An in vitro model maintaining taxon-specific functional activities of the gut microbiome

Leyuan Li, Elias Abou-Samra, Zhibin Ning, Xu Zhang, Janice Mayne, Janet Wang, Kai Cheng, Krystal Walker, Alain Stintzi and Daniel Figeys ()
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Leyuan Li: University of Ottawa
Elias Abou-Samra: University of Ottawa
Zhibin Ning: University of Ottawa
Xu Zhang: University of Ottawa
Janice Mayne: University of Ottawa
Janet Wang: University of Toronto
Kai Cheng: University of Ottawa
Krystal Walker: University of Ottawa
Alain Stintzi: University of Ottawa
Daniel Figeys: University of Ottawa

Nature Communications, 2019, vol. 10, issue 1, 1-11

Abstract: Abstract In vitro gut microbiome models could provide timely and cost-efficient solutions to study microbiome responses to drugs. For this purpose, in vitro models that maintain the functional and compositional profiles of in vivo gut microbiomes would be extremely valuable. Here, we present a 96-deep well plate-based culturing model (MiPro) that maintains the functional and compositional profiles of individual gut microbiomes, as assessed by metaproteomics, while allowing a four-fold increase in viable bacteria counts. Comparison of taxon-specific functions between pre- and post-culture microbiomes shows a Pearson’s correlation coefficient r of 0.83 ± 0.03. In addition, we show a high degree of correlation between gut microbiome responses to metformin in the MiPro model and those in mice fed a high-fat diet. We propose MiPro as an in vitro gut microbiome model for scalable investigation of drug-microbiome interactions such as during high-throughput drug screening.

Date: 2019
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Persistent link: https://EconPapers.repec.org/RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-019-12087-8

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DOI: 10.1038/s41467-019-12087-8

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