Invertible promoters mediate bacterial phase variation, antibiotic resistance, and host adaptation in the gut

Metagenomic binning reconstruction coupled with automatic pipeline annotation and giant viruses: A potential source of mistake in annotations

(2018) Julien Andreani et al.   VIRUS RESEARCH

Genome-wide detection of conservative site-specific recombination in bacteria

(2018) Ognjen Sekulovic et al.   PLoS Genetics

proGenomes: a resource for consistent functional and taxonomic annotations of prokaryotic genomes

(2016) Daniel R. Mende et al.   NUCLEIC ACIDS RESEARCH

NCBI prokaryotic genome annotation pipeline

(2016) Tatiana Tatusova et al.   NUCLEIC ACIDS RESEARCH

DNA Inversion Regulates Outer Membrane Vesicle Production in Bacteroides fragilis

(2016) Haruyuki Nakayama-Imaohji et al.   PLoS One

Natural history of the infant gut microbiome and impact of antibiotic treatment on bacterial strain diversity and stability

(2016) Moran Yassour et al.   Science Translational Medicine

MetaPhlAn2 for enhanced metagenomic taxonomic profiling

(2015) Duy Tin Truong et al.   NATURE METHODS

A Phase-Variable Surface Layer from the Gut Symbiont Bacteroides thetaiotaomicron

(2015) Mao Taketani et al.   mBio

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

The Comprehensive Antibiotic Resistance Database

(2013) Andrew G. McArthur et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Multidrug-resistant Bacteroides fragilis group on the rise in Europe?

(2012) G. N. Hartmeyer et al.   JOURNAL OF MEDICAL MICROBIOLOGY

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

A Single Promoter Inversion Switches Photorhabdus Between Pathogenic and Mutualistic States

(2012) V. S. Somvanshi et al.   SCIENCE

FIMO: scanning for occurrences of a given motif

(2011) Charles E. Grant et al.   BIOINFORMATICS

Longitudinal Analysis of the Prevalence, Maintenance, and IgA Response to Species of the Order Bacteroidales in the Human Gut

(2011) Naamah Levy Zitomersky et al.   INFECTION AND IMMUNITY

The Genome Portal of the Department of Energy Joint Genome Institute

(2011) I. V. Grigoriev et al.   NUCLEIC ACIDS RESEARCH

Xer1-Mediated Site-Specific DNA Inversions and Excisions in Mycoplasma agalactiae

(2010) S. Czurda et al.   JOURNAL OF BACTERIOLOGY

Orientations of the Bacteroides fragilis Capsular Polysaccharide Biosynthesis Locus Promoters during Symbiosis and Infection

(2010) E. B. Troy et al.   JOURNAL OF BACTERIOLOGY

Identification of the Site-Specific DNA Invertase Responsible for the Phase Variation of SusC/SusD Family Outer Membrane Proteins in Bacteroides fragilis

(2009) H. Nakayama-Imaohji et al.   JOURNAL OF BACTERIOLOGY

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Role of glycan synthesis in colonization of the mammalian gut by the bacterial symbiont Bacteroides fragilis

(2008) M. J. Coyne et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regulation of surface architecture by symbiotic bacteria mediates host colonization

(2008) C. H. Liu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA