Modeling microbe-host interaction in the pathogenesis of Crohn’s disease

Establishing or Exaggerating Causality for the Gut Microbiome: Lessons from Human Microbiota-Associated Rodents

(2020) Jens Walter 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

Pathway paradigms revealed from the genetics of inflammatory bowel disease

(2020) Daniel B. Graham et al.   NATURE

Label or Concept – What Is a Pathobiont?

(2020) Lara Jochum et al.   TRENDS IN MICROBIOLOGY

Arrhythmic Gut Microbiome Signatures Predict Risk of Type 2 Diabetes

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

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

(2020) Amira Metwaly et al.   Nature Communications

DOP12 Mutations in the X-linked inhibitor of apoptosis protein promote susceptibility to microbiota-induced intestinal inflammation

(2019) S Gopalakrishnan et al.   Journal of Crohns & Colitis

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

(2019) Ziad Al Nabhani et al.   IMMUNITY

Strain-Level Diversity in the Gut: The P. copri Case

(2019) Amira Metwaly et al.   Cell Host & Microbe

Distinct Genetic and Functional Traits of Human Intestinal Prevotella copri Strains Are Associated with Different Habitual Diets

(2019) Francesca De Filippis et al.   Cell Host & Microbe

Tu1858 – Segmented Filamentous Bacteria Induce Alternative Th17 Differentiation and Ileo-Colonic Crohn's Disease-Like Inflammation

(2019) Jelena Calasan et al.   GASTROENTEROLOGY

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

(2019) Jason Lloyd-Price et al.   NATURE

Environmental Microbial Factors Determine the Pattern of Inflammatory Lesions in a Murine Model of Crohn’s Disease–Like Inflammation

(2019) Iris Stolzer et al.   INFLAMMATORY BOWEL DISEASES

Microbial genes and pathways in inflammatory bowel disease

(2019) Melanie Schirmer et al.   NATURE REVIEWS MICROBIOLOGY

Complex Bacterial Consortia Reprogram the Colitogenic Activity of Enterococcus faecalis in a Gnotobiotic Mouse Model of Chronic, Immune-Mediated Colitis

(2019) Isabella Lengfelder et al.   Frontiers in Immunology

Microbiota and mucosal defense in IBD: an update

(2019) Eduard F. Stange et al.   Expert Review of Gastroenterology & Hepatology

Neutralization of IL-1α ameliorates Crohn’s disease-like ileitis by functional alterations of the gut microbiome

(2019) Paola Menghini et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The global, regional, and national burden of inflammatory bowel disease in 195 countries and territories, 1990–2017: a systematic analysis for the Global Burden of Disease Study 2017

(2019) Sudabeh Alatab et al.   Lancet Gastroenterology & Hepatology

Analysis of Genes Associated With Monogenic Primary Immunodeficiency Identifies Rare Variants in XIAP in Patients With Crohn’s Disease

(2018) Leila Amininejad et al.   GASTROENTEROLOGY

Mitochondrial function — gatekeeper of intestinal epithelial cell homeostasis

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

Regional variation limits applications of healthy gut microbiome reference ranges and disease models

(2018) Yan He et al.   NATURE MEDICINE

Age-of-diagnosis dependent ileal immune intensification and reduced alpha-defensin in older versus younger pediatric Crohn Disease patients despite already established dysbiosis

(2018) Yael Haberman et al.   Mucosal Immunology

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

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

A microbial signature for Crohn's disease

(2017) Victoria Pascal et al.   GUT

Potential roles of neutrophils in regulating intestinal mucosal inflammation of inflammatory bowel disease

(2017) Guang Xi Zhou et al.   Journal of Digestive Diseases

Defective ATG16L1-mediated removal of IRE1α drives Crohn’s disease–like ileitis

(2017) Markus Tschurtschenthaler et al.   JOURNAL OF EXPERIMENTAL MEDICINE

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

Crohn's disease

(2017) Joana Torres et al.   LANCET

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

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

Oral versus intravenous iron replacement therapy distinctly alters the gut microbiota and metabolome in patients with IBD

(2016) Thomas Lee et al.   GUT

Fungal microbiota dysbiosis in IBD

(2016) Harry Sokol et al.   GUT

NEMO Prevents RIP Kinase 1-Mediated Epithelial Cell Death and Chronic Intestinal Inflammation by NF-κB-Dependent and -Independent Functions

(2016) Katerina Vlantis et al.   IMMUNITY

Distinct Microbiotas are Associated with Ileum-Restricted and Colon-Involving Crohnʼs Disease

(2016) Timna Naftali et al.   INFLAMMATORY BOWEL DISEASES

Dietary Patterns and Risk of Inflammatory Bowel Disease in Europe

(2016) Antoine Racine et al.   INFLAMMATORY BOWEL DISEASES

Multicenter quality assessment of 16S ribosomal DNA-sequencing for microbiome analyses reveals high inter-center variability

(2016) Andreas Hiergeist et al.   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY

Dysbiosis in intestinal inflammation: Cause or consequence

(2016) Ludovica F. Buttó et al.   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY

Analysis of factors contributing to variation in the C57BL/6J fecal microbiota across German animal facilities

(2016) Philipp Rausch et al.   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY

Exclusive enteral nutrition in active pediatric Crohn disease: Effects on intestinal microbiota and immune regulation

(2016) Tobias Schwerd et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Inherited determinants of Crohn's disease and ulcerative colitis phenotypes: a genetic association study

(2016) Isabelle Cleynen et al.   LANCET

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

Reciprocal interaction of diet and microbiome in inflammatory bowel diseases

(2015) Monika Schaubeck et al.   CURRENT OPINION IN GASTROENTEROLOGY

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

(2015) Monika Schaubeck et al.   GUT

Geographical patterns of the standing and active human gut microbiome in health and IBD

(2015) Ateequr Rehman et al.   GUT

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

(2015) E Quévrain et al.   GUT

Intestinal Microbiota in Animal Models of Inflammatory Diseases

(2015) G. Hörmannsperger et al.   ILAR JOURNAL

Host and microbiota interactions are critical for development of murine Crohn’s-like ileitis

(2015) M Roulis et al.   Mucosal Immunology

Growth and host interaction of mouse segmented filamentous bacteria in vitro

(2015) Pamela Schnupf et al.   NATURE

Association analyses identify 38 susceptibility loci for inflammatory bowel disease and highlight shared genetic risk across populations

(2015) Jimmy Z Liu et al.   NATURE GENETICS

The global burden of IBD: from 2015 to 2025

(2015) Gilaad G. Kaplan   Nature Reviews Gastroenterology & Hepatology

Gut biogeography of the bacterial microbiota

(2015) Gregory P. Donaldson et al.   NATURE REVIEWS MICROBIOLOGY

Asthma, Type 1 and Type 2 Diabetes Mellitus, and Inflammatory Bowel Disease amongst South Asian Immigrants to Canada and Their Children: A Population-Based Cohort Study

(2015) Eric I. Benchimol et al.   PLoS One

Exclusive enteral nutrition in children with Crohn’s disease

(2015) Andrew S Day et al.   WORLD JOURNAL OF GASTROENTEROLOGY

Stereomicroscopic 3D-pattern profiling of murine and human intestinal inflammation reveals unique structural phenotypes

(2015) Alex Rodriguez-Palacios et al.   Nature Communications

Mechanisms of Microbe–Host Interaction in Crohn’s Disease: Dysbiosis vs. Pathobiont Selection

(2015) Ludovica F. Buttó et al.   Frontiers in Immunology

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

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

XIAP variants in male Crohn's disease

(2014) Yvonne Zeissig et al.   GUT

Segmented Filamentous Bacterium Uses Secondary and Tertiary Lymphoid Tissues to Induce Gut IgA and Specific T Helper 17 Cell Responses

(2014) Emelyne Lécuyer et al.   IMMUNITY

The microbial basis of inflammatory bowel diseases

(2014) Sushila R. Dalal et al.   JOURNAL OF CLINICAL INVESTIGATION

Mucosa-Associated Bacterial Microbiome of the Gastrointestinal Tract of Weaned Pigs and Dynamics Linked to Dietary Calcium-Phosphorus

(2014) Evelyne Mann et al.   PLoS One

ZAP-70 Genotype Disrupts the Relationship Between Microbiota and Host, Leading to Spondyloarthritis and Ileitis in SKG Mice

(2014) Linda M. Rehaume et al.   Arthritis & Rheumatology

Paneth Cells: Maestros of the Small Intestinal Crypts

(2013) Hans C. Clevers et al.   Annual Review of Physiology

Incidence and Phenotype of Inflammatory Bowel Disease Based on Results From the Asia-Pacific Crohn's and Colitis Epidemiology Study

(2013) Siew C. Ng 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

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

(2013) Dan Knights et al.   GUT

Long-term intake of dietary fat and risk of ulcerative colitis and Crohn's disease

(2013) Ashwin N Ananthakrishnan et al.   GUT

Semisynthetic Diet Ameliorates Crohn’s Disease–Like Ileitis in TNFΔARE/WT Mice Through Antigen-Independent Mechanisms of Gluten

(2013) Stefan J. Wagner et al.   INFLAMMATORY BOWEL DISEASES

Intestinimonas butyriciproducens gen. nov., sp. nov., a butyrate-producing bacterium from the mouse intestine

(2013) K. Klaring et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Exclusive enteral nutrition induces early clinical, mucosal and transmural remission in paediatric Crohn’s disease

(2013) Zubin Grover et al.   JOURNAL OF GASTROENTEROLOGY

Paneth cells as a site of origin for intestinal inflammation

(2013) Timon E. Adolph et al.   NATURE

Human type 1 innate lymphoid cells accumulate in inflamed mucosal tissues

(2013) Jochem H Bernink et al.   NATURE IMMUNOLOGY

High Fat Diet Accelerates Pathogenesis of Murine Crohn’s Disease-Like Ileitis Independently of Obesity

(2013) Lisa Gruber et al.   PLoS One

Ectopic lymphoid tissue alters the chemokine gradient, increases lymphocyte retention and exacerbates murine ileitis

(2012) Eóin N McNamee et al.   GUT

Endoplasmic Reticulum Stress Response Promotes Cytotoxic Phenotype of CD8  + Intraepithelial Lymphocytes in a Mouse Model for Crohn's Disease-like Ileitis

(2012) J.-S. Chang et al.   JOURNAL OF IMMUNOLOGY

Crohn's disease

(2012) Daniel C Baumgart et al.   LANCET

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

(2012) Luke Jostins et al.   NATURE

Crohn's disease: NOD2, autophagy and ER stress converge

(2011) T. Fritz et al.   GUT

Dysbiosis of the faecal microbiota in patients with Crohn's disease and their unaffected relatives

(2011) M. Joossens et al.   GUT

SAMP1/YitFc mouse strain: A spontaneous model of Crohnʼs disease-like ileitis

(2011) Theresa T. Pizarro et al.   INFLAMMATORY BOWEL DISEASES

Invasive potential of gut mucosa-derived fusobacterium nucleatum positively correlates with IBD status of the host

(2011) Jaclyn Strauss et al.   INFLAMMATORY BOWEL DISEASES

IL-23–responsive innate lymphoid cells are increased in inflammatory bowel disease

(2011) Alessandra Geremia et al.   JOURNAL OF EXPERIMENTAL MEDICINE

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

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

FADD prevents RIP3-mediated epithelial cell necrosis and chronic intestinal inflammation

(2011) Patrick-Simon Welz et al.   NATURE

Caspase-8 regulates TNF-α-induced epithelial necroptosis and terminal ileitis

(2011) Claudia Günther et al.   NATURE

Gene-environment interactions in chronic inflammatory disease

(2011) Harald Renz et al.   NATURE IMMUNOLOGY

Intestinal epithelial cells as producers but not targets of chronic TNF suffice to cause murine Crohn-like pathology

(2011) M. Roulis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Frequency and Risk Factors for Extraintestinal Manifestations in the Swiss Inflammatory Bowel Disease Cohort

(2010) Stephan R Vavricka et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Depletion of luminal iron alters the gut microbiota and prevents Crohn's disease-like ileitis

(2010) T. Werner et al.   GUT

Gut-Residing Segmented Filamentous Bacteria Drive Autoimmune Arthritis via T Helper 17 Cells

(2010) Hsin-Jung Wu et al.   IMMUNITY

Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci

(2010) Andre Franke et al.   NATURE GENETICS

Proinflammatory T-cell responses to gut microbiota promote experimental autoimmune encephalomyelitis

(2010) Y. K. Lee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Induction of Intestinal Th17 Cells by Segmented Filamentous Bacteria

(2009) Ivaylo I. Ivanov et al.   CELL

Crohn's disease-associated adherent-invasiveE. coliare selectively favoured by impaired autophagy to replicate intracellularly

(2009) Pierre Lapaquette et al.   CELLULAR MICROBIOLOGY

Disruption of Paneth and goblet cell homeostasis and increased endoplasmic reticulum stress in Agr2−/− mice

(2009) Fang Zhao et al.   DEVELOPMENTAL BIOLOGY

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

(2009) Valérie Gaboriau-Routhiau et al.   IMMUNITY

Isolation of bacteria from the ileal mucosa of TNFdeltaARE mice and description of Enterorhabdus mucosicola gen. nov., sp. nov.

(2009) T. Clavel et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Foxp3+ Regulatory T Cells, Th17 Effector Cells, and Cytokine Environment in Inflammatory Bowel Disease

(2009) Nicola Eastaff-Leung et al.   JOURNAL OF CLINICAL IMMUNOLOGY

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

(2008) Arthur Kaser et al.   CELL

Role of β7 Integrin and the Chemokine/Chemokine Receptor Pair CCL25/CCR9 in Modeled TNF-Dependent Crohn's Disease

(2008) Maria Apostolaki et al.   GASTROENTEROLOGY

A key role for autophagy and the autophagy gene Atg16l1 in mouse and human intestinal Paneth cells

(2008) Ken Cadwell et al.   NATURE

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