Antimicrobial resistance in Shiga toxin-producing Escherichia coli other than serotype O157 : H7 in England, 2014–2016

One Health Genomic Surveillance of Escherichia coli Demonstrates Distinct Lineages and Mobile Genetic Elements in Isolates from Humans versus Livestock

(2019) Catherine Ludden et al.   mBio

The epidemiology of Shiga toxin-producing Escherichia coli infections in the South East of England: November 2013–March 2017 and significance for clinical and public health

(2019) Kevin J. Carroll et al.   JOURNAL OF MEDICAL MICROBIOLOGY

Genomic epidemiology of Shigella in the United Kingdom shows transmission of pathogen sublineages and determinants of antimicrobial resistance

(2018) Kate S. Baker et al.   Scientific Reports

Prediction of Phenotypic Antimicrobial Resistance Profiles From Whole Genome Sequences of Non-typhoidal Salmonella enterica

(2018) Saskia Neuert et al.   Frontiers in Microbiology

Characteristics of Shiga toxin producing- and enteropathogenic Escherichia coli of the emerging serotype O80:H2 isolated from humans and diarrhoeic calves in Belgium

(2018) K. De Rauw et al.   CLINICAL MICROBIOLOGY AND INFECTION

Recurrent seasonal outbreak of an emerging serotype of Shiga toxin-producing Escherichia coli (STEC O55:H7 Stx2a) in the south west of England, July 2014 to September 2015

(2017) Noëleen McFarland et al.   Eurosurveillance

Comparison of phenotypic and WGS-derived antimicrobial resistance profiles of Shigella sonnei isolated from cases of diarrhoeal disease in England and Wales, 2015

(2017) Zahra Sadouki et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Comparison of phenotypic and WGS-derived antimicrobial resistance profiles of enteroaggregative Escherichia coli isolated from cases of diarrhoeal disease in England, 2015–16

(2017) Vivienne Do Nascimento et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Antimicrobial resistance in Shiga toxin-producingEscherichia coliserogroups O157 and O26 isolated from human cases of diarrhoeal disease in England, 2015

(2016) Martin Day et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Disease severity of Shiga toxin-producingE. coliO157 and factors influencing the development of typical haemolytic uraemic syndrome: a retrospective cohort study, 2009–2012

(2016) N Launders et al.   BMJ Open

Whole Genome Sequencing for Public Health Surveillance of Shiga Toxin-Producing Escherichia coli Other than Serogroup O157

(2016) Marie A. Chattaway et al.   Frontiers in Microbiology

MOST: a modified MLST typing tool based on short read sequencing

(2016) Rediat Tewolde et al.   PeerJ

Cross-sectional survey of antibiotic resistance in Escherichia coli isolated from diseased farm livestock in England and Wales

(2015) T. E. A. CHENEY et al.   EPIDEMIOLOGY AND INFECTION

The epidemiology, microbiology and clinical impact of Shiga toxin-producing Escherichia coli in England, 2009–2012

(2015) L. BYRNE et al.   EPIDEMIOLOGY AND INFECTION

Intercontinental dissemination of azithromycin-resistant shigellosis through sexual transmission: a cross-sectional study

(2015) Kate S Baker et al.   LANCET INFECTIOUS DISEASES

Identification of verocytotoxin-producing Escherichia coli O117:H7 in men who have sex with men, England, November 2013 to August 2014

(2014) I Simms et al.   Eurosurveillance

Recent Advances in Understanding Enteric Pathogenic Escherichia coli

(2013) M. A. Croxen et al.   CLINICAL MICROBIOLOGY REVIEWS

Predicting antimicrobial susceptibilities for Escherichia coli and Klebsiella pneumoniae isolates using whole genomic sequence data

(2013) N. Stoesser et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Genotyping using whole-genome sequencing is a realistic alternative to surveillance based on phenotypic antimicrobial susceptibility testing

(2012) E. Zankari et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

CTX-M-15 Extended-Spectrum β-Lactamase in a Shiga Toxin-Producing Escherichia coli Isolate of Serotype O111:H8

(2011) Charlotte Valat et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS