Prophages of the genusBifidobacteriumas modulating agents of the infant gut microbiota

Occurrence and Diversity of CRISPR-Cas Systems in the Genus Bifidobacterium

(2015) Alexandra E. Briner et al.   PLoS One

Genomic Encyclopedia of Type Strains of the Genus Bifidobacterium

(2014) Christian Milani et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Investigation of the Evolutionary Development of the Genus Bifidobacterium by Comparative Genomics

(2014) Gabriele Andrea Lugli et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Classification and quantification of bacteriophage taxa in human gut metagenomes

(2014) Alison S Waller et al.   ISME Journal

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

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

Molecular Bases and Role of Viruses in the Human Microbiome

(2014) Shira R. Abeles et al.   JOURNAL OF MOLECULAR BIOLOGY

Cryo-Electron Microscopy Structure of Lactococcal Siphophage 1358 Virion

(2014) S. Spinelli et al.   JOURNAL OF VIROLOGY

Exploiting gut bacteriophages for human health

(2014) Marion Dalmasso et al.   TRENDS IN MICROBIOLOGY

A highly abundant bacteriophage discovered in the unknown sequences of human faecal metagenomes

(2014) Bas E. Dutilh et al.   Nature Communications

Bacteriophages: an underestimated role in human and animal health?

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

Molecular dialogue between the human gut microbiota and the host: a Lactobacillus and Bifidobacterium perspective

(2013) Francesca Turroni et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Bifidobacteria and humans: our special friends, from ecological to genomics perspectives

(2013) Marco Ventura et al.   JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Rapid evolution of the human gut virome

(2013) S. Minot et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structure and activity of AbiQ, a lactococcal endoribonuclease belonging to the type III toxin-antitoxin system

(2012) Julie E. Samson et al.   MOLECULAR MICROBIOLOGY

Diversity of Bifidobacteria within the Infant Gut Microbiota

(2012) Francesca Turroni et al.   PLoS One

Host–microbe interactions that facilitate gut colonization by commensal bifidobacteria

(2012) Marco Ventura et al.   TRENDS IN MICROBIOLOGY

PGAP: pan-genomes analysis pipeline

(2011) Yongbing Zhao et al.   BIOINFORMATICS

Adaptive seeds tame genomic sequence comparison

(2011) S. M. Kielbasa et al.   GENOME RESEARCH

PHAST: A Fast Phage Search Tool

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

Analyses of bifidobacterial prophage-like sequences

(2010) Marco Ventura et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

Genome Organization and Characterization of the Virulent Lactococcal Phage 1358 and Its Similarities to Listeria Phages

(2010) M.-E. Dupuis et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Viral and microbial community dynamics in four aquatic environments

(2010) Beltran Rodriguez-Brito et al.   ISME Journal

Comparative genomics of the genus Bifidobacterium

(2010) F. Bottacini et al.   MICROBIOLOGY-SGM

Bacteriophage resistance mechanisms

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

Exploring the Diversity of the Bifidobacterial Population in the Human Intestinal Tract

(2009) F. Turroni et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Comparative Analyses of Prophage-Like Elements Present in Bifidobacterial Genomes

(2009) M. Ventura et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Explaining microbial population genomics through phage predation

(2009) Francisco Rodriguez-Valera et al.   NATURE REVIEWS MICROBIOLOGY

Reticulate Representation of Evolutionary and Functional Relationships between Phage Genomes

(2008) G. Lima-Mendez et al.   MOLECULAR BIOLOGY AND EVOLUTION

Origin and function of the two major tail proteins of bacteriophage SPP1

(2008) Isabelle Auzat et al.   MOLECULAR MICROBIOLOGY

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS