Table 8. Characteristics of top ten single nucleotide polymorphisms with chromosome 14 excluded for Holstein and Jersey milk, fat, and protein yields based on size of additive effect from a model with additive and dominance (values) effects included.
Breed | Yield trait | SNP locationa | SNP effect (BV kg) | Dominance effect rank | ||
Chromosome | Position (base pairs) | Additive | Dominance | |||
Holstein | Milk | 6 | 88,891,318 | 10.02 | 1.28 | 1,039 |
6 | 88,592,295 | 9.28 | 2.03 | 29 | ||
18 | 2,685,718 | 8.30 | 1.55 | 310 | ||
6 | 88,069,548 | 7.94 | 1.12 | 1,957 | ||
25 | 11,760,835 | 7.92 | 1.08 | 2,270 | ||
5 | 105,870,613 | 7.87 | 0.01 | 42,548 | ||
6 | 88,822,266 | 7.82 | 0.09 | 36,935 | ||
6 | 88,656,290 | 7.68 | 0.55 | 12,298 | ||
16 | 24,810,362 | 7.46 | 0.30 | 22,940 | ||
5 | 112,775,479 | 7.46 | 1.63 | 235 | ||
Fat | 5 | 92,191,685 | 0.331 | 0.044 | 1,602 | |
5 | 88,776,643 | 0.329 | 0.004 | 35,959 | ||
5 | 92,283,403 | 0.300 | 0.023 | 10,304 | ||
18 | 2,685,718 | 0.295 | 0.073 | 53 | ||
5 | 104,899,417 | 0.291 | 0.070 | 84 | ||
9 | 27,356,886 | 0.286 | 0.018 | 14,877 | ||
5 | 94,645,698 | 0.284 | 0.064 | 189 | ||
5 | 92,618,397 | 0.282 | 0.021 | 12,098 | ||
X | 20,758,679 | 0.282 | 0.008 | 29,113 | ||
16 | 24,810,362 | 0.272 | 0.005 | 34,244 | ||
Protein | 6 | 88,891,318 | 0.208 | 0.026 | 3,213 | |
X | 20,758,679 | 0.191 | 0.006 | 28,602 | ||
18 | 2,685,718 | 0.189 | 0.040 | 423 | ||
25 | 11,760,835 | 0.184 | 0.030 | 1,913 | ||
26 | 12,064,775 | 0.162 | 0.003 | 34,343 | ||
6 | 87,222,751 | 0.160 | 0.009 | 20,708 | ||
5 | 111,581,087 | 0.157 | 0.035 | 1,034 | ||
7 | 95,577,863 | 0.156 | 0.006 | 28,129 | ||
12 | 1,515,856 | 0.156 | 0.002 | 36,571 | ||
6 | 88,656,290 | 0.154 | 0.018 | 8,392 | ||
Jersey | Milk | 2 | 121,707,643 | 6.65 | 0.39 | 2,145 |
19 | 42,425,855 | 6.21 | 0.61 | 210 | ||
7 | 109,395,242 | 6.20 | 0.47 | 932 | ||
2 | 122,707,290 | 5.64 | 0.71 | 71 | ||
2 | 121,387,324 | 5.56 | 0.48 | 823 | ||
5 | 90,752,558 | 5.43 | 0.36 | 2,805 | ||
5 | 97,828,652 | 5.42 | 0.32 | 4,008 | ||
2 | 121,476,153 | 5.36 | 0.45 | 1,166 | ||
2 | 121,432,374 | 5.36 | 0.45 | 1,167 | ||
2 | 121,649,725 | 5.26 | 0.46 | 1,014 | ||
Fat | 5 | 90,752,558 | 0.183 | 0.013 | 3,164 | |
5 | 117,133,270 | 0.162 | 0.024 | 168 | ||
7 | 34,324,708 | 0.161 | 0.001 | 37,864 | ||
7 | 103,779,001 | 0.161 | 0.006 | 13,556 | ||
26 | 4,248,936 | 0.160 | 0.003 | 24,624 | ||
23 | 19,308,267 | 0.158 | 0.000 | 38,693 | ||
5 | 117,102,295 | 0.154 | 0.015 | 2,286 | ||
12 | 86,426,256 | 0.152 | 0.000 | 39,802 | ||
7 | 109,395,242 | 0.151 | 0.012 | 3,919 | ||
5 | 84,702,280 | 0.149 | 0.002 | 28,164 | ||
Protein | 2 | 109,395,242 | 0.151 | 0.014 | 887 | |
25 | 3,950,794 | 0.135 | 0.006 | 9,175 | ||
18 | 25,779,530 | 0.131 | 0.010 | 3,419 | ||
5 | 56,397,946 | 0.129 | 0.009 | 4,848 | ||
2 | 90,752,558 | 0.128 | 0.010 | 3,386 | ||
18 | 121,707,643 | 0.128 | 0.010 | 3,067 | ||
2 | 55,983,042 | 0.127 | 0.008 | 5,301 | ||
5 | 121,387,324 | 0.127 | 0.016 | 453 | ||
5 | 97,828,652 | 0.126 | 0.007 | 7,731 | ||
2 | 105,664,687 | 0.125 | 0.006 | 9,426 |
UMD 3.1 assembly of the Bos taurus genome [25].