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Including Dominance Effects in the Genomic BLUP Method for Genomic Evaluation

We evaluated the performance of GBLUP including dominance genetic effect (GBLUP-D) by estimating variances and predicting genetic merits in a computer simulation and 2 actual traits (T4 and T5) in pigs. In simulation data, GBLUP-D explained more than 50% of dominance genetic variance. Moreover, GBLU...

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Autores principales: Nishio, Motohide, Satoh, Masahiro
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3885721/
https://www.ncbi.nlm.nih.gov/pubmed/24416447
http://dx.doi.org/10.1371/journal.pone.0085792
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author Nishio, Motohide
Satoh, Masahiro
author_facet Nishio, Motohide
Satoh, Masahiro
author_sort Nishio, Motohide
collection PubMed
description We evaluated the performance of GBLUP including dominance genetic effect (GBLUP-D) by estimating variances and predicting genetic merits in a computer simulation and 2 actual traits (T4 and T5) in pigs. In simulation data, GBLUP-D explained more than 50% of dominance genetic variance. Moreover, GBLUP-D yielded estimated total genetic effects over 1.2% more accurate than those yielded by GBLUP. In particular, when the dominance genetic variance was large, the accuracy could be substantially improved by increasing the number of markers. The dominance genetic variances in T4 and T5 accounted for 9.6% and 6.3% of the phenotypic variances, respectively. Estimates of such small dominance genetic variances contributed little to the improvement of the accuracies of estimated total genetic effects. In both simulation and pig data, there were nearly no differences in the estimates of additive genetic effects or their variance between GBLUP-D and GBLUP. Therefore, we conclude GBLUP-D is a feasible approach to improve genetic performance in crossbred populations with large dominance genetic variation and identify mating systems with good combining ability.
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spelling pubmed-38857212014-01-10 Including Dominance Effects in the Genomic BLUP Method for Genomic Evaluation Nishio, Motohide Satoh, Masahiro PLoS One Research Article We evaluated the performance of GBLUP including dominance genetic effect (GBLUP-D) by estimating variances and predicting genetic merits in a computer simulation and 2 actual traits (T4 and T5) in pigs. In simulation data, GBLUP-D explained more than 50% of dominance genetic variance. Moreover, GBLUP-D yielded estimated total genetic effects over 1.2% more accurate than those yielded by GBLUP. In particular, when the dominance genetic variance was large, the accuracy could be substantially improved by increasing the number of markers. The dominance genetic variances in T4 and T5 accounted for 9.6% and 6.3% of the phenotypic variances, respectively. Estimates of such small dominance genetic variances contributed little to the improvement of the accuracies of estimated total genetic effects. In both simulation and pig data, there were nearly no differences in the estimates of additive genetic effects or their variance between GBLUP-D and GBLUP. Therefore, we conclude GBLUP-D is a feasible approach to improve genetic performance in crossbred populations with large dominance genetic variation and identify mating systems with good combining ability. Public Library of Science 2014-01-08 /pmc/articles/PMC3885721/ /pubmed/24416447 http://dx.doi.org/10.1371/journal.pone.0085792 Text en © 2014 Nishio, Satoh http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.
spellingShingle Research Article
Nishio, Motohide
Satoh, Masahiro
Including Dominance Effects in the Genomic BLUP Method for Genomic Evaluation
title Including Dominance Effects in the Genomic BLUP Method for Genomic Evaluation
title_full Including Dominance Effects in the Genomic BLUP Method for Genomic Evaluation
title_fullStr Including Dominance Effects in the Genomic BLUP Method for Genomic Evaluation
title_full_unstemmed Including Dominance Effects in the Genomic BLUP Method for Genomic Evaluation
title_short Including Dominance Effects in the Genomic BLUP Method for Genomic Evaluation
title_sort including dominance effects in the genomic blup method for genomic evaluation
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3885721/
https://www.ncbi.nlm.nih.gov/pubmed/24416447
http://dx.doi.org/10.1371/journal.pone.0085792
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