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- Title
New insights into genomic selection through population-based non-parametric prediction methods.
- Authors
Lima, Leísa Pires; Azevedo, Camila Ferreira; de Resende, Marcos Deon Vilela; e Silva, Fabyano Fonseca; Suela, Matheus Massariol; Nascimento, Moysés; Viana, José Marcelo Soriano
- Abstract
Genome-wide selection (GWS) is based on a large number of markers widely distributed throughout the genome. Genome-wide selection provides for the estimation of the effect of each molecular marker on the phenotype, thereby allowing for the capture of all genes affecting the quantitative traits of interest. The main statistical tools applied to GWS are based on random regression or dimensionality reduction methods. In this study a new non-parametric method, called Delta-p was proposed, which was then compared to the Genomic Best Linear Unbiased Predictor (G-BLUP) method. Furthermore, a new selection index combining the genetic values obtained by the G-BLUP and Delta-p, named Delta-p/G-BLUP methods, was proposed. The efficiency of the proposed methods was evaluated through both simulation and real studies. The simulated data consisted of eight scenarios comprising a combination of two levels of heritability, two genetic architectures and two dominance status (absence and complete dominance). Each scenario was simulated ten times. All methods were applied to a real dataset of Asian rice (Oryza sativa) aiming to increase the efficiency of a current breeding program. The methods were compared as regards accuracy of prediction (simulation data) or predictive ability (real dataset), bias and recovery of the true genomic heritability. The results indicated that the proposed Delta-p/G-BLUP index outperformed the other methods in both prediction accuracy and predictive ability.
- Subjects
RICE; REGRESSION analysis; TELEPHONE calls; HERITABILITY
- Publication
Scientia Agricola, 2019, Vol 76, Issue 4, p290
- ISSN
0103-9016
- Publication type
Article
- DOI
10.1590/1678-992X-2017-0351