Divergent responses of viral and bacterial communities in the gut microbiome to dietary disturbances in mice

Howe, Adina; Ringus, Daina L.; Williams, Ryan J.; Choo, Zi -Ning; Greenwald, Stephanie M.; Owens, Sarah M.; Coleman, Maureen L.; Meyer, Folker; Chang, Eugene B.

doi:10.1038/ismej.2015.183

Title: Divergent responses of viral and bacterial communities in the gut microbiome to dietary disturbances in mice

Journal Article · Fri Oct 16 00:00:00 EDT 2015 · The ISME Journal

DOI:https://doi.org/10.1038/ismej.2015.183· OSTI ID:1315658

Howe, Adina ^[1]; Ringus, Daina L. ^[2]; Williams, Ryan J. ^[3]; Choo, Zi -Ning ^[2]; Greenwald, Stephanie M. ^[4]; Owens, Sarah M. ^[5]; Coleman, Maureen L. ^[2]; Meyer, Folker ^[5]; Chang, Eugene B. ^[2]

Iowa State Univ., Ames, IA (United States); Argonne National Lab. (ANL), Argonne, IL (United States)
Univ. of Chicago, Chicago, IL (United States)
Iowa State Univ., Ames, IA (United States)
Argonne National Lab. (ANL), Argonne, IL (United States)
Argonne National Lab. (ANL), Argonne, IL (United States); Univ. of Chicago, Chicago, IL (United States)

To improve our understanding of the stability of mammalian intestinal communities, we characterized the responses of both bacterial and viral communities in murine fecal samples to dietary changes between high- and low-fat (LF) diets. Targeted DNA extraction methods for bacteria, virus-like particles and induced prophages were used to generate bacterial and viral metagenomes as well as 16S ribosomal RNA amplicons. Gut microbiome communities from two cohorts of C57BL/6 mice were characterized in a 6-week diet perturbation study in response to high fiber, LF and high-refined sugar, milkfat (MF) diets. The resulting metagenomes from induced bacterial prophages and extracellular viruses showed significant overlap, supporting a largely temperate viral lifestyle within these gut microbiomes. The resistance of baseline communities to dietary disturbances was evaluated, and we observed contrasting responses of baseline LF and MF bacterial and viral communities. In contrast to baseline LF viral communities and bacterial communities in both diet treatments, baseline MF viral communities were sensitive to dietary disturbances as reflected in their non-recovery during the washout period. Finally, the contrasting responses of bacterial and viral communities suggest that these communities can respond to perturbations independently of each other and highlight the potentially unique role of viruses in gut health.

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Research Organization:: Argonne National Laboratory (ANL), Argonne, IL (United States)

Sponsoring Organization:: USDOE; National Institutes of Health (NIH)

Grant/Contract Number:: AC02-06CH11357

OSTI ID:: 1315658

Journal Information:: The ISME Journal, Vol. 10, Issue 5; ISSN 1751-7362

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

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