Fig. 4

Proteomics analysis reveal that thyroid hormone signaling is dampened in sec31anju221 livers. (A) Principal component analysis (PCA) shows that the mass spectrometric data clearly segregate based on the sample genotype. Three replicates are shown for each genotype. (B) Volcano plot of proteomic data. Fold change in the expression of each protein is shown and the P-value was calculated by performing a unpaired two-tailed Welch's t-test. The horizontal dashed line indicates P=0.05; vertical dashed lines indicate ratios of 0.5 and 2, respectively. Proteins with significant increase in expression levels are shown in magenta, proteins with significant decrease in expression levels are in blue, and proteins with no significant change in expression levels are in gray. Proteins that are decreased downstream targets of thyroid hormone signaling are indicated. (C) Bubble plot showing the enrichment for Gene Ontology terms of differentially expressed proteins in the liver of adult sec31anju221 fish. The size of each dot represents the number of different genes in the corresponding biological process and molecular function term. (D) GSEA plot of thyroid hormone (T3)-regulated genes in the liver of adult sec31anju221 fish versus wild-type sibling. FDR, false discovery rate; NES, normalized enrichment score. (E) Heat map of lipid and glycogen metabolism pathway genes dysregulated in the liver of adult sec31anju221 fish.