Genotypic differences between strains of the opportunistic pathogen Corynebacterium bovis isolated from humans, cows, and rodents

Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper

(2017) Jaime Huerta-Cepas et al.   MOLECULAR BIOLOGY AND EVOLUTION

HicA toxin of E scherichia coli derepresses hic AB transcription to selectively produce HicB antitoxin

(2017) Kathryn J. Turnbull et al.   MOLECULAR MICROBIOLOGY

CRISPR–Cas systems exploit viral DNA injection to establish and maintain adaptive immunity

(2017) Joshua W. Modell et al.   NATURE

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

(2017) Claire Bertelli et al.   NUCLEIC ACIDS RESEARCH

Assessing the Genotypic Differences between Strains of Corynebacterium pseudotuberculosis biovar equi through Comparative Genomics

(2017) Rafael A. Baraúna et al.   PLoS One

Insight of Genus Corynebacterium: Ascertaining the Role of Pathogenic and Non-pathogenic Species

(2017) Alberto Oliveira et al.   Frontiers in Microbiology

Corynebacterium crudilactis sp. nov., isolated from raw cow's milk

(2016)   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

EDGAR 2.0: an enhanced software platform for comparative gene content analyses

(2016) Jochen Blom et al.   NUCLEIC ACIDS RESEARCH

PHASTER: a better, faster version of the PHAST phage search tool

(2016) David Arndt et al.   NUCLEIC ACIDS RESEARCH

Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource Center

(2016) Alice R. Wattam et al.   NUCLEIC ACIDS RESEARCH

NCBI prokaryotic genome annotation pipeline

(2016) Tatiana Tatusova et al.   NUCLEIC ACIDS RESEARCH

tRNAscan-SE On-line: integrating search and context for analysis of transfer RNA genes

(2016) Todd M. Lowe et al.   NUCLEIC ACIDS RESEARCH

NSG Mice Provide a Better Spontaneous Model of Breast Cancer Metastasis than Athymic (Nude) Mice

(2016) Madhavi Puchalapalli et al.   PLoS One

CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes

(2015) Donovan H. Parks et al.   GENOME RESEARCH

An updated evolutionary classification of CRISPR–Cas systems

(2015) Kira S. Makarova et al.   NATURE REVIEWS MICROBIOLOGY

eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences

(2015) Jaime Huerta-Cepas et al.   NUCLEIC ACIDS RESEARCH

Phylogenetically typing bacterial strains from partial SNP genotypes observed from direct sequencing of clinical specimen metagenomic data

(2015) Jason W. Sahl et al.   Genome Medicine

Battling Phages: How Bacteria Defend against Viral Attack

(2015) Kimberley D. Seed   PLoS Pathogens

The HicA toxin fromBurkholderia pseudomalleihas a role in persister cell formation

(2014) Aaron Butt et al.   BIOCHEMICAL JOURNAL

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Whole genome sequencing indicates Corynebacterium jeikeium comprises 4 separate genomospecies and identifies a dominant genomospecies among clinical isolates

(2014) Stephen J. Salipante et al.   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY

A Proposed Genus Boundary for the Prokaryotes Based on Genomic Insights

(2014) Q.-L. Qin et al.   JOURNAL OF BACTERIOLOGY

Microbial Peptidyl-Prolyl cis/trans Isomerases (PPIases): Virulence Factors and Potential Alternative Drug Targets

(2014) C. M. Unal et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

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

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

Remarkable Mechanisms in Microbes to Resist Phage Infections

(2014) Ron L. Dy et al.   Annual Review of Virology

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Revenge of the phages: defeating bacterial defences

(2013) Julie E. Samson et al.   NATURE REVIEWS MICROBIOLOGY

PATRIC, the bacterial bioinformatics database and analysis resource

(2013) Alice R. Wattam et al.   NUCLEIC ACIDS RESEARCH

The Pan-Genome of the Animal Pathogen Corynebacterium pseudotuberculosis Reveals Differences in Genome Plasticity between the Biovar ovis and equi Strains

(2013) Siomar C. Soares et al.   PLoS One

Type I-E CRISPR-Cas Systems Discriminate Target from Non-Target DNA through Base Pairing-Independent PAM Recognition

(2013) Edze R. Westra et al.   PLoS Genetics

Comparing thousands of circular genomes using the CGView Comparison Tool

(2012) Jason R Grant et al.   BMC GENOMICS

Current advances in humanized mouse models

(2012) Ryoji Ito et al.   Cellular & Molecular Immunology

Diversity of cloacal microbial community in migratory shorebirds that use the Tagus estuary as stopover habitat and their potential to harbor and disperse pathogenic microorganisms

(2012) Susana S. Santos et al.   FEMS MICROBIOLOGY ECOLOGY

Draft Genome Sequence of Corynebacterium bovis DSM 20582, Which Causes Clinical Mastitis in Dairy Cows

(2012) J. Schroder 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

Persistent Gastric Colonization with Burkholderia pseudomallei and Dissemination from the Gastrointestinal Tract following Mucosal Inoculation of Mice

(2012) Andrew Goodyear et al.   PLoS One

New-found fundamentals of bacterial persistence

(2012) Cyrielle I. Kint et al.   TRENDS IN MICROBIOLOGY

CloVR: A virtual machine for automated and portable sequence analysis from the desktop using cloud computing

(2011) Samuel V Angiuoli et al.   BMC BIOINFORMATICS

Role of persister cells in chronic infections: clinical relevance and perspectives on anti-persister therapies

(2011) M. Fauvart et al.   JOURNAL OF MEDICAL MICROBIOLOGY

Diversity of bacterial type II toxin–antitoxin systems: a comprehensive search and functional analysis of novel families

(2011) Raphaël Leplae et al.   NUCLEIC ACIDS RESEARCH

PHAST: A Fast Phage Search Tool

(2011) Y. Zhou et al.   NUCLEIC ACIDS RESEARCH

Corynebacterium falsenii Bacteremia Occurring in an Infant on Vancomycin Therapy

(2010) P.-Y. I. Tam et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Bacteriophage resistance mechanisms

(2010) Simon J. Labrie et al.   NATURE REVIEWS MICROBIOLOGY

Reordering contigs of draft genomes using the Mauve Aligner

(2009) Anna I. Rissman et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

The phage abortive infection system, ToxIN, functions as a protein–RNA toxin–antitoxin pair

(2009) Peter C. Fineran et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

VirulentPred: a SVM based prediction method for virulent proteins in bacterial pathogens

(2008) Aarti Garg et al.   BMC BIOINFORMATICS

Comparative genomics: the bacterial pan-genome

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

Characterization of Small-Colony Variants of Enterococcus faecalis Isolated from Chickens with Amyloid Arthropathy

(2008) A. Petersen et al.   JOURNAL OF CLINICAL MICROBIOLOGY

The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

(2008) J. R. Cole et al.   NUCLEIC ACIDS RESEARCH