TABLE 3.
Candidate regions harboring positive recent selection signatures in Beninese cattle populations.
| Population a | BTA | Region (Mb) | Number of sign. SNP | Adjust p-value | Genes b | ||
|---|---|---|---|---|---|---|---|
| Start | End | Min | Max | ||||
| LA_cur | 1 | 137.5 | 138 | 3 | 0.008 | 0.029 | |
| 18 | 47.5 | 48 | 3 | 0.001 | 0.027 | WDR87 , ZNF345, ZFP30 | |
| 21 | 15.5 | 16 | 6 | 0.005 | 0.049 | SV2B | |
| SO_cur | 6 | 4 | 4.5 | 6 | 0.000 | 0.013 | QRFPR |
| 7 | 45 | 45.5 | 5 | 0.018 | 0.049 | FSTL4 | |
| 9 | 4 | 4.5 | 3 | 0.001 | 0.028 | ||
| 23 | 7 | 7.5 | 3 | 0.000 | 0.007 | BOLA-DMA , BOLA-DMB , BRD2 , PSMB8 | |
| 23 | 11.5 | 12 | 3 | 0.011 | 0.028 | MDGA1, ZFAND3 | |
| BO_cur | 2 | 70 | 71 | 9 | 0.005 | 0.050 | EN1, MARCO |
| 3 | 86 | 86.5 | 3 | 0.010 | 0.026 | HOOK1 | |
| 3 | 100 | 100.5 | 5 | 0.006 | 0.035 | MAST2, RAD54L, POMGNT1 | |
| 3 | 101 | 101.5 | 4 | 0.005 | 0.027 | HECTD3, KIF2C | |
| 5 | 54.5 | 55.5 | 8 | 0.003 | 0.031 | LRIG3 | |
| 5 | 111 | 111.5 | 6 | 0.010 | 0.033 | GRAP2, ENTHD1, FAM83F | |
| 16 | 46.5 | 47 | 6 | 0.004 | 0.025 | DNAJC11 , RNF207, PLEKHG5, THAP3 | |
| 27 | 34 | 34.5 | 3 | 0.026 | 0.047 | PLEKHA2, ADAM32, | |
| Adm_cur | 3 | 100 | 100.5 | 6 | 0.001 | 0.007 | MAST2, RAD54L, POMGNT1 |
| 3 | 101 | 102 | 13 | 0.000 | 0.023 | HECTD3, RNF220, IPP | |
| 4 | 20 | 21 | 6 | 0.003 | 0.049 | TMEM106B, SCIN, ARL4A | |
| 5 | 54.5 | 55.5 | 8 | 0.000 | 0.025 | LRIG3 | |
| 5 | 57 | 57.5 | 6 | 0.000 | 0.040 | ANKRD52, SLC39A5, RNF41, DNAJC14 | |
| 13 | 45.5 | 46 | 3 | 0.001 | 0.047 | — | |
a
LA_cur = current pure Lagune; SO_cur = current Somba; BO_cur = current Borgou highly admixed; Adm_cur = current moderately admixed animal including Pabli with some Borgou.
b
Genes harboring the core SNP are displayed in bold. The complete list of the genes located in the candidate regions are presented in Supplementary Table S5.