ArticleNature genetics2025
A telomere-to-telomere genome assembly of cotton provides insights into centromere evolution and short-season adaptation.
Article in Nature genetics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- A structural variation-driven evolutionary history of upland cotton.Science China. Life sciences · 2026Article
- Article
- 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 assembly of Oryza australiensis reveals transposon-driven centromere repositioning and shared EE-DD ancestry.Nature communications · 2026Article
- Identification of Key Genes for the Simultaneous Improvement of Fiber Strength and Lint Percentage inInternational journal of molecular sciences · 2026Article
- CottonGen 2025: a knowledgebase for cotton genomics, genetics, and breeding research.Genetics · 2026Article
- Complete telomere-to-telomere genomes of cowpea reveal insights into centromere evolution in Phaseoleae.Horticulture research · 2026Article
- A pangenome reference and population studies link structural variants with breeding traits in Gossypium hirsutum.Nature genetics · 2026Article
- A Near-Telomere-to-Telomere Genome Assembly of the Spotted Seal (International journal of molecular sciences · 2026Article
- CUT&tag analysis reveals a crucial role of H3K4 trimethylation occupancy in cold-related genes by cold stress on 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
- GhTPS11, underlying an early-maturity QTL cluster on Chr. D08, positively regulates flowering through the age pathway in cotton.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Review
- Comparative Population Genomics of Relictual Caribbean Island Gossypium hirsutum.Molecular ecology · 2026Article
- Graph pan-genome illuminates evolutionary trajectories and agronomic trait architecture in allotetraploid cotton.Nature genetics · 2026Article
- Near complete assembly of Drosophila melanogaster Canton S strain genome.Nature communications · 2025Article
- Understanding the role of GhRCC1.61 in flowering time in upland cotton through integrated analyses of gene family, RNA-seq, VIGS and allelic variation.Plant cell reports · 2025Article
- Differential LTR-retrotransposon dynamics across polyploidization, speciation, domestication, and improvement of cotton (Gossypium).Genome biology · 2025Article
- Distinct evolutionary trajectories of subgenomic centromeres in polyploid wheat.Genome biology · 2025Article
- Genome analyses and breeding of polyploid crops.Nature plants · 2025Review
- Genome-wide association study reveals novel SNP loci and candidate genes linked to flowering time in upland cotton.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
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Authors and funding
30 authors.
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Abstract
Cotton (Gossypium hirsutum L.) is a key allopolyploid crop with global economic importance. Here we present a telomere-to-telomere assembly of the elite variety Zhongmian 113. Leveraging technologies including PacBio HiFi, Oxford Nanopore Technology (ONT) ultralong-read sequencing and Hi-C, our assembly surpasses previous genomes in contiguity and completeness, resolving 26 centromeric and 52 telomeric regions, 5S rDNA clusters and nucleolar organizer regions. A phylogenetically recent centromere repositioning on chromosome D08 was discovered specific to G. hirsutum, involving deactivation of an ancestral centromere and the formation of a unique, satellite repeat-based centromere. Genomic analyses evaluated favorable allele aggregation for key agronomic traits and uncovered an early-maturing haplotype derived from an 11 Mb pericentric inversion that evolved early during G. hirsutum domestication. Our study sheds light on the genomic origins of short-season adaptation, potentially involving introgression of an inversion from primitively domesticated forms, followed by subsequent haplotype differentiation in modern breeding programs.
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