Table 4 Functional annotation of the most significantly expanded and contracted gene families in O. melastigma
From: Long-read sequencing and de novo genome assembly of marine medaka (Oryzias melastigma)
Gene families | KEGG terms | Input no. | Background no. | P-value |
|---|---|---|---|---|
Expanded gene families | Calcium signaling pathway | 33 | 470 | 3.48E-18 |
ABC transporters | 18 | 66 | 5.78E-16 | |
| Â | Cell adhesion molecules (CAMs) | 24 | 345 | 5.10E-13 |
| Â | Circadian entrainment | 26 | 251 | 1.18E-12 |
| Â | Long-term potentiation | 18 | 162 | 2.49E-09 |
| Â | Systemic lupus erythematosus | 14 | 118 | 1.10E-07 |
| Â | Cocaine addiction | 12 | 100 | 9.23E-07 |
| Â | Nicotine addiction | 12 | 100 | 9.23E-07 |
| Â | Amyotrophic lateral sclerosis (ALS) | 12 | 106 | 1.60E-06 |
|  | Alzheimer’s disease | 19 | 293 | 3.09E-06 |
| Â | Dilated cardiomyopathy | 16 | 229 | 9.50E-06 |
| Â | Measles | 15 | 216 | 2.08E-05 |
| Â | Amphetamine addiction | 12 | 150 | 4.78E-05 |
| Â | Asthma | 7 | 45 | 5.37E-05 |
| Â | Staphylococcus aureus infection | 10 | 107 | 6.44E-05 |
| Â | Axon guidance | 18 | 427 | 0.000275 |
| Â | Intestinal immune network for IgA production | 7 | 69 | 0.000764 |
| Â | Hypertrophic cardiomyopathy (HCM) | 12 | 205 | 0.000774 |
| Â | Viral myocarditis | 10 | 152 | 0.001042 |
| Â | Allograft rejection | 7 | 80 | 0.001658 |
| Â | Alcoholism | 12 | 227 | 0.001718 |
| Â | Autoimmune thyroid disease | 7 | 92 | 0.003543 |
| Â | Glutamatergic synapse | 12 | 266 | 0.006097 |
Contracted gene families | Tight junction | 12 | 306 | 4.30E-10 |
Systemic lupus erythematosus | 5 | 118 | 0.000282 | |
| Â | Ascorbate and aldarate metabolism | 3 | 30 | 0.000866 |
| Â | Axon guidance | 7 | 427 | 0.000959 |
| Â | Drug metabolism - cytochrome P450 | 3 | 37 | 0.000959 |
| Â | Porphyrin and chlorophyll metabolism | 3 | 39 | 0.000959 |
| Â | Drug metabolism - other enzymes | 3 | 42 | 0.000964 |
| Â | Metabolism of xenobiotics by cytochrome P450 | 3 | 43 | 0.000964 |
| Â | Steroid hormone biosynthesis | 3 | 50 | 0.001068 |
| Â | Alcoholism | 5 | 227 | 0.001068 |
| Â | Pentose and glucuronate interconversions | 3 | 51 | 0.001068 |
| Â | Chemical carcinogenesis | 3 | 51 | 0.001068 |
| Â | Retinol metabolism | 3 | 68 | 0.002299 |
| Â | Starch and sucrose metabolism | 3 | 75 | 0.002839 |