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Testing strategies for genomic selection in aquaculture breeding programs.
- Source :
- Genetics Selection Evolution; Jun2009, Vol. 41 Issue 5, p1-9, 9p
- Publication Year :
- 2009
-
Abstract
- Background: Genomic selection is a selection method where effects of dense genetic markers are first estimated in a test population and later used to predict breeding values of selection candidates. The aim of this paper was to investigate genetic gains, inbreeding and the accuracy of selection in a general genomic selection scheme for aquaculture, where the test population consists of sibs of the candidates. Methods: The selection scheme started after simulating 4000 generations in a Fisher-Wright population with a size of 1000 to create a founder population. The basic scheme had 3000 selection candidates, 3000 tested sibs of the candidates, 100 full-sib families, a trait heritability of 0.4 and a marker density of 0.5Ne/M. Variants of this scheme were also analysed. Results: The accuracy of selection in generation 5 was 0.823 for the basic scheme when the sibtesting was performed every generation. The accuracy was hardly reduced by selection, probably because the increased frequency of favourable alleles compensated for the Bulmer effect. When sib-testing was performed only in the first generation, in order to reduce costs, accuracy of selection in generation 5 dropped to 0.304, the main reduction occurring in the first generation. The genetic level in generation 5 was 6.35σa when sib-testing was performed every generation, which was 72%, 12% and 9% higher than when sib-testing was performed only in the first generation, only in the first three generations or every second generation, respectively. A marker density above 0.5Ne/M hardly increased accuracy of selection further. For the basic scheme, rates of inbreeding were reduced by 81% in these schemes compared to traditional selection schemes, due to within-family selection. Increasing the number of sibs to 6000 hardly affected the accuracy of selection, and increasing the number of candidates to 6000 increased genetic gain by 10%, mainly because of increased selection intensity. Conclusion: Various strategies were evaluated to reduce the amount of sib-testing and genotyping, but all resulted in loss of selection accuracy and thus of genetic gain. Rates of inbreeding were reduced by 81% in genomic selection schemes compared to traditional selection schemes for the parameters of the basic scheme, due to within-family selection. [ABSTRACT FROM AUTHOR]
- Subjects :
- GENOMICS
AQUACULTURE
GENETIC markers
GENOTYPE-environment interaction
HERITABILITY
Subjects
Details
- Language :
- English
- ISSN :
- 0999193X
- Volume :
- 41
- Issue :
- 5
- Database :
- Complementary Index
- Journal :
- Genetics Selection Evolution
- Publication Type :
- Academic Journal
- Accession number :
- 86450905
- Full Text :
- https://doi.org/10.1186/1297-9686-41-37