Enterobacteriaceae are essential for the modulation of colitis severity by fungi

Complete genome sequence and comparative genomics of the probiotic yeast Saccharomyces boulardii

(2017) Indu Khatri et al.   Scientific Reports

Fungal microbiota dysbiosis in IBD

(2016) Harry Sokol et al.   GUT

Co-occurrence of extended spectrum β lactamase and MCR-1 encoding genes on plasmids

(2016) Marisa Haenni et al.   LANCET INFECTIOUS DISEASES

CARD9 impacts colitis by altering gut microbiota metabolism of tryptophan into aryl hydrocarbon receptor ligands

(2016) Bruno Lamas et al.   NATURE MEDICINE

Bacteriome and Mycobiome Interactions Underscore Microbial Dysbiosis in Familial Crohn’s Disease

(2016) G. Hoarau et al.   mBio

Candida albicans and Pseudomonas aeruginosa Interaction, with Focus on the Role of Eicosanoids

(2016) Ruan Fourie et al.   Frontiers in Physiology

Gut Fungal Microbiota

(2015) Mathias L. Richard et al.   INFLAMMATORY BOWEL DISEASES

Fungal Signature in the Gut Microbiota of Pediatric Patients With Inflammatory Bowel Disease

(2015) Christel Chehoud et al.   INFLAMMATORY BOWEL DISEASES

The Treatment-Naive Microbiome in New-Onset Crohn’s Disease

(2014) Dirk Gevers et al.   Cell Host & Microbe

Commensal Gram-positive bacteria initiates colitis by inducing monocyte/macrophage mobilization

(2014) Y Nakanishi et al.   Mucosal Immunology

Mycobiota in gastrointestinal diseases

(2014) Pranab K. Mukherjee et al.   Nature Reviews Gastroenterology & Hepatology

Towards a unified paradigm for sequence-based identification of fungi

(2013) Urmas Kõljalg et al.   MOLECULAR ECOLOGY

Fungi of the Murine Gut: Episodic Variation and Proliferation during Antibiotic Treatment

(2013) Serena Dollive et al.   PLoS One

Primocolonization is associated with colonic epithelial maturation during conventionalization

(2012) Julie Tomas et al.   FASEB JOURNAL

Interactions Between Commensal Fungi and the C-Type Lectin Receptor Dectin-1 Influence Colitis

(2012) I. D. Iliev et al.   SCIENCE

Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment

(2012) Xochitl C Morgan et al.   GENOME BIOLOGY

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

Discussion of: Brownian distance covariance

(2010) Michael R. Kosorok   Annals of Applied Statistics

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Enterobacteriaceae Act in Concert with the Gut Microbiota to Induce Spontaneous and Maternally Transmitted Colitis

(2010) Wendy S. Garrett et al.   Cell Host & Microbe

A Pyrosequencing Study in Twins Shows That Gastrointestinal Microbial Profiles Vary With Inflammatory Bowel Disease Phenotypes

(2010) Ben P. Willing et al.   GASTROENTEROLOGY

Pseudomonas aeruginosa secreted factors impair biofilm development in Candida albicans

(2010) Lucy J. Holcombe et al.   MICROBIOLOGY-SGM

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Review article: anti-inflammatory mechanisms of action ofSaccharomyces boulardii

(2009) C. POTHOULAKIS   ALIMENTARY PHARMACOLOGY & THERAPEUTICS

Candida albicans Colonization and ASCA in Familial Crohn's Disease

(2009) Annie Standaert-Vitse et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Low counts of Faecalibacterium prausnitzii in colitis microbiota

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

The Effect of Saccharomyces boulardii on Human Colon Cells and Inflammation in Rats with Trinitrobenzene Sulfonic Acid-Induced Colitis

(2008) Sang Kil Lee et al.   DIGESTIVE DISEASES AND SCIENCES

Colonization of Mice byCandida albicansIs Promoted by Chemically Induced Colitis and Augments Inflammatory Responses through Galectin‐3

(2008) Samir Jawhara et al.   JOURNAL OF INFECTIOUS 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