-coding sequences and 5492 total genes. Presence of the bla_CTX-M-8, bla_CTX-M-55 and fosA3 genes was detected in addition to other antimicrobial resistance genes. Interestingly, the strain was assigned to serotype O8:H4-fimH97 and was classified within the highly virulent phylogroup B2.

Conclusion: This draft genome can provide helpful information to elucidate genetic features that contribute to colonisation and adaptation of MDR and virulent pathogens in asymptomatic carriers.

Keywords: ESBL; Escherichia coli; Extended-spectrum β-lactamase; Human; Virulent; Whole-genome sequencing.

Publication types

Case Reports

MeSH terms

Anti-Bacterial Agents / pharmacology
Asymptomatic Diseases
Base Sequence
Carrier State / microbiology*
Drug Resistance, Multiple, Bacterial
Escherichia coli / drug effects
Escherichia coli / genetics*
Escherichia coli / isolation & purification*
Escherichia coli Infections / microbiology*
Escherichia coli Proteins / genetics
Escherichia coli Proteins / metabolism*
Female
Genome, Bacterial*
Humans
Microbial Sensitivity Tests
Middle Aged
Mutation
beta-Lactamases / genetics
beta-Lactamases / metabolism*

Substances

Anti-Bacterial Agents
Escherichia coli Proteins
FosA(3) protein, E coli
beta-Lactamases
beta-lactamase CTX-M-55, E coli