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Estimates of the actual relationship between half - sibs in a pig population

Colaborador(es): García Baccino, Carolina Andrea. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina CONICET – Universidad de Buenos Aires. Buenos Aires, Argentina | Munilla Leguizamón, Sebastián. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina | Legarra, Andres. INRA, GenPhySE (Génétique, Physiologie et Systémes d’Elevage), Castanet-Tolosan, France | Vitezica, Zulma Gladis. INRA, GenPhySE (Génétique, Physiologie et Systémes d’Elevage), Castanet-Tolosan, France Université de Toulouse.Génétique, Physiologie et Systémes d’Elevage (INP, ENSAT, GenPhySE). Castanet-Tolosan, France | Forneris, Natalia Soledad. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina. CONICET – Universidad de Buenos Aires. Buenos Aires, Argentina | Bates, R. O. Michigan State University. Department of Animal Science. East Lansing, MI, USA | Ernst, C. W. Michigan State University. Department of Animal Science. East Lansing, MI, USA | Raney, N. E. Michigan State University. Department of Animal Science. East Lansing, MI, USA | Steibel, Juan Pedro. Michigan State University. Department of Animal Science. East Lansing, MI, USA. Michigan State University. Department of Fisheries and Wildlife. East Lansing, MI, USA | Cantet, Rodolfo Juan Carlos. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina. Universidad de Buenos Aires. Facultad de Ciencias Veterinarias. Instituto de Investigaciones en Producción Animal (INPA). Buenos Aires, Argentina. CONICET - Universidad de Buenos Aires. Facultad de Ciencias Veterinarias. Instituto de Investigaciones en Producción Animal (INPA). Buenos Aires, Argentina.
ISSN: 0931-2668.Tipo de material: Artículos y capítulos. Recurso electrónico.Tema(s): ACTUAL RELATIONSHIPS | ESTIMATION METHODS | GENOMIC SELECTION | IDENTITY BY DESCENT | Recursos en línea: Haga clic para acceso en línea | LINK AL EDITOR En: Journal of animal breeding and genetics Vol.134, no.2 (2017), p.109-118, grafs., tbls.Resumen: Genomic relationships based on markers capture the actual instead of the expected (based on pedigree) proportion of genome shared identical by descent (IBD). Several methods exist to estimate genomic relationships. In this research, we compare four such methods that were tested looking at the empirical distribution of the estimated relationships across 6704 pairs of half - sibs from a cross - bred pig population. The first method based on multiple marker linkage analysis displayed a mean and standard deviation (SD) in close agreement with the expected ones and was robust to changes in the minor allele frequencies (MAF). A single marker method that accounts for linkage disequilibrium (LD) and inbreeding came second, showing more sensitivity to changes in the MAF. Another single marker method that considers neither inbreeding nor LD showed the smallest empirical SD and was the most sensible to changes in MAF. A higher mean and SD were displayed by VanRaden’s method, which was not sensitive to changes in MAF. Therefore, the method based on multiple marker linkage analysis and the single marker method that considers LD and inbreeding performed closer to theoretical values and were consistent with the estimates reported in literature for human half-sibs.
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Genomic relationships based on markers capture the actual instead of the expected (based on pedigree) proportion of genome shared identical by descent (IBD).
Several methods exist to estimate genomic relationships.
In this research, we compare four such methods that were tested looking at the empirical distribution of the estimated relationships across 6704 pairs of half - sibs from a cross - bred pig population. The first method based on multiple marker linkage analysis displayed a mean and standard deviation (SD) in close agreement with the expected ones and was robust to changes in the minor allele frequencies (MAF).
A single marker method that accounts for linkage disequilibrium (LD) and inbreeding came second, showing more sensitivity to changes in the MAF. Another single marker method that considers neither inbreeding nor LD showed the smallest empirical SD and was the most sensible to changes in MAF.
A higher mean and SD were displayed by VanRaden’s method, which was not sensitive to changes in MAF. Therefore, the method based on multiple marker linkage analysis and the single marker method that considers LD and inbreeding performed closer to theoretical values and were consistent with the estimates reported in literature for human half-sibs.

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