Table 3.
Haplotype statistics and analysis of suggested QTL regions.
| Haplotype analysis | |||||||
|---|---|---|---|---|---|---|---|
| SSC# | Trait | HF | SNP-set | Haplotypes$ | Percent$ | Significance | Fixed effect (μg/g) |
| Duroc | |||||||
| 3 | log Skatole | 68.9 | 10 | 5 | 93 | 0.05023 | 0.022 |
| 3 | log Androstenone | 33.7 | 12 | 10 | 97.4 | 0.03365 * | 0.844 |
| 5 | log S/I-index | 81.6 | 5 | 2 | 99.4 | 0.00304 ** | 0.015 |
| 6 | log Androstenone | 56.1 | 4 | 4 | 99.4 | 2.106e-4 *** | 0.775 |
| 10a | log Indole | 55.4 | 10 | 13 | 78 | 6.92e-4 *** | 0.012 |
| 10b | log Indole | 34.1 | 15 | 12 | 77.2 | 0.0225 * | 0.008 (0.003*)a |
| 12 | log Androstenone | 51.5 | 9 | 9 | 93.4 | 1.027e-4 *** | 1.292 |
| 14 | log Androstenone | 82.8 | 12 | 4 | 94.9 | 7.4e-3 ** | 1.183 |
| Landrace | |||||||
| 1 | log Androstenone | 19.8S | 6 | 8 | 99.2 | 3.35e-4 *** | 1.279 |
| 2a | log Androstenone | 23.4 | 7 | 14 | 85.7 | 6.48e-3 ** | 0.838 |
| 2b | log Androstenone | 54.9 | 6 | 6 | 94.2 | 0.02133 * | 1.172 |
| 5 | log S/I-index | 44.5 | 10 | 9 | 79.6 | 6.138e-3 ** | -0.031 |
| 6 | log Indole | 27.6 | 11 | 10 | 89.3 | 0.01616 * | -0.012 |
| 7 | log Androstenone | 38.6 | 15 | 13 | 58.7 | 8.094e-3 ** | 1.240 |
| 14 | log S/I-index | 52.4 | 24 | 9 | 92.2 | 3.86e-5 *** | -0.038 (-0.011***)a |
| 14 | log Indole | 30 | 24 | 7 | 93.3 | 8.815e-5 *** | -0.013 (-0.004***)a |
| 15 | log Indole | 48.1 | 18 | 7 | 96 | 5.451e-3 ** | -0.056 |
| Yorkshire | |||||||
| 6a | log S/I-index | 73.9 | 15 | 3 | 95.8 | 4.706e-5 *** | 0.015 (0.004***)b |
| 6b | log S/I-index | 30.6 | 10 | 7 | 94.4 | 0.01399 * | 0.009 |
| 7 | log S/I-index | 44.8 | 16 | 5 | 97.2 | 3.538e-3 ** | 0.013 |
| 8 | log S/I-index | 63 | 11 | 5 | 97.2 | 1.741e-3 ** | 0.013 (0.003**)a |
| 9 | log Skatole | 33.5 | 11 | 10 | 90.5 | 0.03686 * | -0.012 |
| 11b | log Androstenone | 57.1 | 5 | 6 | 98.4 | 0.0125 * | 0.838 (0.059**)a |
| 12 | log Androstenone | 61 | 16 | 10 | 94.3 | 0.03257 * | 0.827 |
| 14 | log Indole | 43.8 | 12 | 8 | 95.1 | 1.028e-3 ** | -0.007 |
***,**,* = p < 0.001, 0.01, 0.05, # = Sus scrofa chromosome
HF = Haplotype frequency of the most common haplotype,S = The second most common haplotype
$ = Amount of haplotypes with a frequency above 1.5%
a,b = Test including slaughter weight, slaughter weight and meat content as covariate