Microbiome Composition in Both Wild-Type and Disease Model Mice Is Heavily Influenced by Mouse Facility

Distinct gut microbiota profiles in patients with primary sclerosing cholangitis and ulcerative colitis

(2017) Lukas Bajer et al.   WORLD JOURNAL OF GASTROENTEROLOGY

Microbiome and metabolome modifying effects of several cardiovascular disease interventions in apo-E−/− mice

(2017) Paul M. Ryan et al.   Microbiome

Eggshell membrane powder ameliorates intestinal inflammation by facilitating the restitution of epithelial injury and alleviating microbial dysbiosis

(2017) Huijuan Jia et al.   Scientific Reports

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

Genomic characterization of the uncultured Bacteroidales family S24-7 inhabiting the guts of homeothermic animals

(2016) Kate L. Ormerod et al.   Microbiome

The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota

(2016) Ilias Lagkouvardos et al.   Nature Microbiology

Characterization of Intestinal Microbiomes of Hirschsprung’s Disease Patients with or without Enterocolitis Using Illumina-MiSeq High-Throughput Sequencing

(2016) Yuqing Li et al.   PLoS One

dendextend: an R package for visualizing, adjusting and comparing trees of hierarchical clustering

(2015) Tal Galili   BIOINFORMATICS

How informative is the mouse for human gut microbiota research?

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

Voluntary and forced exercise differentially alters the gut microbiome in C57BL/6J mice

(2015) Jacob M. Allen et al.   JOURNAL OF APPLIED PHYSIOLOGY

Mucus Barriers to Microparticles and Microbes are Altered in Hirschsprung's Disease

(2015) Hasan M. Yildiz et al.   MACROMOLECULAR BIOSCIENCE

Effects of Vendor and Genetic Background on the Composition of the Fecal Microbiota of Inbred Mice

(2015) Aaron C. Ericsson et al.   PLoS One

Characterization of Bacterial and Fungal Microbiome in Children with Hirschsprung Disease with and without a History of Enterocolitis: A Multicenter Study

(2015) Philip K. Frykman et al.   PLoS One

Gut microbiome composition and function in experimental colitis during active disease and treatment-induced remission

(2014) Michelle G Rooks et al.   ISME Journal

Intestinal dysbiosis and bacterial enteroinvasion in a murine model of Hirschsprung’s disease

(2014) Joseph F. Pierre et al.   JOURNAL OF PEDIATRIC SURGERY

Altered Goblet Cell Differentiation and Surface Mucus Properties in Hirschsprung Disease

(2014) Jay R. Thiagarajah et al.   PLoS One

Intestinal anastomotic injury alters spatially defined microbiome composition and function

(2014) Benjamin D Shogan et al.   Microbiome

Advances in Hirschsprung Disease Genetics and Treatment Strategies

(2013) Deepika D’Cunha Burkardt et al.   CLINICAL PEDIATRICS

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

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

Reduced Incidence of Prevotella and Other Fermenters in Intestinal Microflora of Autistic Children

(2013) Dae-Wook Kang et al.   PLoS One

Inflammation-associated enterotypes, host genotype, cage and inter-individual effects drive gut microbiota variation in common laboratory mice

(2013) Falk Hildebrand et al.   GENOME BIOLOGY

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

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

Intestinal aganglionosis is associated with early and sustained disruption of the colonic microbiome

(2012) N. L. Ward et al.   NEUROGASTROENTEROLOGY AND MOTILITY

Gut Microbiota Composition Is Correlated to Grid Floor Induced Stress and Behavior in the BALB/c Mouse

(2012) Katja Maria Bangsgaard Bendtsen et al.   PLoS One

Routine Habitat Change: A Source of Unrecognized Transient Alteration of Intestinal Microbiota in Laboratory Mice

(2012) Betty W. Ma et al.   PLoS One

Diet-Induced Dysbiosis of the Intestinal Microbiota and the Effects on Immunity and Disease

(2012) Kirsty Brown et al.   Nutrients

High-throughput clone library analysis of the mucosa-associated microbiota reveals dysbiosis and differences between inflamed and non-inflamed regions of the intestine in inflammatory bowel disease

(2011) Alan W Walker et al.   BMC MICROBIOLOGY

NLRP6 Inflammasome Regulates Colonic Microbial Ecology and Risk for Colitis

(2011) Eran Elinav et al.   CELL

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

(2011) Daniel McDonald et al.   ISME Journal

Colonic mucosa-associated microbiota is influenced by an interaction of Crohn disease and FUT2 (Secretor) genotype

(2011) P. Rausch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Genotype Is a Stronger Determinant than Sex of the Mouse Gut Microbiota

(2010) Amir Kovacs et al.   MICROBIAL ECOLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

Towards the human intestinal microbiota phylogenetic core

(2009) Julien Tap et al.   ENVIRONMENTAL MICROBIOLOGY

High-Fat Diet Determines the Composition of the Murine Gut Microbiome Independently of Obesity

(2009) Marie A. Hildebrandt et al.   GASTROENTEROLOGY

Detection of intestinal bifidobacteria and lactobacilli in patients with Hirschsprung’s disease associated enterocolitis

(2009) Di-Hua Shen et al.   World Journal of Pediatrics

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