Table 2. List of the top SNP identified for each trait.
| Angularity (ANG) | ||||||
|---|---|---|---|---|---|---|
| SNP name | BTA | Position (bp) | N | effB | Pc1df | MAF |
| Hapmap43908-BTA-67758 ab | 3 | 44959256 | 1993 | -0,04 | 2.43 e-05 | 0,16 |
| ARS-BFGL-NGS-4670 ab | 26 | 9550462 | 1992 | -0,07 | 1.74 e-07 | 0,07 |
| Calving Interval (CI) | ||||||
| SNP name | BTA | Position (bp) | N | effB | Pc1df | MAF |
| ARS-BFGL-NGS-102467 ab | 2 | 136188090 | 1992 | 0,28 | 3.98 e-05 | 0,25 |
| BTA-72978-no-rs ab | 5 | 25699752 | 1993 | -0,54 | 2.46 e-05 | 0,05 |
| ARS-BFGL-NGS-8769 ab | 8 | 91642318 | 1994 | -0,52 | 3.10 e-05 | 0,06 |
| Hapmap59517-rs29027550 ab | 24 | 20886644 | 1993 | -0,28 | 2.77 e-05 | 0,25 |
| BTB-00974967 ab | 28 | 8033988 | 1985 | -0,34 | 7.16 e-06 | 0,18 |
| Non return rate (NR56) | ||||||
| SNP name | BTA | Position (bp) | N | effB | Pc1df | MAF |
| ARS-BFGL-NGS-73498 ab | 4 | 115946071 | 1993 | -0,0007 | 1.81 e-05 | 0,17 |
| ARS-BFGL-NGS-7979 ab | 5 | 116553827 | 1994 | 0,0006 | 6.91 e-06 | 0,44 |
| ARS-BFGL-NGS-107895 ab | 12 | 20720170 | 1994 | 0,0012 | 1.36 e-05 | 0,06 |
| UA-IFASA-8273 ab | 14 | 44765662 | 1994 | -0,0013 | 8.38 e-06 | 0,05 |
| BTA-120049-no-rs ab | 14 | 82745092 | 1979 | 0,0006 | 1.95 e-05 | 0,28 |
| ARS-BFGL-NGS-118371 ab | 14 | 84145486 | 1993 | 0,001 | 2.04 e-06 | 0,09 |
| ARS-BFGL-NGS-39839 ab | 19 | 63261405 | 1993 | 0,0006 | 3.73 e-05 | 0,29 |
| Days to first Service (DFS) | ||||||
| SNP name | BTA | Position (bp) | N | effB | Pc1df | MAF |
| ARS-BFGL-NGS-110018 ab | 5 | 60642347 | 1991 | 0,24 | 1.06 e-05 | 0,19 |
| Hapmap60306-rs29023088 ab | 5 | 60665676 | 1994 | 0,25 | 2.00 e-05 | 0,15 |
| ARS-BFGL-NGS-25179 ab | 7 | 7822111 | 1992 | -0,27 | 2.06 e-05 | 0,12 |
| BTB-00351490 ab | 8 | 61752353 | 1980 | -0,37 | 4.56 e-05 | 0,06 |
| BTA-32199-no-rs ab | 13 | 30530185 | 1994 | -0,21 | 1.16 e-05 | 0,27 |
| BTA-40382-no-rs ab | 16 | 22101902 | 1994 | 0,21 | 1.18 e-05 | 0,27 |
| Hapmap54118-rs29014623 ab | 18 | 42435476 | 1994 | 0,18 | 4.33 e-05 | 0,33 |
| ARS-BFGL-NGS-113068 ab | 18 | 43165294 | 1990 | 0,18 | 3.52 e-05 | 0,35 |
| ARS-BFGL-BAC-35026 ab | 18 | 48150900 | 1991 | 0,26 | 5.80 e-06 | 0,16 |
| BTB-00951196 ab | 27 | 10512202 | 1950 | 0,25 | 6.01 e-06 | 0,19 |
| Aggregate Fertility Index (FRT) | ||||||
| SNP name | BTA | Position (bp) | N | effB | Pc1df | MAF |
| ARS-BFGL-NGS-102467 ab | 2 | 136188090 | 1992 | -0,11 | 6.60 e-06 | 0,25 |
| ARS-BFGL-NGS-74168 ab | 17 | 73488482 | 1994 | 0,14 | 3.09 e-05 | 0,09 |
| ARS-BFGL-NGS-72483 ab | 19 | 63501603 | 1994 | 0,21 | 1.37 e-06 | 0,06 |
| BTB-00974967 ab | 28 | 34722075 | 1985 | 0,12 | 4.02 e-06 | 0,18 |
| UA-IFASA-7767 b | 28 | 51200785 | 1993 | 0,08 | 4.64 e-05 | 0,47 |
| Milk Yield (MILK) | ||||||
| SNP name | BTA | Position (bp) | N | effB | Pc1df | MAF |
| BTA-47612-no-rs ab | 2 | 51162276 | 1994 | -20,5 | 4.33 e-05 | 0,05 |
| BTB-00098202 ab | 2 | 51200785 | 1994 | -20,5 | 4.33 e-05 | 0,05 |
| Hapmap30383-BTC-005848 a | 14 | 1489496 | 1993 | -15,68 | 3.11 e-11 | 0,33 |
| ARS-BFGL-NGS-57820 a | 14 | 1651311 | 1993 | -23,28 | 9.15 e-17 | 0,2 |
| ARS-BFGL-NGS-4939 a | 14 | 1801116 | 1994 | -25 | 8.60 e-19 | 0,19 |
| Hapmap52798-ss46526455 a | 14 | 1923292 | 1990 | -11,94 | 7.06 e-08 | 0,48 |
| ARS-BFGL-NGS-107379 a | 14 | 2054457 | 1990 | -20,66 | 1.21 e-15 | 0,25 |
| Hapmap25384-BTC-001997 a | 14 | 2217163 | 1993 | -10,94 | 1.43 e-06 | 0,43 |
| Hapmap24715-BTC-001973 a | 14 | 2239085 | 1994 | -11,05 | 1.01 e-06 | 0,43 |
| UA-IFASA-6878 a | 14 | 2002873 | 1993 | -10,24 | 5.47 e-06 | 0,43 |
| Hapmap25486-BTC-072553 a | 14 | 1292993 | 1985 | 10,76 | 7.91 e-06 | 0,35 |
| UA-IFASA-8401 ab | 19 | 7461446 | 1993 | 10,11 | 8.87 e-06 | 0,45 |
| ARS-BFGL-NGS-37177 b | 19 | 13154786 | 1989 | 13,14 | 3.34 e-05 | 0,18 |
| ARS-BFGL-NGS-4670 b | 26 | 9550462 | 1992 | -20,38 | 9.23 e-06 | 0,07 |
| Fat yield (FAT) | ||||||
| SNP name | BTA | Position (bp) | N | effB | Pc1df | MAF |
| Hapmap23365-BTA-156277 b | 5 | 91118692 | 1967 | -0,52 | 2.33 e-05 | 0,24 |
| Hapmap53294-rs29016908 b | 5 | 94645698 | 1994 | 0,56 | 5.89 e-06 | 0,23 |
| ARS-BFGL-NGS-116897 b | 5 | 95743746 | 1993 | -0,47 | 1.19 e-05 | 0,39 |
| ARS-BFGL-NGS-12289 ab | 5 | 97223172 | 1994 | -0,78 | 4.78 e-05 | 0,11 |
| ARS-BFGL-NGS-17216 b | 5 | 107984945 | 1994 | 0,6 | 3.67 e-05 | 0,16 |
| Hapmap30381-BTC-005750 a | 14 | 1463676 | 1994 | -0,52 | 3.88 e-05 | 0,36 |
| Hapmap30383-BTC-005848 a | 14 | 1489496 | 1993 | 0,93 | 1.75 e-13 | 0,33 |
| ARS-BFGL-NGS-57820 a | 14 | 1651311 | 1993 | 2,16 | 0 | 0,2 |
| ARS-BFGL-NGS-34135 a | 14 | 1675278 | 1993 | 1,07 | 1.31 e-17 | 0,4 |
| ARS-BFGL-NGS-94706 a | 14 | 1696470 | 1992 | 1,02 | 1.99 e-16 | 0,41 |
| ARS-BFGL-NGS-4939 a | 14 | 1801116 | 1994 | 2,24 | 0 | 0,19 |
| Hapmap52798-ss46526455 a | 14 | 1923292 | 1990 | 1,1 | 3.00 e-20 | 0,48 |
| ARS-BFGL-NGS-107379 a | 14 | 2054457 | 1990 | 1,67 | 0 | 0,25 |
| ARS-BFGL-NGS-18365 a | 14 | 2117455 | 1990 | -1,02 | 3.11 e-15 | 0,34 |
| Hapmap30922-BTC-002021 a | 14 | 2138926 | 1994 | -0,89 | 1.52 e-11 | 0,31 |
| UA-IFASA-8997 a | 14 | 2194228 | 1994 | -0,6 | 1.91 e-05 | 0,24 |
| Hapmap25384-BTC-001997 a | 14 | 2217163 | 1993 | 0,71 | 5.13 e-09 | 0,43 |
| Hapmap24715-BTC-001973 a | 14 | 2239085 | 1994 | 0,68 | 1.56 e-08 | 0,43 |
| BTA-35941-no-rs a | 14 | 2276443 | 1994 | 0,94 | 7.69 e-14 | 0,37 |
| ARS-BFGL-NGS-26520 a | 14 | 2386688 | 1994 | -0,61 | 1.26 e-06 | 0,39 |
| UA-IFASA-6878 a | 14 | 2002873 | 1993 | 1,23 | 0 | 0,43 |
| ARS-BFGL-NGS-22866 a | 14 | 2826632 | 1994 | 0,51 | 2.44 e-05 | 0,48 |
| ARS-BFGL-NGS-103064 a | 14 | 2754909 | 1994 | 0,49 | 4.45 e-05 | 0,47 |
| Hapmap30646-BTC-002054 a | 14 | 2553525 | 1994 | -0,59 | 1.05 e-06 | 0,45 |
| Hapmap30086-BTC-002066 a | 14 | 2524432 | 1992 | 0,78 | 1.80 e-10 | 0,48 |
| Hapmap30374-BTC-002159 a | 14 | 2468020 | 1993 | 0,89 | 1.56 e-12 | 0,38 |
| ARS-BFGL-NGS-74378 a | 14 | 3640788 | 1994 | 0,76 | 5.09 e-08 | 0,24 |
| ARS-BFGL-BAC-1511 a | 14 | 3765019 | 1994 | -0,96 | 5.84 e-08 | 0,13 |
| UA-IFASA-9288 a | 14 | 3956956 | 1994 | 0,79 | 2.55 e-08 | 0,23 |
| ARS-BFGL-NGS-56327 a | 14 | 4336714 | 1994 | 0,62 | 2.79 e-06 | 0,29 |
| ARS-BFGL-NGS-100480 a | 14 | 4364952 | 1994 | 0,77 | 2.67 e-09 | 0,34 |
| UA-IFASA-5306 a | 14 | 4468478 | 1994 | 0,74 | 1.72 e-07 | 0,23 |
| ARS-BFGL-NGS-39328 b | 19 | 51326750 | 1993 | 0,45 | 3.84 e-05 | 0,35 |
| Protein Yield (PROT) | ||||||
| SNP name | BTA | Position (bp) | N | effB | Pc1df | MAF |
| Hapmap27148-BTA-124406 ab | 1 | 89941301 | 1994 | 0,43 | 1.51 e-05 | 0,08 |
| BTA-27242-no-rs ab | 5 | 19931600 | 1994 | -0,51 | 4.03 e-06 | 0,05 |
| ARS-BFGL-NGS-57820 a | 14 | 1651311 | 1993 | 0,31 | 3.95 e-06 | 0,2 |
| ARS-BFGL-NGS-4939 a | 14 | 1801116 | 1994 | 0,27 | 4.00 e-05 | 0,19 |
| UA-IFASA-6878 a | 14 | 2002873 | 1993 | 0,23 | 9.71 e-06 | 0,44 |
| ARS-BFGL-NGS-44370 a | 15 | 84778401 | 1993 | -0,41 | 4.30 e-05 | 0,08 |
| ARS-BFGL-NGS-110401 ab | 21 | 62769411 | 1975 | 0,23 | 3.11 e-05 | 0,34 |
SNP name= snp name as in the bovine 50K SNP Chip dataBTA= Bos Taurus Autosome Position= position (bp) on UMD 3.1N= number of animals tested for the specific markerPc1df= p-values adjusted for Genomic ControleffB = Effect of the minor allele (B allele).MAF=minor allele frequency
Note: SNPs with a superscript “a” are detected by single marker analysis only, SNPs with a superscript “b” are detected by including the SNP close to the DAGT1 gene as fixed effect in the model only, SNPs with a superscript “ab” are detected by both models. Markers are ordered according to BTA and position within traits.