Figure 1.

Non-metric multidimensional scaling (NMDS) of RNA-seq samples based on expression levels of Acropora tenuis genes. Gene expression levels among all samples were normalized using the trimmed mean of M values method, and then converted to CPM. A total of 5340 genes for which expression levels (TMM-normalized CPM) were larger than 10 in all samples were used with the “metaMDS” of the vegan package⁷³. 2D stress was 0.134. Ellipses (dotted line) are drawn around each time point using “geom_mark_ellipse” of the ggplot package⁷⁴. Hpi indicates hours post-inoculation.