Differential gene expression analysis
We used DESeq2 to identify genes which were differentially expressed due to symbiont codominance and heat treatment. This analysis was performed on Cladocopium symbionts, Durusdinium symbionts, and the coral host. Genes with a mean count less than three were excluded from this analysis, leaving a total of 19,580 genes for the coral host, 15,332 for Cladocopium , and exactly 15,000 forDurusdinium .