Comparative genome sequencing to assess the genetic diversity and virulence attributes of 15Vibrio anguillarumisolates

Comparative genomics of pathogenic lineages of Vibrio nigripulchritudo identifies virulence-associated traits

(2013) David Goudenège et al.   ISME Journal

Does Virulence Assessment of Vibrio anguillarum Using Sea Bass (Dicentrarchus labrax) Larvae Correspond with Genotypic and Phenotypic Characterization?

(2013) Ingeborg Frans et al.   PLoS One

NGS QC Toolkit: A Toolkit for Quality Control of Next Generation Sequencing Data

(2012) Ravi K. Patel et al.   PLoS One

Epigenetics of Host–Pathogen Interactions: The Road Ahead and the Road Behind

(2012) Elena Gómez-Díaz et al.   PLoS Pathogens

Toward almost closed genomes with GapFiller

(2012) Marten Boetzer et al.   GENOME BIOLOGY

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

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

Genetic Determinants of Virulence in the Marine Fish Pathogen Vibrio anguillarum

(2011) Hiroaki Naka et al.   FISH PATHOLOGY

Complete Genome Sequence of the Marine Fish Pathogen Vibrio anguillarum Harboring the pJM1 Virulence Plasmid and Genomic Comparison with Other Virulent Strains of V. anguillarum and V. ordalii

(2011) Hiroaki Naka et al.   INFECTION AND IMMUNITY

Identification of Salmonella enterica species- and subgroup-specific genomic regions using Panseq 2.0

(2011) Chad Laing et al.   INFECTION GENETICS AND EVOLUTION

Vibrio anguillarum as a fish pathogen: virulence factors, diagnosis and prevention

(2011) I Frans et al.   JOURNAL OF FISH DISEASES

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences

(2011) Marnix H. Medema et al.   NUCLEIC ACIDS RESEARCH

Everything at once: Comparative analysis of the genomes of bacterial pathogens

(2011) Chad R. Laing et al.   VETERINARY MICROBIOLOGY

Scaffolding pre-assembled contigs using SSPACE

(2010) Marten Boetzer et al.   BIOINFORMATICS

Complete genome sequence of the fire blight pathogen Erwinia pyrifoliae DSM 12163T and comparative genomic insights into plant pathogenicity

(2010) Theo HM Smits et al.   BMC GENOMICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Computational Prediction of Type III and IV Secreted Effectors in Gram-Negative Bacteria

(2010) Jason E. McDermott et al.   INFECTION AND IMMUNITY

Comparison of 61 Sequenced Escherichia coli Genomes

(2010) Oksana Lukjancenko et al.   MICROBIAL ECOLOGY

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

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

The type VI secretion system: translocation of effectors and effector-domains

(2009) Stefan Pukatzki et al.   CURRENT OPINION IN MICROBIOLOGY

Comparative susceptibility of turbot, halibut, and cod yolk-sac larvae to challenge with Vibrio spp.

(2009) N Sandlund et al.   DISEASES OF AQUATIC ORGANISMS

Development of a bacterial challenge test for gnotobiotic sea bass (Dicentrarchus labrax) larvae

(2009) K. Dierckens et al.   ENVIRONMENTAL MICROBIOLOGY

Genomics of secondary metabolite production by Pseudomonas spp.

(2009) Harald Gross et al.   NATURAL PRODUCT REPORTS

Structural insights into nonribosomal peptide enzymatic assembly lines

(2009) Alexander Koglin et al.   NATURAL PRODUCT REPORTS

Prokaryotic transcriptomics: a new view on regulation, physiology and pathogenicity

(2009) Rotem Sorek et al.   NATURE REVIEWS GENETICS

Development and Implementation of a Multiplex Single-Nucleotide Polymorphism Genotyping Assay for Detection of Virulence-Attenuating Mutations in the Listeria monocytogenes Virulence-Associated Gene inlA

(2008) A. Van Stelten et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS

tRNA Modification by GidA/MnmE Is Necessary for Streptococcus pyogenes Virulence: a New Strategy To Make Live Attenuated Strains

(2008) K. H. Cho et al.   INFECTION AND IMMUNITY