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. 2019 Jun 25;9:217. doi: 10.3389/fcimb.2019.00217

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Copyright © 2019 Afrin, Murase, Kounosu, Hunt, Bligh, Maeda, Hino, Maruyama, Tsai and Kikuchi.

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 diversity of reads retrieved from the mouse fecal samples. (A) Rarefaction curves based on the Chao1 richness estimator calculated using the observed operational taxonomic units (OTUs). The total OTUs were generated using a 97% similarity threshold. (B) Box plot showing Chao1 values of bacteria in different time categories at the OTU level. (C) Box plot showing Chao1 values of bacteria in different time categories at the species level. Chao1 values were calculated using rarefied reads (50,000 reads per sample) from 0 to 17 days post-infection (DPI), as well as for the naïve control mice.