Escherichia coli Sequence Type 410 Is Causing New International High-Risk Clones

First Report of an ST410 OXA-181 and CTX-M-15 Coproducing Escherichia coli Clone in Italy: A Whole-Genome Sequence Characterization

(2018) Aurora Piazza et al.   Microbial Drug Resistance

Molecular characterization of intestinal carriage of carbapenem-resistant Enterobacteriaceae among inpatients at two Iranian university hospitals: first report of co-production of bla NDM-7 and bla OXA-48

(2017) H. Solgi et al.   EUROPEAN JOURNAL OF CLINICAL MICROBIOLOGY & INFECTIOUS DISEASES

Ciprofloxacin-resistant and extended-spectrum β-lactamase-producing Escherichia coli ST410 strain carrying the mcr-1 gene associated with bloodstream infection

(2017) Igor Vasconcelos Rocha et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

WGS-based surveillance of third-generation cephalosporin-resistant Escherichia coli from bloodstream infections in Denmark

(2017) Louise Roer et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Development of a Web Tool for Escherichia coli Subtyping Based on fimH Alleles

(2017) Louise Roer et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Molecular epidemiology of carbapenemase-producing Enterobacteriaceae in a primary care hospital in Japan, 2010–2013

(2017) Yuki Ohno et al.   JOURNAL OF INFECTION AND CHEMOTHERAPY

A Geographically Widespread Outbreak Investigation and Development of a Rapid Screening Method Using Whole Genome Sequences of Enterohemorrhagic Escherichia coli O121

(2017) Ken-ichi Lee et al.   Frontiers in Microbiology

Circulation of clonal populations of fluoroquinolone-resistant CTX-M-15-producing Escherichia coli ST410 in humans and animals in Germany

(2016) Linda Falgenhauer et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

Benchmarking of methods for identification of antimicrobial resistance genes in bacterial whole genome data

(2016) Philip T. L. C. Clausen et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees

(2016) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Sequential Acquisition of Virulence and Fluoroquinolone Resistance Has Shaped the Evolution of Escherichia coli ST131

(2016) Nouri L. Ben Zakour et al.   mBio

Evolutionary History of the Global Emergence of the Escherichia coli Epidemic Clone ST131

(2016) Nicole Stoesser et al.   mBio

First identification of NDM-4-producing Escherichia coli ST410 in China

(2016) Shangshang Qin et al.   Emerging Microbes & Infections

First identification of NDM-5 associated with OXA-181 in Escherichia coli from Egypt

(2016) Doaa Gamal et al.   Emerging Microbes & Infections

A Novel Protective Vaccine Antigen from the Core Escherichia coli Genome

(2016) Danilo G. Moriel et al.   mSphere

A Bacterial Analysis Platform: An Integrated System for Analysing Bacterial Whole Genome Sequencing Data for Clinical Diagnostics and Surveillance

(2016) Martin Christen Frølund Thomsen et al.   PLoS One

First Report of OXA-181-Producing Escherichia coli in China and Characterization of the Isolate Using Whole-Genome Sequencing

(2015) Yanbin Liu et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

The Role of Epidemic Resistance Plasmids and International High-Risk Clones in the Spread of Multidrug-Resistant Enterobacteriaceae

(2015) Amy J. Mathers et al.   CLINICAL MICROBIOLOGY REVIEWS

Utility of Whole-Genome Sequencing of Escherichia coli O157 for Outbreak Detection and Epidemiological Surveillance

(2015) Anne Holmes et al.   JOURNAL OF CLINICAL MICROBIOLOGY

In SilicoDetection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing

(2014) Alessandra Carattoli et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Real-Time Whole-Genome Sequencing for Routine Typing, Surveillance, and Outbreak Detection of Verotoxigenic Escherichia coli

(2014) K. G. Joensen et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

(2014) Nicholas J. Croucher et al.   NUCLEIC ACIDS RESEARCH

Global dissemination of a multidrug resistant Escherichia coli clone

(2014) N. K. Petty et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Epidemic of Extended-Spectrum- -Lactamase-Producing Escherichia coli ST131 Is Driven by a Single Highly Pathogenic Subclone, H30-Rx

(2013) L. B. Price et al.   mBio

“Stormy waters ahead”: global emergence of carbapenemases

(2013) Gopi Patel et al.   Frontiers in Microbiology

An NDM-1-producing Escherichia coli obtained in Denmark has a genetic profile similar to an NDM-1-producing E. coli isolate from the UK

(2012) J. B. Nielsen et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Identification of acquired antimicrobial resistance genes

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

Multilocus Sequence Typing of Total-Genome-Sequenced Bacteria

(2012) M. V. Larsen et al.   JOURNAL OF CLINICAL MICROBIOLOGY

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Phylogenetic diversity of Escherichia coli strains producing NDM-type carbapenemases

(2011) S. Mushtaq et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

The emerging NDM carbapenemases

(2011) Patrice Nordmann et al.   TRENDS IN MICROBIOLOGY

Bloodstream Infections Caused by Metallo-β-Lactamase/Klebsiella pneumoniae Carbapenemase–Producing K. pneumoniae among Intensive Care Unit Patients in Greece: Risk Factors for Infection and Impact of Type of Resistance on Outcomes

(2010) Eleni Mouloudi et al.   INFECTION CONTROL AND HOSPITAL EPIDEMIOLOGY

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS