Genotypes for the Spanish Autochthonous Beef Cattle Populations
A total of 171 triplets (sire/dam/offspring) were collected from seven Spanish beef cattle populations (Asturiana de los Valles, n=25; Avileña-Negra Ibérica; Bruna dels Pirineus, n=25; Morucha, n=25; Pirenaica, n=24; Retinta, n=24; Rubia Gallega, n=24). The parents were chosen by minimizing the genealogical coancestry among them with the aim of capturing the existing variability within the populations. Individuals were genotyped using the BovineHD 777K BeadChip (Illumina Inc., USA), The SNPs present in the data file belonged to the autosomal chromosomes and those that were in repeated positions were excluded. Additional requirements were Mendelian error rates below 0.05 and call rates over 95% for both, individuals and SNPs. The quality control was made using the PLINK 1.0.7 software. Phasing was performed with BEAGLE with the "trio" option.
| Main Authors: | , , , , , |
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| Format: | dataset biblioteca |
| Language: | English |
| Published: |
Zenodo
2016-07-24
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| Subjects: | Genotypes, Beef Cattle, Spanish, |
| Online Access: | http://hdl.handle.net/10261/374348 |
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| Summary: | A total of 171 triplets (sire/dam/offspring) were collected from seven Spanish beef cattle populations (Asturiana de los Valles, n=25; Avileña-Negra Ibérica; Bruna dels Pirineus, n=25; Morucha, n=25; Pirenaica, n=24; Retinta, n=24; Rubia Gallega, n=24). The parents were chosen by minimizing the genealogical coancestry among them with the aim of capturing the existing variability within the populations.
Individuals were genotyped using the BovineHD 777K BeadChip (Illumina Inc., USA), The SNPs present in the data file belonged to the autosomal chromosomes and those that were in repeated positions were excluded. Additional requirements were Mendelian error rates below 0.05 and call rates over 95% for both, individuals and SNPs. The quality control was made using the PLINK 1.0.7 software. Phasing was performed with BEAGLE with the "trio" option. |
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