Transmission of Similar Mcr-1 Carrying Plasmids among Different Escherichia coli Lineages Isolated from Livestock and the Farmer

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

Assembly of long, error-prone reads using repeat graphs

(2019) Mikhail Kolmogorov et al.   NATURE BIOTECHNOLOGY

Genomic and antimicrobial resistance genes diversity in multidrug-resistant CTX-M-positive isolates of Escherichia coli at a health care facility in Jeddah

(2019) Muhammad Yasir et al.   Journal of Infection and Public Health

High prevalence of non-O157 Shiga toxin-producing Escherichia coli in beef cattle detected by combining four selective agars

(2019) Ruyue Fan et al.   BMC MICROBIOLOGY

The evolution and transmission of multi-drug resistant Escherichia coli and Klebsiella pneumoniae: the complexity of clones and plasmids

(2019) Steven J Dunn et al.   CURRENT OPINION IN MICROBIOLOGY

Minimap2: pairwise alignment for nucleotide sequences

(2018) Heng Li   BIOINFORMATICS

Multiplex PCR for detection of plasmid-mediated colistin resistance determinants, mcr-1, mcr-2, mcr-3, mcr-4 and mcr-5 for surveillance purposes

(2018) Ana Rita Rebelo et al.   Eurosurveillance

Current epidemiology, genetic evolution and clinical impact of extended-spectrum β-lactamase-producing Escherichia coli and Klebsiella pneumoniae

(2018) Yong Chong et al.   INFECTION GENETICS AND EVOLUTION

oriTfinder: a web-based tool for the identification of origin of transfers in DNA sequences of bacterial mobile genetic elements

(2018) Xiaobin Li et al.   NUCLEIC ACIDS RESEARCH

Heterogeneous and Flexible Transmission of mcr-1 in Hospital-Associated Escherichia coli

(2018) Yingbo Shen et al.   mBio

The global distribution and spread of the mobilized colistin resistance gene mcr-1

(2018) Ruobing Wang et al.   Nature Communications

Fitness Advantage of mcr-1–Bearing IncI2 and IncX4 Plasmids in Vitro

(2018) Renjie Wu et al.   Frontiers in Microbiology

Mobile Genetic Elements Associated with Antimicrobial Resistance

(2018) Sally R. Partridge et al.   CLINICAL MICROBIOLOGY REVIEWS

Evolution of Plasmid-Mediated Antibiotic Resistance in the Clinical Context

(2018) Alvaro San Millan   TRENDS IN MICROBIOLOGY

Antimicrobial Resistance Profile of mcr-1 Positive Clinical Isolates of Escherichia coli in China From 2013 to 2016

(2018) Baiyuan Li et al.   Frontiers in Microbiology

A mcr-1-Carrying Conjugative IncX4 Plasmid in Colistin-Resistant Escherichia coli ST278 Strain Isolated From Dairy Cow Feces in Shanghai, China

(2018) Fengjia Bai et al.   Frontiers in Microbiology

Co-occurrence of colistin-resistance genes mcr-1 and mcr-3 among multidrug-resistant Escherichia coli isolated from cattle, Spain, September 2015

(2017) Marta Hernández et al.   Eurosurveillance

Novel plasmid-mediated colistin resistance mcr-4 gene in Salmonella and Escherichia coli, Italy 2013, Spain and Belgium, 2015 to 2016

(2017) Alessandra Carattoli et al.   Eurosurveillance

Fast and accurate de novo genome assembly from long uncorrected reads

(2017) Robert Vaser et al.   GENOME RESEARCH

Global epidemiology of CTX-M β-lactamases: temporal and geographical shifts in genotype

(2017) Edward R. Bevan et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Identification of a novel transposon-associated phosphoethanolamine transferase gene, mcr-5, conferring colistin resistance in d-tartrate fermenting Salmonella enterica subsp. enterica serovar Paratyphi B

(2017) Maria Borowiak et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Novel Plasmid-Mediated Colistin Resistance Gene mcr-3 in Escherichia coli

(2017) Wenjuan Yin et al.   mBio

Genetic Analysis of the IncX4 Plasmids: Implications for a Unique Pattern in the mcr-1 Acquisition

(2017) Jian Sun et al.   Scientific Reports

Types and prevalence of extended–spectrum beta–lactamase producing Enterobacteriaceae in poultry

(2017) Eva-Maria Saliu et al.   ANIMAL HEALTH RESEARCH REVIEWS

Key features of mcr-1-bearing plasmids from Escherichia coli isolated from humans and food

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

Identification of a novel plasmid-mediated colistin-resistance gene,mcr-2, inEscherichia coli, Belgium, June 2016

(2016) Basil Britto Xavier et al.   Eurosurveillance

Genetic characterization of mcr-1 -bearing plasmids to depict molecular mechanisms underlying dissemination of the colistin resistance determinant

(2016) Ruichao Li et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Emergence of plasmid-mediated colistin resistance mechanism MCR-1 in animals and human beings in China: a microbiological and molecular biological study

(2016) Yi-Yun Liu et al.   LANCET INFECTIOUS DISEASES

PHASTER: a better, faster version of the PHAST phage search tool

(2016) David Arndt et al.   NUCLEIC ACIDS RESEARCH

CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database

(2016) Baofeng Jia et al.   NUCLEIC ACIDS RESEARCH

NCBI prokaryotic genome annotation pipeline

(2016) Tatiana Tatusova et al.   NUCLEIC ACIDS RESEARCH

Are Escherichia coli Pathotypes Still Relevant in the Era of Whole-Genome Sequencing?

(2016) Roy M. Robins-Browne et al.   Frontiers in Cellular and Infection Microbiology

Bandage: interactive visualization ofde novogenome assemblies: Fig. 1.

(2015) Ryan R. Wick et al.   BIOINFORMATICS

Antimicrobial Resistance in Hospital-Acquired Gram-Negative Bacterial Infections

(2015) Borna Mehrad et al.   CHEST

Use of colistin-containing products within the European Union and European Economic Area (EU/EEA): development of resistance in animals and possible impact on human and animal health

(2015) Boudewijn Catry et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

Rapid and Easy In Silico Serotyping of Escherichia coli Isolates by Use of Whole-Genome Sequencing Data

(2015) Katrine G. Joensen et al.   JOURNAL OF CLINICAL MICROBIOLOGY

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

(2015) Lihong Chen et al.   NUCLEIC ACIDS RESEARCH

Antimicrobial usage in 60 Swedish farrow-to-finish pig herds

(2015) Marie Sjölund et al.   PREVENTIVE VETERINARY MEDICINE

Cross-Sectional Study on Antibiotic Usage in Pigs in Germany

(2015) Lisa van Rennings et al.   PLoS One

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

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

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Solving the Problem of Comparing Whole Bacterial Genomes across Different Sequencing Platforms

(2014) Rolf S. Kaas et al.   PLoS One

Shiga toxin-producing Escherichia coli in human, cattle, and foods. Strategies for detection and control

(2014) Nora L. Padola et al.   Frontiers in Cellular and Infection Microbiology

Humans and Cattle: A Review of Bovine Zoonoses

(2013) Clinton J. McDaniel et al.   VECTOR-BORNE AND ZOONOTIC DISEASES

Multilocus Sequence Typing of Total-Genome-Sequenced Bacteria

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

Prophylactic and metaphylactic antimicrobial use in Belgian fattening pig herds

(2012) Bénédicte Callens et al.   PREVENTIVE VETERINARY MEDICINE

BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons

(2011) Nabil-Fareed Alikhan et al.   BMC GENOMICS

Livestock infectious diseases and zoonoses

(2009) F. M. Tomley et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Assessing the antimicrobial susceptibility of bacteria obtained from animals

(2009) Stefan Schwarz et al.   VETERINARY MICROBIOLOGY