Optimal selection on two quantitative trait loci with linkage

Dekkers, Jack C. M.; Chakraborty, Reena; Moreau, Laurence

doi:10.1051/gse:2002002

Cited by 3 publications

(4 citation statements)

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“…The method is general in that it allows for multiple QTL, for arbitrary genetic effects at the identified QTL, including dominance, epistasis, and gametic imprinting, as well as linkage between the identified QTL. A numerical example of the application of the method is in a companion paper [4].…”

Section: Resultsmentioning

confidence: 99%

“…Dekkers and Chakraborty [3] recently applied the method to optimal selection with a single QTL for a wide range of additive and dominance effects at the QTL and QTL frequencies. In the example that is reported on in a companion paper [4], the method was applied to optimization of selection on two unlinked or linked QTL with two alleles over ten generations. Derivation of the optimal selection strategy for this case involved optimization of 300 decision variables, i.e.…”

Section: Resultsmentioning

confidence: 99%

“…Therefore, the objective of this study was to extend the method of Dekkers and van Arendonk [5] to selection programs with different selection strategies for males and females, maximizing a weighted combination of short and longer-term responses, and to multiple identified QTL, allowing for non-additive effects at the QTL, including dominance, epistasis and gametic imprinting. The method derived here was applied to optimizing selection on two linked QTL in a companion paper [4].…”

Section: Introductionmentioning

confidence: 99%

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A method to optimize selection on multiple identified quantitative trait loci

2002

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Abstract

A mathematical approach was developed to model and optimize selection on multiple known quantitative trait loci (QTL) and polygenic estimated breeding values in order to maximize a weighted sum of responses to selection over multiple generations. The model allows for linkage between QTL with multiple alleles and arbitrary genetic effects, including dominance, epistasis, and gametic imprinting. Gametic phase disequilibrium between the QTL and between the QTL and polygenes is modeled but polygenic variance is assumed constant. Breeding programs with discrete generations, differential selection of males and females and random mating of selected parents are modeled. Polygenic EBV obtained from best linear unbiased prediction models can be accommodated. The problem was formulated as a multiple-stage optimal control problem and an iterative approach was developed for its solution. The method can be used to develop and evaluate optimal strategies for selection on multiple QTL for a wide range of situations and genetic models.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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A method to optimize selection on multiple identified quantitative trait loci

2002

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Abstract

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“…The original method of Dekkers and Van Arendonk (1998) has been extended to include unequal selection in the two sexes, nonadditive QTL, multiple QTL, and discounted response (Dekkers and Chakraborty, 2001;Chakraborty et al, 2002;Dekkers et al, 2002) and has already proved to be efficient to avoid the long-term loss with fixed contributions (i.e., with linear index selection). However, an important assumption in their model was that polygenic genetic variance was constant across generations.…”

Section: Discussionmentioning

confidence: 99%

Maximizing genetic gain over multiple generations with quantitative trait locus selection and control of inbreeding1

Villanueva¹,

Dekkers²,

Woolliams³

et al. 2004

Journal of Animal Science

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Stochastic computer simulation was used to investigate the potential extra genetic gains obtained from gene-assisted selection (GAS) by combining 1) optimization of genetic contributions for maximizing gain, while restricting the rate of inbreeding with 2) optimization of the relative emphasis given to the QTL over generations. The genetic model assumed implied a mixed inheritance model in which a single quantitative trait locus (i.e., QTL) is segregating together with polygenes. When compared with standard GAS (i.e., fixed contributions and equal emphasis on the QTL and polygenic EBV), combined optimization of contributions of selection candidates and weights on the QTL across generations allowed substantial increases in gain at a fixed rate of inbreeding and avoided the conflict between short- and long-term responses in GAS schemes. Most of the increase of gain was produced by optimization of selection candidates' contributions. Optimization of the relative emphasis given to the QTL over generations had, however, a greater effect on avoiding the long-term loss usually observed in GAS schemes. Optimized contribution schemes led to lower gametic phase disequilibrium between the QTL and polygenes and to higher selection intensities both on the QTL and polygenes than with standard truncation selection with fixed contributions of selection candidates.

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