Figure 2 Differential gene expression analysis of damselfish
retinal transcriptomes. A) PCA of the larval, juvenile, and adult stages
of the eleven species investigated in this study (n = 93 samples). The
two grey boxes indicate the major clusters derived from a split between
the expression in larvae vs juveniles and adults. Three major species
clusters are also portrayed. These are, from the top to the bottom: a
cluster comprising the two species from the Chrominae sub-family
(Dascyllus aruanus and Chromis atripectoralis ); a second
cluster comprising most Pomacentrinae species (all Pomacentrus spp., Chrysiptera flavipinnis , Neoglyphidodon melas andDischistodus perspicillatus) ; a third cluster for the anemonefishAmphiprion akindynos . B) PCA of the three developmental stages ofP. amboinensis . Larval, juvenile, and adult samples cluster
separately. C) Heatmap depicting scaled (z-score) expression levels of
the top 1000 variable genes in the three stages of P.
amboinensis . Genes are grouped on the y-axis into four major clusters
based on their gene ontology (GO) enrichment analysis.