TABLE 2.
Genes and QTLs found in the overlapping regions detected by integrated haplotype score (iHS) and cross-population extended haplotype homozygosity (XP-EHH) in the analysis Nguni and Bonsmara cattle (p < 0.0001).
| BTA | Start (Mb) | End (Mb) | No. genes | Gene | QTLs relating to | |||
|---|---|---|---|---|---|---|---|---|
| Meat quality | Diseases | Performance | Reproduction | |||||
| 12 | 32.2 | 34.1 | 19 | GSX1, POLR1D, LNX2, MTIF3, GTF3A, RASL11A, RPL21, USP12, GPR12, WASF3, CDK8, RNF6, SHISA2, 5S_rRNA, ATP8A2, U6, NUP58, MTMR6, AMER2 | Meat color L*(QTL:19,847), Lean meat yield (QTL:37,145) | Clinical mastitis (QTL:157,300), Bovine tuberculosis susceptibility (QTL:167,804) | Carcass weight (QTL:24,628), Feed conversion ratio (QTL:11,456), Average daily feed intake (QTL:21,005) | |
| 14 | 23.5 | 25.4 | 11 | SDR16C6, PENK, U6, BPNT2, FAM110B, UBXN2B, CYP7A1, U1, SDCBP, NSMAF, TOX | Intramuscular fat (QTL:122,426), Longissimus muscle area (QTL:215,146), Shear force (QTL:106,395), Subcutaneous rump fat thickness (QTL:15,255) | Stillbirth (QTL:15,030), Hoof and leg disorders (QTL:122,502) | Dry matter intake (QTL:213,147), Feed conversion ratio (QTL:213,190), Growth index (QTL:102,033), Marbling score (QTL:122,425), Residual feed intake (QTL:20,842), Residual gain (QTL:213,210) | Scrotal circumference (QTL:30,637), Sexual precocity (QTL:169,861), Stature (QTL:16,284) |