Breed of origin of alleles and genomic predictions for crossbred dairy cows

Abstract Background In dairy cattle, genomic selection has been implemented successfully for purebred populations, but, to date, genomic estimated breeding values (GEBV) for crossbred cows are rarely available, although they are valuable for rotational crossbreeding schemes that are promoted as effi...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Jón H. Eiríksson, Emre Karaman, Guosheng Su, Ole F. Christensen
Formato:	article
Lenguaje:	DE EN FR
Publicado:	BMC 2021
Materias:	Animal culture SF1-1100 Genetics QH426-470
Acceso en línea:	https://doaj.org/article/518b3cee678c4fb48018e07d5c227d25
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:518b3cee678c4fb48018e07d5c227d25
record_format	dspace
spelling	oai:doaj.org-article:518b3cee678c4fb48018e07d5c227d252021-11-08T10:58:33ZBreed of origin of alleles and genomic predictions for crossbred dairy cows10.1186/s12711-021-00678-31297-9686https://doaj.org/article/518b3cee678c4fb48018e07d5c227d252021-11-01T00:00:00Zhttps://doi.org/10.1186/s12711-021-00678-3https://doaj.org/toc/1297-9686Abstract Background In dairy cattle, genomic selection has been implemented successfully for purebred populations, but, to date, genomic estimated breeding values (GEBV) for crossbred cows are rarely available, although they are valuable for rotational crossbreeding schemes that are promoted as efficient strategies. An attractive approach to provide GEBV for crossbreds is to use estimated marker effects from the genetic evaluation of purebreds. The effects of each marker allele in crossbreds can depend on the breed of origin of the allele (BOA), thus applying marker effects based on BOA could result in more accurate GEBV than applying only proportional contribution of the purebreds. Application of BOA models in rotational crossbreeding requires methods for detecting BOA, but the existing methods have not been developed for rotational crossbreeding. Therefore, the aims of this study were to develop and test methods for detecting BOA in a rotational crossbreeding system, and to investigate methods for calculating GEBV for crossbred cows using estimated marker effects from purebreds. Results For detecting BOA in crossbred cows from rotational crossbreeding for which pedigree is recorded, we developed the AllOr method based on the comparison of haplotypes in overlapping windows. To calculate the GEBV of crossbred cows, two models were compared: a BOA model where marker effects estimated from purebreds are combined based on the detected BOA; and a breed proportion model where marker effects are combined based on estimated breed proportions. The methods were tested on simulated data that mimic the first four generations of rotational crossbreeding between Holstein, Jersey and Red Dairy Cattle. The AllOr method detected BOA correctly for 99.6% of the marker alleles across the four crossbred generations. The reliability of GEBV was higher with the BOA model than with the breed proportion model for the four generations of crossbreeding, with the largest difference observed in the first generation. Conclusions In rotational crossbreeding for which pedigree is recorded, BOA can be accurately detected using the AllOr method. Combining marker effects estimated from purebreds to predict the breeding value of crossbreds based on BOA is a promising approach to provide GEBV for crossbred dairy cows.Jón H. EiríkssonEmre KaramanGuosheng SuOle F. ChristensenBMCarticleAnimal cultureSF1-1100GeneticsQH426-470DEENFRGenetics Selection Evolution, Vol 53, Iss 1, Pp 1-13 (2021)
institution	DOAJ
collection	DOAJ
language	DE EN FR
topic	Animal culture SF1-1100 Genetics QH426-470
spellingShingle	Animal culture SF1-1100 Genetics QH426-470 Jón H. Eiríksson Emre Karaman Guosheng Su Ole F. Christensen Breed of origin of alleles and genomic predictions for crossbred dairy cows
description	Abstract Background In dairy cattle, genomic selection has been implemented successfully for purebred populations, but, to date, genomic estimated breeding values (GEBV) for crossbred cows are rarely available, although they are valuable for rotational crossbreeding schemes that are promoted as efficient strategies. An attractive approach to provide GEBV for crossbreds is to use estimated marker effects from the genetic evaluation of purebreds. The effects of each marker allele in crossbreds can depend on the breed of origin of the allele (BOA), thus applying marker effects based on BOA could result in more accurate GEBV than applying only proportional contribution of the purebreds. Application of BOA models in rotational crossbreeding requires methods for detecting BOA, but the existing methods have not been developed for rotational crossbreeding. Therefore, the aims of this study were to develop and test methods for detecting BOA in a rotational crossbreeding system, and to investigate methods for calculating GEBV for crossbred cows using estimated marker effects from purebreds. Results For detecting BOA in crossbred cows from rotational crossbreeding for which pedigree is recorded, we developed the AllOr method based on the comparison of haplotypes in overlapping windows. To calculate the GEBV of crossbred cows, two models were compared: a BOA model where marker effects estimated from purebreds are combined based on the detected BOA; and a breed proportion model where marker effects are combined based on estimated breed proportions. The methods were tested on simulated data that mimic the first four generations of rotational crossbreeding between Holstein, Jersey and Red Dairy Cattle. The AllOr method detected BOA correctly for 99.6% of the marker alleles across the four crossbred generations. The reliability of GEBV was higher with the BOA model than with the breed proportion model for the four generations of crossbreeding, with the largest difference observed in the first generation. Conclusions In rotational crossbreeding for which pedigree is recorded, BOA can be accurately detected using the AllOr method. Combining marker effects estimated from purebreds to predict the breeding value of crossbreds based on BOA is a promising approach to provide GEBV for crossbred dairy cows.
format	article
author	Jón H. Eiríksson Emre Karaman Guosheng Su Ole F. Christensen
author_facet	Jón H. Eiríksson Emre Karaman Guosheng Su Ole F. Christensen
author_sort	Jón H. Eiríksson
title	Breed of origin of alleles and genomic predictions for crossbred dairy cows
title_short	Breed of origin of alleles and genomic predictions for crossbred dairy cows
title_full	Breed of origin of alleles and genomic predictions for crossbred dairy cows
title_fullStr	Breed of origin of alleles and genomic predictions for crossbred dairy cows
title_full_unstemmed	Breed of origin of alleles and genomic predictions for crossbred dairy cows
title_sort	breed of origin of alleles and genomic predictions for crossbred dairy cows
publisher	BMC
publishDate	2021
url	https://doaj.org/article/518b3cee678c4fb48018e07d5c227d25
work_keys_str_mv	AT jonheiriksson breedoforiginofallelesandgenomicpredictionsforcrossbreddairycows AT emrekaraman breedoforiginofallelesandgenomicpredictionsforcrossbreddairycows AT guoshengsu breedoforiginofallelesandgenomicpredictionsforcrossbreddairycows AT olefchristensen breedoforiginofallelesandgenomicpredictionsforcrossbreddairycows
_version_	1718442423025139712

Breed of origin of alleles and genomic predictions for crossbred dairy cows

Ejemplares similares