Table 2 Breed representation of the test set and composite reference (CR) panel after filtering
From: A multi-breed reference panel and additional rare variants maximize imputation accuracy in cattle
Breed | Number of testing individuals | HD and F250a, b | HDb, c | F250b, c | HD and F250a (%) | HD (%) | F250 (%) |
|---|---|---|---|---|---|---|---|
Holstein | 50 | 1932 | 3170 | 1944 | 80.13 | 32.92 | 6.90 |
Gelbvieh | 49 | 257 | 265 | 514 | 10.66 | 2.75 | 1.82 |
Angus | 50 | 132 | 2067 | 14,454 | 5.47 | 21.47 | 51.29 |
Simmental | 50 | 67 | 427 | 1759 | 2.78 | 4.43 | 6.24 |
Brahman | 5 | 7 | 25 | 632 | 0.29 | 0.26 | 2.24 |
Romagnola | 4 | 4 | 11 | 4 | 0.17 | 0.11 | 0.01 |
Nelore | 4 | 3 | 855 | 4 | 0.12 | 8.88 | 0.01 |
Jersey | 4 | 3 | 21 | 5 | 0.12 | 0.22 | 0.02 |
Gir | 5 | 3 | 10 | 6 | 0.12 | 0.10 | 0.02 |
N’Dama | 4 | 3 | 7 | 4 | 0.12 | 0.07 | 0.01 |
Brangus | 0 | 0 | 990 | 1603 | 0.00 | 10.28 | 5.69 |
Hereford | 44 | 0 | 569 | 1834 | 0.00 | 5.91 | 6.51 |
Mixed/crossbred | 0 | 0 | 419 | 2830 | 0.00 | 4.35 | 10.04 |
Red Angus | 0 | 0 | 253 | 1905 | 0.00 | 2.63 | 6.76 |
Limousin | 38 | 0 | 215 | 142 | 0.00 | 2.23 | 0.50 |
Shorthorn | 0 | 0 | 136 | 218 | 0.00 | 1.41 | 0.77 |
Charolais | 0 | 0 | 125 | 284 | 0.00 | 1.30 | 1.01 |
Santa Gertrudis | 0 | 0 | 23 | 11 | 0.00 | 0.24 | 0.04 |
Japanese Black | 0 | 0 | 19 | 0 | 0.00 | 0.20 | 0.00 |
Brown Swiss | 0 | 0 | 15 | 0 | 0.00 | 0.16 | 0.00 |
Norwegian Red | 0 | 0 | 5 | 0 | 0.00 | 0.05 | 0.00 |
Chianina | 0 | 0 | 2 | 1 | 0.00 | 0.02 | 0.00 |
Piedmontese | 0 | 0 | 0 | 9 | 0.00 | 0.00 | 0.03 |
Braunvieh | 0 | 0 | 0 | 7 | 0.00 | 0.00 | 0.02 |
Guernsey | 0 | 0 | 0 | 7 | 0.00 | 0.00 | 0.02 |
Beefmaster | 0 | 0 | 0 | 3 | 0.00 | 0.00 | 0.01 |
Sheko | 0 | 0 | 0 | 2 | 0.00 | 0.00 | 0.01 |
Maine Anjou | 0 | 0 | 0 | 1 | 0.00 | 0.00 | 0.00 |
Total | 307 | 2411 | 9629 | 28,183 | 100 | 100 | 100 |