ArticleGenome biology2021
Leveraging breeding programs and genomic data in Norway spruce (Picea abies L. Karst) for GWAS analysis.
Article in Genome biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed, 47 citations in OpenAlex.
- Uncovering structural variation in conifer gigagenomes: evolutionary insights and technical challenges.Molecular biology and evolution · 2026Article
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- Integrating multi-model GWAS prior information enhances genomic prediction of cold tolerance traits in Populus simonii.BMC plant biology · 2026Article
- When South Meets North: A Joint Contact Zone Coinciding With Environmental Gradients in Three Boreal Tree Species.Molecular ecology · 2026Article
- Genetic diversity study and molecular marker development for economic traits in Korean pine based on RAD-Seq.Frontiers in plant science · 2026Article
- Multivariate models improve accuracy of genomic prediction for spring frost tolerance in Norway spruce.The plant genome · 2025Article
- Identification of genetic loci for growth and stem form traits in hybridForestry research · 2025Article
- Complementary approaches to dissect late leaf rust resistance in an interspecific raspberry population.G3 (Bethesda, Md.) · 2024Article
- Needle and Branch Trait Variation Analysis and Associated SNP Loci Mining inInternational journal of molecular sciences · 2024Article
- Genomic dissection of additive and non-additive genetic effects and genomic prediction in an open-pollinated family test of Japanese larch.BMC genomics · 2024Article
- Association Mapping and Expression Analysis of the Genes Involved in the Wood Formation of Poplar.International journal of molecular sciences · 2023Article
- Preselection of QTL markers enhances accuracy of genomic selection in Norway spruce.BMC genomics · 2023Article
- Divergent selection predating the Last Glacial Maximum mainly acted on macro-phenotypes in Norway spruce.Evolutionary applications · 2023Article
- Teasing apart the joint effect of demography and natural selection in the birth of a contact zone.The New phytologist · 2022Article
- High density linkage maps, genetic architecture, and genomic prediction of growth and wood properties in Pinus radiata.BMC genomics · 2022Article
- Host genotype interacts with aerial spore communities and influences the needle mycobiome of Norway spruce.Environmental microbiology · 2022Article
- Article
- Genome-wide TCP transcription factors analysis provides insight into their new functions in seasonal and diurnal growth rhythm in Pinus tabuliformis.BMC plant biology · 2022Article
- A transcriptome-based association study of growth, wood quality, and oleoresin traits in a slash pine breeding population.PLoS genetics · 2022Article
Corrections and comments
- Erratum issued
Authors and funding
13 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGenome-wide association studies (GWAS) identify loci underlying the variation of complex traits. One of the main limitations of GWAS is the availability of reliable phenotypic data, particularly for long-lived tree species. Although an extensive amount of phenotypic data already exists in breeding programs, accounting for its high heterogeneity is a great challenge. We combine spatial and factor-analytics analyses to standardize the heterogeneous data from 120 field experiments of 483,424 progenies of Norway spruce to implement the largest reported GWAS for trees using 134 605 SNPs from exome sequencing of 5056 parental trees.
resultsWe identify 55 novel quantitative trait loci (QTLs) that are associated with phenotypic variation. The largest number of QTLs is associated with the budburst stage, followed by diameter at breast height, wood quality, and frost damage. Two QTLs with the largest effect have a pleiotropic effect for budburst stage, frost damage, and diameter and are associated with MAP3K genes. Genotype data called from exome capture, recently developed SNP array and gene expression data indirectly support this discovery.
conclusionSeveral important QTLs associated with growth and frost damage have been verified in several southern and northern progeny plantations, indicating that these loci can be used in QTL-assisted genomic selection. Our study also demonstrates that existing heterogeneous phenotypic data from breeding programs, collected over several decades, is an important source for GWAS and that such integration into GWAS should be a major area of inquiry in the future.
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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.