Comparison of joint versus purebred genomic evaluation in the French multi-breed dairy goat population - Archive ouverte HAL Accéder directement au contenu
Article Dans Une Revue Genetics Selection Evolution Année : 2014

Comparison of joint versus purebred genomic evaluation in the French multi-breed dairy goat population

Céline Carillier
Connectez-vous pour contacter l'auteur
Hélène Larroque
Christèle Robert-Granié

Résumé

Background All progeny-tested bucks from the two main French dairy goat breeds (Alpine and Saanen) were genotyped with the Illumina goat SNP50 BeadChip. The reference population consisted of 677 bucks and 148 selection candidates. With the two-step approach based on genomic best linear unbiased prediction (GBLUP), prediction accuracy of candidates did not outperform that of the parental average. We investigated a GBLUP method based on a single-step approach, with or without blending of the two breeds in the reference population.MethodsThree models were used: (1) a multi-breed model, in which Alpine and Saanen breeds were considered as a single breed; (2) a within-breed model, with separate genomic evaluation per breed; and (3) a multiple-trait model, in which a trait in the Alpine was assumed to be correlated to the same trait in the Saanen breed, using three levels of between-breed genetic correlations (ρ): ρ = 0, ρ = 0.99, or estimated ρ. Quality of genomic predictions was assessed on progeny-tested bucks, by cross-validation of the Pearson correlation coefficients for validation accuracy and the regression coefficients of daughter yield deviations (DYD) on genomic breeding values (GEBV). Model-based estimates of average accuracy were calculated on the 148 candidates.ResultsThe genetic correlations between Alpine and Saanen breeds were highest for udder type traits, ranging from 0.45 to 0.76. Pearson correlations with the single-step approach were higher than previously reported with a two-step approach. Correlations between GEBV and DYD were similar for the three models (within-breed, multi-breed and multiple traits). Regression coefficients of DYD on GEBV were greater with the within-breed model and multiple-trait model with ρ = 0.99 than with the other models. The single-step approach improved prediction accuracy of candidates from 22 to 37% for both breeds compared to the two-step method.ConclusionsUsing a single-step approach with GBLUP, prediction accuracy of candidates was greater than that based on parent average of official evaluations and accuracies obtained with a two-step approach. Except for regression coefficients of DYD on GEBV, there were no significant differences between the three models.
Fichier principal
Vignette du fichier
12711_2014_Article_67.pdf (471.72 Ko) Télécharger le fichier
12711_2014_67_MOESM1_ESM.gif (21.51 Ko) Télécharger le fichier
Origine : Publication financée par une institution
Origine : Publication financée par une institution
Loading...

Dates et versions

hal-01341244 , version 1 (04-07-2016)

Licence

Paternité

Identifiants

Citer

Céline Carillier, Hélène Larroque, Christèle Robert-Granié. Comparison of joint versus purebred genomic evaluation in the French multi-breed dairy goat population. Genetics Selection Evolution, 2014, 46 (1), pp.67. ⟨10.1186/s12711-014-0067-3⟩. ⟨hal-01341244⟩
16 Consultations
48 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More