Gut microbiota-derived metabolites as key actors in inflammatory bowel disease

Effect of Fecal Microbiota Transplantation on 8-Week Remission in Patients With Ulcerative Colitis

(2019) Samuel P. Costello et al.   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

Serum Metabolomics Identifies Altered Bioenergetics, Signaling Cascades in Parallel with Exposome Markers in Crohn’s Disease

(2019) Yunjia Lai et al.   MOLECULES

A Weaning Reaction to Microbiota Is Required for Resistance to Immunopathologies in the Adult

(2019) Ziad Al Nabhani et al.   IMMUNITY

A Forward Chemical Genetic Screen Reveals Gut Microbiota Metabolites That Modulate Host Physiology

(2019) Haiwei Chen et al.   CELL

Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases

(2019) Jason Lloyd-Price et al.   NATURE

Microbial bile acid metabolites modulate gut RORγ+ regulatory T cell homeostasis

(2019) Xinyang Song et al.   NATURE

Microbiota-Derived Indole Metabolites Promote Human and Murine Intestinal Homeostasis through Regulation of Interleukin-10 Receptor

(2018) Erica E. Alexeev et al.   AMERICAN JOURNAL OF PATHOLOGY

METLIN: A Technology Platform for Identifying Knowns and Unknowns

(2018) Carlos Guijas et al.   ANALYTICAL CHEMISTRY

Accessing Bioactive Natural Products from the Human Microbiome

(2018) Aleksandr Milshteyn et al.   Cell Host & Microbe

Advances in computational metabolomics and databases deepen the understanding of metabolisms

(2018) Hiroshi Tsugawa   CURRENT OPINION IN BIOTECHNOLOGY

P421 SER-287, an investigational microbiome therapeutic, induces remission and endoscopic improvement in a placebo-controlled, double-blind randomised trial in patients with active mild-to-moderate ulcerative colitis

(2018) B Misra et al.   Journal of Crohns & Colitis

The fecal metabolome as a functional readout of the gut microbiome

(2018) Jonas Zierer et al.   NATURE GENETICS

Best practices for analysing microbiomes

(2018) Rob Knight et al.   NATURE REVIEWS MICROBIOLOGY

Gut Microbiota-Derived Tryptophan Metabolites Modulate Inflammatory Response in Hepatocytes and Macrophages

(2018) Smitha Krishnan et al.   Cell Reports

Dynamics of metatranscription in the inflammatory bowel disease gut microbiome

(2018) Melanie Schirmer et al.   Nature Microbiology

NLRP1 restricts butyrate producing commensals to exacerbate inflammatory bowel disease

(2018) Hazel Tye et al.   Nature Communications

SCFAs strongly stimulate PYY production in human enteroendocrine cells

(2018) P. Larraufie et al.   Scientific Reports

Comparative analysis of Faecalibacterium prausnitzii genomes shows a high level of genome plasticity and warrants separation into new species-level taxa

(2018) Cormac Brian Fitzgerald et al.   BMC GENOMICS

Succinate receptor mediates intestinal inflammation and fibrosis

(2018) Dulce C. Macias-Ceja et al.   Mucosal Immunology

Gut microbiome structure and metabolic activity in inflammatory bowel disease

(2018) Eric A. Franzosa et al.   Nature Microbiology

Increased Tryptophan Metabolism Is Associated With Activity of Inflammatory Bowel Diseases

(2017) Susanna Nikolaus et al.   GASTROENTEROLOGY

A microbial signature for Crohn's disease

(2017) Victoria Pascal et al.   GUT

Determinants of Reduced Genetic Capacity for Butyrate Synthesis by the Gut Microbiome in Crohn’s Disease and Ulcerative Colitis

(2017) Emilio J Laserna-Mendieta et al.   Journal of Crohns & Colitis

P478 The current place of probiotics in treatment of pouchitis: systematic review

(2017) L. Lichtenstein et al.   Journal of Crohns & Colitis

Worldwide incidence and prevalence of inflammatory bowel disease in the 21st century: a systematic review of population-based studies

(2017) Siew C Ng et al.   LANCET

Multidonor intensive faecal microbiota transplantation for active ulcerative colitis: a randomised placebo-controlled trial

(2017) Sudarshan Paramsothy et al.   LANCET

Commensal bacteria make GPCR ligands that mimic human signalling molecules

(2017) Louis J. Cohen et al.   NATURE

A gut bacterial pathway metabolizes aromatic amino acids into nine circulating metabolites

(2017) Dylan Dodd et al.   NATURE

Assessment of variation in microbial community amplicon sequencing by the Microbiome Quality Control (MBQC) project consortium

(2017) Rashmi Sinha et al.   NATURE BIOTECHNOLOGY

Towards standards for human fecal sample processing in metagenomic studies

(2017) Paul I Costea et al.   NATURE BIOTECHNOLOGY

Kynurenines: Tryptophan’s metabolites in exercise, inflammation, and mental health

(2017) Igor Cervenka et al.   SCIENCE

Gut microbiome interactions with drug metabolism, efficacy, and toxicity

(2017) Ian D. Wilson et al.   Translational Research

Meta-Analysis of Fecal Microbiota and Metabolites in Experimental Colitic Mice during the Inflammatory and Healing Phases

(2017) Toshifumi Osaka et al.   Nutrients

The Gut Microbial Metabolite Trimethylamine-N-Oxide Is Present in Human Cerebrospinal Fluid

(2017) Daniele Del Rio et al.   Nutrients

A novel Ruminococcus gnavus clade enriched in inflammatory bowel disease patients

(2017) Andrew Brantley Hall et al.   Genome Medicine

Functional Characterization of Novel Faecalibacterium prausnitzii Strains Isolated from Healthy Volunteers: A Step Forward in the Use of F. prausnitzii as a Next-Generation Probiotic

(2017) Rebeca Martín et al.   Frontiers in Microbiology

The gut microbiota, bile acids and their correlation in primary sclerosing cholangitis associated with inflammatory bowel disease

(2017) J Torres et al.   United European Gastroenterology Journal

Next-generation probiotics: the spectrum from probiotics to live biotherapeutics

(2017) Paul W. O’Toole et al.   Nature Microbiology

Cross sectional evaluation of the gut-microbiome metabolome axis in an Italian cohort of IBD patients

(2017) Maria Laura Santoru et al.   Scientific Reports

Dark matter in host-microbiome metabolomics: Tackling the unknowns–A review

(2017) B.Y. Loulou Peisl et al.   ANALYTICA CHIMICA ACTA

Succinate Dehydrogenase Supports Metabolic Repurposing of Mitochondria to Drive Inflammatory Macrophages

(2016) Evanna L. Mills et al.   CELL

The Colonic Crypt Protects Stem Cells from Microbiota-Derived Metabolites

(2016) Gerard E. Kaiko et al.   CELL

Gut Microbial Metabolites Fuel Host Antibody Responses

(2016) Myunghoo Kim et al.   Cell Host & Microbe

Microbiota-Produced Succinate Improves Glucose Homeostasis via Intestinal Gluconeogenesis

(2016) Filipe De Vadder et al.   Cell Metabolism

Reprogramming of hepatic fat accumulation and 'browning' of adipose tissue by the short-chain fatty acid acetate

(2016) M Sahuri-Arisoylu et al.   INTERNATIONAL JOURNAL OF OBESITY

Accounting for reciprocal host–microbiome interactions in experimental science

(2016) Thaddeus S. Stappenbeck et al.   NATURE

Diet-induced extinctions in the gut microbiota compound over generations

(2016) Erica D. Sonnenburg et al.   NATURE

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

(2016) Bruno Lamas et al.   NATURE MEDICINE

Gut microbiota depletion from early adolescence in mice: Implications for brain and behaviour

(2015) Lieve Desbonnet et al.   BRAIN BEHAVIOR AND IMMUNITY

Indigenous Bacteria from the Gut Microbiota Regulate Host Serotonin Biosynthesis

(2015) Jessica M. Yano et al.   CELL

Gut microbes promote colonic serotonin production through an effect of short-chain fatty acids on enterochromaffin cells

(2015) Christopher S. Reigstad et al.   FASEB JOURNAL

Fecal Microbiota Transplantation Induces Remission in Patients With Active Ulcerative Colitis in a Randomized Controlled Trial

(2015) Paul Moayyedi et al.   GASTROENTEROLOGY

Findings From a Randomized Controlled Trial of Fecal Transplantation for Patients With Ulcerative Colitis

(2015) Noortje G. Rossen et al.   GASTROENTEROLOGY

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

(2015) E Quévrain et al.   GUT

Dietary emulsifiers impact the mouse gut microbiota promoting colitis and metabolic syndrome

(2015) Benoit Chassaing et al.   NATURE

Small molecules from the human microbiota

(2015) M. S. Donia et al.   SCIENCE

The effect of Clostridium butyricum MIYAIRI on the prevention of pouchitis and alteration of the microbiota profile in patients with ulcerative colitis

(2015) Asuka Yasueda et al.   SURGERY TODAY

Metabolite-sensing receptors GPR43 and GPR109A facilitate dietary fibre-induced gut homeostasis through regulation of the inflammasome

(2015) Laurence Macia et al.   Nature Communications

The Integrative Human Microbiome Project: Dynamic Analysis of Microbiome-Host Omics Profiles during Periods of Human Health and Disease

(2014)   Cell Host & Microbe

Starving our Microbial Self: The Deleterious Consequences of a Diet Deficient in Microbiota-Accessible Carbohydrates

(2014) Erica D. Sonnenburg et al.   Cell Metabolism

Faecal metabolite profiling identifies medium-chain fatty acids as discriminating compounds in IBD

(2014) Vicky De Preter et al.   GUT

Symbiotic Bacterial Metabolites Regulate Gastrointestinal Barrier Function via the Xenobiotic Sensor PXR and Toll-like Receptor 4

(2014) Madhukumar Venkatesh et al.   IMMUNITY

Activation of Gpr109a, Receptor for Niacin and the Commensal Metabolite Butyrate, Suppresses Colonic Inflammation and Carcinogenesis

(2014) Nagendra Singh et al.   IMMUNITY

The Commensal Bacterium Faecalibacterium prausnitzii Is Protective in DNBS-induced Chronic Moderate and Severe Colitis Models

(2014) Rebeca Martín et al.   INFLAMMATORY BOWEL DISEASES

Impact of diet and individual variation on intestinal microbiota composition and fermentation products in obese men

(2014) Anne Salonen et al.   ISME Journal

Metabonomics of human fecal extracts characterize ulcerative colitis, Crohn’s disease and healthy individuals

(2014) Jacob Tveiten Bjerrum et al.   Metabolomics

Precision microbiome reconstitution restores bile acid mediated resistance to Clostridium difficile

(2014) Charlie G. Buffie et al.   NATURE

Extraction for Metabolomics: Access to The Metabolome

(2014) Mian Yahya Mushtaq et al.   PHYTOCHEMICAL ANALYSIS

Bacterial Bile Metabolising Gene Abundance in Crohn's, Ulcerative Colitis and Type 2 Diabetes Metagenomes

(2014) Alain Labbé et al.   PLoS One

The microbial metabolite butyrate regulates intestinal macrophage function via histone deacetylase inhibition

(2014) Pamela V. Chang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regulation of host weight gain and lipid metabolism by bacterial bile acid modification in the gut

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

Serum and urine metabolomic fingerprinting in diagnostics of inflammatory bowel diseases

(2014) Tomasz Dawiskiba   WORLD JOURNAL OF GASTROENTEROLOGY

The short-chain fatty acid acetate reduces appetite via a central homeostatic mechanism

(2014) Gary Frost et al.   Nature Communications

Bacterial Metabolite Indole Modulates Incretin Secretion from Intestinal Enteroendocrine L Cells

(2014) Catalin Chimerel et al.   Cell Reports

Microbiota transplantation restores normal fecal bile acid composition in recurrent Clostridium difficile infection

(2013) Alexa R. Weingarden et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

1H NMR-based spectroscopy detects metabolic alterations in serum of patients with early-stage ulcerative colitis

(2013) Ying Zhang et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Advances in inflammatory bowel disease pathogenesis: linking host genetics and the microbiome

(2013) Dan Knights et al.   GUT

A decrease of the butyrate-producing speciesRoseburia hominisandFaecalibacterium prausnitziidefines dysbiosis in patients with ulcerative colitis

(2013) Kathleen Machiels et al.   GUT

The burden of inflammatory bowel disease in Europe

(2013) Johan Burisch et al.   Journal of Crohns & Colitis

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

Hippurate: The Natural History of a Mammalian–Microbial Cometabolite

(2013) Hannah J. Lees et al.   JOURNAL OF PROTEOME RESEARCH

Obesity-induced gut microbial metabolite promotes liver cancer through senescence secretome

(2013) Shin Yoshimoto et al.   NATURE

Commensal microbe-derived butyrate induces the differentiation of colonic regulatory T cells

(2013) Yukihiro Furusawa et al.   NATURE

Diet rapidly and reproducibly alters the human gut microbiome

(2013) Lawrence A. David et al.   NATURE

Treg induction by a rationally selected mixture of Clostridia strains from the human microbiota

(2013) Koji Atarashi et al.   NATURE

Bile acid receptors as targets for drug development

(2013) Frank G. Schaap et al.   Nature Reviews Gastroenterology & Hepatology

Intestinal Microbial Metabolism of Phosphatidylcholine and Cardiovascular Risk

(2013) W.H. Wilson Tang et al.   NEW ENGLAND JOURNAL OF MEDICINE

Duodenal Infusion of Donor Feces for Recurrent Clostridium difficile

(2013) Els van Nood et al.   NEW ENGLAND JOURNAL OF MEDICINE

The Microbial Metabolites, Short-Chain Fatty Acids, Regulate Colonic Treg Cell Homeostasis

(2013) P. M. Smith et al.   SCIENCE

The gut microbiota suppresses insulin-mediated fat accumulation via the short-chain fatty acid receptor GPR43

(2013) Ikuo Kimura et al.   Nature Communications

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

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

Connecting dysbiosis, bile-acid dysmetabolism and gut inflammation in inflammatory bowel diseases

(2012) Henri Duboc et al.   GUT

Urinary NMR metabolomic profiles discriminate inflammatory bowel disease from healthy

(2012) Natasha S. Stephens et al.   Journal of Crohns & Colitis

Quantitative Metabolomic Profiling of Serum, Plasma, and Urine by 1H NMR Spectroscopy Discriminates between Patients with Inflammatory Bowel Disease and Healthy Individuals

(2012) Rudolf Schicho et al.   JOURNAL OF PROTEOME RESEARCH

Dietary-fat-induced taurocholic acid promotes pathobiont expansion and colitis in Il10 −/− mice

(2012) Suzanne Devkota et al.   NATURE

ACE2 links amino acid malnutrition to microbial ecology and intestinal inflammation

(2012) Tatsuo Hashimoto et al.   NATURE

Novel, Objective, Multivariate Biomarkers Composed of Plasma Amino Acid Profiles for the Diagnosis and Assessment of Inflammatory Bowel Disease

(2012) Tadakazu Hisamatsu et al.   PLoS One

Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment

(2012) Xochitl C Morgan et al.   GENOME BIOLOGY

Modern analytical techniques in metabolomics analysis

(2011) Aihua Zhang et al.   ANALYST

Exogenous Stimuli Maintain Intraepithelial Lymphocytes via Aryl Hydrocarbon Receptor Activation

(2011) Ying Li et al.   CELL

FGF15/19 Regulates Hepatic Glucose Metabolism by Inhibiting the CREB-PGC-1α Pathway

(2011) Matthew J. Potthoff et al.   Cell Metabolism

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

(2011) G. Tolhurst et al.   DIABETES

Aryl Hydrocarbon Receptor-Induced Signals Up-regulate IL-22 Production and Inhibit Inflammation in the Gastrointestinal Tract

(2011) Ivan Monteleone et al.   GASTROENTEROLOGY

Bile Acid Is a Host Factor That Regulates the Composition of the Cecal Microbiota in Rats

(2011) K.B.M. Saiful Islam et al.   GASTROENTEROLOGY

Farnesoid X receptor activation inhibits inflammation and preserves the intestinal barrier in inflammatory bowel disease

(2011) R. M. Gadaleta et al.   GUT

The G-Protein-coupled bile acid receptor, Gpbar1 (TGR5), negatively regulates hepatic inflammatory response through antagonizing nuclear factor kappa light-chain enhancer of activated B cells (NF-κB) in mice

(2011) Yan-Dong Wang et al.   HEPATOLOGY

The Aryl Hydrocarbon Receptor Regulates Gut Immunity through Modulation of Innate Lymphoid Cells

(2011) Ju Qiu et al.   IMMUNITY

Lactobacillus bulgaricus OLL1181 activates the aryl hydrocarbon receptor pathway and inhibits colitis

(2011) Takeyuki Takamura et al.   IMMUNOLOGY AND CELL BIOLOGY

GC/MS-based profiling of amino acids and TCA cycle-related molecules in ulcerative colitis

(2011) Makoto Ooi et al.   INFLAMMATION RESEARCH

Impaired butyrate oxidation in ulcerative colitis is due to decreased butyrate uptake and a defect in the oxidation pathway*

(2011) Vicky De Preter et al.   INFLAMMATORY BOWEL DISEASES

Variation in Antibiotic-Induced Microbial Recolonization Impacts on the Host Metabolic Phenotypes of Rats

(2011) Jonathan R. Swann et al.   JOURNAL OF PROTEOME RESEARCH

Metabolic Phenotyping of the Crohn's Disease-like IBD Etiopathology in the TNFΔARE/WTMouse Model

(2011) Pia Baur et al.   JOURNAL OF PROTEOME RESEARCH

Metabolomics of Fecal Extracts Detects Altered Metabolic Activity of Gut Microbiota in Ulcerative Colitis and Irritable Bowel Syndrome

(2011) Gwénaëlle Le Gall et al.   JOURNAL OF PROTEOME RESEARCH

Understanding the role of gut microbiome–host metabolic signal disruption in health and disease

(2011) Elaine Holmes et al.   TRENDS IN MICROBIOLOGY

Differences in gut microbial metabolism are responsible for reduced hippurate synthesis in Crohn's disease

(2010) Horace RT Williams et al.   BMC GASTROENTEROLOGY

Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa

(2010) C. De Filippo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Characterization of Inflammatory Bowel Disease With Urinary Metabolic Profiling

(2009) Horace R T Williams et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

The Bile Acid Receptor FXR Is a Modulator of Intestinal Innate Immunity

(2009) P. Vavassori et al.   JOURNAL OF IMMUNOLOGY

Partial Replacement of Dietary (n-6) Fatty Acids with Medium-Chain Triglycerides Decreases the Incidence of Spontaneous Colitis in Interleukin-10–Deficient Mice

(2009) Josep Mañé et al.   JOURNAL OF NUTRITION

Regulation of inflammatory responses by gut microbiota and chemoattractant receptor GPR43

(2009) Kendle M. Maslowski et al.   NATURE

Metabolomics Reveals Metabolic Biomarkers of Crohn's Disease

(2009) Janet Jansson et al.   PLoS One

Metabolomics analysis reveals large effects of gut microflora on mammalian blood metabolites

(2009) W. R. Wikoff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Expression and function of the bile acid receptor TGR5 in Kupffer cells

(2008) Verena Keitel et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Bile Salts Control the Antimicrobial Peptide Cathelicidin Through Nuclear Receptors in the Human Biliary Epithelium

(2008) Emilie D'Aldebert et al.   GASTROENTEROLOGY

Innate and Adaptive Interleukin-22 Protects Mice from Inflammatory Bowel Disease

(2008) Lauren A. Zenewicz et al.   IMMUNITY

Metabonomic and Microbiological Analysis of the Dynamic Effect of Vancomycin-Induced Gut Microbiota Modification in the Mouse

(2008) Ivan K. S. Yap et al.   JOURNAL OF PROTEOME RESEARCH

PU.1 and bacterial metabolites regulate the human gene CAMP encoding antimicrobial peptide LL-37 in colon epithelial cells

(2008) Stefan Termén et al.   MOLECULAR IMMUNOLOGY

Systemic multicompartmental effects of the gut microbiome on mouse metabolic phenotypes

(2008) Sandrine P Claus et al.   Molecular Systems Biology

Functional and comparative metagenomic analysis of bile salt hydrolase activity in the human gut microbiome

(2008) B. V. Jones et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Imbalance in intestinal microflora constitution could be involved in the pathogenesis of inflammatory bowel disease

(2007) Hiromasa Takaishi et al.   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY