ArticleBMC genomics2019
Genomic selection for non-key traits in radiata pine when the documented pedigree is corrected using DNA marker information.
Article in BMC genomics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed, 42 citations in OpenAlex.
- Article
- Article
- Integrating environmental gradients into breeding: application of genomic reactions norms in a perennial species.Heredity · 2024Article
- Genomic selection for growth characteristics in Korean red pine (Frontiers in plant science · 2024Article
- Genomic selection for target traits in the Australian lentil breeding program.Frontiers in plant science · 2023Article
- High density linkage maps, genetic architecture, and genomic prediction of growth and wood properties in Pinus radiata.BMC genomics · 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
- Achievements and Challenges of Genomics-Assisted Breeding in Forest Trees: From Marker-Assisted Selection to Genome Editing.International journal of molecular sciences · 2021Review
- Review
- Single-step genomic prediction of Eucalyptus dunnii using different identity-by-descent and identity-by-state relationship matrices.Heredity · 2021Article
- Parentage Analysis in Giant Grouper (Genes · 2021Article
- Genomic Breeding for Diameter Growth and Tolerance toFrontiers in plant science · 2021Article
- Genomic selection for resistance to spruce budworm in white spruce and relationships with growth and wood quality traits.Evolutionary applications · 2020Article
- Evaluation of the efficiency of genomic versus pedigree predictions for growth and wood quality traits in Scots pine.BMC genomics · 2020Article
- Modern Strategies to Assess and Breed Forest Tree Adaptation to Changing Climate.Frontiers in plant science · 2020Review
- A high-density exome capture genotype-by-sequencing panel for forestry breeding in Pinus radiata.PloS one · 2019Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 2 countries.
Funding
Abstract
backgroundNon-key traits (NKTs) in radiata pine (Pinus radiata D. Don) refer to traits other than growth, wood density and stiffness, but still of interest to breeders. Branch-cluster frequency, stem straightness, external resin bleeding and internal checking are examples of such traits and are targeted for improvement in radiata pine research programmes. Genomic selection can be conducted before the performance of selection candidates is available so that generation intervals can be reduced. Radiata pine is a species with a long generation interval, which if reduced could significantly increase genetic gain per unit of time. The aim of this study was to evaluate the accuracy and predictive ability of genomic selection and its efficiency over traditional forward selection in radiata pine for the following NKTs: branch-cluster frequency, stem straightness, internal checking, and external resin bleeding.
resultsNine hundred and eighty-eight individuals were genotyped using exome capture genotyping by sequencing (GBS) and 67,168 single nucleotide polymorphisms (SNPs) used to develop genomic estimated breeding values (GEBVs) with genomic best linear unbiased prediction (GBLUP). The documented pedigree was corrected using a subset of 704 SNPs. The percentage of trio parentage confirmed was about 49% and about 50% of parents were re-assigned. The accuracy of GEBVs was 0.55-0.75 when using the documented pedigree and 0.61-0.80 when using the SNP-corrected pedigree. A higher percentage of additive genetic variance was explained and a higher predictive ability was observed when using the SNP-corrected pedigree than using the documented pedigree. With the documented pedigree, genomic selection was similar to traditional forward selection when assuming a generation interval of 17 years, but worse than traditional forward selection when assuming a generation interval of 14 years. After the pedigree was corrected, genomic selection led to 37-115% and 13-77% additional genetic gain over traditional forward selection when generation intervals of 17 years and 14 years were assumed, respectively.
conclusionIt was concluded that genomic selection with a pedigree corrected by SNP information was an efficient way of improving non-key traits in radiata pine breeding.
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