ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2019
Dissection of the genetic variation and candidate genes of lint percentage by a genome-wide association study in upland cotton.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed.
- Combined genome and transcriptome analysis of boll weight and lint percentage traits in Gossypium barbadense.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Integration of GWAS and WGCNA reveals novel candidate genes for cottonseed oil content in Gossypium hirsutum L.BMC plant biology · 2026Article
- Content characteristics and genetic architecture of macronutrient signatures in cottonseed.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Bayesian neural networks for genomic prediction: uncertainty quantification and SNP interpretation with SHAP and GWAS.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Development of a Liquid-Phased Probe Array for Upland Cotton and Its Application in Cultivar Identification.Genes · 2025Article
- The National Plant Germplasm System cotton collection-a review of germplasm resources, phenotypic characterization, and genomic variation.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Review
- QTL Verification and Candidate Gene Screening of Fiber Quality and Lint Percentage in the Secondary Segregating Population ofPlants (Basel, Switzerland) · 2023Article
- Genetic diversity and population structure analyses and genome-wide association studies of photoperiod sensitivity in cotton (Gossypium hirsutum L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023Article
- Quantitative trait loci and candidate genes for yield-related traits of upland cotton revealed by genome-wide association analysis under drought conditions.BMC genomics · 2023Article
- Genetic dissection of lint percentage in short-season cotton using combined QTL mapping and RNA-seq.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023Article
- Unraveling genomic regions and candidate genes for multiple disease resistance in upland cotton using meta-QTL analysis.Heliyon · 2023Article
- Genome-Wide Association Study of Lint Percentage inInternational journal of molecular sciences · 2023Article
- Lint percentage and boll weight QTLs in three excellent upland cotton (Gossypium hirsutum): ZR014121, CCRI60, and EZ60.BMC plant biology · 2023Article
- Genome-wide association study identifies GhSAL1 affects cold tolerance at the seedling emergence stage in upland cotton (Gossypium hirsutum L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023Article
- Genome-wide association study of fiber yield-related traits uncovers the novel genomic regions and candidate genes in Indian upland cotton (Frontiers in plant science · 2023Article
- Genome-wide characterization of trichome birefringence-like genes provides insights into fiber yield improvement.Frontiers in plant science · 2023Article
- Genome-wide association study reveals novel quantitative trait loci and candidate genes of lint percentage in upland cotton based on the CottonSNP80K array.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Review
- A Genome Wide Association Study Revealed Key Single Nucleotide Polymorphisms/Genes Associated With Seed Germination inFrontiers in plant science · 2022Article
- Inheritance, QTLs, and Candidate Genes of Lint Percentage in Upland Cotton.Frontiers in genetics · 2022Review
- Detection of Stable Elite Haplotypes and Potential Candidate Genes of Boll Weight Across Multiple Environments via GWAS in Upland Cotton.Frontiers in plant science · 2022Article
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Authors and funding
11 authors.
Funding
Abstract
key messageA genome-wide associated study identified six novel QTLs for lint percentage. Two candidate genes underlying this trait were also detected. Increasing lint percentage (LP) is a core goal of cotton breeding. To better understand the genetic basis of LP, a genome-wide association study (GWAS) was conducted using 276 upland cotton accessions planted in multiple environments and genotyped with a CottonSNP63K array. After filtering, 10,660 high-quality single-nucleotide polymorphisms (SNPs) were retained. Population structure, principal component and neighbor-joining phylogenetic tree analyses divided the accessions into two subpopulations. These results along with linkage disequilibrium decay indicated accessions were not highly structured and exhibited weak relatedness. GWAS uncovered 23 polymorphic SNPs and 15 QTLs significantly associated with LP, with six new QTLs identified. Two candidate genes, Gh_D05G0313 and Gh_D05G1124, both contained one significant SNP, highly expressed during ovule and fiber development stages, implying that the two genes may act as the most promising regulators of LP. Furthermore, the phenotypic value of LP was found to be positively correlated with the number of favorable SNP alleles. These favorable alleles for LP identified in the study may be useful for improving lint yield.
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