Functional enrichment tests
We used a Gene Ontology (GO) enrichment analysis that utilizes the
Mann-Whitney U (MWU) test
(Wright et al.,
2017) to identify significant functional differences among up and
down-regulated genes associated with the codominant state. We used
-log10 transformed p- values output from DESeq2, multiplied by -1
when the gene was down-regulated, as input for this analysis, following
(Dixon
et al., 2015). This test compares transformed p-value ranks
among genes to determine whether the ranks of genes in a GO category
diverge significantly from ranks of other genes. We also used a
Eukaryotic Orthologous Group (KOG) MWU test (package KOGMWU in R,Dixon
et al., 2015) to broadly determine coral host gene expression response
to codominant symbionts. For this analysis, the data from this study was
compared to the generalized stress response (GSR) profile from
(Dixon et al., 2020)
that represents the response of Acropora sp. to any kind of
high-intensity stress.
Results