Horizontal Gene Transfer Clarifies Taxonomic Confusion and Promotes the Genetic Diversity and Pathogenicity of Plesiomonas shigelloides

EasyCodeML: A visual tool for analysis of selection using CodeML

(2019) Fangluan Gao et al.   Ecology and Evolution

Vibrio Flagellar Synthesis

(2019) Mylea A. Echazarreta et al.   Frontiers in Cellular and Infection Microbiology

O-Antigen Gene Clusters of Plesiomonas shigelloides Serogroups and Its Application in Development of a Molecular Serotyping Scheme

(2019) Daoyi Xi et al.   Frontiers in Microbiology

Pan-genome analyses of 24 Shewanella strains re-emphasize the diversification of their functions yet evolutionary dynamics of metal-reducing pathway

(2018) Chaofang Zhong et al.   Biotechnology for Biofuels

VFDB 2019: a comparative pathogenomic platform with an interactive web interface

(2018) Bo Liu et al.   NUCLEIC ACIDS RESEARCH

Pathogenomics of Virulence Traits of Plesiomonas shigelloides That Were Deemed Inconclusive by Traditional Experimental Approaches

(2018) Temitope C. Ekundayo et al.   Frontiers in Microbiology

Analysis of gene gain and loss in the evolution of predatory bacteria

(2017) Nan Li et al.   GENE

Uncultivated microbes in need of their own taxonomy

(2017) Konstantinos T Konstantinidis et al.   ISME Journal

IslandViewer 4: expanded prediction of genomic islands for larger-scale datasets

(2017) Claire Bertelli et al.   NUCLEIC ACIDS RESEARCH

Plesiomonas shigelloides Revisited

(2016) J. Michael Janda et al.   CLINICAL MICROBIOLOGY REVIEWS

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

Epidemic Clones, Oceanic Gene Pools, and Eco-LD in the Free Living Marine Pathogen Vibrio parahaemolyticus

(2015) Yujun Cui et al.   MOLECULAR BIOLOGY AND EVOLUTION

Type III secretion systems: the bacterial flagellum and the injectisome

(2015) Andreas Diepold et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes

(2015) Xavier Didelot et al.   PLoS Computational Biology

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

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

HGTector: an automated method facilitating genome-wide discovery of putative horizontal gene transfers

(2014) Qiyun Zhu et al.   BMC GENOMICS

Comparative genomics of the Bifidobacterium breve taxon

(2014) Francesca Bottacini et al.   BMC GENOMICS

The large-scale blast score ratio (LS-BSR) pipeline: a method to rapidly compare genetic content between bacterial genomes

(2014) Jason W. Sahl et al.   PeerJ

The Plesiomonas shigelloides wbO1 gene cluster and the role of O1-antigen LPS in pathogenicity

(2013) Eleonora Aquilini et al.   MICROBIAL PATHOGENESIS

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Type VI secretion system – a widespread and versatile cell targeting system

(2013) Sarah J. Coulthurst   RESEARCH IN MICROBIOLOGY

Type I secretion systems – a story of appendices

(2013) Kerstin Kanonenberg et al.   RESEARCH IN MICROBIOLOGY

Subversion of trafficking, apoptosis, and innate immunity by type III secretion system effectors

(2013) Benoit Raymond et al.   TRENDS IN MICROBIOLOGY

Horizontally Transferred Genetic Elements and Their Role in Pathogenesis of Bacterial Disease

(2013) C. Gyles et al.   VETERINARY PATHOLOGY

Structure, gene regulation and environmental response of flagella in Vibrio

(2013) Shiwei Zhu et al.   Frontiers in Microbiology

TreeCmp: Comparison of Trees in Polynomial Time

(2012) Damian Bogdanowicz et al.   Evolutionary Bioinformatics

SecReT4: a web-based bacterial type IV secretion system resource

(2012) Dexi Bi et al.   NUCLEIC ACIDS RESEARCH

Dendroscope 3: An Interactive Tool for Rooted Phylogenetic Trees and Networks

(2012) Daniel H. Huson et al.   SYSTEMATIC BIOLOGY

The Accessory Genome as a Cradle for Adaptive Evolution in Pathogens

(2012) Daniel Croll et al.   PLoS Pathogens

The Type II Secretion System Is Essential for Erythrocyte Lysis and Gut Colonization by the Leech Digestive Tract SymbiontAeromonas veronii

(2010) Michele Maltz et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Protein secretion systems in Pseudomonas aeruginosa: A wealth of pathogenic weapons

(2010) Sophie Bleves et al.   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY

Comparative genomics of the genus Bifidobacterium

(2010) F. Bottacini et al.   MICROBIOLOGY-SGM

A Type VI Secretion System Effector Protein, VgrG1, from Aeromonas hydrophila That Induces Host Cell Toxicity by ADP Ribosylation of Actin

(2009) G. Suarez et al.   JOURNAL OF BACTERIOLOGY

Comparative genomics reveals mechanism for short-term and long-term clonal transitions in pandemic Vibrio cholerae

(2009) J. Chun et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

A hidden reservoir of integrative elements is the major source of recently acquired foreign genes and ORFans in archaeal and bacterial genomes

(2009) Diego Cortez et al.   GENOME BIOLOGY

The Deep-Sea Bacterium Photobacterium profundum SS9 Utilizes Separate Flagellar Systems for Swimming and Swarming under High-Pressure Conditions

(2008) E. A. Eloe et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Comparative genomics: the bacterial pan-genome

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

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

Molecular characterization of a functional type VI secretion system from a clinical isolate of Aeromonas hydrophila

(2007) Giovanni Suarez et al.   MICROBIAL PATHOGENESIS