Circulation of Extended-Spectrum Beta-Lactamase-Producing Escherichia coli of Pandemic Sequence Types 131, 648, and 410 Among Hospitalized Patients, Caregivers, and the Community in Rwanda

Flies from a tertiary hospital in Rwanda carry multidrug-resistant Gram-negative pathogens including extended-spectrum beta-lactamase-producing E. coli sequence type 131

(2020) Stefan E. Heiden et al.   Antimicrobial Resistance and Infection Control

Co-occurrence of aminoglycoside and β-lactam resistance mechanisms in aminoglycoside- non-susceptible Escherichia coli isolated in the Zurich area, Switzerland

(2020) Elias Bodendoerfer et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

Deadly Puppy Infection Caused by an MDR Escherichia coli O39 blaCTX–M–15, blaCMY–2, blaDHA–1, and aac(6)-Ib-cr – Positive in a Breeding Kennel in Central Italy

(2020) Vittoria Mattioni Marchetti et al.   Frontiers in Microbiology

Genomic surveillance of Escherichia coli ST131 identifies local expansion and serial replacement of subclones

(2020) Catherine Ludden et al.   Microbial Genomics

The mcr-9 Gene of Salmonella and Escherichia coli Is Not Associated with Colistin Resistance in the United States

(2020) Gregory H. Tyson et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Beneficial Chromosomal Integration of the Genes for CTX-M Extended-Spectrum β-Lactamase in Klebsiella pneumoniae for Stable Propagation

(2020) Eun-Jeong Yoon et al.   mSystems

Zoonotic Diseases: Etiology, Impact, and Control

(2020) Md. Tanvir Rahman et al.   Microorganisms

A Klebsiella pneumoniae ST307 outbreak clone from Germany demonstrates features of extensive drug resistance, hypermucoviscosity, and enhanced iron acquisition

(2020) Stefan E. Heiden et al.   Genome Medicine

Genomic and functional analysis of emerging virulent and multi-drug resistant E. coli lineage ST648

(2019) Katharina Schaufler et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference

(2019) Alexey M Kozlov et al.   BIOINFORMATICS

Interactive Tree Of Life (iTOL) v4: recent updates and new developments

(2019) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Identification of Novel Mobilized Colistin Resistance Gene mcr-9 in a Multidrug-Resistant, Colistin-Susceptible Salmonella enterica Serotype Typhimurium Isolate

(2019) Laura M. Carroll et al.   mBio

mcr-9, an inducible gene encoding an acquired phosphoethanolamine transferase in Escherichia coli, and its origin

(2019) Nicolas Kieffer et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Global Extraintestinal Pathogenic Escherichia coli (ExPEC) Lineages

(2019) Amee R. Manges et al.   CLINICAL MICROBIOLOGY REVIEWS

An Escherichia coli ST131 pangenome atlas reveals population structure and evolution across 4,071 isolates

(2019) Arun Gonzales Decano et al.   Scientific Reports

Biofilms facilitate cheating and social exploitation of β-lactam resistance in Escherichia coli

(2019) Elli Amanatidou et al.   npj Biofilms and Microbiomes

Ready‐to‐eat street food: a potential source for dissemination of multidrug‐resistant Escherichia coli epidemic clones in Quito, Ecuador

(2019) J. Zurita et al.   LETTERS IN APPLIED MICROBIOLOGY

A large self-transmissible resistance plasmid from Nigeria contains genes that ameliorate a carrying cost

(2019) Rubén Monárrez et al.   Scientific Reports

ESBL-plasmid carriage in E. coli enhances in vitro bacterial competition fitness and serum resistance in some strains of pandemic sequence types without overall fitness cost

(2018) Amit Ranjan et al.   Gut Pathogens

Clinically Relevant ESBL-Producing K. pneumoniae ST307 and E. coli ST38 in an Urban West African Rat Population

(2018) Katharina Schaufler et al.   Frontiers in Microbiology

Chromosomally encoded ESBL genes in Escherichia coli of ST38 from Mongolian wild birds

(2017) Sebastian Guenther et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

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

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

Assessment of antibiotic use in farm animals in Rwanda

(2017) Rosine Manishimwe et al.   TROPICAL ANIMAL HEALTH AND PRODUCTION

Intense pre-admission carriage and further acquisition of ESBL-producing Enterobacteriaceae among patients and their caregivers in a tertiary hospital in Rwanda

(2017) Mathis S. E. Kurz et al.   TROPICAL MEDICINE & INTERNATIONAL HEALTH

Comparative Genomic Analysis of Globally Dominant ST131 Clone with Other Epidemiologically Successful Extraintestinal Pathogenic Escherichia coli (ExPEC) Lineages

(2017) Sabiha Shaik et al.   mBio

Five-Year Antimicrobial Susceptibility Trends Among Bacterial Isolates from a Tertiary Health-Care Facility in Kigali, Rwanda

(2016) Makeda Carroll et al.   AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE

Phylogenetic diversity, antimicrobial susceptibility and virulence characteristics of phylogroup F Escherichia coli in Australia

(2016) Belinda Vangchhia et al.   MICROBIOLOGY-SGM

Combined Analysis of Variation in Core, Accessory and Regulatory Genome Regions Provides a Super-Resolution View into the Evolution of Bacterial Populations

(2016) Alan McNally et al.   PLoS Genetics

Carriage of Extended-Spectrum Beta-Lactamase-Plasmids Does Not Reduce Fitness but Enhances Virulence in Some Strains of Pandemic E. coli Lineages

(2016) Katharina Schaufler et al.   Frontiers in Microbiology

High Prevalence of Antimicrobial Resistance Among Common Bacterial Isolates in a Tertiary Healthcare Facility in Rwanda

(2015) Cyprien Ntirenganya et al.   AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE

Pattern of antimicrobial usage in livestock animals in south-western Nigeria: The need for alternative plans

(2015) Hezekiah K. Adesokan et al.   ONDERSTEPOORT JOURNAL OF VETERINARY RESEARCH

Prevalence and patterns of antimicrobial resistance among Escherichia coli isolated from Zambian dairy cattle across different production systems

(2015) Geoffrey Mainda et al.   Scientific Reports

CTX-M-15-D-ST648 Escherichia coli from companion animals and horses: another pandemic clone combining multiresistance and extraintestinal virulence?

(2014) C. Ewers et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

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

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

Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement

(2014) Bruce J. Walker et al.   PLoS One

Dissemination of Cephalosporin Resistance Genes between Escherichia coli Strains from Farm Animals and Humans by Specific Plasmid Lineages

(2014) Mark de Been et al.   PLoS Genetics

Curli biogenesis: Order out of disorder

(2013) Margery L. Evans et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Antimicrobial Resistance and Virulence: a Successful or Deleterious Association in the Bacterial World?

(2013) A. Beceiro et al.   CLINICAL MICROBIOLOGY REVIEWS

Multiresistant Uropathogenic Escherichia coli from a Region in India Where Urinary Tract Infections Are Endemic: Genotypic and Phenotypic Characteristics of Sequence Type 131 Isolates of the CTX-M-15 Extended-Spectrum-β-Lactamase-Producing Lineage

(2012) Arif Hussain et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

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

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

DNA Sequence Analysis of Plasmids from Multidrug Resistant Salmonella enterica Serotype Heidelberg Isolates

(2012) Jing Han et al.   PLoS One

Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011

(2012) Y. H. Grad et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2012) Olivier Clermont et al.   Environmental Microbiology Reports

Extraintestinal Pathogenic Escherichia coli: A Combination of Virulence with Antibiotic Resistance

(2012) Johann D. D. Pitout   Frontiers in Microbiology

A survey of antimicrobial usage in animals in South Africa with specific reference to food animals

(2012) Hayley Eagar et al.   Journal of the South African Veterinary Association

Decreased Susceptibility to Commonly Used Antimicrobial Agents in Bacterial Pathogens Isolated from Urinary Tract Infections in Rwanda: Need for New Antimicrobial Guidelines

(2011) Claude Mambo Muvunyi et al.   AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE

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

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

Multidrug-resistant, extensively drug-resistant and pandrug-resistant bacteria: an international expert proposal for interim standard definitions for acquired resistance

(2011) A.-P. Magiorakos et al.   CLINICAL MICROBIOLOGY AND INFECTION

Animal and human pathogenic Escherichia coli strains share common genetic backgrounds

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

Plasmids in Gram negatives: Molecular typing of resistance plasmids

(2011) Alessandra Carattoli   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY

Emergence of human pandemic O25:H4-ST131 CTX-M-15 extended-spectrum-β-lactamase-producing Escherichia coli among companion animals

(2010) Christa Ewers et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Organised Genome Dynamics in the Escherichia coli Species Results in Highly Diverse Adaptive Paths

(2009) Marie Touchon et al.   PLoS Genetics

Phylogenetic and genomic diversity of human bacteremic Escherichia coli strains

(2008) Françoise Jaureguy et al.   BMC GENOMICS

Antimicrobial-Resistant Pathogens Associated With Healthcare-Associated Infections: Annual Summary of Data Reported to the National Healthcare Safety Network at the Centers for Disease Control and Prevention, 2006–2007

(2008) Alicia I. Hidron et al.   INFECTION CONTROL AND HOSPITAL EPIDEMIOLOGY