Table 2.
Candidate Pathways Enriched with Signal of Positive Selection.
| Species | Rank | Pathway | Pathway Size Before/After Pruning | P-Value Before Pruning | q-Value Before Pruning | P-Value After Pruning | q-Value After Pruning |
|---|---|---|---|---|---|---|---|
| Danio rerio | 1 | Laminin interactions | 12/12 | 2.00E-06 | 1.32E-03 | 2.00E-06 | 0.00E+00 |
| 2 | Phenylalanine metabolism | 10/10 | 7.70E-05 | 1.51E-02 | 7.80E-05 | 8.78E-03 | |
| 3 | Visual phototransduction | 33/33 | 9.10E-05 | 1.51E-02 | 8.30E-05 | 8.78E-03 | |
| 4 | Metabolism of carbohydrates | 119/118 | 2.02E-04 | 2.23E-02 | 2.37E-04 | 2.97E-02 | |
| 5 | Gamma carboxylation, hypusine formation, and arylsulfatase activation | 18/18 | 1.46E-03 | 8.05E-02 | 1.24E-03 | 1.16E-01 | |
| 6 | ECM organization | 75/61 | 2.00E-05 | 6.62E-03 | 1.50E-03 | 1.16E-01 | |
| 7 | Acyl chain remodeling of PE | 10/10 | 5.12E-03 | 1.79E-01 | 3.79E-03 | 1.66E-01 | |
| 8 | Base excision repair | 24/24 | 4.94E-03 | 1.79E-01 | 3.82E-03 | 1.66E-01 | |
| 9 | Aminoacyl-tRNA biosynthesis | 30/30 | 6.23E-03 | 1.97E-01 | 3.93E-03 | 1.66E-01 | |
| 10 | Phase II conjugation | 37/30 | 1.08E-03 | 6.92E-02 | 4.00E-03 | 1.66E-01 | |
| Drosophila melanogaster | 1 | Triglyceride biosynthesis | 59/59 | 7.60E-05 | 1.57E-02 | 7.60E-05 | 3.32E-02 |
| 2 | Glycosaminoglycan degradation | 16/16 | 6.99E-04 | 4.70E-02 | 6.37E-04 | 9.44E-02 | |
| 3 | Metabolism of porphyrins | 12/12 | 1.57E-03 | 7.31E-02 | 1.47E-03 | 9.62E-02 | |
| 4 | Detoxification of reactive oxygen species | 17/17 | 1.45E-03 | 7.31E-02 | 1.48E-03 | 9.62E-02 | |
| 5 | Longevity regulating pathway | 43/28 | 2.83E-02 | 3.12E-01 | 3.37E-03 | 1.54E-01 | |
| 6 | ECM-receptor interaction | 10/10 | 4.54E-03 | 1.66E-01 | 4.10E-03 | 1.54E-01 | |
| 7 | Lysine degradation | 25/15 | 1.84E-02 | 2.86E-01 | 5.15E-03 | 1.54E-01 | |
| 8 | Metabolic pathways | 813/767 | 3.04E-04 | 3.11E-02 | 5.23E-03 | 1.54E-01 | |
| 9 | Glutathione metabolism | 55/32 | 2.59E-02 | 3.12E-01 | 5.66E-03 | 1.54E-01 | |
| Mus musculus | 1 | Pantothenate and CoA biosynthesis | 16/16 | 9.10E-05 | 7.20E-02 | 9.10E-05 | 5.01E-02 |
| 2 | Mineralocorticoid biosynthesis | 10/10 | 1.52E-04 | 7.20E-02 | 1.40E-04 | 5.01E-02 | |
| 3 | Mitochondrial translation | 72/72 | 2.91E-04 | 7.86E-02 | 2.73E-04 | 5.25E-02 | |
| 4 | Cytokine–cytokine receptor interaction | 100/100 | 3.41E-04 | 7.86E-02 | 2.78E-04 | 5.25E-02 |
Note.—We reported all pathways with q-value <0.2 after removing overlapping genes (pruning) for D. rerio, D. melanogaster, and M. musculus.