Figure 5.

Hierarchical clustering of mRNA expression profiles in liver tissue of all individual fish, including 3D-PCA plot. a) hierarchical clustering using Euclidian distance measurement on all mRNAs with significantly different expression (P ≤ 0.05 and fold change ≥ 2, 165 mRNAs total, includes replicates) common between D relative to W groups. The X-axis is clustered by group (condition) and the Y-axis by normalised mRNA expression values. Clustering was done using all individual samples for age-matched wilds (Wa), size-matched wilds (Ws), domesticated (D) and wild-domesticated hybrid (W/D). The expression bar indicates the normalised expression level for each mRNA (intensity), which are represented by various colour intensities. b) 3D-PCA plot showing variation based on biological variables. Three-dimensional principal component plot with each axis explaining a certain percentage of variation among all samples (n = 24). X-axis: 12.91% Y-axis: 9.47% and Z-axis: 6.47%. Samples are coloured according to genotype assignment with age-matched wild (grey), size-matched wild (red), domesticated (blue) and wild-domesticated hybrid (reddish brown).