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. 2019 May 16;10:1093. doi: 10.3389/fmicb.2019.01093

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Copyright © 2019 Hagey, Bhatnagar, Heguy, Karle, Price, Meyer and Maga.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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Alpha and beta diversity of samples. (A) Average Phylogenetic Diversity (PD) across farms was determined by averaging the sum of all branch lengths of the OTUs present in each fecal sample (Faith’s PD). Alpha diversity of fecal bacterial communities was not significantly affected by housing type, but farm did significantly (p = 4.9 × 10^–10) affect alpha diversity. (B) Beta diversity of samples graphed as PCoA of unweighted UniFrac distances colored by housing type. Pasture farms cluster way from the other housing types and are more similar to freestall then dry lot farms.