ArticleNature genetics2017
Asymmetric subgenome selection and cis-regulatory divergence during cotton domestication.
Article in Nature genetics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 246 papers.
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Who cites it
246 citing papers in PubMed.
- Haplotype-resolved 3D genome maps reveal RNAPII-mediated allelic regulation in hybrid rice.aBIOTECH · 2026Article
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- Regulatory divergence of homoeologs underlies network optimization for fiber improvement in domesticated cotton.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Article
- Multi-parent mapping reveals epistatic architecture and elite haplotypes for multi-trait improvement in cotton.Genome biology · 2026Article
- 3D Chromatin Architecture Provides Insights Into Leaf Trait Variation Among Pear Species.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Genomic reconstruction of upland cotton domestication uncovers staged selection, gene flow, and flowering-time adaptation.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Harnessing polyploidy for climate-resilient crops: Lessons from the evolutionary model, allotetraploid cotton.Proceedings of the National Academy of Sciences of the United States of America · 2026Review
- Telomere-to-telomere genome assemblies and population resequencing of diploid and allotetraploid peanut varieties.Nature genetics · 2026Article
- Integrative Genome-Wide Association and Transcriptome Analyses Identify Candidate Genes for Salt Tolerance During Cotton Germination.Plants (Basel, Switzerland) · 2026Article
- Cytoskeletal control of development and environmental adaptation in plants.Science China. Life sciences · 2026Review
- Transcriptional Regulation of SWEET15_A01 by MYB44/bHLH3 Modulates Carbon Allocation in Cotton Ovule and Fibre to Affect Seed and Fibre Traits.Plant biotechnology journal · 2026Article
- CSSL-based GWAS identifies SNPs and candidate genes associated with Verticillium wilt resistance in cotton.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Remodeling of homoeolog expression bias buffers stress response in allotetraploid cotton.BMC plant biology · 2026Article
- Structural Variation and 3D Genome-Driven DNA/RNA Methylation Divergence Contributing to Cotton Fiber Domestication.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Genetic Diversity Analysis of Cotton Cultivars Using a 40K Liquid Chip in Northern Xinjiang.International journal of molecular sciences · 2026Article
- Graph pan-genome illuminates evolutionary trajectories and agronomic trait architecture in allotetraploid cotton.Nature genetics · 2026Article
- Evolutionary origin and asymmetric subgenomic retention of the lncRNAFrontiers in plant science · 2026Article
- Cotton genetic mapping for plant biotechnology: from markers to graph pan-genomes and sustainable breeding.Frontiers in plant science · 2026Review
- The Role of Alternative Splicing in Polyploids in Response to Abiotic Stress.International journal of molecular sciences · 2025Review
186 more citing papers are in PubMed but not listed here.
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Authors and funding
24 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Comparative population genomics offers an excellent opportunity for unraveling the genetic history of crop domestication. Upland cotton (Gossypium hirsutum) has long been an important economic crop, but a genome-wide and evolutionary understanding of the effects of human selection is lacking. Here, we describe a variation map for 352 wild and domesticated cotton accessions. We scanned 93 domestication sweeps occupying 74 Mb of the A subgenome and 104 Mb of the D subgenome, and identified 19 candidate loci for fiber-quality-related traits through a genome-wide association study. We provide evidence showing asymmetric subgenome domestication for directional selection of long fibers. Global analyses of DNase I-hypersensitive sites and 3D genome architecture, linking functional variants to gene transcription, demonstrate the effects of domestication on cis-regulatory divergence. This study provides new insights into the evolution of gene organization, regulation and adaptation in a major crop, and should serve as a rich resource for genome-based cotton improvement.
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