Table 1.
Genes identified with the greatest fold change difference when comparing surface fish and cavefish reared under their natural photic conditions (SLD vs CDD).
| Gene | Gene Description | SLD RPKM |
CLD RPKM |
CDD RPKM |
LD Conditions Fold Change | Natural Conditions Fold Change |
|---|---|---|---|---|---|---|
| hbaa1 | Hemoglobin subunit alpha 1 | 63.3 | 98.3 | 1337.4 | 1.6 up | 21.1 up |
| adgre6 | Adhesion G protein-coupled receptor E6 (Fragment) | 0.2 | 1.7 | 2.3 | 9.9 up | 13.6 up |
| hbae1.3 | Hemoglobin, alpha embryonic 1.3 (Fragment) | 0.2 | 1.1 | 2.5 | 5.4 up | 11.8 up |
| ba1 | Hemoglobin subunit beta-1 | 399.3 | 530.4 | 3996.7 | 1.3 up | 10.0 up |
| faua | 40S ribosomal protein S30 | 12.4 | 17.2 | 116.5 | 1.4 up | 9.4 up |
| hbaa1 | Hemoglobin subunit alpha 1 | 337.6 | 527.1 | 2828.7 | 1.6 up | 8.4 up |
| ba1 | Hemoglobin subunit beta-1 | 32.3 | 43.1 | 151.1 | 1.3 up | 4.7 up |
| tnni2a.4 | Fast muscle troponin I | 26.9 | 70.7 | 117.6 | 2.6 up | 4.4 up |
| gja5b | Gap junction protein 5b | 0.6 | 0.7 | 1.8 | 1.3 up | 3.4 up |
| hbba2 | Hemoglobin, beta adult 2 | 585.5 | 1111.1 | 1527.1 | 1.9 up | 2.6 up |
| ckbb | Brain-subtype creatine kinase | 134.0 | 68.0 | 41.8 | 2.0 down | 3.2 down |
| hpx | Hemopexin | 530.1 | 329.8 | 151.2 | 1.6 down | 3.5 down |
| apoa1 | Apolipoprotein A-I | 3891.5 | 2905.4 | 1057.4 | 1.3 down | 3.7 down |
| slc25a48 | Solute carrier family 25 member 48 | 2.1 | 1.8 | 0.5 | 1.2 down | 4.0 down |
| serpina1 | Serpin peptidase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 1 | 730.8 | 282.2 | 168.6 | 2.6 down | 4.3 down |
| fgb | Fibrinogen beta chain | 172.6 | 105.3 | 38.9 | 1.6 down | 4.4 down |
| fgg | Fgg protein | 177.3 | 91.3 | 35.1 | 1.9 down | 5.1 down |
| abl2 | Tyrosine-protein kinase | 1.8 | 1.4 | 0.2 | 1.3 down | 7.6 down |
| cebpb | CCAAT enhancer-binding protein beta | 224.1 | 123.1 | 22.2 | 1.8 down | 10.1 down |
| cebpd | CCAAT enhancer-binding protein delta | 323.7 | 200.5 | 30.1 | 1.6 down | 10.7 down |