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