ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2013
Genomewide predictions from maize single-cross data.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 64 papers.
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Who cites it
64 citing papers in PubMed.
- Approximating prediction error variances and reliabilities in a multiple-trait genomic prediction model using Monte Carlo sampling.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Optimizing genomic selection models for wheat breeding under contrasting water regimes in a mediterranean environment.Plant methods · 2025Article
- Accounting for population structure in genomic prediction of strawberry sweetness at a global scale.Scientific reports · 2025Article
- Genomic selection of maize test-cross hybrids leveraged by marker sampling.The plant genome · 2025Article
- Genomic prediction in multi-environment trials in maize using statistical and machine learning methods.Scientific reports · 2024Article
- Use of genomic prediction to screen sorghum B-lines in hybrid testcrosses.The plant genome · 2023Article
- Modeling the influence of phenotypic plasticity on maize hybrid performance.Plant communications · 2023Article
- Haplotype blocks for genomic prediction: a comparative evaluation in multiple crop datasets.Frontiers in plant science · 2023Article
- Training set designs for prediction of yield and moisture of maize test cross hybrids with unreplicated trials.Frontiers in plant science · 2023Article
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- Prediction ability of genome-wide markers in Pinus taeda L. within and between population is affected by relatedness to the training population and trait genetic architecture.G3 (Bethesda, Md.) · 2022Article
- 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
- Heterotic quantitative trait loci analysis and genomic prediction of seedling biomass-related traits in maize triple testcross populations.Plant methods · 2021Article
- Genomic Prediction across Structured Hybrid Populations and Environments in Maize.Plants (Basel, Switzerland) · 2021Article
- Article
- Optimization of training sets for genomic prediction of early-stage single crosses in maize.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- How the pan-genome is changing crop genomics and improvement.Genome biology · 2021Review
- Combination of Linkage Mapping, GWAS, and GP to Dissect the Genetic Basis of Common Rust Resistance in Tropical Maize Germplasm.International journal of molecular sciences · 2020Article
- Performance prediction of crosses in plant breeding through genotype by environment interactions.Scientific reports · 2020Article
4 more citing papers are in PubMed but not listed here.
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4 authors.
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Abstract
Maize (Zea mays L.) breeders evaluate many single-cross hybrids each year in multiple environments. Our objective was to determine the usefulness of genomewide predictions, based on marker effects from maize single-cross data, for identifying the best untested single crosses and the best inbreds within a biparental cross. We considered 479 experimental maize single crosses between 59 Iowa Stiff Stalk Synthetic (BSSS) inbreds and 44 non-BSSS inbreds. The single crosses were evaluated in multilocation experiments from 2001 to 2009 and the BSSS and non-BSSS inbreds had genotypic data for 669 single nucleotide polymorphism (SNP) markers. Single-cross performance was predicted by a previous best linear unbiased prediction (BLUP) approach that utilized marker-based relatedness and information on relatives, and from genomewide marker effects calculated by ridge-regression BLUP (RR-BLUP). With BLUP, the mean prediction accuracy (r(MG)) of single-cross performance was 0.87 for grain yield, 0.90 for grain moisture, 0.69 for stalk lodging, and 0.84 for root lodging. The BLUP and RR-BLUP models did not lead to r(MG) values that differed significantly. We then used the RR-BLUP model, developed from single-cross data, to predict the performance of testcrosses within 14 biparental populations. The r(MG) values within each testcross population were generally low and were often negative. These results were obtained despite the above-average level of linkage disequilibrium, i.e., r(2) between adjacent markers of 0.35 in the BSSS inbreds and 0.26 in the non-BSSS inbreds. Overall, our results suggested that genomewide marker effects estimated from maize single crosses are not advantageous (cofmpared with BLUP) for predicting single-cross performance and have erratic usefulness for predicting testcross performance within a biparental cross.
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