Marker assisted selection with optimised contributions of the candidates to selection

B. Villanueva, R. Pong-Wong, John Woolliams

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The benefits of marker assisted selection (MAS) are evaluated under realistic assumptions in schemes where the genetic contributions of the candidates to selection are optimised for maximising the rate of genetic progress while restricting the accumulation of inbreeding. MAS schemes were compared with schemes where selection is directly on the QTL (GAS or gene assisted selection) and with schemes where genotype information is not considered (PHE or phenotypic selection). A methodology for including prior information on the QTL effect in the genetic evaluation is presented and the benefits from MAS were investigated when prior information was used. The optimisation of the genetic contributions has a great impact on genetic response but the use of markers leads to onlymoderate extra short-term gains. Optimised PHE did as well as standard truncation GAS (i.e. with fixed contributions) in the short-term and better in the long-term. The maximum accumulated benefits from MAS over PHE was, at the most, half of the maximum benefit achieved from GAS, even with very low recombination rates between the markers and the QTL. However, the use of prior information about the QTL effects can substantially increase genetic gain, and, when the accuracy of the priors is high enough, the responses from MAS are practically as high as those obtained with direct selection on the QTL.
Original languageUndefined/Unknown
Pages (from-to)679-703
Number of pages25
JournalGenetics Selection Evolution
Issue number6
Publication statusPublished - 2002


  • marker assisted selection gene assisted selection optimised selection BLUP selection restricted inbreeding numerator relationship matrix linear unbiased prediction multiple genetic-markers identified major gene breeding schemes mass selection animal-model information population traits

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