The complex interplay of diet, xenobiotics, and microbial metabolism in the gut: Implications for clinical outcomes

Diet-induced extinctions in the gut microbiota compound over generations

(2016) Erica D. Sonnenburg et al.   NATURE

Personalized Nutrition by Prediction of Glycemic Responses

(2015) David Zeevi et al.   CELL

Non-lethal Inhibition of Gut Microbial Trimethylamine Production for the Treatment of Atherosclerosis

(2015) Zeneng Wang et al.   CELL

Quantifying Diet-Induced Metabolic Changes of the Human Gut Microbiome

(2015) Saeed Shoaie et al.   Cell Metabolism

How informative is the mouse for human gut microbiota research?

(2015) T. L. A. Nguyen et al.   Disease Models & Mechanisms

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

(2015) E Quévrain et al.   GUT

The initial state of the human gut microbiome determines its reshaping by antibiotics

(2015) Frédéric Raymond et al.   ISME Journal

Simulating distal gut mucosal and luminal communities using packed-column biofilm reactors and an in vitro chemostat model

(2015) Julie A.K. McDonald et al.   JOURNAL OF MICROBIOLOGICAL METHODS

In vivo imaging and tracking of host–microbiota interactions via metabolic labeling of gut anaerobic bacteria

(2015) Naama Geva-Zatorsky et al.   NATURE MEDICINE

Commensal Bifidobacterium promotes antitumor immunity and facilitates anti-PD-L1 efficacy

(2015) A. Sivan et al.   SCIENCE

Anticancer immunotherapy by CTLA-4 blockade relies on the gut microbiota

(2015) M. Vetizou et al.   SCIENCE

Metabolic and metagenomic outcomes from early-life pulsed antibiotic treatment

(2015) Yael R. Nobel et al.   Nature Communications

A Systematic Analysis of Biosynthetic Gene Clusters in the Human Microbiome Reveals a Common Family of Antibiotics

(2014) Mohamed S. Donia et al.   CELL

Defining dysbiosis and its influence on host immunity and disease

(2014) Charisse Petersen et al.   CELLULAR MICROBIOLOGY

Bile acids and the gut microbiome

(2014) Jason M. Ridlon et al.   CURRENT OPINION IN GASTROENTEROLOGY

Comparative metabolomics in vegans and omnivores reveal constraints on diet-dependent gut microbiota metabolite production

(2014) Gary D Wu et al.   GUT

Microbiome of prebiotic-treated mice reveals novel targets involved in host response during obesity

(2014) Amandine Everard et al.   ISME Journal

Precision microbiome reconstitution restores bile acid mediated resistance to Clostridium difficile

(2014) Charlie G. Buffie et al.   NATURE

Differential Modulation by Akkermansia muciniphila and Faecalibacterium prausnitzii of Host Peripheral Lipid Metabolism and Histone Acetylation in Mouse Gut Organoids

(2014) S. Lukovac et al.   mBio

Host lifestyle affects human microbiota on daily timescales

(2014) Lawrence A David et al.   GENOME BIOLOGY

Protective effect of a mixture of kefir-isolated lactic acid bacteria and yeasts in a hamster model of Clostridium difficile infection

(2013) Patricia A. Bolla et al.   ANAEROBE

Microbiota Modulate Behavioral and Physiological Abnormalities Associated with Neurodevelopmental Disorders

(2013) Elaine Y. Hsiao et al.   CELL

Xenobiotics Shape the Physiology and Gene Expression of the Active Human Gut Microbiome

(2013) Corinne Ferrier Maurice et al.   CELL

Microbial Modulation of Energy Availability in the Colon Regulates Intestinal Transit

(2013) Anita Wichmann et al.   Cell Host & Microbe

A metabolomic view of how the human gut microbiota impacts the host metabolome using humanized and gnotobiotic mice

(2013) A Marcobal et al.   ISME Journal

The role of short-chain fatty acids in the interplay between diet, gut microbiota, and host energy metabolism

(2013) Gijs den Besten et al.   JOURNAL OF LIPID RESEARCH

Evaluation of microbial community reproducibility, stability and composition in a human distal gut chemostat model

(2013) Julie A.K. McDonald et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Diet rapidly and reproducibly alters the human gut microbiome

(2013) Lawrence A. David et al.   NATURE

Intestinal microbiota metabolism of l-carnitine, a nutrient in red meat, promotes atherosclerosis

(2013) Robert A Koeth et al.   NATURE MEDICINE

Antibiotics as Part of the Management of Severe Acute Malnutrition

(2013) Indi Trehan et al.   NEW ENGLAND JOURNAL OF MEDICINE

Archaea and Fungi of the Human Gut Microbiome: Correlations with Diet and Bacterial Residents

(2013) Christian Hoffmann 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

Commensal Bacteria Control Cancer Response to Therapy by Modulating the Tumor Microenvironment

(2013) N. Iida et al.   SCIENCE

Gut Microbiomes of Malawian Twin Pairs Discordant for Kwashiorkor

(2013) M. I. Smith et al.   SCIENCE

The Long-Term Stability of the Human Gut Microbiota

(2013) J. J. Faith et al.   SCIENCE

The Intestinal Microbiota Modulates the Anticancer Immune Effects of Cyclophosphamide

(2013) S. Viaud et al.   SCIENCE

Long-Term Follow-Up of Colonoscopic Fecal Microbiota Transplant for Recurrent Clostridium difficile Infection

(2012) Lawrence J Brandt et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Gut Immune Maturation Depends on Colonization with a Host-Specific Microbiota

(2012) Hachung Chung et al.   CELL

Bacteria as vitamin suppliers to their host: a gut microbiota perspective

(2012) Jean Guy LeBlanc et al.   CURRENT OPINION IN BIOTECHNOLOGY

Cholesterol lowering and inhibition of sterol absorption by Lactobacillus reuteri NCIMB 30242: a randomized controlled trial

(2012) M L Jones et al.   EUROPEAN JOURNAL OF CLINICAL NUTRITION

Structure, function and diversity of the healthy human microbiome

(2012)   NATURE

Is It Time for a Metagenomic Basis of Therapeutics?

(2012) H. J. Haiser et al.   SCIENCE

The Application of Ecological Theory Toward an Understanding of the Human Microbiome

(2012) E. K. Costello et al.   SCIENCE

Targeted Restoration of the Intestinal Microbiota with a Simple, Defined Bacteriotherapy Resolves Relapsing Clostridium difficile Disease in Mice

(2012) Trevor D. Lawley et al.   PLoS Pathogens

Impact of microbial transformation of food on health—from fermented foods to fermentation in the gastro-intestinal tract

(2011) Johan ET van Hylckama Vlieg et al.   CURRENT OPINION IN BIOTECHNOLOGY

Short-Chain Fatty Acids Stimulate Glucagon-Like Peptide-1 Secretion via the G-Protein-Coupled Receptor FFAR2

(2011) G. Tolhurst et al.   DIABETES

Isolation of catechin-converting human intestinal bacteria

(2011) M. Kutschera et al.   JOURNAL OF APPLIED MICROBIOLOGY

The Intestinal Microbiota and Obesity

(2011) Samuel J. Kallus et al.   JOURNAL OF CLINICAL GASTROENTEROLOGY

Relevance of protein fermentation to gut health

(2011) Karen Windey et al.   MOLECULAR NUTRITION & FOOD RESEARCH

Experimental and analytical tools for studying the human microbiome

(2011) Justin Kuczynski et al.   NATURE REVIEWS GENETICS

Gut Microbiota of Healthy and Malnourished Children in Bangladesh

(2011) Shirajum Monira et al.   Frontiers in Microbiology

Regulation of human epithelial tight junction proteins by Lactobacillus plantarum in vivo and protective effects on the epithelial barrier

(2010) Jurgen Karczewski et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

High polyphenol, low probiotic diet for weight loss because of intestinal microbiota interaction

(2010) Reza Rastmanesh   CHEMICO-BIOLOGICAL INTERACTIONS

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

Short-Term Antibiotic Treatment Has Differing Long-Term Impacts on the Human Throat and Gut Microbiome

(2010) Hedvig E. Jakobsson et al.   PLoS One

Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins

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

Incomplete recovery and individualized responses of the human distal gut microbiota to repeated antibiotic perturbation

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

Succession of microbial consortia in the developing infant gut microbiome

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

Alleviating Cancer Drug Toxicity by Inhibiting a Bacterial Enzyme

(2010) B. D. Wallace et al.   SCIENCE

Gut microbiota fermentation of prebiotics increases satietogenic and incretin gut peptide production with consequences for appetite sensation and glucose response after a meal

(2009) Patrice D Cani et al.   AMERICAN JOURNAL OF CLINICAL NUTRITION

Antibiotic use in infancy and symptoms of asthma, rhinoconjunctivitis, and eczema in children 6 and 7 years old: International Study of Asthma and Allergies in Childhood Phase III

(2009) Sunia Foliaki et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Pharmacometabonomic identification of a significant host-microbiome metabolic interaction affecting human drug metabolism

(2009) T. A. Clayton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bacterial Community Variation in Human Body Habitats Across Space and Time

(2009) E. K. Costello et al.   SCIENCE

The Effect of Diet on the Human Gut Microbiome: A Metagenomic Analysis in Humanized Gnotobiotic Mice

(2009) P. J. Turnbaugh et al.   Science Translational Medicine

Linking phylogenetic identities of bacteria to starch fermentation in anin vitromodel of the large intestine by RNA-based stable isotope probing

(2008) Petia Kovatcheva-Datchary et al.   ENVIRONMENTAL MICROBIOLOGY

The gastrointestinal microbiota as a site for the biotransformation of drugs

(2008) Tiago Sousa et al.   INTERNATIONAL JOURNAL OF PHARMACEUTICS