Culturing of ‘unculturable’ human microbiota reveals novel taxa and extensive sporulation

HPMCD: the database of human microbial communities from metagenomic datasets and microbial reference genomes

(2015) Samuel C. Forster et al.   NUCLEIC ACIDS RESEARCH

A Phylogenomic View of Ecological Specialization in the Lachnospiraceae, a Family of Digestive Tract-Associated Bacteria

(2014) Conor J. Meehan et al.   Genome Biology and Evolution

Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes

(2014) H Bjørn Nielsen et al.   NATURE BIOTECHNOLOGY

Clostridium difficile spore biology: sporulation, germination, and spore structural proteins

(2014) Daniel Paredes-Sabja et al.   TRENDS IN MICROBIOLOGY

Phylogeny, culturing, and metagenomics of the human gut microbiota

(2014) Alan W. Walker et al.   TRENDS IN MICROBIOLOGY

Kraken: ultrafast metagenomic sequence classification using exact alignments

(2014) Derrick E Wood et al.   GENOME BIOLOGY

The dynamics of a family’s gut microbiota reveal variations on a theme

(2014) Patrick D Schloss et al.   Microbiome

Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform

(2013) James J. Kozich et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Adaptive Strategies and Pathogenesis of Clostridium difficile fromIn VivoTranscriptomics

(2013) Claire Janoir et al.   INFECTION AND IMMUNITY

A Genomic Signature and the Identification of New Sporulation Genes

(2013) A. B. Abecasis et al.   JOURNAL OF BACTERIOLOGY

The Long-Term Stability of the Human Gut Microbiota

(2013) J. J. Faith et al.   SCIENCE

Bile Acid Recognition by the Clostridium difficile Germinant Receptor, CspC, Is Important for Establishing Infection

(2013) Michael B. Francis et al.   PLoS Pathogens

Microbial culturomics: paradigm shift in the human gut microbiome study

(2012) J.-C. Lagier et al.   CLINICAL MICROBIOLOGY AND INFECTION

Genomic determinants of sporulation inBacilliandClostridia: towards the minimal set of sporulation-specific genes

(2012) Michael Y. Galperin et al.   ENVIRONMENTAL MICROBIOLOGY

Growing Unculturable Bacteria

(2012) E. J. Stewart   JOURNAL OF BACTERIOLOGY

Diversity, stability and resilience of the human gut microbiota

(2012) Catherine A. Lozupone et al.   NATURE

Emergence and global spread of epidemic healthcare-associated Clostridium difficile

(2012) Miao He et al.   NATURE GENETICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The “Most Wanted” Taxa from the Human Microbiome for Whole Genome Sequencing

(2012) Anthony A. Fodor et al.   PLoS One

Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy

(2011) I. Letunic et al.   NUCLEIC ACIDS RESEARCH

Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice

(2011) A. L. Goodman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Hierarchical Evolution of the Bacterial Sporulation Network

(2010) Michiel J.L. de Hoon et al.   CURRENT BIOLOGY

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

A Catalog of Reference Genomes from the Human Microbiome

(2010) et al.   SCIENCE

Germination of spores of Bacillales and Clostridiales species: mechanisms and proteins involved

(2010) Daniel Paredes-Sabja et al.   TRENDS IN MICROBIOLOGY

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Antibiotic Treatment of Clostridium difficile Carrier Mice Triggers a Supershedder State, Spore-Mediated Transmission, and Severe Disease in Immunocompromised Hosts

(2009) T. D. Lawley et al.   INFECTION AND IMMUNITY

Proteomic and Genomic Characterization of Highly Infectious Clostridium difficile 630 Spores

(2009) T. D. Lawley et al.   JOURNAL OF BACTERIOLOGY