An Escherichia coli ST131 pangenome atlas reveals population structure and evolution across 4,071 isolates
出版年份 2019 全文链接
标题
An Escherichia coli ST131 pangenome atlas reveals population structure and evolution across 4,071 isolates
作者
关键词
-
出版物
Scientific Reports
Volume 9, Issue 1, Pages -
出版商
Springer Science and Business Media LLC
发表日期
2019-11-22
DOI
10.1038/s41598-019-54004-5
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注意:仅列出部分参考文献,下载原文获取全部文献信息。- 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
- Methodology for whole genome sequencing of MRSA in a routine hospital microbiology laboratory
- (2019) Kathy E. Raven et al. JOURNAL OF CLINICAL MICROBIOLOGY
- Fast and flexible bacterial genomic epidemiology with PopPUNK
- (2019) John A. Lees et al. GENOME RESEARCH
- Whole-genome sequences of multidrug-resistant Escherichia coli in South-Kivu Province, Democratic Republic of Congo: characterization of phylogenomic changes, virulence and resistance genes
- (2019) Leonid M. Irenge et al. BMC INFECTIOUS DISEASES
- An international outbreak of Salmonella enterica serotype Enteritidis linked to eggs from Poland: a microbiological and epidemiological study
- (2019) Roan Pijnacker et al. LANCET INFECTIOUS DISEASES
- Fast hierarchical Bayesian analysis of population structure
- (2019) Gerry Tonkin-Hill et al. NUCLEIC ACIDS RESEARCH
- Two Health or Not Two Health? That Is the Question
- (2019) William P. Hanage mBio
- Diversification of Colonization Factors in a Multidrug-Resistant Escherichia coli Lineage Evolving under Negative Frequency-Dependent Selection
- (2019) Alan McNally et al. mBio
- Large-Scale Genomics Reveals the Genetic Characteristics of Seven Species and Importance of Phylogenetic Distance for Estimating Pan-Genome Size
- (2019) Sang-Cheol Park et al. Frontiers in Microbiology
- Complete Assembly of Escherichia coli Sequence Type 131 Genomes Using Long Reads Demonstrates Antibiotic Resistance Gene Variation within Diverse Plasmid and Chromosomal Contexts
- (2019) Arun Gonzales Decano et al. mSphere
- Genome and plasmid diversity of Extended-Spectrum β-Lactamase-producing Escherichia coli ST131 – tracking phylogenetic trajectories with Bayesian inference
- (2019) Sofia Ny et al. Scientific Reports
- Detection of OXA-48-like-producing Enterobacterales in Irish recreational water
- (2019) Bláthnaid M. Mahon et al. SCIENCE OF THE TOTAL ENVIRONMENT
- OUP accepted manuscript
- (2018) BIOINFORMATICS
- Automated annotation of mobile antibiotic resistance in Gram-negative bacteria: the Multiple Antibiotic Resistance Annotator (MARA) and database
- (2018) Sally R Partridge et al. JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY
- A genomic overview of the population structure of Salmonella
- (2018) Nabil-Fareed Alikhan et al. PLoS Genetics
- ST131 fimH22 Escherichia coli isolate with a blaCMY-2/IncI1/ST12 plasmid obtained from a patient with bloodstream infection: highly similar to E. coli isolates of broiler origin
- (2018) Louise Roer et al. JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY
- The European Nucleotide Archive in 2018
- (2018) Peter W Harrison et al. NUCLEIC ACIDS RESEARCH
- Systematic longitudinal survey of invasive Escherichia coli in England demonstrates a stable population structure only transiently disturbed by the emergence of ST131
- (2017) Teemu Kallonen et al. GENOME RESEARCH
- Fast and accurate de novo genome assembly from long uncorrected reads
- (2017) Robert Vaser et al. GENOME RESEARCH
- Evaluation of meat, fruit and vegetables from retail stores in five United Kingdom regions as sources of extended-spectrum beta-lactamase (ESBL)-producing and carbapenem-resistant Escherichia coli
- (2017) L.P. Randall et al. INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY
- Global epidemiology of CTX-M β-lactamases: temporal and geographical shifts in genotype
- (2017) Edward R. Bevan et al. JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY
- Longitudinal genomic surveillance of multidrug-resistant Escherichia coli carriage in a long-term care facility in the United Kingdom
- (2017) Hayley J. Brodrick et al. Genome Medicine
- Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads
- (2017) Ryan R. Wick et al. PLoS Computational Biology
- Impact of extensive antibiotic treatment on faecal carriage of antibiotic-resistant enterobacteria in children in a low resistance prevalence setting
- (2017) Per Kristian Knudsen et al. PLoS One
- MultiQC: summarize analysis results for multiple tools and samples in a single report
- (2016) Philip Ewels et al. BIOINFORMATICS
- 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
- ggtree: anrpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data
- (2016) Guangchuang Yu et al. Methods in Ecology and Evolution
- 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
- Roary: rapid large-scale prokaryote pan genome analysis
- (2015) Andrew J. Page et al. BIOINFORMATICS
- 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
- The application of genomics to tracing bacterial pathogen transmission
- (2015) Nicholas J Croucher et al. CURRENT OPINION IN MICROBIOLOGY
- Extraintestinal PathogenicEscherichia coli, a Common Human Pathogen: Challenges for Vaccine Development and Progress in the Field
- (2015) Jan T. Poolman et al. JOURNAL OF INFECTIOUS DISEASES
- The role of pathogen genomics in assessing disease transmission
- (2015) V. Sintchenko et al. BMJ-British Medical Journal
- The role of pathogen genomics in assessing disease transmission
- (2015) V. Sintchenko et al. BMJ-British Medical Journal
- A New Clone Sweeps Clean: the Enigmatic Emergence of Escherichia coli Sequence Type 131
- (2014) Ritu Banerjee et al. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
- Prokka: rapid prokaryotic genome annotation
- (2014) T. Seemann BIOINFORMATICS
- RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
- (2014) Alexandros Stamatakis BIOINFORMATICS
- Large-scale genomic sequencing of extraintestinal pathogenicEscherichia colistrains
- (2014) Stephen J. Salipante et al. GENOME RESEARCH
- Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement
- (2014) Bruce J. Walker et al. PLoS One
- 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
- Plasmid Flux in Escherichia coli ST131 Sublineages, Analyzed by Plasmid Constellation Network (PLACNET), a New Method for Plasmid Reconstruction from Whole Genome Sequences
- (2014) Val F. Lanza et al. PLoS Genetics
- QUAST: quality assessment tool for genome assemblies
- (2013) Alexey Gurevich et al. BIOINFORMATICS
- BayesHammer: Bayesian clustering for error correction in single-cell sequencing
- (2013) Sergey I Nikolenko et al. BMC GENOMICS
- MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
- (2013) K. Katoh et al. MOLECULAR BIOLOGY AND EVOLUTION
- 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
- Prevalent combination of virulence and plasmidic-encoded resistance in ST 131Escherichia colistrains
- (2013) Vera Calhau et al. Virulence
- The changing epidemiology of bacteraemias in Europe: trends from the European Antimicrobial Resistance Surveillance System
- (2012) M.E.A. de Kraker et al. CLINICAL MICROBIOLOGY AND INFECTION
- The presence of genes encoding for different virulence factors in clonally related Escherichia coli that produce CTX-Ms
- (2012) Akke K. Van der Bij et al. DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE
- Role of Homologous Recombination in Adaptive Diversification of Extraintestinal Escherichia coli
- (2012) Sandip Paul 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
- Ribosomal multilocus sequence typing: universal characterization of bacteria from domain to strain
- (2012) K. A. Jolley et al. MICROBIOLOGY-SGM
- CTX-M Enzymes: Origin and Diffusion
- (2012) Rafael Cantón et al. Frontiers in Microbiology
- Characteristics of NDM-1-Producing Escherichia coli Isolates That Belong to the Successful and Virulent Clone ST131
- (2011) Gisele Peirano et al. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
- Easyfig: a genome comparison visualizer
- (2011) M. J. Sullivan et al. BIOINFORMATICS
- Insights into a Multidrug Resistant Escherichia coli Pathogen of the Globally Disseminated ST131 Lineage: Genome Analysis and Virulence Mechanisms
- (2011) Makrina Totsika et al. PLoS One
- Fast and accurate long-read alignment with Burrows–Wheeler transform
- (2010) Heng Li et al. BIOINFORMATICS
- Escherichia coliSequence Type ST131 as the Major Cause of Serious Multidrug‐ResistantE. coliInfections in the United States
- (2010) James R. Johnson et al. CLINICAL INFECTIOUS DISEASES
- Comparative genomics: the bacterial pan-genome
- (2008) Hervé Tettelin et al. CURRENT OPINION IN MICROBIOLOGY
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