Phages infecting Faecalibacterium prausnitzii belong to novel viral genera that help to decipher intestinal viromes

Inflammation boosts bacteriophage transfer between Salmonella spp.

(2017) Médéric Diard et al.   SCIENCE

How to Name and Classify Your Phage: An Informal Guide

(2017) Evelien Adriaenssens et al.   Viruses-Basel

The Human Gut Phage Community and Its Implications for Health and Disease

(2017) Pilar Manrique et al.   Viruses-Basel

Single-virus genomics reveals hidden cosmopolitan and abundant viruses

(2017) Francisco Martinez-Hernandez et al.   Nature Communications

New Insights into the Diversity of the Genus Faecalibacterium

(2017) Leandro Benevides et al.   Frontiers in Microbiology

Genome Analysis of a Novel Broad Host Range Proteobacteria Phage Isolated from a Bioreactor Treating Industrial Wastewater

(2017) Marina de Leeuw et al.   Genes

VirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data

(2017) Jie Ren et al.   Microbiome

Retroelement-guided protein diversification abounds in vast lineages of Bacteria and Archaea

(2017) Blair G. Paul et al.   Nature Microbiology

PhageTerm: a tool for fast and accurate determination of phage termini and packaging mechanism using next-generation sequencing data

(2017) Julian R. Garneau et al.   Scientific Reports

CRISPRDetect: A flexible algorithm to define CRISPR arrays

(2016) Ambarish Biswas et al.   BMC GENOMICS

Genetic and life-history traits associated with the distribution of prophages in bacteria

(2016) Marie Touchon et al.   ISME Journal

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

(2016) David Arndt et al.   NUCLEIC ACIDS RESEARCH

Healthy human gut phageome

(2016) Pilar Manrique et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phagonaute: A web-based interface for phage synteny browsing and protein function prediction

(2016) Hadrien Delattre et al.   VIROLOGY

Anti-nociceptive effect of Faecalibacterium prausnitzii in non-inflammatory IBS-like models

(2016) S. Miquel et al.   Scientific Reports

Carriage of λ Latent Virus Is Costly for Its Bacterial Host due to Frequent Reactivation in Monoxenic Mouse Intestine

(2016) Marianne De Paepe et al.   PLoS Genetics

Intestinal Short Chain Fatty Acids and their Link with Diet and Human Health

(2016) David Ríos-Covián et al.   Frontiers in Microbiology

Faecalibacterium prausnitzii A2-165 has a high capacity to induce IL-10 in human and murine dendritic cells and modulates T cell responses

(2016) Oriana Rossi et al.   Scientific Reports

Disease-Specific Alterations in the Enteric Virome in Inflammatory Bowel Disease

(2015) Jason M. Norman et al.   CELL

Identification of an anti-inflammatory protein fromFaecalibacterium prausnitzii, a commensal bacterium deficient in Crohn’s disease

(2015) E Quévrain et al.   GUT

Gut DNA viromes of Malawian twins discordant for severe acute malnutrition

(2015) Alejandro Reyes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A structured annotation frame for the transposable phages: A new proposed family “Saltoviridae” within the Caudovirales

(2015) Chantal Hulo et al.   VIROLOGY

Bacteriophages isolated from Lake Michigan demonstrate broad host-range across several bacterial phyla

(2015) Kema Malki et al.   Virology Journal

Survival, prophage induction, and invasive properties of lysogenic Salmonella Typhimurium exposed to simulated gastrointestinal conditions

(2014) Songrae Kim et al.   ARCHIVES OF MICROBIOLOGY

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Automated classification of tailed bacteriophages according to their neck organization

(2014) Anne Lopes et al.   BMC GENOMICS

Impact of Spontaneous Prophage Induction on the Fitness of Bacterial Populations and Host-Microbe Interactions

(2014) Arun M. Nanda et al.   JOURNAL OF BACTERIOLOGY

When a virus is not a parasite: the beneficial effects of prophages on bacterial fitness

(2014) Joseph Bondy-Denomy et al.   JOURNAL OF MICROBIOLOGY

Adapting to new threats: the generation of memory by CRISPR-Cas immune systems

(2014) Robert Heler et al.   MOLECULAR MICROBIOLOGY

Temperate Phages Acquire DNA from Defective Prophages by Relaxed Homologous Recombination: The Role of Rad52-Like Recombinases

(2014) Marianne De Paepe et al.   PLoS Genetics

Bacteriophages: an underestimated role in human and animal health?

(2014) Marianne De Paepe et al.   Frontiers in Cellular and Infection Microbiology

Bacteriophage adhering to mucus provide a non-host-derived immunity

(2013) J. J. Barr et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transposable Mu-like phages in Firmicutes: new instances of divergence generating retroelements

(2013) Ariane Toussaint   RESEARCH IN MICROBIOLOGY

Manipulating or Superseding Host Recombination Functions: A Dilemma That Shapes Phage Evolvability

(2013) Louis-Marie Bobay et al.   PLoS Genetics

Using Tablet for visual exploration of second-generation sequencing data

(2012) I. Milne et al.   BRIEFINGS IN BIOINFORMATICS

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Fecal Lipocalin 2, a Sensitive and Broadly Dynamic Non-Invasive Biomarker for Intestinal Inflammation

(2012) Benoit Chassaing et al.   PLoS One

Hypervariable loci in the human gut virome

(2012) S. Minot et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phage–bacteria infection networks

(2012) Joshua S. Weitz et al.   TRENDS IN MICROBIOLOGY

Diversity and Abundance of Single-Stranded DNA Viruses in Human Feces

(2011) Min-Soo Kim et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The human gut virome: Inter-individual variation and dynamic response to diet

(2011) S. Minot et al.   GENOME RESEARCH

PHAST: A Fast Phage Search Tool

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

Potential beneficial effects of butyrate in intestinal and extraintestinal diseases

(2011) Roberto Berni Canani   WORLD JOURNAL OF GASTROENTEROLOGY

Low counts of Faecalibacterium prausnitzii in colitis microbiota

(2009) H. Sokol et al.   INFLAMMATORY BOWEL DISEASES

Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified by gut microbiota analysis of Crohn disease patients

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

Unifying classical and molecular taxonomic classification: analysis of the Podoviridae using BLASTP-based tools

(2008) Rob Lavigne et al.   RESEARCH IN MICROBIOLOGY