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Exploiting favourable alleles in Apple genetic resources using genomic selection

Abstract : Although more than 10.000 apple cultivars have been documented worldwide, modern commercial apple production is dominated by only a fewcultivars. Broadening the genetic diversity used in breeding programs thus appears as a necessity in order to reduce the vulnerability resulting fromgenetic uniformity. In this context, the identication of genetic resources that contain favourable alleles absent or rare in elite material is of primaryimportance for breeders. Harnessing this genetic diversity will probably require several generations of crosses starting from genetic resources, so thatparents carrying the identied favourable alleles are ready to be used in breeding programs. In order to effciently transfer these alleles, we propose touse genomic selection, a breeding approach that aims to estimate the breeding value of selection candidates using only genetic markers information. To do so, apple genetic resources (i.e. old varieties), elite material and hybrids between them have been genotyped and phenotyped so that predictionequations can be developed in order to evaluate the potential of genetic resources. As a preliminary step, these equations were built using data fromeither elite material or genetic resources and prediction accuracies were assessed and compared. To further improve the choice of the individuals usedto build the model, various optimisation algorithms were also used before estimating these accuracies. Given the differences in allele frequencies andlinkage disequilibrium patterns between the two datasets, the predictive ability of these models is expected to differ. One way to account for the differences is to combine these datasets and to use models that allow the estimation of population-specic effects. We will discuss the assets of suchan approach and how it could be effective to evaluate selection candidates. The obtained results should help us identify breeding strategies intendedto effciently transfer interesting alleles from genetic resources into elite material.
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Contributor : Olivier Dupre Connect in order to contact the contributor
Submitted on : Tuesday, December 22, 2020 - 10:08:36 AM
Last modification on : Wednesday, November 3, 2021 - 4:37:47 AM

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  • HAL Id : hal-03085916, version 1

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Xabi Cazenave, Charles-Eric Durel, Hélène Muranty. Exploiting favourable alleles in Apple genetic resources using genomic selection. 10th ROSACEAE GENOMICS CONFERENCE RGC10 (virtual), Centre for Research in Agriculture Genomics (CRAG), Dec 2020, Barcelona, Spain. pp.Abstract C0178. ⟨hal-03085916⟩

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