000069655 001__ 69655
000069655 005__ 20190709135555.0
000069655 0247_ $$2doi$$a10.1186/s12711-018-0374-1
000069655 0248_ $$2sideral$$a104613
000069655 037__ $$aART-2018-104613
000069655 041__ $$aeng
000069655 100__ $$0(orcid)0000-0001-6256-5478$$aVarona, L.$$uUniversidad de Zaragoza
000069655 245__ $$aGenomic selection models for directional dominance: An example for litter size in pigs
000069655 260__ $$c2018
000069655 5060_ $$aAccess copy available to the general public$$fUnrestricted
000069655 5203_ $$aBackground: The quantitative genetics theory argues that inbreeding depression and heterosis are founded on the existence of directional dominance. However, most procedures for genomic selection that have included dominance effects assumed prior symmetrical distributions. To address this, two alternatives can be considered: (1) assume the mean of dominance effects different from zero, and (2) use skewed distributions for the regularization of dominance effects. The aim of this study was to compare these approaches using two pig datasets and to confirm the presence of directional dominance. Results: Four alternative models were implemented in two datasets of pig litter size that consisted of 13, 449 and 11, 581 records from 3631 and 2612 sows genotyped with the Illumina PorcineSNP60 BeadChip. The models evaluated included (1) a model that does not consider directional dominance (Model SN), (2) a model with a covariate b for the average individual homozygosity (Model SC), (3) a model with a parameter ¿ that reflects asymmetry in the context of skewed Gaussian distributions (Model AN), and (4) a model that includes both b and ¿ (Model Full). The results of the analysis showed that posterior probabilities of a negative b or a positive ¿ under Models SC and AN were higher than 0.99, which indicate positive directional dominance. This was confirmed with the predictions of inbreeding depression under Models Full, SC and AN, that were higher than in the SN Model. In spite of differences in posterior estimates of variance components between models, comparison of models based on LogCPO and DIC indicated that Model SC provided the best fit for the two datasets analyzed. Conclusions: Our results confirmed the presence of positive directional dominance for pig litter size and suggested that it should be taken into account when dominance effects are included in genomic evaluation procedures. The consequences of ignoring directional dominance may affect predictions of breeding values and can lead to biased prediction of inbreeding depression and performance of potential mates. A model that assumes Gaussian dominance effects that are centered on a non-zero mean is recommended, at least for datasets with similar features to those analyzed here.
000069655 536__ $$9info:eu-repo/grantAgreement/ES/MINECO/CGL2016-80155
000069655 540__ $$9info:eu-repo/semantics/openAccess$$aby$$uhttp://creativecommons.org/licenses/by/3.0/es/
000069655 590__ $$a3.094$$b2018
000069655 591__ $$aAGRICULTURE, DAIRY & ANIMAL SCIENCE$$b3 / 61 = 0.049$$c2018$$dQ1$$eT1
000069655 591__ $$aGENETICS & HEREDITY$$b69 / 174 = 0.397$$c2018$$dQ2$$eT2
000069655 655_4 $$ainfo:eu-repo/semantics/article$$vinfo:eu-repo/semantics/publishedVersion
000069655 700__ $$aLegarra, A.
000069655 700__ $$aHerring, W.
000069655 700__ $$aVitezica, Z.G.
000069655 7102_ $$11001$$2420$$aUniversidad de Zaragoza$$bDpto. Anatom.,Embri.Genét.Ani.$$cÁrea Genética
000069655 773__ $$g50, 1 (2018), [13 pp]$$pGenet. sel. evol.$$tGENETICS SELECTION EVOLUTION$$x0999-193X
000069655 8564_ $$s1582307$$uhttp://zaguan.unizar.es/record/69655/files/texto_completo.pdf$$yVersión publicada
000069655 8564_ $$s98601$$uhttp://zaguan.unizar.es/record/69655/files/texto_completo.jpg?subformat=icon$$xicon$$yVersión publicada
000069655 909CO $$ooai:zaguan.unizar.es:69655$$particulos$$pdriver
000069655 951__ $$a2019-07-09-12:14:17
000069655 980__ $$aARTICLE