The Population Structure of Pseudomonas aeruginosa Is Characterized by Genetic Isolation of exoU+ and exoS+ Lineages

ClustAGE: a tool for clustering and distribution analysis of bacterial accessory genomic elements

(2018) Egon A. Ozer   BMC BIOINFORMATICS

Environmental Reservoirs for exoS+ and exoU+ strains of Pseudomonas aeruginosa

(2018) Victoria Rutherford et al.   Environmental Microbiology Reports

Epidemiology, Biology, and Impact of Clonal Pseudomonas aeruginosa Infections in Cystic Fibrosis

(2018) Michael D. Parkins et al.   CLINICAL MICROBIOLOGY REVIEWS

The Pseudomonas aeruginosa Pan-Genome Provides New Insights on Its Population Structure, Horizontal Gene Transfer, and Pathogenicity

(2018) Luca Freschi et al.   Genome Biology and Evolution

Metapopulation Structure of CRISPR-Cas Immunity in Pseudomonas aeruginosa and Its Viruses

(2018) Whitney E. England et al.   mSystems

Complex heatmaps reveal patterns and correlations in multidimensional genomic data

(2016) Zuguang Gu et al.   BIOINFORMATICS

Evolview v2: an online visualization and management tool for customized and annotated phylogenetic trees

(2016) Zilong He et al.   NUCLEIC ACIDS RESEARCH

Pseudomonas aeruginosarenews its virulence factors

(2016) Philippe Huber et al.   Environmental Microbiology Reports

Divergent, CoexistingPseudomonas aeruginosaLineages in Chronic Cystic Fibrosis Lung Infections

(2015) David Williams et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Inferring Speciation Processes from Patterns of Natural Variation in Microbial Genomes

(2015) David J. Krause et al.   SYSTEMATIC BIOLOGY

Habitat-associated skew of clone abundance in thePseudomonas aeruginosapopulation

(2015) Lutz Wiehlmann et al.   Environmental Microbiology Reports

ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes

(2015) Xavier Didelot et al.   PLoS Computational Biology

Clinical utilization of genomics data produced by the international Pseudomonas aeruginosa consortium

(2015) Luca Freschi et al.   Frontiers in Microbiology

The Resistome of Pseudomonas aeruginosa in Relationship to Phenotypic Susceptibility

(2014) Veronica N. Kos et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Characterization of the core and accessory genomes of Pseudomonas aeruginosa using bioinformatic tools Spine and AGEnt

(2014) Egon A Ozer et al.   BMC GENOMICS

A Type III Secretion Negative Clinical Strain of Pseudomonas aeruginosa Employs a Two-Partner Secreted Exolysin to Induce Hemorrhagic Pneumonia

(2014) Sylvie Elsen et al.   Cell Host & Microbe

Influence of Virulence Genotype and Resistance Profile in the Mortality of Pseudomonas aeruginosa Bloodstream Infections

(2014) C. Pena et al.   CLINICAL INFECTIOUS DISEASES

Interclonal gradient of virulence in thePseudomonas aeruginosapangenome from disease and environment

(2014) Rolf Hilker et al.   ENVIRONMENTAL MICROBIOLOGY

Genome-Wide Patterns of Recombination in the Opportunistic Human Pathogen Pseudomonas aeruginosa

(2014) Jeremy R. Dettman et al.   Genome Biology and Evolution

Estimating genotype error rates from high-coverage next-generation sequence data

(2014) Jeffrey D. Wall et al.   GENOME RESEARCH

Progressive genomic convergence of twoHelicobacter pyloristrains during mixed infection of a patient with chronic gastritis

(2014) Qizhi Cao et al.   GUT

Prevalence of Type III Secretion Protein Exoenzymes and Antimicrobial Susceptibility Patterns from Bloodstream Isolates of Patients withPseudomonas aeruginosaBacteremia

(2014) K.W. Garey et al.   JOURNAL OF CHEMOTHERAPY

Convergent evolution and adaptation of Pseudomonas aeruginosa within patients with cystic fibrosis

(2014) Rasmus Lykke Marvig et al.   NATURE GENETICS

A Long-Chain Flavodoxin Protects Pseudomonas aeruginosa from Oxidative Stress and Host Bacterial Clearance

(2014) Alejandro J. Moyano et al.   PLoS Genetics

Inference of the Properties of the Recombination Process from Whole Bacterial Genomes

(2013) M. Azim Ansari et al.   GENETICS

Hierarchical and Spatially Explicit Clustering of DNA Sequences with BAPS Software

(2013) L. Cheng et al.   MOLECULAR BIOLOGY AND EVOLUTION

When Whole-Genome Alignments Just Won't Work: kSNP v2 Software for Alignment-Free SNP Discovery and Phylogenetics of Hundreds of Microbial Genomes

(2013) Shea N. Gardner et al.   PLoS One

Pseudomonas aeruginosa population structure revisited under environmental focus: impact of water quality and phage pressure

(2012) Katherina Selezska et al.   ENVIRONMENTAL MICROBIOLOGY

Progressive genome-wide introgression in agriculturalCampylobacter coli

(2012) Samuel K. Sheppard et al.   MOLECULAR ECOLOGY

EvolView, an online tool for visualizing, annotating and managing phylogenetic trees

(2012) Huangkai Zhang et al.   NUCLEIC ACIDS RESEARCH

Genetic and Phenotypic Characterization of a Pseudomonas aeruginosa Population with High Frequency of Genomic Islands

(2012) Rosario Morales-Espinosa et al.   PLoS One

Population Genomics of Early Events in the Ecological Differentiation of Bacteria

(2012) B. J. Shapiro et al.   SCIENCE

Patterns of Gene Flow Define Species of Thermophilic Archaea

(2012) Hinsby Cadillo-Quiroz et al.   PLOS BIOLOGY

Clinical outcomes of type III Pseudomonas aeruginosa bacteremia*

(2011) Ali A. El-Solh et al.   CRITICAL CARE MEDICINE

Genetic Characterization Indicates that a Specific Subpopulation of Pseudomonas aeruginosa Is Associated with Keratitis Infections

(2011) R. M. K. Stewart et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Recombination and Population Structure in Salmonella enterica

(2011) Xavier Didelot et al.   PLoS Genetics

Inference of Homologous Recombination in Bacteria Using Whole-Genome Sequences

(2010) X. Didelot et al.   GENETICS

Ray: Simultaneous Assembly of Reads from a Mix of High-Throughput Sequencing Technologies

(2010) Sébastien Boisvert et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Virulence gene distribution in clinical, nosocomial and environmental isolates of Pseudomonas aeruginosa

(2010) R. S. Bradbury et al.   JOURNAL OF MEDICAL MICROBIOLOGY

The Accessory Genome of Pseudomonas aeruginosa

(2010) V. L. Kung et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Pseudomonas Genome Database: improved comparative analysis and population genomics capability for Pseudomonas genomes

(2010) G. L. Winsor et al.   NUCLEIC ACIDS RESEARCH

Complete Genome Sequence of the Multiresistant Taxonomic Outlier Pseudomonas aeruginosa PA7

(2010) Paul H. Roy et al.   PLoS One

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

The Population Genetics of Pseudomonas aeruginosa Isolates from Different Patient Populations Exhibits High-Level Host Specificity

(2010) Rosa van Mansfeld et al.   PLoS One

Pseudomonas aeruginosa Population Structure Revisited

(2009) Jean-Paul Pirnay et al.   PLoS One

Shifting the genomic gold standard for the prokaryotic species definition

(2009) Michael Richter et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolution of pathogenicity in the Bacillus cereus group

(2009) Xavier Didelot et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

Enhanced Bayesian modelling in BAPS software for learning genetic structures of populations

(2008) Jukka Corander et al.   BMC BIOINFORMATICS

The Origins of Ecological Diversity in Prokaryotes

(2008) Frederick M. Cohan et al.   CURRENT BIOLOGY

Comparative genomics: the bacterial pan-genome

(2008) Hervé Tettelin et al.   CURRENT OPINION IN MICROBIOLOGY

Pseudomonas aeruginosa uses type III secretion system to kill biofilm-associated amoebae

(2008) Carsten Matz et al.   ISME Journal

Pseudomonas aeruginosaUtilises Its Type III Secretion System to Kill the Free-Living AmoebaAcanthamoeba castellanii

(2008) HADI ABD et al.   JOURNAL OF EUKARYOTIC MICROBIOLOGY