Communities in Swiss Webster mice differ by tissue site but not by infection status. This principal coordinates analysis plot represents the relative operational taxonomic unit (OTU) abundance in Swiss Webster mice at a 3% definition level, and was generated using a Yue and Clayton distance matrix. (A) Community structure at early timepoints, days 1 and 3 post infection. (B) Community structure at late timepoints, days 7, 28, and 56 post infection. Each murine intestinal community is represented by a symbol. Each symbol is colored to represent the tissue location of the community. Arrows represent the direction where the most frequently detected OTUs influence the location of each sample. All times were combined for each experiment.