Similarity of the dog and human gut microbiomes in gene content and response to diet

Stress and stability: applying the Anna Karenina principle to animal microbiomes

(2017) Jesse R. Zaneveld et al.   Nature Microbiology

metaSNV: A tool for metagenomic strain level analysis

(2017) Paul Igor Costea et al.   PLoS One

MOCAT2: a metagenomic assembly, annotation and profiling framework

(2016) Jens Roat Kultima et al.   BIOINFORMATICS

A family of interaction-adjusted indices of community similarity

(2016) Thomas Sebastian Benedikt Schmidt et al.   ISME Journal

Persistent microbiome alterations modulate the rate of post-dieting weight regain

(2016) Christoph A. Thaiss et al.   NATURE

A reference gene catalogue of the pig gut microbiome

(2016) Liang Xiao et al.   Nature Microbiology

Dog and human inflammatory bowel disease rely on overlapping yet distinct dysbiosis networks

(2016) Yoshiki Vázquez-Baeza et al.   Nature Microbiology

Personalized Nutrition by Prediction of Glycemic Responses

(2015) David Zeevi et al.   CELL

Dietary Fiber-Induced Improvement in Glucose Metabolism Is Associated with Increased Abundance of Prevotella

(2015) Petia Kovatcheva-Datchary et al.   Cell Metabolism

How informative is the mouse for human gut microbiota research?

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

A catalog of the mouse gut metagenome

(2015) Liang Xiao et al.   NATURE BIOTECHNOLOGY

Relationships between diet-related changes in the gut microbiome and cognitive flexibility

(2015) K.R. Magnusson et al.   NEUROSCIENCE

Structure and function of the global ocean microbiome

(2015) S. Sunagawa et al.   SCIENCE

Inter-individual differences in the gene content of human gut bacterial species

(2015) Ana Zhu et al.   GENOME BIOLOGY

Longitudinal study of murine microbiota activity and interactions with the host during acute inflammation and recovery

(2014) Clarissa Schwab et al.   ISME Journal

Potential of fecal microbiota for early-stage detection of colorectal cancer

(2014) G. Zeller et al.   Molecular Systems Biology

An integrated catalog of reference genes in the human gut microbiome

(2014) Junhua Li et al.   NATURE BIOTECHNOLOGY

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

Deep Illumina-Based Shotgun Sequencing Reveals Dietary Effects on the Structure and Function of the Fecal Microbiome of Growing Kittens

(2014) Oliver Deusch et al.   PLoS One

Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes

(2013) Pascal Hingamp et al.   ISME Journal

Richness of human gut microbiome correlates with metabolic markers

(2013) Emmanuelle Le Chatelier et al.   NATURE

Diet rapidly and reproducibly alters the human gut microbiome

(2013) Lawrence A. David et al.   NATURE

Metagenomic species profiling using universal phylogenetic marker genes

(2013) Shinichi Sunagawa et al.   NATURE METHODS

Accurate and universal delineation of prokaryotic species

(2013) Daniel R Mende et al.   NATURE METHODS

Use of pigs as a potential model for research into dietary modulation of the human gut microbiota

(2013) Sonja N. Heinritz et al.   NUTRITION RESEARCH REVIEWS

The genomics of selection in dogs and the parallel evolution between dogs and humans

(2013) Guo-dong Wang et al.   Nature Communications

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

The gut microbiome of kittens is affected by dietary protein:carbohydrate ratio and associated with blood metabolite and hormone concentrations

(2012) Seema Hooda et al.   BRITISH JOURNAL OF NUTRITION

Genomic variation landscape of the human gut microbiome

(2012) Siegfried Schloissnig et al.   NATURE

MOCAT: A Metagenomics Assembly and Gene Prediction Toolkit

(2012) Jens Roat Kultima et al.   PLoS One

Inferring Correlation Networks from Genomic Survey Data

(2012) Jonathan Friedman et al.   PLoS Computational Biology

Abundance and short-term temporal variability of fecal microbiota in healthy dogs

(2012) Jose F. Garcia-Mazcorro et al.   MicrobiologyOpen

Large and linked in scientific publishing

(2012) Laurie Goodman et al.   GigaScience

Pre-expression of a sulfhydryl oxidase significantly increases the yields of eukaryotic disulfide bond containing proteins expressed in the cytoplasm of E.coli

(2011) Van Nguyen et al.   Microbial Cell Factories

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

(2011) B. D. Muegge et al.   SCIENCE

Linking Long-Term Dietary Patterns with Gut Microbial Enterotypes

(2011) G. D. Wu et al.   SCIENCE

Phylogenetic and gene-centric metagenomics of the canine intestinal microbiome reveals similarities with humans and mice

(2010) Kelly S Swanson et al.   ISME Journal

Family 6 Glycosyltransferases in Vertebrates and Bacteria: Inactivation and Horizontal Gene Transfer May Enhance Mutualism between Vertebrates and Bacteria

(2010) Keith Brew et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

An epidemiological study of environmental factors associated with canine obesity

(2010) E. A. Courcier et al.   JOURNAL OF SMALL ANIMAL PRACTICE

Microbiota and SCFA in Lean and Overweight Healthy Subjects

(2009) Andreas Schwiertz et al.   Obesity

A high protein high fibre diet improves weight loss in obese dogs

(2009) Alexander J. German et al.   VETERINARY JOURNAL

Low-carbohydrate, high-protein diets revisited

(2008) Robert F Kushner et al.   CURRENT OPINION IN GASTROENTEROLOGY

Human colonic microbiota associated with diet, obesity and weight loss

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Evolution of Mammals and Their Gut Microbes

(2008) R. E. Ley et al.   SCIENCE