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

Cell Reports
Petia Kovatcheva-DatcharyF Bäckhed


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.


Jun 1, 1991·The Journal of Applied Bacteriology·J H Cummings, G T Macfarlane
Jan 8, 1999·Biochemical and Biophysical Research Communications·L C Bourne, C Rice-Evans
Jan 27, 1999·Bioinformatics·S R Eddy
Jan 29, 2000·FEMS Microbiology Letters·A KageyamaY Benno
Oct 18, 2000·International Journal of Systematic and Evolutionary Microbiology·A Kageyama, Y Benno
Mar 29, 2003·Science·Jian XuJeffrey I Gordon
Jun 9, 2004·The British Journal of Nutrition·Sylvia H DuncanHarry J Flint
Sep 25, 2004·International Journal of Systematic and Evolutionary Microbiology·Muriel DerrienWillem M de Vos
Oct 7, 2004·Applied and Environmental Microbiology·Sylvia H DuncanHarry J Flint
Oct 27, 2004·Proceedings of the National Academy of Sciences of the United States of America·Fredrik BäckhedJeffrey I Gordon
Mar 26, 2005·Science·Justin L SonnenburgJeffrey I Gordon
Jun 20, 2006·Proceedings of the National Academy of Sciences of the United States of America·Buck S Samuel, Jeffrey I Gordon
Oct 3, 2006·International Journal of Systematic and Evolutionary Microbiology·Sylvia H DuncanHarry J Flint
Jan 11, 2007·Proceedings of the National Academy of Sciences of the United States of America·Fredrik BäckhedJeffrey I Gordon
Mar 21, 2007·The British Journal of Nutrition·Patrice D CaniNathalie M Delzenne
May 3, 2007·International Journal of Systematic and Evolutionary Microbiology·Hidenori HayashiYoshimi Benno
Jun 4, 2008·Annual Review of Biochemistry·L L LairsonS G Withers
Jul 5, 2008·International Journal of Systematic and Evolutionary Microbiology·Sylvia H Duncan, Harry J Flint
Sep 10, 2008·International Journal of Obesity : Journal of the International Association for the Study of Obesity·S H DuncanH J Flint
Mar 27, 2009·Proceedings of the National Academy of Sciences of the United States of America·Michael A MahowaldJeffrey I Gordon
Jun 10, 2009·Bioinformatics·Heng LiUNKNOWN 1000 Genome Project Data Processing Subgroup
Jun 23, 2009·Genome Research·Martin KrzywinskiMarco A Marra
Sep 8, 2009·FEMS Microbiology Letters·Perrine MarquetHarry J Flint
Feb 18, 2009·Global Change Biology. Bioenergy·Dylan Dodd, Isaac K O Cann
Aug 4, 2010·Proceedings of the National Academy of Sciences of the United States of America·Karen P ScottHarry J Flint
Aug 6, 2010·The ISME Journal·Alan W WalkerHarry J Flint
Apr 13, 2011·Genes & Nutrition·Karina PokusaevaDouwe van Sinderen
Apr 22, 2011·Nature·Manimozhiyan ArumugamPeer Bork
Sep 3, 2011·Science·Gary D WuJames D Lewis
Oct 25, 2011·Cell Host & Microbe·Michael A Fischbach, Justin L Sonnenburg
May 11, 2012·Gut Microbes·Harry J FlintEvelyne Forano
Oct 30, 2012·Bioinformatics·Alexander DobinThomas R Gingeras

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Methods Mentioned

Illumina sequencing

Software Mentioned

GraphPad Prism

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