Please use this identifier to cite or link to this item: https://hdl.handle.net/1959.11/28968
Title: How robust are genomic selection methods?
Contributor(s): Clark, S A  (author)orcid ; Hickey, J M (author); van der Werf, J H J  (author)orcid 
Publication Date: 2010
Handle Link: https://hdl.handle.net/1959.11/28968
Abstract: Genomic information from many single nucleotide polymorphism (SNP) markers can be used to increase the accuracy of estimated breeding values of young animals. This is termed genomic selection (GS) and is based on prediction of the effects of quantitative trait loci (QTL) in linkage disequilibrium (LD) with markers (Meuwissen et al. 2001). However, Habier et al. (2007) proposed that GS also relies on “relationships” between individuals to accurately predict genetic value. A better understanding of what GS actually predicts is needed to develop marker panels, training populations and methods for accurately estimating breeding values. The efficacy of methods used to predict genomic breeding value may depend on the underlying model of genetic variation, which is not well known. The aim of this study was to determine the accuracy and robustness of various methods used for genomic selection using a range of underlying genetic models and to compare the accuracy of GS when predicting one generation ahead (training set 1), several generations ahead (training set 2) or across different populations (training set 3).
Three models of variation were used to simulate the genetic value of animals: (i) a QTL model in which few QTLs have a relatively large effect, (ii) a QTL model in which many QTLs have moderate effects and (iii) an infinitesimal model in which very many QTLs each have a very small effect. Genotype information from 60,000 markers was used to estimate the genetic value of animals using the following methods: (a) Bayes B, based on estimation of marker effects, (b) gBLUP, based on genomic relationships between animals and (c) traditional BLUP, based on pedigree relationships.
Publication Type: Conference Publication
Conference Details: Sheep CRC 2010: Sheep CRC Research Conference: Transforming Wool, Meat & the Sheep that produce them, Adelaide, Australia, 20th - 21st October, 2010
Source of Publication: Sheep CRC 2010 Conference Proceedings
Publisher: Sheep CRC
Place of Publication: Armidale, Australia
Fields of Research (FoR) 2008: 070201 Animal Breeding
060412 Quantitative Genetics (incl. Disease and Trait Mapping Genetics)
060408 Genomics
Socio-Economic Objective (SEO) 2008: 830310 Sheep - Meat
HERDC Category Description: E2 Non-Refereed Scholarly Conference Publication
Publisher/associated links: http://www.livestocklibrary.com.au/bitstream/handle/1234/35481/SheepCRC_31_22.pdf?sequence=1
Appears in Collections:Conference Publication
School of Environmental and Rural Science

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