ArticleApplications in plant sciences2021
Toward genomic selection in
Article in Applications in plant sciences, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Genomic selection validated across two generations of loblolly pine breeding.G3 (Bethesda, Md.) · 2026Article
- Dwarfism in Pinus taeda originates from independent somatic mutations co-localized in a shared genomic region.Heredity · 2026Article
- Development of a 101.6K liquid-phased probe for GWAS and genomic selection in pine wilt disease-resistance breeding in Masson pine.The plant genome · 2025Article
- Comparison of ddRADseq and EUChip60K SNP genotyping systems for population genetics and genomic selection inFrontiers in genetics · 2024Article
- Colonization of root endophytic fungusFrontiers in microbiology · 2024Article
- Taming the massive genome of Scots pine with PiSy50k, a new genotyping array for conifer research.The Plant journal : for cell and molecular biology · 2022Article
- 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
- Population structure analysis to explore genetic diversity and geographical distribution characteristics of cultivated-type tea plant in Guizhou Plateau.BMC plant biology · 2022Article
- Current status and trends in forest genomics.Forestry research · 2022Review
- Genomic Prediction of Complex Traits in Perennial Plants: A Case for Forest Trees.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Toward genomic selection inApplications in plant sciences · 2021Article
Corrections and comments
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Authors and funding
15 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
premiseAn informatics approach was used for the construction of an Axiom genotyping array from heterogeneous, high-throughput sequence data to assess the complex genome of loblolly pine (
methodsHigh-throughput sequence data, sourced from exome capture and whole genome reduced-representation approaches from 2698 trees across five sequence populations, were analyzed with the improved genome assembly and annotation for the loblolly pine. A variant detection, filtering, and probe design pipeline was developed to detect true variants across and within populations. From 8.27 million variants, a total of 642,275 were evaluated and 423,695 of those were screened across a range-wide population.
resultsThe final informatics and screening approach delivered an Axiom array representing 46,439 high-confidence variants to the forest tree breeding and genetics community. Based on the annotated reference genome, 34% were located in or directly upstream or downstream of genic regions. DISCUSSION: The Pita50K array represents a genome-wide resource developed from sequence data for an economically important conifer, loblolly pine. It uniquely integrates independent projects that assessed trees sampled across the native range. The challenges associated with the large and repetitive genome are addressed in the development of this resource.
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