High-fat diet modifies the PPAR-γ pathway leading to disruption of microbial and physiological ecosystem in murine small intestine

Changes in intestinal barrier function and gut microbiota in high-fat diet-fed rats are dynamic and region dependent

(2015) M. Kristina Hamilton et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

Quantitative Imaging of Gut Microbiota Spatial Organization

(2015) Kristen A. Earle et al.   Cell Host & Microbe

Diet Dominates Host Genotype in Shaping the Murine Gut Microbiota

(2015) Rachel N. Carmody et al.   Cell Host & Microbe

Normalization of Host Intestinal Mucus Layers Requires Long-Term Microbial Colonization

(2015) Malin E.V. Johansson et al.   Cell Host & Microbe

Defective NOD2 peptidoglycan sensing promotes diet-induced inflammation, dysbiosis, and insulin resistance

(2015) E. Denou et al.   EMBO Molecular Medicine

Relationships between diet-related changes in the gut microbiome and cognitive flexibility

(2015) K.R. Magnusson et al.   NEUROSCIENCE

Mucosal physical and chemical innate barriers: Lessons from microbial evasion strategies

(2015) Brice Sperandio et al.   SEMINARS IN IMMUNOLOGY

The Hologenome Concept: Helpful or Hollow?

(2015) Nancy A. Moran et al.   PLOS BIOLOGY

The Physico-Chemical Properties of Dietary Fibre Determine Metabolic Responses, Short-Chain Fatty Acid Profiles and Gut Microbiota Composition in Rats Fed Low- and High-Fat Diets

(2015) Frida Fåk et al.   PLoS One

The marriage of nutrigenomics with the microbiome: the case of infant-associated bifidobacteria and milk

(2014) David A Sela et al.   AMERICAN JOURNAL OF CLINICAL NUTRITION

The Cytosolic Bacterial Peptidoglycan Sensor Nod2 Affords Stem Cell Protection and Links Microbes to Gut Epithelial Regeneration

(2014) Giulia Nigro et al.   Cell Host & Microbe

The composition of the gut microbiota shapes the colon mucus barrier

(2014) H. E. Jakobsson et al.   EMBO REPORTS

Early colonizing Escherichia coli elicits remodeling of rat colonic epithelium shifting toward a new homeostatic state

(2014) Julie Tomas et al.   ISME Journal

Microbial sensing by goblet cells controls immune surveillance of luminal antigens in the colon

(2014) K A Knoop et al.   Mucosal Immunology

A Distinct Fatty Acid Profile Underlies the Reduced Inflammatory State of Metabolically Healthy Obese Individuals

(2014) Maude Perreault et al.   PLoS One

Dietary Patterns Differently Associate with Inflammation and Gut Microbiota in Overweight and Obese Subjects

(2014) Ling Chun Kong et al.   PLoS One

Microbial-induced meprin   cleavage in MUC2 mucin and a functional CFTR channel are required to release anchored small intestinal mucus

(2014) A. Schutte et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Intestinal epithelial MyD88 is a sensor switching host metabolism towards obesity according to nutritional status

(2014) Amandine Everard et al.   Nature Communications

Absence of Intestinal PPARγ Aggravates Acute Infectious Colitis in Mice through a Lipocalin-2–Dependent Pathway

(2014) Parag Kundu et al.   PLoS Pathogens

Bacteria penetrate the normally impenetrable inner colon mucus layer in both murine colitis models and patients with ulcerative colitis

(2013) Malin E V Johansson et al.   GUT

High-fat diet alters gut microbiota physiology in mice

(2013) Hannelore Daniel et al.   ISME Journal

A functional CFTR assay using primary cystic fibrosis intestinal organoids

(2013) Johanna F Dekkers et al.   NATURE MEDICINE

Commensal Akkermansia muciniphila Exacerbates Gut Inflammation in Salmonella Typhimurium-Infected Gnotobiotic Mice

(2013) Bhanu Priya Ganesh et al.   PLoS One

Cross-talk between Akkermansia muciniphila and intestinal epithelium controls diet-induced obesity

(2013) A. Everard et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Host interactions with Segmented Filamentous Bacteria: An unusual trade-off that drives the post-natal maturation of the gut immune system

(2013) Pamela Schnupf et al.   SEMINARS IN IMMUNOLOGY

Differential colonization with segmented filamentous bacteria and Lactobacillus murinus do not drive divergent development of diet-induced obesity in C57BL/6 mice

(2013) Isaac T.W. Harley et al.   Molecular Metabolism

Primocolonization is associated with colonic epithelial maturation during conventionalization

(2012) Julie Tomas et al.   FASEB JOURNAL

Comparative analysis of the distribution of segmented filamentous bacteria in humans, mice and chickens

(2012) Yeshi Yin et al.   ISME Journal

Bicarbonate and functional CFTR channel are required for proper mucin secretion and link cystic fibrosis with its mucus phenotype

(2012) Jenny K. Gustafsson et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Goblet cells deliver luminal antigen to CD103+ dendritic cells in the small intestine

(2012) Jeremiah R. McDole et al.   NATURE

Calcium and pH-dependent packing and release of the gel-forming MUC2 mucin

(2012) D. Ambort et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

PPARs at the crossroads of lipid signaling and inflammation

(2012) Walter Wahli et al.   TRENDS IN ENDOCRINOLOGY AND METABOLISM

A Crypt-Specific Core Microbiota Resides in the Mouse Colon

(2012) T. Pedron et al.   mBio

Toll-Like Receptor–Gut Microbiota Interactions: Perturb at Your Own Risk!

(2011) Frederic A. Carvalho et al.   Annual Review of Physiology

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

Complete Genome Sequences of Rat and Mouse Segmented Filamentous Bacteria, a Potent Inducer of Th17 Cell Differentiation

(2011) Tulika Prakash et al.   Cell Host & Microbe

Metabolic adaptation to a high-fat diet is associated with a change in the gut microbiota

(2011) Matteo Serino et al.   GUT

Fermentation in the Human Large Intestine

(2011) George T. Macfarlane et al.   JOURNAL OF CLINICAL GASTROENTEROLOGY

Paneth cells, antimicrobial peptides and maintenance of intestinal homeostasis

(2011) Charles L. Bevins et al.   NATURE REVIEWS MICROBIOLOGY

Depletion of Murine Intestinal Microbiota: Effects on Gut Mucosa and Epithelial Gene Expression

(2011) Dag Henrik Reikvam et al.   PLoS One

The Antibacterial Lectin RegIII  Promotes the Spatial Segregation of Microbiota and Host in the Intestine

(2011) S. Vaishnava et al.   SCIENCE

Luminal leptin inhibits l-glutamine transport in rat small intestine: involvement of ASCT2 and B0AT1

(2010) Robert Ducroc et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Evidence for intestinal chloride secretion

(2010) Michael Murek et al.   EXPERIMENTAL PHYSIOLOGY

New therapeutic targets in ulcerative colitis: The importance of ion transporters in the human colon

(2010) Klaudia Farkas et al.   INFLAMMATORY BOWEL DISEASES

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

Pharmacological correction of a defect in PPAR-γ signaling ameliorates disease severity in Cftr-deficient mice

(2010) Gregory S Harmon et al.   NATURE MEDICINE

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Epithelial crosstalk at the microbiota-mucosal interface

(2010) J. M. Wells et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Peroxisome proliferator-activated receptor gamma activation is required for maintenance of innate antimicrobial immunity in the colon

(2010) L. Peyrin-Biroulet et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A guide to Ussing chamber studies of mouse intestine

(2009) Lane L. Clarke   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

Birth of mucus

(2009) Paul M. Quinton   AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

Differential activation of the HCO3- conductance through the cystic fibrosis transmembrane conductance regulator anion channel by genistein and forskolin in murine duodenum

(2009) Biguang Tuo et al.   BRITISH JOURNAL OF PHARMACOLOGY

Induction of Intestinal Th17 Cells by Segmented Filamentous Bacteria

(2009) Ivaylo I. Ivanov et al.   CELL

FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix

(2009) M. N. Price et al.   MOLECULAR BIOLOGY AND EVOLUTION

Enteric defensins are essential regulators of intestinal microbial ecology

(2009) Nita H Salzman et al.   NATURE IMMUNOLOGY

Probiotics ameliorate the hydrogen peroxide-induced epithelial barrier disruption by a PKC- and MAP kinase-dependent mechanism

(2008) A. Seth et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

Diet-Induced Obesity Is Linked to Marked but Reversible Alterations in the Mouse Distal Gut Microbiome

(2008) Peter J. Turnbaugh et al.   Cell Host & Microbe

Changes in Gut Microbiota Control Metabolic Endotoxemia-Induced Inflammation in High-Fat Diet-Induced Obesity and Diabetes in Mice

(2008) P. D. Cani et al.   DIABETES

Paneth cells directly sense gut commensals and maintain homeostasis at the intestinal host-microbial interface

(2008) S. Vaishnava et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The inner of the two Muc2 mucin-dependent mucus layers in colon is devoid of bacteria

(2008) M. E. V. Johansson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA