The Gut Microbiota in the Pathogenesis and Therapeutics of Inflammatory Bowel Disease

Urbanization and the gut microbiota in health and inflammatory bowel disease

(2018) Tao Zuo et al.   Nature Reviews Gastroenterology & Hepatology

Extensive impact of non-antibiotic drugs on human gut bacteria

(2018) Lisa Maier et al.   NATURE

Precision editing of the gut microbiota ameliorates colitis

(2018) Wenhan Zhu et al.   NATURE

Bacteriophage Transfer during Fecal Microbiota Transplantation is Associated with Treatment Response in Clostridium Difficile Infection

(2017) Tao Zuo et al.   GASTROENTEROLOGY

Roles for Intestinal Bacteria, Viruses, and Fungi in Pathogenesis of Inflammatory Bowel Diseases and Therapeutic Approaches

(2017) R. Balfour Sartor et al.   GASTROENTEROLOGY

The Relationship of Regional Diets with Global Incidence Rates of Inflammatory Bowel Disease

(2017) Raina Shivashankar et al.   GASTROENTEROLOGY

OP036 Short duration, low intensity pooled faecal microbiota transplantation induces remission in patients with mild-moderately active ulcerative colitis: a randomised controlled trial

(2017) S. Costello et al.   Journal of Crohns & Colitis

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

(2017) Sudarshan Paramsothy et al.   LANCET

Dynamics of the human gut microbiome in inflammatory bowel disease

(2017) Jonas Halfvarson et al.   Nature Microbiology

A Dietary Fiber-Deprived Gut Microbiota Degrades the Colonic Mucus Barrier and Enhances Pathogen Susceptibility

(2016) Mahesh S. Desai et al.   CELL

Spatial disturbances in altered mucosal and luminal gut viromes of diet-induced obese mice

(2016) Min-Soo Kim et al.   ENVIRONMENTAL MICROBIOLOGY

Fungal microbiota dysbiosis in IBD

(2016) Harry Sokol et al.   GUT

Enteric Viruses Ameliorate Gut Inflammation via Toll-like Receptor 3 and Toll-like Receptor 7-Mediated Interferon-β Production

(2016) Jin-Young Yang et al.   IMMUNITY

O-007 Colitis Vaccine

(2016) Benoit Chassaing et al.   INFLAMMATORY BOWEL DISEASES

Gut Microbiota Dysbiosis as Risk and Premorbid Factors of IBD and IBS Along the Childhood–Adulthood Transition

(2016) Lorenza Putignani et al.   INFLAMMATORY BOWEL DISEASES

The Faroese IBD Study: Incidence of Inflammatory Bowel Diseases Across 54 Years of Population-based Data

(2016) Turid Hammer et al.   Journal of Crohns & Colitis

Understanding the mechanisms of faecal microbiota transplantation

(2016) Alexander Khoruts et al.   Nature Reviews Gastroenterology & Hepatology

Durable coexistence of donor and recipient strains after fecal microbiota transplantation

(2016) Simone S. Li et al.   SCIENCE

Helminth infection promotes colonization resistance via type 2 immunity

(2016) Deepshika Ramanan et al.   SCIENCE

How colonization by microbiota in early life shapes the immune system

(2016) Thomas Gensollen et al.   SCIENCE

Transfer of Viral Communities between Human Individuals during Fecal Microbiota Transplantation

(2016) Christel Chehoud et al.   mBio

Dysbiosis, inflammation, and response to treatment: a longitudinal study of pediatric subjects with newly diagnosed inflammatory bowel disease

(2016) Kelly A. Shaw et al.   Genome Medicine

Tracking Strains in the Microbiome: Insights from Metagenomics and Models

(2016) Ilana L. Brito et al.   Frontiers in Microbiology

Inflammatory Bowel Disease: A Canadian Burden of Illness Review

(2016) Angela Rocchi et al.   CANADIAN JOURNAL OF GASTROENTEROLOGY

Western diet induces a shift in microbiota composition enhancing susceptibility to Adherent-Invasive E. coli infection and intestinal inflammation.

(2016) Allison Agus et al.   Scientific Reports

Deviations in human gut microbiota: a novel diagnostic test for determining dysbiosis in patients with IBS or IBD

(2015) C. Casén et al.   ALIMENTARY PHARMACOLOGY & THERAPEUTICS

Glycopolymers as Antiadhesives of E. coli Strains Inducing Inflammatory Bowel Diseases

(2015) Xibo Yan et al.   BIOMACROMOLECULES

Human helminth therapy to treat inflammatory disorders- where do we stand?

(2015) Helena Helmby   BMC IMMUNOLOGY

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

(2015) Jason M. Norman 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

Update on Fecal Microbiota Transplantation 2015: Indications, Methodologies, Mechanisms, and Outlook

(2015) Colleen R. Kelly et al.   GASTROENTEROLOGY

Specific members of the predominant gut microbiota predict pouchitis following colectomy and IPAA in UC

(2015) Kathleen Machiels et al.   GUT

Enterococcus faecalis Gelatinase Mediates Intestinal Permeability via Protease-Activated Receptor 2

(2015) Nitsan Maharshak et al.   INFECTION AND IMMUNITY

Obesity risk in rural, urban and rural-to-urban migrants: prospective results of the PERU MIGRANT study

(2015) R M Carrillo-Larco et al.   INTERNATIONAL JOURNAL OF OBESITY

Fungal Dysbiosis in Mucosa-associated Microbiota of Crohn’s Disease Patients

(2015) Giuseppina Liguori et al.   Journal of Crohns & Colitis

The fungal microbiota of de-novo paediatric inflammatory bowel disease

(2015) I. Mukhopadhya et al.   MICROBES AND INFECTION

The global burden of IBD: from 2015 to 2025

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

The role of dietary fibre in inflammatory bowel disease

(2015) Aleksandra Pituch-Zdanowska et al.   Przeglad Gastroenterologiczny

Role of the normal gut microbiota

(2015) Sai Manasa Jandhyala   WORLD JOURNAL OF GASTROENTEROLOGY

Subsistence strategies in traditional societies distinguish gut microbiomes

(2015) Alexandra J. Obregon-Tito et al.   Nature Communications

The Gut Microbiota of Rural Papua New Guineans: Composition, Diversity Patterns, and Ecological Processes

(2015) Inés Martínez et al.   Cell Reports

The human gut virome: a multifaceted majority

(2015) Lesley A. Ogilvie et al.   Frontiers in Microbiology

The association between Helicobacter pylori infection and inflammatory bowel disease based on meta-analysis

(2015) T Rokkas et al.   United European Gastroenterology Journal

Fecal Microbiota Transplant for Treatment of Clostridium difficile Infection in Immunocompromised Patients

(2014) Colleen R Kelly et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

The Virome in Mammalian Physiology and Disease

(2014) Herbert W. Virgin   CELL

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

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

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

(2014) Lindsey G. Albenberg et al.   GASTROENTEROLOGY

Alterations in the Intestinal Microbiome (Dysbiosis) as a Predictor of Relapse After Infliximab Withdrawal in Crohnʼs Disease

(2014) Sylvie Rajca et al.   INFLAMMATORY BOWEL DISEASES

P-003 New Diagnosis of Crohn’s Colitis 6 weeks After Fecal Microbiota Transplantation (FMT)

(2014) Kelly Colleen et al.   INFLAMMATORY BOWEL DISEASES

Changing Age Demographics of Inflammatory Bowel Disease in Ontario, Canada

(2014) Eric I. Benchimol et al.   INFLAMMATORY BOWEL DISEASES

Classification and quantification of bacteriophage taxa in human gut metagenomes

(2014) Alison S Waller et al.   ISME Journal

Pediatric Crohn disease patients exhibit specific ileal transcriptome and microbiome signature

(2014) Yael Haberman et al.   JOURNAL OF CLINICAL INVESTIGATION

Combination of oral antibiotics may be effective in severe pediatric ulcerative colitis: A preliminary report

(2014) Dan Turner et al.   Journal of Crohns & Colitis

Fecal microbiota transplantation as therapy for inflammatory bowel disease: A systematic review and meta-analysis

(2014) Ruben J. Colman et al.   Journal of Crohns & Colitis

Colonization with Heligmosomoides polygyrus Suppresses Mucosal IL-17 Production

(2014) D. E. Elliott et al.   JOURNAL OF IMMUNOLOGY

An enteric virus can replace the beneficial function of commensal bacteria

(2014) Elisabeth Kernbauer et al.   NATURE

Excretory/Secretory Products from Trichinella spiralis Adult Worms Ameliorate DSS-Induced Colitis in Mice

(2014) Xiaodi Yang et al.   PLoS One

Helicobacter pyloriinfection and inflammatory bowel disease: Is there a link?

(2014) Konstantinos Papamichael   WORLD JOURNAL OF GASTROENTEROLOGY

Gut microbiome of the Hadza hunter-gatherers

(2014) Stephanie L. Schnorr et al.   Nature Communications

The Impact of Diet and Lifestyle on Gut Microbiota and Human Health

(2014) Michael Conlon et al.   Nutrients

Helminth Colonization Is Associated with Increased Diversity of the Gut Microbiota

(2014) Soo Ching Lee et al.   PLoS Neglected Tropical Diseases

Colonisation byFaecalibacterium prausnitziiand maintenance of clinical remission in patients with ulcerative colitis

(2013) E. Varela et al.   ALIMENTARY PHARMACOLOGY & THERAPEUTICS

Fecal Microbiota Transplantation for Clostridium difficile Infection: Systematic Review and Meta-Analysis

(2013) Zain Kassam et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Temporal Bacterial Community Dynamics Vary Among Ulcerative Colitis Patients After Fecal Microbiota Transplantation

(2013) Sieglinde Angelberger et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Fusobacterium nucleatum Potentiates Intestinal Tumorigenesis and Modulates the Tumor-Immune Microenvironment

(2013) Aleksandar D. Kostic et al.   Cell Host & Microbe

Transient Flare of Ulcerative Colitis After Fecal Microbiota Transplantation for Recurrent Clostridium difficile Infection

(2013) Lauren M. De Leon et al.   Clinical Gastroenterology and Hepatology

OC-074 The Role of the Fungal Microbiota in the Pathogenesis of De-Novo Paediatric Inflammatory Bowel Disease using next Generation Sequencing

(2013) R Hansen et al.   GUT

Bacteriophages in Gut Samples From Pediatric Crohn’s Disease Patients

(2013) Josef Wagner et al.   INFLAMMATORY BOWEL DISEASES

Heligmosomoides polygyrus bakeri Infection Activates Colonic Foxp3+ T Cells Enhancing Their Capacity To Prevent Colitis

(2013) L. Hang et al.   JOURNAL OF IMMUNOLOGY

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

The abundance and variety of carbohydrate-active enzymes in the human gut microbiota

(2013) Abdessamad El Kaoutari et al.   NATURE REVIEWS MICROBIOLOGY

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

(2013) Christian Hoffmann et al.   PLoS One

Fungi of the Murine Gut: Episodic Variation and Proliferation during Antibiotic Treatment

(2013) Serena Dollive et al.   PLoS One

Rapid evolution of the human gut virome

(2013) S. Minot et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gnotobiotic mouse model of phage-bacterial host dynamics in the human gut

(2013) A. Reyes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bacteriophage adhering to mucus provide a non-host-derived immunity

(2013) J. J. Barr et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2013) P. M. Smith et al.   SCIENCE

The human virome: new tools and concepts

(2013) Marc Lecuit et al.   TRENDS IN MICROBIOLOGY

The emerging world of the fungal microbiome

(2013) Gary B. Huffnagle et al.   TRENDS IN MICROBIOLOGY

Study of the Viral and Microbial Communities Associated With Crohn’s Disease: A Metagenomic Approach

(2013) Vicente Pérez-Brocal et al.   Clinical and Translational Gastroenterology

Helminth-host immunological interactions: prevention and control of immune-mediated diseases

(2012) David E. Elliott et al.   Annals of the New York Academy of Sciences

The relationship between urban environment and the inflammatory bowel diseases: a systematic review and meta-analysis

(2012) Ing Shian Soon et al.   BMC GASTROENTEROLOGY

Defining a Healthy Human Gut Microbiome: Current Concepts, Future Directions, and Clinical Applications

(2012) Fredrik Bäckhed et al.   Cell Host & Microbe

Correction

(2012)   GASTROENTEROLOGY

DC-derived IL-18 drives Treg differentiation, murine Helicobacter pylori–specific immune tolerance, and asthma protection

(2012) Mathias Oertli et al.   JOURNAL OF CLINICAL INVESTIGATION

Human gut microbiome viewed across age and geography

(2012) Tanya Yatsunenko et al.   NATURE

A complex microworld in the gut: Harnessing pathogen-commensal relations

(2012) Nobuhiko Kamada et al.   NATURE MEDICINE

Hypervariable loci in the human gut virome

(2012) S. Minot et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Interactions Between Commensal Fungi and the C-Type Lectin Receptor Dectin-1 Influence Colitis

(2012) I. D. Iliev et al.   SCIENCE

The human gut microbiome: current knowledge, challenges, and future directions

(2012) Maneesh Dave et al.   Translational Research

Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment

(2012) Xochitl C Morgan et al.   GENOME BIOLOGY

Enterococcus faecalis Metalloprotease Compromises Epithelial Barrier and Contributes to Intestinal Inflammation

(2011) Natalie Steck et al.   GASTROENTEROLOGY

The Commensal Microbiota and Enteropathogens in the Pathogenesis of Inflammatory Bowel Diseases

(2011) Benoit Chassaing et al.   GASTROENTEROLOGY

Increasing Incidence and Prevalence of the Inflammatory Bowel Diseases With Time, Based on Systematic Review

(2011) Natalie A. Molodecky et al.   GASTROENTEROLOGY

Fusobacterium nucleatum infection is prevalent in human colorectal carcinoma

(2011) M. Castellarin et al.   GENOME RESEARCH

The human gut virome: Inter-individual variation and dynamic response to diet

(2011) S. Minot et al.   GENOME RESEARCH

Genomic analysis identifies association of Fusobacterium with colorectal carcinoma

(2011) A. D. Kostic et al.   GENOME RESEARCH

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

(2011) Jaclyn Strauss et al.   INFLAMMATORY BOWEL DISEASES

Smokers with active Crohnʼs disease have a clinically relevant dysbiosis of the gastrointestinal microbiota*

(2011) Jane L. Benjamin et al.   INFLAMMATORY BOWEL DISEASES

Diet Drives Convergence in Gut Microbiome Functions Across Mammalian Phylogeny and Within Humans

(2011) B. D. Muegge et al.   SCIENCE

The Toll-Like Receptor 2 Pathway Establishes Colonization by a Commensal of the Human Microbiota

(2011) J. L. Round et al.   SCIENCE

Linking Long-Term Dietary Patterns with Gut Microbial Enterotypes

(2011) G. D. Wu et al.   SCIENCE

Newly Developed Antibiotic Combination Therapy for Ulcerative Colitis: A Double-Blind Placebo-Controlled Multicenter Trial

(2010) Toshifumi Ohkusa et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

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

(2010) Ken Cadwell et al.   CELL

Simultaneous Detection of Circulating Autoreactive CD8+ T-Cells Specific for Different Islet Cell-Associated Epitopes Using Combinatorial MHC Multimers

(2010) J. H. Velthuis et al.   DIABETES

Tolerance Rather Than Immunity Protects From Helicobacter pylori–Induced Gastric Preneoplasia

(2010) Isabelle C. Arnold et al.   GASTROENTEROLOGY

Dysbiosis of fecal microbiota in Crohnʼs disease patients as revealed by a custom phylogenetic microarray

(2010) Seungha Kang et al.   INFLAMMATORY BOWEL DISEASES

Disease phenotype and genotype are associated with shifts in intestinal-associated microbiota in inflammatory bowel diseases

(2010) Daniel N. Frank et al.   INFLAMMATORY BOWEL DISEASES

Microbiota in Pediatric Inflammatory Bowel Disease

(2010) Andreas Schwiertz et al.   JOURNAL OF PEDIATRICS

Viruses in the faecal microbiota of monozygotic twins and their mothers

(2010) Alejandro Reyes et al.   NATURE

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

Diet, gut microbiota and immune responses

(2010) Kendle M Maslowski et al.   NATURE IMMUNOLOGY

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

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

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

IL-22+ CD4+ T Cells Are Associated with Therapeutic Trichuris trichiura Infection in an Ulcerative Colitis Patient

(2010) M. J. Broadhurst et al.   Science Translational Medicine

Innate Recognition of Fungal Cell Walls

(2010) Stuart M. Levitz   PLoS Pathogens

Candida albicans Colonization and ASCA in Familial Crohn's Disease

(2009) Annie Standaert-Vitse et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Increasing incidence of paediatric inflammatory bowel disease in Ontario, Canada: evidence from health administrative data

(2009) E I Benchimol et al.   GUT

Low counts of Faecalibacterium prausnitzii in colitis microbiota

(2009) H. Sokol et al.   INFLAMMATORY BOWEL DISEASES

Commensal bacteria can enter colonic epithelial cells and induce proinflammatory cytokine secretion: a possible pathogenic mechanism of ulcerative colitis

(2009) T. Ohkusa et al.   JOURNAL OF MEDICAL MICROBIOLOGY

Unstable Composition of the Fecal Microbiota in Ulcerative Colitis During Clinical Remission

(2008) Cristina Martinez et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Diet-Induced Obesity Is Linked to Marked but Reversible Alterations in the Mouse Distal Gut Microbiome

(2008) Peter J. Turnbaugh et al.   Cell Host & Microbe

Helminth antigen-based strategy to ameliorate inflammation in an experimental model of colitis

(2008) Y. Motomura et al.   CLINICAL AND EXPERIMENTAL IMMUNOLOGY

Molecular-phylogenetic characterization of microbial communities imbalances in the small intestine of dogs with inflammatory bowel disease

(2008) Panagiotis G. Xenoulis et al.   FEMS MICROBIOLOGY ECOLOGY

Microbial Influences in Inflammatory Bowel Diseases

(2008) R. Balfour Sartor   GASTROENTEROLOGY

Dysbiosis in inflammatory bowel disease: a role for bacteriophages?

(2008) P Lepage et al.   GUT

Clinical use of E. coli Nissle 1917 in inflammatory bowel disease

(2008) Michael Schultz   INFLAMMATORY BOWEL DISEASES

Twin studies reveal specific imbalances in the mucosa-associated microbiota of patients with ileal Crohnʼs disease

(2008) Ben Willing et al.   INFLAMMATORY BOWEL DISEASES

Helminths and the IBD hygiene hypothesis

(2008) Joel V. Weinstock et al.   INFLAMMATORY BOWEL DISEASES

Lactobacillus casei downregulates commensalsʼ inflammatory signals in Crohnʼs disease mucosa

(2008) Marta Llopis et al.   INFLAMMATORY BOWEL DISEASES

Molecular analysis of the gut microbiota of identical twins with Crohn's disease

(2008) Johan Dicksved et al.   ISME Journal

A core gut microbiome in obese and lean twins

(2008) Peter J. Turnbaugh 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

Fungi and inflammatory bowel diseases: Alterations of composition and diversity

(2008) Stephan J. Ott et al.   SCANDINAVIAN JOURNAL OF GASTROENTEROLOGY

Evolution of Mammals and Their Gut Microbes

(2008) R. E. Ley et al.   SCIENCE

Probiotics, prebiotics and competitive exclusion for prophylaxis against bacterial disease

(2008) T. R. Callaway et al.   ANIMAL HEALTH RESEARCH REVIEWS

Transduction of blaCMY-2, tet(A), and tet(B) from Salmonella enterica subspecies enterica serovar Heidelberg to S. Typhimurium

(2007) Yifan Zhang et al.   VETERINARY MICROBIOLOGY