Comparative Genomic Analysis of Fusobacterium necrophorum Provides Insights into Conserved Virulence Genes

Impact of homologous recombination on core genome phylogenies

(2020) Caroline M. Stott et al.   BMC GENOMICS

To B12 or not to B12: Five questions on the role of cobalamin in host-microbial interactions

(2019) Carol A. Rowley et al.   PLoS Pathogens

Interactive Tree Of Life (iTOL) v4: recent updates and new developments

(2019) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Validating the NCBI AMRFinder Tool and Resistance Gene Database Using Antimicrobial Resistance Genotype-Phenotype Correlations in a Collection of NARMS Isolates

(2019) Michael Feldgarden et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

LPSN – List of Prokaryotic names with Standing in Nomenclature (bacterio.net), 20 years on

(2018) Aidan C. Parte   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes

(2018) Jongsik Chun et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

UBCG: Up-to-date bacterial core gene set and pipeline for phylogenomic tree reconstruction

(2018) Seong-In Na et al.   JOURNAL OF MICROBIOLOGY

High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries

(2018) Chirag Jain et al.   Nature Communications

OrthoANI: An improved algorithm and software for calculating average nucleotide identity

(2016) Imchang Lee et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database

(2016) Baofeng Jia et al.   NUCLEIC ACIDS RESEARCH

Roary: rapid large-scale prokaryote pan genome analysis

(2015) Andrew J. Page et al.   BIOINFORMATICS

ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes

(2015) Xavier Didelot et al.   PLoS Computational Biology

Phylogeny and molecular signatures for the phylum Fusobacteria and its distinct subclades

(2014) Radhey S. Gupta et al.   ANAEROBE

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Evolution of Invasion in a Diverse Set of Fusobacterium Species

(2014) Abigail Manson McGuire et al.   mBio

Characterizing the genetic basis of bacterial phenotypes using genome-wide association studies: a new direction for bacteriology

(2014) Timothy D Read et al.   Genome Medicine

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Rapid bacterial genome sequencing: methods and applications in clinical microbiology

(2013) C. Bertelli et al.   CLINICAL MICROBIOLOGY AND INFECTION

Identification of acquired antimicrobial resistance genes

(2012) E. Zankari et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

VFDB 2012 update: toward the genetic diversity and molecular evolution of bacterial virulence factors

(2011) L. Chen et al.   NUCLEIC ACIDS RESEARCH

Microreview: Type IV secretion systems: versatility and diversity in function

(2010) Karin Wallden et al.   CELLULAR MICROBIOLOGY

Vitamin B6 biosynthesis is essential for survival and virulence of Mycobacterium tuberculosis

(2010) Thomas Dick et al.   MOLECULAR MICROBIOLOGY

An Atypical Riboflavin Pathway Is Essential for Brucella abortus Virulence

(2010) Hernán Ruy Bonomi et al.   PLoS One

Vitamin B6 Is Required for Full Motility and Virulence in Helicobacter pylori

(2010) A. Grubman et al.   mBio

Expression and Characterization of Soluble 4-Diphosphocytidyl-2-C-methyl-D-erythritol Kinase from Bacterial Pathogens

(2009) Hyungjin Eoh et al.   CHEMISTRY & BIOLOGY

Both Thiamine Uptake and Biosynthesis of Thiamine Precursors Are Required for Intracellular Replication of Listeria monocytogenes

(2009) K. Schauer et al.   JOURNAL OF BACTERIOLOGY

The structural biology of type IV secretion systems

(2009) Rémi Fronzes et al.   NATURE REVIEWS MICROBIOLOGY

Fusobacterium necrophorum: A ruminal bacterium that invades liver to cause abscesses in cattle

(2008) S. Tadepalli et al.   ANAEROBE