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Simplified Intestinal Microbiota to Study Microbe-Diet-Host Interactions in a Mouse Model

Journal article
Authors Petia Kovatcheva-Datchary
S. Shoaie
S. Lee
Annika Wahlström
I. Nookaew
Anna Hallén
Rosie Perkins
J. Nielsen
Fredrik Bäckhed
Published in Cell Reports
Volume 26
Issue 13
Pages 3772-+
ISSN 2211-1247
Publication year 2019
Published at Wallenberg Laboratory
Pages 3772-+
Language en
Keywords butyrate-producing bacteria, human colonic microbiota, gut microbiota, sp nov., akkermansia-muciniphila, gene-expression, identification, fermentation, proposal, fiber, Cell Biology
Subject categories Cell biology


The gut microbiota can modulate human metabolism through interactions with macronutrients. However, microbiota-diet-host interactions are difficult to study because bacteria interact in complex food webs in concert with the host, and many of the bacteria are not yet characterized. To reduce the complexity, we colonize mice with a simplified intestinal microbiota (SIM) composed of ten sequenced strains isolated from the human gut with complementing pathways to metabolize dietary fibers. We feed the SIM mice one of three diets (chow [fiber rich], high-fat/high-sucrose, or zero-fat/high-sucrose diets [both low in fiber]) and investigate (1) how dietary fiber, saturated fat, and sucrose affect the abundance and transcriptome of the SIM community, (2) the effect of microbe-diet interactions on circulating metabolites, and (3) how microbiota-diet interactions affect host metabolism. Our SIM model can be used in future studies to help clarify how microbiota-diet interactions contribute to metabolic diseases.

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