Year 2019, Volume 4, Issue 1
| Year : | 2019 |
| Volume : | 4 |
| Issue : | 1 |
| Authors : | Radovan KASARDA, Ondrej KADLEČÍK, Anna TRAKOVICKÁ, Nina MORAVČÍKOVÁ |
| Title : | GENOMIC AND PEDIGREE-BASED INBREEDING IN SLOVAK SPOTTED CATTLE |
| Abstract : | The objective of this study was to evaluate the level of inbreeding in population of Slovak Spotted cattle and to compare its genomic and pedigree-based estimates. The genomic data have been obtained from in total of 37 AI sires and 50 sire dams genotyped by using Illumina BovineSNP50v2 BeadChip and ICBF International Dairy and Beef v3, respectively. The genealogical information have been obtained from the database of Breeding Services of the Slovak Republic, s. e. The pedigree file consisted of 109,686 individuals (105,229 dams and 4,457 sires), while the reference population included only living animals, AI sires (129) and dams (36,949). The genomic inbreeding (FROH) was computed as the length of the genome present in runs of homozygosity (ROH) divided by the total length of the autosomal genome covered by SNPs on the chip and the pedigree-based inbreeding (FPED) was calculated based on assumption that inbreeding of an individual reflects the probability that both alleles in one locus are derived from the same ancestor or are identical by descent. The ROH segments greater than 4 Mb (FROH > 4Mb) covered in average 2.09 % of the genome, while the ROH segments greater than 16 Mb (FROH > 16Mb) achieved 0.43 % which indicated in analysed population recent inbreeding. Similarly, the increase of inbreeding across generation signalized the average ΔFPED computed from pedigree information (0.094%). However, the pedigree-based and genomic estimates of inbreeding differ from each other (in average FROH>4=0.02; FPED=0.004). In recent generation, the obtained values of FROH indicated considerably higher degree of inbreeding. |
| For citation : | Kasarda, R., Kadlečík, O., Trakovická, A., Moravčíková, N. (2019). Genomic and pedigree-based inbreeding in Slovak spotted cattle. AGROFOR International Journal, Volume 4. Issue No. 1. pp. 102-110. DOI: 10.7251/AGRENG1901102K |
| Keywords : | Cattle, Genotyping data, Inbreeding, Pedigree analysis, Runs of Homozygosity |
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ISSN 2490-3434 (Printed)
ISSN 2490-3442 (Online)
ISSN 2490-3442 (Online)
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