Figure Legends
Fig. 1 Mean (A) Shannon diversity (B)richness and (C) Faith’s phylogenetic diversity of femaleS. virgatus cloacal swabs and tissue types. Although cloacal tissue diversity was lower than the other tissue types and the swabs, this difference was not statistically significant in any measure. Error bars represent standard error
Fig. 2 Beta diversity of S. virgatus cloacal swabs and tissue types. (A) Non-metric multi-dimensional scaling (NMDS) plot created by using Bray Curtis distance to calculate pairwise distances based on community composition; 3 dimensions were used to calculate distances but only the most influential two are pictured here. Samples clustered using (B) weighted and (C) unweighted UniFrac distances were used to create Principal Coordinates Analysis (PCoA) plots. Hulls and ellipses are colored by sample type
Fig. 3 Percent composition of bacterial families in cloacal swabs and tissue types. Each vertical bar represents one sample. Colored portions of the bars represent the relative abundance of the top ten most abundant taxa; the remaining taxa were combined into the “other” category. The y-axis indicates percent composition of total reads for that sample. Raw data are provided in Online Resource 1
Fig. 4 Effect of defecation on cloacal swab microbiome samples relative to the fecal pellet microbiome. (A) Shannon diversity index values, (B) richness, and (C) Faith’s phylogenetic diversity of S. virgatus cloacal swabs before and after defecation, and fecal pellets. The fecal pellets have significantly higher diversity than the pre-defecation swabs in all metrics, but there were no differences between pre- and post-defecation swabs. Error bars represent standard error
Fig. 5 Beta diversity of S. virgatus cloacal swabs and feces. (A) Non-metric multi-dimensional scaling (NMDS) plots created by using Bray Curtis distance to calculate pairwise distances based on community composition of cloacal swabs of S. virgatuslizards before and after defecation, as well as fecal samples from the same individuals. 2 dimensions were used to calculate distances. Samples clustered using (B) weighted and (C) unweighted UniFrac distances to create Principal Coordinates Analysis (PCoA) plots. Hulls and ellipses are colored by sample type
Fig. 6. Percent composition of bacterial families in pre- and post-defecation swabs, and fecal samples from S. virgatusindividuals. Each vertical bar represents one sample. Colored portions of the bars represent the relative abundance of the top ten most abundant taxa; the remaining taxa were combined into the “other” category. The y-axis indicates the percent composition of total reads for that sample. Raw data are provided in Online Resource 1
Fig. 7. Percent composition of the bacterial phyla known to dominate the vertebrate gut microbiome found in all S. virgatussamples from Study 1 and Study 2. Each vertical bar represents the mean percent composition for a given sample type. Raw data are provided in Online Resource 2