Intestinal epithelial cell metabolism at the interface of microbial dysbiosis and tissue injury

Microbiome risk profiles as biomarkers for inflammatory and metabolic disorders

(2022) Amira Metwaly et al.   Nature Reviews Gastroenterology & Hepatology

Mitochondrial Metabolism in the Intestinal Stem Cell Niche—Sensing and Signaling in Health and Disease

(2021) Elisabeth Urbauer et al.   Frontiers in Cell and Developmental Biology

Linking Gut Microbiome and Lipid Metabolism: Moving beyond Associations

(2021) Santosh Lamichhane et al.   Metabolites

Mitochondrial arginase-2 is essential for IL-10 metabolic reprogramming of inflammatory macrophages

(2021) Jennifer K. Dowling et al.   Nature Communications

How Changes in the Nutritional Landscape Shape Gut Immunometabolism

(2021) Jian Tan et al.   Nutrients

Inhibition of mitochondrial function by metformin increases glucose uptake, glycolysis and GDF-15 release from intestinal cells

(2021) Ming Yang et al.   Scientific Reports

Western diet induces Paneth cell defects through microbiome alterations and farnesoid X receptor and type I interferon activation

(2021) Ta-Chiang Liu et al.   Cell Host & Microbe

Metformin Affects Gut Microbiome Composition and Function and Circulating Short-Chain Fatty Acids: A Randomized Trial

(2021) Noel T. Mueller et al.   DIABETES CARE

Genome-wide enhancer maps link risk variants to disease genes

(2021) Joseph Nasser et al.   NATURE

Olaparib: A Clinically Applied PARP Inhibitor Protects from Experimental Crohn’s Disease and Maintains Barrier Integrity by Improving Bioenergetics through Rescuing Glycolysis in Colonic Epithelial Cells

(2021) Dominika Kovács et al.   Oxidative Medicine and Cellular Longevity

Targeting Mitochondrial Damage as a Therapeutic for Ileal Crohn’s Disease

(2021) Kibrom M. Alula et al.   Cells

Mitochondria and Inflammatory Bowel Diseases: Toward a Stratified Therapeutic Intervention

(2021) Gwo-tzer Ho et al.   Annual Review of Physiology

The impact of physiological metabolite levels on serine uptake, synthesis and utilization in cancer cells

(2021) Marc Hennequart et al.   Nature Communications

Arginase Signalling as a Key Player in Chronic Wound Pathophysiology and Healing

(2021) Denis C. Szondi et al.   Frontiers in Molecular Biosciences

The olfactory G protein-coupled receptor (Olfr-78/OR51E2) modulates the intestinal response to colitis

(2020) Kumar Kotlo et al.   AMERICAN JOURNAL OF PHYSIOLOGY-CELL PHYSIOLOGY

FAMIN Is a Multifunctional Purine Enzyme Enabling the Purine Nucleotide Cycle

(2020) M. Zaeem Cader et al.   CELL

Mitochondrial dysfunction during loss of prohibitin 1 triggers Paneth cell defects and ileitis

(2020) Dakota N Jackson et al.   GUT

Mitochondrial impairment drives intestinal stem cell transition into dysfunctional Paneth cells predicting Crohn’s disease recurrence

(2020) Sevana Khaloian et al.   GUT

Epithelial Toll-like receptors and their role in gut homeostasis and disease

(2020) Juan F. Burgueño et al.   Nature Reviews Gastroenterology & Hepatology

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

(2020) Aonghus Lavelle et al.   Nature Reviews Gastroenterology & Hepatology

Microbiota as Predictor of Mortality in Allogeneic Hematopoietic-Cell Transplantation

(2020) Jonathan U. Peled et al.   NEW ENGLAND JOURNAL OF MEDICINE

The Aryl Hydrocarbon Receptor (AhR) in the Aging Process: Another Puzzling Role for This Highly Conserved Transcription Factor

(2020) Vanessa Brinkmann et al.   Frontiers in Physiology

Gut Microbial Metabolites of Aromatic Amino Acids as Signals in Host–Microbe Interplay

(2020) Yali Liu et al.   TRENDS IN ENDOCRINOLOGY AND METABOLISM

Arrhythmic Gut Microbiome Signatures Predict Risk of Type 2 Diabetes

(2020) Sandra Reitmeier et al.   Cell Host & Microbe

High-Fat Diet and Antibiotics Cooperatively Impair Mitochondrial Bioenergetics to Trigger Dysbiosis that Exacerbates Pre-inflammatory Bowel Disease

(2020) Jee-Yon Lee et al.   Cell Host & Microbe

Microbial tryptophan metabolites regulate gut barrier function via the aryl hydrocarbon receptor

(2020) Samantha A. Scott et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Donor fecal microbiota transplantation ameliorates intestinal graft-versus-host disease in allogeneic hematopoietic cell transplant recipients

(2020) Yannouck F. van Lier et al.   Science Translational Medicine

Microbiome definition re-visited: old concepts and new challenges

(2020) Gabriele Berg et al.   Microbiome

Microbiota-Sourced Purines Support Wound Healing and Mucous Barrier Function

(2020) J. Scott Lee et al.   iScience

IDO1+ Paneth cells promote immune escape of colorectal cancer

(2020) Sandra Pflügler et al.   Communications Biology

Integrated microbiota and metabolite profiles link Crohn’s disease to sulfur metabolism

(2020) Amira Metwaly et al.   Nature Communications

Mitochondrial dysfunction in inflammatory bowel disease alters intestinal epithelial metabolism of hepatic acylcarnitines

(2020) Sarah A. Smith et al.   JOURNAL OF CLINICAL INVESTIGATION

Pathophysiology of Inflammatory Bowel Diseases

(2020) John T. Chang   NEW ENGLAND JOURNAL OF MEDICINE

Identification of the novel role of butyrate as AhR ligand in human intestinal epithelial cells

(2019) Ludovica Marinelli et al.   Scientific Reports

Ileal Gene Expression Data from Crohn’s Disease Small Bowel Resections Indicate Distinct Clinical Sub-Groups

(2019) Alka A Potdar et al.   Journal of Crohns & Colitis

Environmental Risk Factors for Inflammatory Bowel Diseases: an Umbrella Review of Meta-analyses

(2019) Daniele Piovani et al.   GASTROENTEROLOGY

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

(2019) Jason Lloyd-Price et al.   NATURE

Multi-omics in IBD biomarker discovery: the missing links

(2019) Amira Metwaly et al.   Nature Reviews Gastroenterology & Hepatology

Microbial genes and pathways in inflammatory bowel disease

(2019) Melanie Schirmer et al.   NATURE REVIEWS MICROBIOLOGY

Competition for nutrients and its role in controlling immune responses

(2019) Nidhi Kedia-Mehta et al.   Nature Communications

Immunoregulatory Interplay Between Arginine and Tryptophan Metabolism in Health and Disease

(2019) Giada Mondanelli et al.   Frontiers in Immunology

Ketone Body Signaling Mediates Intestinal Stem Cell Homeostasis and Adaptation to Diet

(2019) Chia-Wei Cheng et al.   CELL

Acetate coordinates neutrophil and ILC3 responses against C. difficile through FFAR2

(2019) José Luís Fachi et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Mitochondrial DNA Is a Pro-Inflammatory Damage-Associated Molecular Pattern Released During Active IBD

(2018) Ray K Boyapati et al.   INFLAMMATORY BOWEL DISEASES

Hypoxanthine is a checkpoint stress metabolite in colonic epithelial energy modulation and barrier function

(2018) J. Scott Lee et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Current understanding of the human microbiome

(2018) Jack A Gilbert et al.   NATURE MEDICINE

Mitochondrial function — gatekeeper of intestinal epithelial cell homeostasis

(2018) Eva Rath et al.   Nature Reviews Gastroenterology & Hepatology

Regulation of Innate Lymphoid Cells by Aryl Hydrocarbon Receptor

(2018) Shiyang Li et al.   Frontiers in Immunology

The Environmental Sensor AHR Protects from Inflammatory Damage by Maintaining Intestinal Stem Cell Homeostasis and Barrier Integrity

(2018) Amina Metidji et al.   IMMUNITY

ATP as a Pathophysiologic Mediator of Bacteria-Host Crosstalk in the Gastrointestinal Tract

(2018) Akie Inami et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Genome-wide DNA Methylation in Treatment-naïve Ulcerative Colitis

(2018) Hagar Taman et al.   Journal of Crohns & Colitis

PKR Senses Nuclear and Mitochondrial Signals by Interacting with Endogenous Double-Stranded RNAs

(2018) Yoosik Kim et al.   MOLECULAR CELL

Contribution of Wound-Associated Cells and Mediators in Orchestrating Gastrointestinal Mucosal Wound Repair

(2018) Miguel Quirós et al.   Annual Review of Physiology

Microbiota-Derived Lactate Accelerates Intestinal Stem-Cell-Mediated Epithelial Development

(2018) Yong-Soo Lee et al.   Cell Host & Microbe

Interaction between smoking and ATG16L1T300A triggers Paneth cell defects in Crohn’s disease

(2018) Ta-Chiang Liu et al.   JOURNAL OF CLINICAL INVESTIGATION

Colonocyte metabolism shapes the gut microbiota

(2018) Yael Litvak et al.   SCIENCE

Ulcerative colitis mucosal transcriptomes reveal mitochondriopathy and personalized mechanisms underlying disease severity and treatment response

(2018) Yael Haberman et al.   Nature Communications

Genetic Factors Interact With Tobacco Smoke to Modify Risk for Inflammatory Bowel Disease in Humans and Mice

(2017) Pankaj Yadav et al.   GASTROENTEROLOGY

IL-6 Signaling Regulates Small Intestinal Crypt Homeostasis

(2017) Victoria Jeffery et al.   JOURNAL OF IMMUNOLOGY

Epithelial TNF Receptor Signaling Promotes Mucosal Repair in Inflammatory Bowel Disease

(2017) Emily M. Bradford et al.   JOURNAL OF IMMUNOLOGY

Dietary tryptophan alleviates dextran sodium sulfate-induced colitis through aryl hydrocarbon receptor in mice

(2017) Jahidul Islam et al.   JOURNAL OF NUTRITIONAL BIOCHEMISTRY

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

Tryptophan metabolite activation of the aryl hydrocarbon receptor regulates IL-10 receptor expression on intestinal epithelia

(2017) J M Lanis et al.   Mucosal Immunology

MDR1 deficiency impairs mitochondrial homeostasis and promotes intestinal inflammation

(2017) G-T Ho et al.   Mucosal Immunology

The evolution of the host microbiome as an ecosystem on a leash

(2017) Kevin R. Foster et al.   NATURE

Interplay between metabolic identities in the intestinal crypt supports stem cell function

(2017) Maria J. Rodríguez-Colman et al.   NATURE

Genome-wide association study implicates immune activation of multiple integrin genes in inflammatory bowel disease

(2017) Katrina M de Lange et al.   NATURE GENETICS

Gut microbiota and IBD: causation or correlation?

(2017) Josephine Ni et al.   Nature Reviews Gastroenterology & Hepatology

The mitochondrial UPR: mechanisms, physiological functions and implications in ageing

(2017) Tomer Shpilka et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Anti-inflammatory effect of IL-10 mediated by metabolic reprogramming of macrophages

(2017) W. K. Eddie Ip et al.   SCIENCE

Lactobacillus reuteriinduces gut intraepithelial CD4+CD8αα+T cells

(2017) Luisa Cervantes-Barragan et al.   SCIENCE

Role of autophagy in the pathogenesis of inflammatory bowel disease

(2017) Tomoya Iida et al.   WORLD JOURNAL OF GASTROENTEROLOGY

Indoleamine 2,3-Dioxygenase and Tolerance: Where Are We Now?

(2017) Andrew L. Mellor et al.   Frontiers in Immunology

Male-specific association between MT-ND4 11719 A/G polymorphism and ulcerative colitis: a mitochondria-wide genetic association study

(2016) Theresa Dankowski et al.   BMC GASTROENTEROLOGY

Are We Really Vastly Outnumbered? Revisiting the Ratio of Bacterial to Host Cells in Humans

(2016) Ron Sender et al.   CELL

The Colonic Crypt Protects Stem Cells from Microbiota-Derived Metabolites

(2016) Gerard E. Kaiko et al.   CELL

Microbiota-Produced Succinate Improves Glucose Homeostasis via Intestinal Gluconeogenesis

(2016) Filipe De Vadder et al.   Cell Metabolism

Prostaglandin E2 promotes intestinal repair through an adaptive cellular response of the epithelium

(2016) Hiroyuki Miyoshi et al.   EMBO JOURNAL

Undercover: gene control by metabolites and metabolic enzymes

(2016) Jan A. van der Knaap et al.   GENES & DEVELOPMENT

Ulcerative Colitis Is Under Dual (Mitochondrial and Nuclear) Genetic Control

(2016) Alexandra Rosa et al.   INFLAMMATORY BOWEL DISEASES

Systemic availability and metabolism of colonic-derived short-chain fatty acids in healthy subjects: a stable isotope study

(2016) Eef Boets et al.   JOURNAL OF PHYSIOLOGY-LONDON

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

(2016) Bruno Lamas et al.   NATURE MEDICINE

Olfactomedin 4 deletion induces colon adenocarcinoma in Apc Min/+ mice

(2016) W Liu et al.   ONCOGENE

Promotion of Intestinal Epithelial Cell Turnover by Commensal Bacteria: Role of Short-Chain Fatty Acids

(2016) Jung-ha Park et al.   PLoS One

Mitochondrial-targeted aryl hydrocarbon receptor and the impact of 2,3,7,8-tetrachlorodibenzo-p-dioxin on cellular respiration and the mitochondrial proteome

(2016) Hye Jin Hwang et al.   TOXICOLOGY AND APPLIED PHARMACOLOGY

Sulfide as a Mucus Barrier-Breaker in Inflammatory Bowel Disease?

(2016) Noortje Ijssennagger et al.   TRENDS IN MOLECULAR MEDICINE

Mitochondrial function controls intestinal epithelial stemness and proliferation

(2016) Emanuel Berger et al.   Nature Communications

Altered intestinal microbiota–host mitochondria crosstalk in new onset Crohn’s disease

(2016) Walid Mottawea et al.   Nature Communications

The Aryl Hydrocarbon Receptor Relays Metabolic Signals to Promote Cellular Regeneration

(2016) Fanny L. Casado   Stem Cells International

Inflammation Meets Metabolic Disease: Gut Feeling Mediated by GLP-1

(2016) Tamara Zietek et al.   Frontiers in Immunology

A bioassay to measure energy metabolism in mouse colonic crypts, organoids, and sorted stem cells

(2015) Yang-Yi Fan et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

Hepatic Uptake of Rectally Administered Butyrate Prevents an Increase in Systemic Butyrate Concentrations in Humans

(2015) Christina M van der Beek et al.   JOURNAL OF NUTRITION

The gut microbiota modulates host amino acid and glutathione metabolism in mice

(2015) A. Mardinoglu et al.   Molecular Systems Biology

Wound repair: role of immune–epithelial interactions

(2015) G Leoni et al.   Mucosal Immunology

Small molecules from the human microbiota

(2015) M. S. Donia et al.   SCIENCE

Microbiota–mitochondria inter-talk: consequence for microbiota–host interaction

(2015) Yann Saint-Georges-Chaumet et al.   Pathogens and Disease

Proinflammatory cytokines differentially regulate adipocyte mitochondrial metabolism, oxidative stress, and dynamics

(2014) Wendy S. Hahn et al.   AMERICAN JOURNAL OF PHYSIOLOGY-ENDOCRINOLOGY AND METABOLISM

Microbiota-Generated Metabolites Promote Metabolic Benefits via Gut-Brain Neural Circuits

(2014) Filipe De Vadder et al.   CELL

C/EBP homologous protein inhibits tissue repair in response to gut injury and is inversely regulated with chronic inflammation

(2014) N Waldschmitt et al.   Mucosal Immunology

Standardised animal models of host microbial mutualism

(2014) A J Macpherson et al.   Mucosal Immunology

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

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

(2014) Amandine Everard et al.   Nature Communications

Microbial Modulation of Energy Availability in the Colon Regulates Intestinal Transit

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

Physiologic Functions of Cyclophilin D and the Mitochondrial Permeability Transition Pore

(2013) John W. Elrod et al.   CIRCULATION JOURNAL

Mitochondrial Gene Polymorphisms That Protect Mice From Colitis

(2013) Florian Bär et al.   GASTROENTEROLOGY

Genetic Variants Synthesize to Produce Paneth Cell Phenotypes That Define Subtypes of Crohn's Disease

(2013) Kelli L. VanDussen et al.   GASTROENTEROLOGY

Tryptophan Catabolites from Microbiota Engage Aryl Hydrocarbon Receptor and Balance Mucosal Reactivity via Interleukin-22

(2013) Teresa Zelante et al.   IMMUNITY

The Inflammatory Tissue Microenvironment in IBD

(2013) Sean P. Colgan et al.   INFLAMMATORY BOWEL DISEASES

Adult intestinal stem cells: critical drivers of epithelial homeostasis and regeneration

(2013) Nick Barker   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Host-Derived Nitrate Boosts Growth of E. coli in the Inflamed Gut

(2013) S. E. Winter et al.   SCIENCE

Microbiota-derived lactate accelerates colon epithelial cell turnover in starvation-refed mice

(2013) Toshihiko Okada et al.   Nature Communications

Indoleamine 2,3 dioxygenase in intestinal disease

(2012) Matthew A. Ciorba   CURRENT OPINION IN GASTROENTEROLOGY

Mitochondrial electron transport chain complex dysfunction in the colonic mucosa in ulcerative colitis

(2012) Srikanth Santhanam et al.   INFLAMMATORY BOWEL DISEASES

Nutrigenomics and Nutrigenetics in Inflammatory Bowel Diseases

(2012) Lisa Gruber et al.   JOURNAL OF CLINICAL GASTROENTEROLOGY

Host–microbe interactions have shaped the genetic architecture of inflammatory bowel disease

(2012) Luke Jostins et al.   NATURE

Microbial Regulation of Glucose Metabolism and Cell-Cycle Progression in Mammalian Colonocytes

(2012) Dallas R. Donohoe et al.   PLoS One

Mitochondrial Fission, Fusion, and Stress

(2012) R. J. Youle et al.   SCIENCE

The Microbiome and Butyrate Regulate Energy Metabolism and Autophagy in the Mammalian Colon

(2011) Dallas R. Donohoe et al.   Cell Metabolism

Induction of dsRNA-activated protein kinase links mitochondrial unfolded protein response to the pathogenesis of intestinal inflammation

(2011) Eva Rath et al.   GUT

Serum Analysis of Tryptophan Catabolism Pathway: Correlation With Crohnʼs Disease Activity

(2011) Nitin K. Gupta et al.   INFLAMMATORY BOWEL DISEASES

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

TLR signalling augments macrophage bactericidal activity through mitochondrial ROS

(2011) A. Phillip West et al.   NATURE

Independent and population-specific association of risk variants at the IRGM locus with Crohn's disease

(2010) Natalie J. Prescott et al.   HUMAN MOLECULAR GENETICS

Nanoparticle-based therapeutic delivery of prohibitin to the colonic epithelial cells ameliorates acute murine colitis

(2010) Arianne L. Theiss et al.   INFLAMMATORY BOWEL DISEASES

Mitochondrial respiratory chain in the colonic mucosal of patients with ulcerative colitis

(2010) Karla G. Sifroni et al.   MOLECULAR AND CELLULAR BIOCHEMISTRY

Genome-wide association study for ulcerative colitis identifies risk loci at 7q22 and 22q13 (IL17REL)

(2010) Andre Franke et al.   NATURE GENETICS

Hypoxia: an alarm signal during intestinal inflammation

(2010) Sean P. Colgan et al.   Nature Reviews Gastroenterology & Hepatology

Short chain fatty acids exchange across the gut and liver in humans measured at surgery

(2009) Johanne G. Bloemen et al.   CLINICAL NUTRITION

Prohibitin Is a Novel Regulator of Antioxidant Response That Attenuates Colonic Inflammation in Mice

(2009) Arianne L. Theiss et al.   GASTROENTEROLOGY

OLFM4 Is a Robust Marker for Stem Cells in Human Intestine and Marks a Subset of Colorectal Cancer Cells

(2009) Laurens G. van der Flier et al.   GASTROENTEROLOGY

Association of UCP2 −866 G/A polymorphism with chronic inflammatory diseases

(2009) X Yu et al.   GENES AND IMMUNITY

Enhanced translocation of bacteria across metabolically stressed epithelia is reduced by butyrate†

(2009) Kimberley Lewis et al.   INFLAMMATORY BOWEL DISEASES

Mitochondrial dysfunction, persistent oxidative damage, and catalase inhibition in immune cells of naïve and treated Crohnʼs disease

(2009) Belén Beltrán et al.   INFLAMMATORY BOWEL DISEASES

OCTN1 variant L503F is associated with familial and sporadic inflammatory bowel disease

(2009) Zhenwu Lin et al.   Journal of Crohns & Colitis

XBP1 Links ER Stress to Intestinal Inflammation and Confers Genetic Risk for Human Inflammatory Bowel Disease

(2008) Arthur Kaser et al.   CELL

Thickness and continuity of the adherent colonic mucus barrier in active and quiescent ulcerative colitis and Crohn’s disease

(2008) V. Strugala et al.   INTERNATIONAL JOURNAL OF CLINICAL PRACTICE

Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease

(2008) Jeffrey C Barrett et al.   NATURE GENETICS

Indoleamine 2,3-dioxygenase is a critical regulator of acute graft-versus-host disease lethality

(2007) L. K. Jasperson et al.   BLOOD