Table 1.
Genes Identified as both FEGs (Branch Model) and PSGs (Branch-Site Model) Involved in the Hypoxia Response in Specific Triplophysa Fishes Lineages
| Gene ID (Gene Name) | Description | Branch along Which PSGs Was Detected | Branch along Which FEGs Was Detected |
|---|---|---|---|
| ENSDARG00000012389 (ADAR) | Adenosine deaminase, RNA-specific | Ancestral branch of Tda, Tsc, and Tsi | Whole clade of Tda, Tsc, and Tsi |
| ENSDARG00000027310 (LSP1) | Lymphocyte-specific protein 1 | Terminal branch of Tda and whole clade of Tda and Tsc | Whole clade of Tda, Tsc, and Tsi |
| ENSDARG00000027529 (HMOX1A) | Heme oxygenase (decycling) 1a | Ancestral branch of Tda and Tsc | Whole clade of Tda, Tsc, and Tsi |
| ENSDARG00000030498 (IL6ST) | Interleukin 6 signal transducer | Terminal branch of Tda and whole clade of Tda, Tsc, and Tsi | Terminal branch of Tsi, whole clade of Tda and Tsc, and whole clade of Tda, Tsc and Tsi |
| ENSDARG00000037514 (HDAC3) | Histone deacetylase 3 | Terminal branch of Tsi | Terminal branch of Tsi and whole clade of Tda, Tsc and Tsi |
| ENSDARG00000044365 (ANGPTL3) | Angiopoietin-like 3 | Terminal branch of Tda and whole clade of Tda and Tsc | Terminal branch of Tda, terminal branch of Tsi, whole clade of Tda and Tsc, and whole clade of Tda, Tsc and Tsi |
| ENSDARG00000058693 (CAST) | Calpastatin | Terminal branch of Tda, terminal branch of Tsc, terminal branch of Tsi, and ancestral branch of Tda and Tsc | Whole clade of Tda, Tsc and Tsi |
| ENSDARG00000060494 (EPRS) | Glutamyl-prolyl-tRNA synthetase | Terminal branch of Tda, terminal branch of Tsc, terminal branch of Tsi, and ancestral branch of Tda and Tsc | Terminal branch of Tda, ancestral branch of Tda and Tsc, whole clade of Tda and Tsc, and whole clade of Tda, Tsc and Tsi |
| ENSDARG00000089188 (SMOC1) | SPARC-related modular calcium binding 1 | Terminal branch of Tda | Whole clade of Tda and Tsc and whole clade of Tda, Tsc and Tsi |
| ENSDARG00000055792 (FOXO4) | Forkhead box O4 | Ancestral branch of Tda and Tsc, whole clade of Tda and Tsc, and whole clade of Tda, Tsc and Tsi | Ancestral branch of Tda and Tsc |
| ENSDARG00000057644 (ADAM8B) | A disintegrin and metalloproteinase domain 8b | Terminal branch of Tda, whole clade of Tda and Tsc, and whole clade of Tda, Tsc and Tsi | Terminal branch of Tda, whole clade of Tda and Tsc, and whole clade of Tda, Tsc and Tsi |
| ENSDARG00000070165 (TNFRSF1B) | Tumor necrosis factor receptor superfamily, member 1B | Terminal branch of Tda, terminal branch of Tsc, terminal branch of Tsi, whole clade of Tda and Tsc, and whole clade of Tda, Tsc and Tsi | Terminal branch of Tsi, whole clade of Tda and Tsc, and whole clade of Tda, Tsc and Tsi |
Note.—Gene identifier from Ensembl (gene ID from zebrafish) and gene description (Description) are provided. Whole clade represents both the ancestral branch and the terminal branch for specific lineages. Tda, Triplophysa dalaica; Tsc, Triplophysa scleroptera; Tsi, Triplophysa siluroides.