Fig. 3

Differentially abundant OTUs in fecal samples prior to and following Salmonella inoculation between swine groups (+/− β-glucan). Differentially abundant OTUs were determined by DESeq2 using Wald tests with parametric fits and FDR corrected P values on fecal samples prior to Salmonella inoculation (D0), and at 2 (D2) and 16 (D16) dpi with Salmonella. OTUs with FDR P value < 0.05 and log2foldchange > 0.5 were considered differentially abundant. Each point represents a significantly differentially abundant OTU at one timepoint, and multiple points occurring on a single line indicate multiple OTUs classified to that taxa. The x- and y-axis indicate the log2foldchange (the magnitude of the difference in abundance between the two groups) and the genus the OTU was classified as according to the SILVA v132 taxonomy, respectively. A positive log2foldchange indicates the OTU was enriched in the β-glucan diet and a negative log2foldchange indicates the OTU was enriched in the non-amended control diet