Microbial genes and pathways in inflammatory bowel disease

Microbiotas from Humans with Inflammatory Bowel Disease Alter the Balance of Gut Th17 and RORγt+ Regulatory T Cells and Exacerbate Colitis in Mice

(2019) Graham J. Britton et al.   IMMUNITY

Microbial network disturbances in relapsing refractory Crohn’s disease

(2019) Bahtiyar Yilmaz et al.   NATURE MEDICINE

A defined commensal consortium elicits CD8 T cells and anti-cancer immunity

(2019) Takeshi Tanoue et al.   NATURE

A Diet Low in Red and Processed Meat Does Not Reduce Rate of Crohn’s Disease Flares

(2019) L. Albenberg et al.   GASTROENTEROLOGY

Malassezia Is Associated with Crohn’s Disease and Exacerbates Colitis in Mouse Models

(2019) Jose J. Limon et al.   Cell Host & Microbe

Host-Specific Adaptive Diversification of Crohn’s Disease-Associated Adherent-Invasive Escherichia coli

(2019) Wael Elhenawy et al.   Cell Host & Microbe

Clinical and biological predictors of response to standardised paediatric colitis therapy (PROTECT): a multicentre inception cohort study

(2019) Jeffrey S Hyams et al.   LANCET

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

(2019) Jason Lloyd-Price et al.   NATURE

Strain Tracking Reveals the Determinants of Bacterial Engraftment in the Human Gut Following Fecal Microbiota Transplantation

(2018) Christopher S. Smillie et al.   Cell Host & Microbe

Interactions Between Diet and the Intestinal Microbiota Alter Intestinal Permeability and Colitis Severity in Mice

(2018) Sean R. Llewellyn et al.   GASTROENTEROLOGY

Elevated circulating levels of succinate in human obesity are linked to specific gut microbiota

(2018) Carolina Serena et al.   ISME Journal

C1orf106is a colitis risk gene that regulates stability of epithelial adherens junctions

(2018) Vishnu Mohanan et al.   SCIENCE

CX3CR1+mononuclear phagocytes control immunity to intestinal fungi

(2018) Irina Leonardi et al.   SCIENCE

Tropism for tuft cells determines immune promotion of norovirus pathogenesis

(2018) Craig B. Wilen et al.   SCIENCE

Fecal Microbiota Signatures Are Associated with Response to Ustekinumab Therapy among Crohn’s Disease Patients

(2018) Matthew K. Doherty et al.   mBio

Dynamics of metatranscription in the inflammatory bowel disease gut microbiome

(2018) Melanie Schirmer et al.   Nature Microbiology

IgA Responses to Microbiota

(2018) Jeffrey J. Bunker et al.   IMMUNITY

Innate and adaptive lymphocytes sequentially shape the gut microbiota and lipid metabolism

(2018) Kairui Mao et al.   NATURE

Precision editing of the gut microbiota ameliorates colitis

(2018) Wenhan Zhu et al.   NATURE

Environment dominates over host genetics in shaping human gut microbiota

(2018) Daphna Rothschild et al.   NATURE

Compositional and Temporal Changes in the Gut Microbiome of Pediatric Ulcerative Colitis Patients Are Linked to Disease Course

(2018) Melanie Schirmer et al.   Cell Host & Microbe

Gut microbiota composition and functional changes in inflammatory bowel disease and irritable bowel syndrome

(2018) Arnau Vich Vila et al.   Science Translational Medicine

Fecal chromogranins and secretogranins are linked to the fecal and mucosal intestinal bacterial composition of IBS patients and healthy subjects

(2018) Johanna Sundin et al.   Scientific Reports

Gut microbiome structure and metabolic activity in inflammatory bowel disease

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

Adherent-invasiveEscherichia coliin inflammatory bowel disease

(2017) Carolina Palmela et al.   GUT

The Xenobiotic Transporter Mdr1 Enforces T Cell Homeostasis in the Presence of Intestinal Bile Acids

(2017) Wei Cao et al.   IMMUNITY

Faecalibacterium prausnitzii: from microbiology to diagnostics and prognostics

(2017) Mireia Lopez-Siles et al.   ISME Journal

Uncultivated microbes in need of their own taxonomy

(2017) Konstantinos T Konstantinidis et al.   ISME Journal

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

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

Faecal Microbiota Transplantation for Inflammatory Bowel Disease: A Systematic Review and Meta-analysis

(2017) Sudarshan Paramsothy et al.   Journal of Crohns & Colitis

Prediction of complicated disease course for children newly diagnosed with Crohn's disease: a multicentre inception cohort study

(2017) Subra Kugathasan et al.   LANCET

Alterations in lipid, amino acid, and energy metabolism distinguish Crohn’s disease from ulcerative colitis and control subjects by serum metabolomic profiling

(2017) Elizabeth A. Scoville et al.   Metabolomics

Fine-mapping inflammatory bowel disease loci to single-variant resolution

(2017) Hailiang Huang et al.   NATURE

Intestinal virome changes precede autoimmunity in type I diabetes-susceptible children

(2017) Guoyan Zhao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ectopic colonization of oral bacteria in the intestine drives TH1 cell induction and inflammation

(2017) Koji Atarashi et al.   SCIENCE

A member of the gut mycobiota modulates host purine metabolism exacerbating colitis in mice

(2017) Tyson R. Chiaro et al.   Science Translational Medicine

Butyrate enhances antibacterial effects while suppressing other features of alternative activation in IL-4-induced macrophages

(2016) Maria R. Fernando et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

Signaling in Host-Associated Microbial Communities

(2016) Michael A. Fischbach et al.   CELL

Variation in Microbiome LPS Immunogenicity Contributes to Autoimmunity in Humans

(2016) Tommi Vatanen et al.   CELL

Microbiota-Produced Succinate Improves Glucose Homeostasis via Intestinal Gluconeogenesis

(2016) Filipe De Vadder et al.   Cell Metabolism

Interplay of host genetics and gut microbiota underlying the onset and clinical presentation of inflammatory bowel disease

(2016) Floris Imhann et al.   GUT

Fungal microbiota dysbiosis in IBD

(2016) Harry Sokol et al.   GUT

Gut Virome and Inflammatory Bowel Disease

(2016) Loris R. Lopetuso et al.   INFLAMMATORY BOWEL DISEASES

Increased Intestinal Microbial Diversity Following Fecal Microbiota Transplant for Active Crohnʼs Disease

(2016) Byron P. Vaughn et al.   INFLAMMATORY BOWEL DISEASES

Fostering Inflammatory Bowel Disease: Sphingolipid Strategies to Join Forces

(2016) Loubna Abdel Hadi et al.   MEDIATORS OF INFLAMMATION

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

(2016) Bruno Lamas et al.   NATURE MEDICINE

Neonatal gut microbiota associates with childhood multisensitized atopy and T cell differentiation

(2016) Kei E Fujimura et al.   NATURE MEDICINE

Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity

(2016) Alexandra Zhernakova et al.   SCIENCE

Antibody markers in the diagnosis of inflammatory bowel disease

(2016) Keiichi Mitsuyama   WORLD JOURNAL OF GASTROENTEROLOGY

Fecal Microbiota in Pediatric Inflammatory Bowel Disease and Its Relation to Inflammation

(2015) Kaija-Leena Kolho et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Indigenous Bacteria from the Gut Microbiota Regulate Host Serotonin Biosynthesis

(2015) Jessica M. Yano et al.   CELL

Microbiota-Modulated Metabolites Shape the Intestinal Microenvironment by Regulating NLRP6 Inflammasome Signaling

(2015) Maayan Levy et al.   CELL

Disease-Specific Alterations in the Enteric Virome in Inflammatory Bowel Disease

(2015) Jason M. Norman et al.   CELL

Th17 Cell Induction by Adhesion of Microbes to Intestinal Epithelial Cells

(2015) Koji Atarashi et al.   CELL

Dynamics and Stabilization of the Human Gut Microbiome during the First Year of Life

(2015) Fredrik Bäckhed et al.   Cell Host & Microbe

Inflammation, Antibiotics, and Diet as Environmental Stressors of the Gut Microbiome in Pediatric Crohn’s Disease

(2015) James D. Lewis et al.   Cell Host & Microbe

Gastrointestinal Autoimmunity Associated With Loss of Central Tolerance to Enteric α-Defensins

(2015) Jan Dobeš et al.   GASTROENTEROLOGY

Diet in the Pathogenesis and Treatment of Inflammatory Bowel Diseases

(2015) Dale Lee et al.   GASTROENTEROLOGY

Dysbiotic gut microbiota causes transmissible Crohn's disease-like ileitis independent of failure in antimicrobial defence

(2015) Monika Schaubeck et al.   GUT

Cytokines, IBD, and Colitis-associated Cancer

(2015) Ralph Francescone et al.   INFLAMMATORY BOWEL DISEASES

Donor Species Richness Determines Faecal Microbiota Transplantation Success in Inflammatory Bowel Disease

(2015) Severine Vermeire et al.   Journal of Crohns & Colitis

Vertically transmitted faecal IgA levels determine extra-chromosomal phenotypic variation

(2015) Clara Moon et al.   NATURE

A biosynthetic pathway for a prominent class of microbiota-derived bile acids

(2015) A Sloan Devlin et al.   Nature Chemical Biology

Dietary management of IBD—insights and advice

(2015) Emma P. Halmos et al.   Nature Reviews Gastroenterology & Hepatology

Gut microbiota facilitates dietary heme-induced epithelial hyperproliferation by opening the mucus barrier in colon

(2015) Noortje Ijssennagger et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Growth dynamics of gut microbiota in health and disease inferred from single metagenomic samples

(2015) T. Korem et al.   SCIENCE

Small molecules from the human microbiota

(2015) M. S. Donia et al.   SCIENCE

Early infancy microbial and metabolic alterations affect risk of childhood asthma

(2015) Marie-Claire Arrieta et al.   Science Translational Medicine

T Lymphocyte Dynamics in Inflammatory Bowel Diseases: Role of the Microbiome

(2015) C. B. Larmonier et al.   Biomed Research International

Immunoglobulin A Coating Identifies Colitogenic Bacteria in Inflammatory Bowel Disease

(2014) Noah W. Palm et al.   CELL

Sphingolipids from a Symbiotic Microbe Regulate Homeostasis of Host Intestinal Natural Killer T Cells

(2014) Dingding An et al.   CELL

Discovery and Characterization of Gut Microbiota Decarboxylases that Can Produce the Neurotransmitter Tryptamine

(2014) Brianna B. Williams et al.   Cell Host & Microbe

Gut Microbiota-Produced Succinate Promotes C. difficile Infection after Antibiotic Treatment or Motility Disturbance

(2014) Jessica A. Ferreyra et al.   Cell Host & Microbe

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

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

The Intestinal Metabolome: An Intersection Between Microbiota and Host

(2014) Luke K. Ursell et al.   GASTROENTEROLOGY

Diet and the Intestinal Microbiome: Associations, Functions, and Implications for Health and Disease

(2014) Lindsey G. Albenberg et al.   GASTROENTEROLOGY

Diet, Metabolites, and “Western-Lifestyle” Inflammatory Diseases

(2014) Alison N. Thorburn et al.   IMMUNITY

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

(2014) Madhukumar Venkatesh et al.   IMMUNITY

Gut microbiota–generated metabolites in animal health and disease

(2014) Won-Jae Lee et al.   Nature Chemical Biology

Relating the metatranscriptome and metagenome of the human gut

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

Microbiota Modulate Behavioral and Physiological Abnormalities Associated with Neurodevelopmental Disorders

(2013) Elaine Y. Hsiao et al.   CELL

Short-Chain Fatty Acids Activate GPR41 and GPR43 on Intestinal Epithelial Cells to Promote Inflammatory Responses in Mice

(2013) Myung H. Kim et al.   GASTROENTEROLOGY

A Prospective Study of Long-term Intake of Dietary Fiber and Risk of Crohn's Disease and Ulcerative Colitis

(2013) Ashwin N. Ananthakrishnan 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

Decreased gut microbiota diversity, delayed Bacteroidetes colonisation and reduced Th1 responses in infants delivered by Caesarean section

(2013) Hedvig E Jakobsson et al.   GUT

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

(2013) Teresa Zelante et al.   IMMUNITY

Richness of human gut microbiome correlates with metabolic markers

(2013) Emmanuelle Le Chatelier et al.   NATURE

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

(2013) Yukihiro Furusawa et al.   NATURE

Paneth cells as a site of origin for intestinal inflammation

(2013) Timon E. Adolph et al.   NATURE

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

(2013) Koji Atarashi et al.   NATURE

Gut metagenome in European women with normal, impaired and diabetic glucose control

(2013) Fredrik H. Karlsson et al.   NATURE

Succinate is an inflammatory signal that induces IL-1β through HIF-1α

(2013) G. M. Tannahill et al.   NATURE

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

(2013) Robert A Koeth et al.   NATURE MEDICINE

Intestinal Microbial Metabolism of Phosphatidylcholine and Cardiovascular Risk

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

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

(2013) S. E. Winter et al.   SCIENCE

Determinants of colonic barrier function in inflammatory bowel disease and potential therapeutics

(2012) Nina A. Hering et al.   JOURNAL OF PHYSIOLOGY-LONDON

Tissue factor and PAR1 promote microbiota-induced intestinal vascular remodelling

(2012) Christoph Reinhardt et al.   NATURE

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

(2012) Jeremiah R. McDole et al.   NATURE

A metagenome-wide association study of gut microbiota in type 2 diabetes

(2012) Junjie Qin et al.   NATURE

Antibiotics in early life alter the murine colonic microbiome and adiposity

(2012) Ilseung Cho et al.   NATURE

Structure, function and diversity of the healthy human microbiome

(2012)   NATURE

Inflammasome-mediated dysbiosis regulates progression of NAFLD and obesity

(2012) Jorge Henao-Mejia et al.   NATURE

Antibiotic Exposure and IBD Development Among Children: A Population-Based Cohort Study

(2012) M. P. Kronman et al.   PEDIATRICS

Microbial Exposure During Early Life Has Persistent Effects on Natural Killer T Cell Function

(2012) T. Olszak et al.   SCIENCE

Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment

(2012) Xochitl C Morgan et al.   GENOME BIOLOGY

NLRP6 Inflammasome Regulates Colonic Microbial Ecology and Risk for Colitis

(2011) Eran Elinav et al.   CELL

Eating For Two: How Metabolism Establishes Interspecies Interactions in the Gut

(2011) Michael A. Fischbach et al.   Cell Host & Microbe

Gut flora metabolism of phosphatidylcholine promotes cardiovascular disease

(2011) Zeneng Wang et al.   NATURE

Virus-Plus-Susceptibility Gene Interaction Determines Crohn's Disease Gene Atg16L1 Phenotypes in Intestine

(2010) Ken Cadwell et al.   CELL

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

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

Fucosyltransferase 2 (FUT2) non-secretor status is associated with Crohn's disease

(2010) Dermot P.B. McGovern et al.   HUMAN MOLECULAR GENETICS

Inducible Foxp3+ regulatory T-cell development by a commensal bacterium of the intestinal microbiota

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

Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns

(2010) M. G. Dominguez-Bello et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Environmental risk factors in inflammatory bowel diseases. Investigating the hygiene hypothesis: A Spanish case–control study

(2010) Pilar López-Serrano et al.   SCANDINAVIAN JOURNAL OF GASTROENTEROLOGY

Induction of Colonic Regulatory T Cells by Indigenous Clostridium Species

(2010) K. Atarashi et al.   SCIENCE

Induction of Intestinal Th17 Cells by Segmented Filamentous Bacteria

(2009) Ivaylo I. Ivanov et al.   CELL

The Key Role of Segmented Filamentous Bacteria in the Coordinated Maturation of Gut Helper T Cell Responses

(2009) Valérie Gaboriau-Routhiau et al.   IMMUNITY

Crohn's disease adherent-invasiveEscherichia colicolonize and induce strong gut inflammation in transgenic mice expressing human CEACAM

(2009) Frédéric A. Carvalho et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Enteric defensins are essential regulators of intestinal microbial ecology

(2009) Nita H Salzman et al.   NATURE IMMUNOLOGY

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

Analysis of bacterial bowel communities of IBD patients: What has it revealed?

(2008) Harry Sokol et al.   INFLAMMATORY BOWEL DISEASES

A core gut microbiome in obese and lean twins

(2008) Peter J. Turnbaugh et al.   NATURE