Colistin resistance in Parisian inpatient faecal Escherichia coli as the result of two distinct evolutionary pathways

Prospective study on human fecal carriage of Enterobacteriaceae possessing mcr-1 and mcr-2 genes in a regional hospital in Hong Kong

(2018) Wai-Sing Chan et al.   BMC INFECTIOUS DISEASES

Prevalence of carriage of extended-spectrum β-lactamase-producing enterobacteria and associated factors in a French hospital

(2018) S. Jolivet et al.   CLINICAL MICROBIOLOGY AND INFECTION

Emergence of blaCTX-M-55 associated with fosA, rmtB and mcr gene variants in Escherichia coli from various animal species in France

(2018) Agnese Lupo et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

The Odyssey of the Ancestral Escherich Strain through Culture Collections: an Example of Allopatric Diversification

(2018) M. Desroches et al.   mSphere

Extensive impact of non-antibiotic drugs on human gut bacteria

(2018) Lisa Maier et al.   NATURE

Intestinal colonisation with extended-spectrum cephalosporin- and colistin-resistant Enterobacteriaceae in HIV-positive individuals in Switzerland: molecular features and risk factors

(2017) João Pires et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

Resistance to polymyxins in Gram-negative organisms

(2017) Katy Jeannot et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

Colistin resistance gene mcr-1 in gut flora of children

(2017) Yan-yan Hu et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

Modifications in the pmrB gene are the primary mechanism for the development of chromosomally encoded resistance to polymyxins in uropathogenic Escherichia coli

(2017) Minh-Duy Phan et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Prevalence of faecal carriage of colistin-resistant Gram-negative rods in a university hospital in western France, 2016

(2017) Marion Saly et al.   JOURNAL OF MEDICAL MICROBIOLOGY

Prevalence, risk factors, outcomes, and molecular epidemiology of mcr-1 -positive Enterobacteriaceae in patients and healthy adults from China: an epidemiological and clinical study

(2017) Yang Wang et al.   LANCET INFECTIOUS DISEASES

Screening for fecal carriage of MCR-producing Enterobacteriaceae in healthy humans and primary care patients

(2017) Katrin Zurfluh et al.   Antimicrobial Resistance and Infection Control

Expanding landscapes of the diversified mcr-1-bearing plasmid reservoirs

(2017) Qingjing Wang et al.   Microbiome

Prevalence of colistin resistance gene (mcr-1) containing Enterobacteriaceae in feces of patients attending a tertiary care hospital and detection of a mcr-1 containing, colistin susceptible E. coli

(2017) Elisabeth M. Terveer et al.   PLoS One

An allelic variant of the PmrB sensor kinase responsible for colistin resistance in an Escherichia coli strain of clinical origin

(2017) Antonio Cannatelli et al.   Scientific Reports

Global phylogenetic analysis of Escherichia coli and plasmids carrying the mcr-1 gene indicates bacterial diversity but plasmid restriction

(2017) Sébastien Matamoros et al.   Scientific Reports

Genetic Features of MCR-1-Producing Colistin-Resistant Escherichia coli Isolates in South Africa

(2016) Laurent Poirel et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Two levels of specialization in bacteraemic Escherichia coli strains revealed by their comparison with commensal strains

(2016) O. CLERMONT et al.   EPIDEMIOLOGY AND INFECTION

National survey of colistin resistance among carbapenemase-producingEnterobacteriaceaeand outbreak caused by colistin-resistant OXA-48-producingKlebsiella pneumoniae, France, 2014

(2016) Aurélie Jayol et al.   Eurosurveillance

Emergence of polymyxin resistance in Gram-negative bacteria

(2016) Abiola Olumuyiwa Olaitan et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

Detection of the plasmid-mediated colistin-resistance genemcr-1in faecal metagenomes of Dutch travellers

(2016) Christian J. H. von Wintersdorff et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

A Universal Culture Medium for Screening Polymyxin-Resistant Gram-Negative Isolates

(2016) Patrice Nordmann et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Phylogenetic, virulence and antibiotic resistance characteristics of commensal strain populations of Escherichia coli from community subjects in the Paris area in 2010 and evolution over 30 years

(2016) Méril Massot et al.   MICROBIOLOGY-SGM

Escherichia coli Population Structure and Antibiotic Resistance at a Buffalo/Cattle Interface in Southern Africa

(2015) Mathilde Mercat et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

French recommendations for the prevention of ‘emerging extensively drug-resistant bacteria’ (eXDR) cross-transmission

(2015) D. Lepelletier et al.   JOURNAL OF HOSPITAL INFECTION

Emergence of Antimicrobial-ResistantEscherichia coliof Animal Origin Spreading in Humans

(2015) David Skurnik et al.   MOLECULAR BIOLOGY AND EVOLUTION

VFDB 2016: hierarchical and refined dataset for big data analysis—10 years on

(2015) Lihong Chen et al.   NUCLEIC ACIDS RESEARCH

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

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

Ragout--a reference-assisted assembly tool for bacterial genomes

(2014) M. Kolmogorov et al.   BIOINFORMATICS

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Polymorphism of genes encoding PmrAB in colistin-resistant strains of Escherichia coli and Salmonella enterica isolated from poultry and swine

(2014) Alberto Quesada et al.   JOURNAL OF ANTIMICROBIAL 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

SRST2: Rapid genomic surveillance for public health and hospital microbiology labs

(2014) Michael Inouye et al.   Genome Medicine

QUAST: quality assessment tool for genome assemblies

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Evolution of Escherichia coli rifampicin resistance in an antibiotic-free environment during thermal stress

(2013) Alejandra Rodríguez-Verdugo et al.   BMC EVOLUTIONARY BIOLOGY

Population structure and virulence content of avian pathogenic Escherichia coli isolated from outbreaks in Sri Lanka

(2013) D.R.A. Dissanayake et al.   VETERINARY MICROBIOLOGY

Identification of acquired antimicrobial resistance genes

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

Genome Sequence of Escherichia coli J53, a Reference Strain for Genetic Studies

(2012) H. Yi et al.   JOURNAL OF BACTERIOLOGY

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

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

The Molecular Diversity of Adaptive Convergence

(2012) O. Tenaillon et al.   SCIENCE

The ClermontEscherichia coliphylo-typing method revisited: improvement of specificity and detection of new phylo-groups

(2012) Olivier Clermont et al.   Environmental Microbiology Reports

Animal and human pathogenic Escherichia coli strains share common genetic backgrounds

(2011) Olivier Clermont et al.   INFECTION GENETICS AND EVOLUTION

Genetic Analysis of Colistin Resistance in Salmonella enterica Serovar Typhimurium

(2009) S. Sun et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Biopython: freely available Python tools for computational molecular biology and bioinformatics

(2009) P. J. A. Cock et al.   BIOINFORMATICS

FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix

(2009) M. N. Price et al.   MOLECULAR BIOLOGY AND EVOLUTION