Table 1 Male fertility phenotypes: brief description and summary of genome-wide association results
From: X chromosome variants are associated with male fertility traits in two bovine populations
Phenotypes | Brief description | Brahman | Tropical Composites | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
N | Mean | SD | P < 10−8 | h2 (SE) | N | Mean | SD | P < 10−8 | h2 (SE) | ||
Group 1 | |||||||||||
 PNS | % normal sperm | 1023 | 0.70 | 0.22 | 166 | 0.35 (0.07) | 1648 | 0.72 | 0.19 | 4 | 0.29 (0.05) |
 PD | % sperm with proximal droplets | 1023 | 0.07 | 0.15 | 0 | 0.35 (0.07) | 1648 | 0.04 | 0.07 | 1593 | 0.21 (0.04) |
 DD | % sperm with distal droplets | 1023 | 0.03 | 0.05 | 1 | 0.10 (0.05) | 1648 | 0.03 | 0.05 | 0 | 0.13 (0.04) |
 TD | % sperm with droplets (total) | 1023 | 0.10 | 0.16 | 0 | 0.33 (0.07) | 1648 | 0.07 | 0.09 | 591 | 0.18 (0.04) |
 HA | % sperm with head abnormalities | 1023 | 0.09 | 0.11 | 821 | 0.27 (0.06) | 1648 | 0.10 | 0.14 | 0 | 0.30 (0.05) |
 MA | % sperm with midpiece abnormalities | 1023 | 0.10 | 0.11 | 487 | 0.07 (0.05) | 1648 | 0.10 | 0.10 | 0 | 0.21 (0.05) |
 TA | % sperm with abnormal tail | 1023 | 0.00 | 0.01 | 0 | 0.00 (0.03) | 1648 | 0.00 | 0.01 | 0 | 0.00 (0.02) |
 COL | Colour, visual score 1–5 | 1099 | 3.18 | 0.95 | 0 | 0.09 (0.05) | 1719 | 3.38 | 0.94 | 0 | 0.05 (0.03) |
 MOT | % progressive sperm motility | 1099 | 69.29 | 23.61 | 0 | 0.00 (0.04) | 1719 | 72.09 | 22.15 | 0 | 0.13 (0.04) |
 MAS | Mass activity, visual score 1–5 | 1099 | 2.59 | 1.09 | 0 | 0.09 (0.05) | 1719 | 2.81 | 0.98 | 0 | 0.12 (0.04) |
 CON | Sperm concentration, ×106/ml | 592 | 266.11 | 287.41 | 0 | 0.03 (0.06) | 538 | 237.18 | 238.23 | 0 | 0.04 (0.07) |
 DEN | Density, visual score 1–5 | 1,098 | 3.07 | 0.90 | 0 | 0.13 (0.06) | 1716 | 3.21 | 0.84 | 0 | 0.08 (0.03) |
Group 2 | |||||||||||
 Inhibin | Blood levels of inhibin at 4 months, (ng/ml) | 806 | 7.41 | 1.89 | 38 | 0.63 (0.08) | 1329 | 7.76 | 1.88 | 1 | 0.56 (0.06) |
 SC12 | SC at 12 months, cm | 1098 | 21.40 | 2.41 | 3 | 0.57 (0.06) | 1717 | 25.86 | 3.15 | 0 | 0.65 (0.04) |
 SC18 | SC at 18 months, cm | 1098 | 26.70 | 2.71 | 0 | 0.61 (0.06) | 1719 | 29.82 | 2.82 | 2 | 0.67 (0.04) |
 SC24 | SC at 24 months, cm | 1098 | 29.89 | 2.86 | 1 | 0.63 (0.06) | 1719 | 31.42 | 2.80 | 49 | 0.70 (0.04) |
Group 3 | |||||||||||
 PIC3 | Sperm with intact chromatin in FL3, % | 585 | 89.85 | 8.71 | 0 | 0.12 (0.08) | 511 | 89.27 | 6.89 | 0 | 0.16 (0.09) |
 DFI3 | DNA fragmentation index in FL3, % | 585 | 3.77 | 4.23 | 5 | 0.10 (0.07) | 511 | 4.47 | 4.73 | 0 | 0.21 (0.10) |
 HDS3 | High DNA stainability in FL3, % | 585 | 6.38 | 6.76 | 0 | 0.05 (0.07) | 511 | 6.27 | 3.96 | 0 | 0.20 (0.11) |
 PIC4 | Sperm with intact chromatin in FL4, % | 585 | 86.95 | 10.26 | 0 | 0.17 (0.08) | 511 | 85.32 | 11.28 | 0 | 0.17 (0.09) |
 DFI4 | DNA fragmentation index in FL4, % | 585 | 6.41 | 7.13 | 8 | 0.15 (0.09) | 511 | 8.38 | 10.38 | 0 | 0.15 (0.09) |
 HDS4 | High DNA stainability in FL4, % | 585 | 6.64 | 7.23 | 0 | 0.04 (0.07) | 511 | 6.29 | 3.94 | 0 | 0.20 (0.11) |
Group 4 | |||||||||||
 LCB | Low CMA3 binding (intact protamination), % | 592 | 84.50 | 14.78 | 0 | 0.22 (0.09) | 538 | 87.97 | 11.27 | 0 | 0.13 (0.08) |
 MCB | Medium CMA3 binding (medium protamination), % | 592 | 14.86 | 14.42 | 11 | 0.17 (0.08) | 538 | 12 | 11.25 | 0 | 0.13 (0.09) |
 HCB | High CMA3 binding (protamine deficiency), % | 592 | 5.99 | 10.68 | 0 | 0.01 (0.06) | 538 | 5.44 | 6.06 | 0 | 0.07 (0.08) |