Manipulating the Gut Microbiota: Methods and Challenges: Figure 1

Effects of the Social Environment and Stress on Glucocorticoid Receptor Gene Methylation: A Systematic Review

(2016) Gustavo Turecki et al.   BIOLOGICAL PSYCHIATRY

How informative is the mouse for human gut microbiota research?

(2015) T. L. A. Nguyen et al.   Disease Models & Mechanisms

Bacteria from Diverse Habitats Colonize and Compete in the Mouse Gut

(2014) Henning Seedorf et al.   CELL

Altering the Intestinal Microbiota during a Critical Developmental Window Has Lasting Metabolic Consequences

(2014) Laura M. Cox et al.   CELL

Making designer mutants in model organisms

(2014) Y. Peng et al.   DEVELOPMENT

Interplay of host microbiota, genetic perturbations, and inflammation promotes local development of intestinal neoplasms in mice

(2014) Gerold Bongers et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Policy: NIH plans to enhance reproducibility

(2014) Francis S. Collins et al.   NATURE

Preclinical research: Make mouse studies work

(2014) Steve Perrin   NATURE

An enteric virus can replace the beneficial function of commensal bacteria

(2014) Elisabeth Kernbauer et al.   NATURE

Reprogrammed and transmissible intestinal microbiota confer diminished susceptibility to induced colitis in TMF−/−mice

(2014) Shai Bel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Gnotobiotic Mouse Model Demonstrates That Dietary Fiber Protects against Colorectal Tumorigenesis in a Microbiota- and Butyrate-Dependent Manner

(2014) D. R. Donohoe et al.   Cancer Discovery

Xenobiotics Shape the Physiology and Gene Expression of the Active Human Gut Microbiome

(2013) Corinne Ferrier Maurice et al.   CELL

The adoptive transfer of behavioral phenotype via the intestinal microbiota: experimental evidence and clinical implications

(2013) Stephen M Collins et al.   CURRENT OPINION IN MICROBIOLOGY

A metabolomic view of how the human gut microbiota impacts the host metabolome using humanized and gnotobiotic mice

(2013) A Marcobal et al.   ISME Journal

IL-22 Deficiency Alters Colonic Microbiota To Be Transmissible and Colitogenic

(2013) L. A. Zenewicz et al.   JOURNAL OF IMMUNOLOGY

Smoking Cessation Induces Profound Changes in the Composition of the Intestinal Microbiota in Humans

(2013) Luc Biedermann et al.   PLoS One

Intestinal Microbiota Composition of Interleukin-10 Deficient C57BL/6J Mice and Susceptibility to Helicobacter hepaticus-Induced Colitis

(2013) Ines Yang et al.   PLoS One

Gut Microbiota from Twins Discordant for Obesity Modulate Metabolism in Mice

(2013) V. K. Ridaura et al.   SCIENCE

From meta-omics to causality: experimental models for human microbiome research

(2013) Joëlle V Fritz et al.   Microbiome

Influence of red wine polyphenols and ethanol on the gut microbiota ecology and biochemical biomarkers

(2012) María Isabel Queipo-Ortuño et al.   AMERICAN JOURNAL OF CLINICAL NUTRITION

Should We Standardize the 1,700-Year-Old Fecal Microbiota Transplantation?

(2012) Faming Zhang et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Gut microbiota accelerate tumor growth via c-jun and STAT3 phosphorylation in APC Min/+ mice

(2012) Yinghui Li et al.   CARCINOGENESIS

Gut Immune Maturation Depends on Colonization with a Host-Specific Microbiota

(2012) Hachung Chung et al.   CELL

The Impact of the Gut Microbiota on Human Health: An Integrative View

(2012) Jose C. Clemente et al.   CELL

Time to include the gut microbiota in the hygienic standardisation of laboratory rodents

(2012) André Bleich et al.   COMPARATIVE IMMUNOLOGY MICROBIOLOGY AND INFECTIOUS DISEASES

Host genetic and environmental effects on mouse intestinal microbiota

(2012) James H Campbell et al.   ISME Journal

Gut microbiota composition correlates with diet and health in the elderly

(2012) Marcus J. Claesson et al.   NATURE

Raise standards for preclinical cancer research

(2012) C. Glenn Begley et al.   NATURE

Inflammasome-mediated dysbiosis regulates progression of NAFLD and obesity

(2012) Jorge Henao-Mejia et al.   NATURE

Mind-altering microorganisms: the impact of the gut microbiota on brain and behaviour

(2012) John F. Cryan et al.   NATURE REVIEWS NEUROSCIENCE

Role of the intestinal microbiome in health and disease: from correlation to causation

(2012) Willem M de Vos et al.   NUTRITION REVIEWS

Patterns of Early Gut Colonization Shape Future Immune Responses of the Host

(2012) Camilla Hartmann Friis Hansen et al.   PLoS One

Programming of Host Metabolism by the Gut Microbiota

(2011) Fredrik Bäckhed   ANNALS OF NUTRITION AND METABOLISM

NLRP6 Inflammasome Regulates Colonic Microbial Ecology and Risk for Colitis

(2011) Eran Elinav et al.   CELL

Helicobacter bilis Colonization Enhances Susceptibility to Typhlocolitis Following an Inflammatory Trigger

(2011) Zhiping Liu et al.   DIGESTIVE DISEASES AND SCIENCES

The Intestinal Microbiota Affect Central Levels of Brain-Derived Neurotropic Factor and Behavior in Mice

(2011) Premysl Bercik et al.   GASTROENTEROLOGY

Evidence for a core gut microbiota in the zebrafish

(2011) Guus Roeselers et al.   ISME Journal

Functional Specializations of Intestinal Dendritic Cell and Macrophage Subsets That Control Th17 and Regulatory T Cell Responses Are Dependent on the T Cell/APC Ratio, Source of Mouse Strain, and Regional Localization

(2011) T. L. Denning et al.   JOURNAL OF IMMUNOLOGY

High drug attrition rates—where are we going wrong?

(2011) Lisa Hutchinson et al.   Nature Reviews Clinical Oncology

Believe it or not: how much can we rely on published data on potential drug targets?

(2011) Florian Prinz et al.   NATURE REVIEWS DRUG DISCOVERY

Altering Host Resistance to Infections through Microbial Transplantation

(2011) Benjamin P. Willing et al.   PLoS One

Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice

(2011) A. L. Goodman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

The Impact of a Consortium of Fermented Milk Strains on the Gut Microbiome of Gnotobiotic Mice and Monozygotic Twins

(2011) N. P. McNulty et al.   Science Translational Medicine

Specificity of Polysaccharide Use in Intestinal Bacteroides Species Determines Diet-Induced Microbiota Alterations

(2010) Erica D. Sonnenburg et al.   CELL

Mode of delivery affects the bacterial community in the newborn gut

(2010) Giacomo Biasucci et al.   EARLY HUMAN DEVELOPMENT

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

(2010) Hsin-Jung Wu et al.   IMMUNITY

COMPANION ANIMALS SYMPOSIUM: Humanized animal models of the microbiome1

(2010) D. B. Gootenberg et al.   JOURNAL OF ANIMAL SCIENCE

Milk sialyllactose influences colitis in mice through selective intestinal bacterial colonization

(2010) Andrea Fuhrer et al.   JOURNAL OF EXPERIMENTAL MEDICINE

The impact of the microbiota on the pathogenesis of IBD: lessons from mouse infection models

(2010) Sandra Nell et al.   NATURE REVIEWS MICROBIOLOGY

Site and Strain-Specific Variation in Gut Microbiota Profiles and Metabolism in Experimental Mice

(2010) Melissa K. Friswell et al.   PLoS One

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

Individuality in gut microbiota composition is a complex polygenic trait shaped by multiple environmental and host genetic factors

(2010) A. K. Benson 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

Metabolic Syndrome and Altered Gut Microbiota in Mice Lacking Toll-Like Receptor 5

(2010) M. Vijay-Kumar et al.   SCIENCE

Reversible Microbial Colonization of Germ-Free Mice Reveals the Dynamics of IgA Immune Responses

(2010) S. Hapfelmeier et al.   SCIENCE

Induction of Colonic Regulatory T Cells by Indigenous Clostridium Species

(2010) K. Atarashi et al.   SCIENCE

Improving Bioscience Research Reporting: The ARRIVE Guidelines for Reporting Animal Research

(2010) Carol Kilkenny et al.   PLOS BIOLOGY

Induction of Intestinal Th17 Cells by Segmented Filamentous Bacteria

(2009) Ivaylo I. Ivanov et al.   CELL

Identifying Genetic Determinants Needed to Establish a Human Gut Symbiont in Its Habitat

(2009) Andrew L. Goodman et al.   Cell Host & Microbe

The treatment of diarrhoea in the adult horse

(2009) R. J. Naylor et al.   EQUINE VETERINARY EDUCATION

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

(2009) Valérie Gaboriau-Routhiau et al.   IMMUNITY

Reproducible Community Dynamics of the Gastrointestinal Microbiota following Antibiotic Perturbation

(2009) D. A. Antonopoulos et al.   INFECTION AND IMMUNITY

The development of intestinal lymphoid tissues at the interface of self and microbiota

(2009) G Eberl et al.   Mucosal Immunology

Metagenomic analyses reveal antibiotic-induced temporal and spatial changes in intestinal microbiota with associated alterations in immune cell homeostasis

(2009) D A Hill et al.   Mucosal 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

The Effect of Diet on the Human Gut Microbiome: A Metagenomic Analysis in Humanized Gnotobiotic Mice

(2009) P. J. Turnbaugh et al.   Science Translational Medicine

Early Life Stress Alters Behavior, Immunity, and Microbiota in Rats: Implications for Irritable Bowel Syndrome and Psychiatric Illnesses

(2008) Siobhain M. O'Mahony et al.   BIOLOGICAL PSYCHIATRY

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

Specific Microbiota Direct the Differentiation of IL-17-Producing T-Helper Cells in the Mucosa of the Small Intestine

(2008) Ivaylo I. Ivanov et al.   Cell Host & Microbe

Antibiotic-Induced Perturbations of the Intestinal Microbiota Alter Host Susceptibility to Enteric Infection

(2008) I. Sekirov et al.   INFECTION AND IMMUNITY

Predominant Role of Host Genetics in Controlling the Composition of Gut Microbiota

(2008) Zaruhi A. Khachatryan et al.   PLoS One