ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2019
Genomic selection efficiency and a priori estimation of accuracy in a structured dent maize panel.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed, 56 citations in OpenAlex.
- Characterization of spelt wheat (Triticum spelta L.) genotypes using DArTseq technology.Journal of applied genetics · 2026Article
- Accelerating genetic gain through integrated genomic selection in crop plants.Journal of applied genetics · 2026Review
- Optimizing genomic predictions in maize using a diversity panel and a multiparental population.The plant genome · 2026Article
- Advances in genomic tools for plant breeding: harnessing DNA molecular markers, genomic selection, and genome editing.Biological research · 2024Review
- Combining genome-wide association study and linkage mapping in the genetic dissection of amylose content in maize (Zea mays L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Ability of Genomic Prediction to Bi-Parent-Derived Breeding Population Using Public Data for Soybean Oil and Protein Content.Plants (Basel, Switzerland) · 2024Article
- Training set optimization is a feasible alternative for perennial orphan crop domestication and germplasm management: anFrontiers in plant science · 2024Article
- Identifying QTLs involved in hybrid performance and heterotic group complementarity: new GWAS models applied to factorial and admixed diallel maize hybrid panels.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023Article
- Integrated Genomic Selection for Accelerating Breeding Programs of Climate-Smart Cereals.Genes · 2023Review
- Improving the use of plant genetic resources to sustain breeding programs' efficiency.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- The Use of DArTseq Technology to Identify Markers Related to the Heterosis Effects in Selected Traits in Maize.Current issues in molecular biology · 2023Article
- Genome-wide marker effect heterogeneity is associated with a large effect dormancy locus in winter malting barley.The plant genome · 2022Article
- Performance of Bayesian and BLUP alphabets for genomic prediction: analysis, comparison and results.Heredity · 2022Article
- Article
- Combining genetic resources and elite material populations to improve the accuracy of genomic prediction in apple.G3 (Bethesda, Md.) · 2022Article
- Assessment of genomic prediction reliability and optimization of experimental designs in multi-environment trials.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- Genomic Selection: A Tool for Accelerating the Efficiency of Molecular Breeding for Development of Climate-Resilient Crops.Frontiers in genetics · 2022Review
- Building a Calibration Set for Genomic Prediction, Characteristics to Be Considered, and Optimization Approaches.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Genomic Prediction of Complex Traits in an Allogamous Annual Crop: The Case of Maize Single-Cross Hybrids.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Genetic variation and marker-trait association affect the genomic selection prediction accuracy of soybean protein and oil content.Frontiers in plant science · 2022Article
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 1 country.
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Abstract
key messagePopulation structure affects genomic selection efficiency as well as the ability to forecast accuracy using standard GBLUP. Genomic prediction models usually assume that the individuals used for calibration belong to the same population as those to be predicted. Most of the a priori indicators of precision, such as the coefficient of determination (CD), were derived from those same models. But genetic structure is a common feature in plant species, and it may impact genomic selection efficiency and the ability to forecast prediction accuracy. We investigated the impact of genetic structure in a dent maize panel ("Amaizing Dent") using different scenarios including within- or across-group predictions. For a given training set size, the best accuracies were achieved when predicting individuals using a model calibrated on the same genetic group. Nevertheless, a diverse training set representing all the groups had a certain predictive efficiency for all the validation sets, and adding extra-group individuals was almost always beneficial. It underlines the potential of such a generic training set for dent maize genomic selection applications. Alternative prediction models, taking genetic structure explicitly into account, did not improve the prediction accuracy compared to GBLUP. We also investigated the ability of different indicators of precision to forecast accuracy in the within- or across-group scenarios. There was a global encouraging trend of the CD to differentiate scenarios, although there were specific combinations of target populations and traits where the efficiency of this indicator proved to be null. One hypothesis to explain such erratic performances is the impact of genetic structure through group-specific allele diversity at QTLs rather than group-specific allele effects.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.