ArticleBMC genomics2020
Evaluation of the efficiency of genomic versus pedigree predictions for growth and wood quality traits in Scots pine.
Article in BMC genomics, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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28 citing papers in PubMed, 45 citations in OpenAlex.
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- Integrating GWAS-guided markers preselection with genomic selection enhances prediction of pulpwood-related traits in slash pine (Pinus elliottii Englem.).BMC plant biology · 2026Article
- On the genetic origins of phenotypes in genome-wide association studies: the SAFE-hBMC bioinformatics · 2026Article
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- Breeding for climate adaptation: genetic variation and genomic selection for drought response in Scots pine.BMC genomics · 2026Article
- Multivariate models improve accuracy of genomic prediction for spring frost tolerance in Norway spruce.The plant genome · 2025Article
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- High-density genetic linkage mapping in Sitka spruce advances the integration of genomic resources in conifers.G3 (Bethesda, Md.) · 2024Article
- Genomic evaluation for breeding and genetic management in Cordia africana, a multipurpose tropical tree species.BMC genomics · 2024Article
- Genomic selection for genotype performance and environmental stability in Coffea canephora.G3 (Bethesda, Md.) · 2023Article
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- Preselection of QTL markers enhances accuracy of genomic selection in Norway spruce.BMC genomics · 2023Article
- High density linkage maps, genetic architecture, and genomic prediction of growth and wood properties in Pinus radiata.BMC genomics · 2022Article
- Genomic selection in tropical perennial crops and plantation trees: a review.Molecular breeding : new strategies in plant improvement · 2022Review
- Genomic selection reveals hidden relatedness and increased breeding efficiency in western redcedar polycross breeding.Evolutionary applications · 2022Article
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- Sparse testing using genomic prediction improves selection for breeding targets in elite spring wheat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- Improving lodgepole pine genomic evaluation using spatial correlation structure and SNP selection with single-step GBLUP.Heredity · 2022Article
- Metadata analysis indicates biased estimation of genetic parameters and gains using conventional pedigree information instead of genomic-based approaches in tree breeding.Scientific reports · 2022Article
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Authors and funding
8 authors at 4 institutions in 5 countries.
Funding
Abstract
backgroundGenomic selection (GS) or genomic prediction is a promising approach for tree breeding to obtain higher genetic gains by shortening time of progeny testing in breeding programs. As proof-of-concept for Scots pine (Pinus sylvestris L.), a genomic prediction study was conducted with 694 individuals representing 183 full-sib families that were genotyped with genotyping-by-sequencing (GBS) and phenotyped for growth and wood quality traits. 8719 SNPs were used to compare different genomic with pedigree prediction models. Additionally, four prediction efficiency methods were used to evaluate the impact of genomic breeding value estimations by assigning diverse ratios of training and validation sets, as well as several subsets of SNP markers.
resultsGenomic Best Linear Unbiased Prediction (GBLUP) and Bayesian Ridge Regression (BRR) combined with expectation maximization (EM) imputation algorithm showed slightly higher prediction efficiencies than Pedigree Best Linear Unbiased Prediction (PBLUP) and Bayesian LASSO, with some exceptions. A subset of approximately 6000 SNP markers, was enough to provide similar prediction efficiencies as the full set of 8719 markers. Additionally, prediction efficiencies of genomic models were enough to achieve a higher selection response, that varied between 50-143% higher than the traditional pedigree-based selection.
conclusionsAlthough prediction efficiencies were similar for genomic and pedigree models, the relative selection response was doubled for genomic models by assuming that earlier selections can be done at the seedling stage, reducing the progeny testing time, thus shortening the breeding cycle length roughly by 50%.
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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.