Fig. 3

Functionally grouped gene network analysis for Atlantic salmon exposed to Warm & Normoxic conditions. Network based on a 377 up-regulated and b 798 down-regulated differentially expressed genes (DEGs) in salmon exposed to Warm & Normoxic (WN: 20 °C, 100% air saturation) conditions as compared to the Control group (CT: 12 °C, 100% air sat.) (n = 6 per treatment, N = 12 total). GO-terms and pathways were obtained through a functional enrichment analysis using the ClueGO plugin in Cytoscape (v3.5.1) [45]. Each node represents a significantly enriched Gene Ontology (GO), KEGG or Reactome pathway (hypergeometric test p < 0.05 with Benjamini-Hochberg correction). The node colour regime visualizes functional groups and processes that share similar genes. The most significant enriched terms of each functional group are illustrated as a summary label. The node circle diameter corresponds to the significance of the enriched pathway (i.e., larger circles correspond to higher significance). The gating and numbering represent the classification of ten functional themes: Heat Shock Response (^#1), Cellular Stress (^#2), Oxidative Stress (^#3), Apoptosis (^#4), Immune Response (^#5), Protein Processing & Localization (^#6), Transcription (^#7), Proteolysis (^#8), Catabolic Processes (^#9) and Cellular Metabolic Processes (^#10). GO/pathway term annotations were obtained using the GO database for biological process, cellular component, molecular function and immune processes, and the KEGG and Reactome pathway databases. Abbreviations of GO/pathway terms were used for simplification, and the complete list of terms is represented in Additional files 3 and 5