Relative Abundance of Bacterial Taxa
We calculated the relative abundances of phyla and genera from the
unrarefied dataset. For analyses, phyla and genera with mean abundances
<1% were lumped into the “Other” category. This data
stringency limited analyses to the top three most abundant phyla
(Proteobacteria, Firmicutes, Actinobacteriota) and the top twelve most
abundant genera (Table 1). We ran non-parametric Kruskal-Wallis tests
using the kruskal.test function in R to compare abundances of bacterial
taxa between locations (urban, non-urban), parasite treatments
(sham-fumigated, fumigated), and locations within the parasitized
(sham-fumigated) treatment group. P -values were adjusted for
false discovery rate with a Benjamini–Hochberg correction where
significance was determined as P adj <
0.05.