ArticleNature genetics2021
High-quality genome assembly and resequencing of modern cotton cultivars provide resources for crop improvement.
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Article in Nature genetics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 94 papers.
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94citing papers in PubMed
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94 citing papers in PubMed, 178 citations in OpenAlex.
- Cotton Salt Stress Resilience: Integrating Physiological, Molecular, and Agronomic Strategies for Next-Generation Breeding.Plant, cell & environment · 2026Review
- Dose-Dependent Effects and Metabolomic Analysis of Foliar-Applied Carbon Dots on Cotton (Plants (Basel, Switzerland) · 2026Article
- MianxinNo.1: a modern cultivar genome-informed SNP array based on cGPS technology for genomics-assisted breeding in cotton.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Multiple environmental test and genetic mapping jointly reveal genomic loci and associated genes underlying cotton Verticillium wilt resistance.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Relief of GbDEAH12Nature communications · 2026Article
- Pangenome and resequencing analyses reveal flowering evolution and genetic control in Cerasus.Nature communications · 2026Article
- Unraveling GhMYB102: dual roles of Gh_A01G069800 in inhibiting anthocyanin biosynthesis and inducing drought tolerance in cotton.BMC genomics · 2026Article
- Identification of Key Genes for the Simultaneous Improvement of Fiber Strength and Lint Percentage inInternational journal of molecular sciences · 2026Article
- Transmembrane Protein GbTMEM209 Inhibits Fibre Elongation via Competitive Interaction With GbHOX3 in Gossypium barbadense.Plant biotechnology journal · 2026Article
- The landscape of cotton DNA methylation and its epigenetic regulation in Verticillium wilt resistance.Plant cell reports · 2026Article
- CottonGen 2025: a knowledgebase for cotton genomics, genetics, and breeding research.Genetics · 2026Article
- Harnessing GhGRDP1 natural variation for enhanced cotton seed yield: a rhamnose-dependent strategy in breeding.Journal of advanced research · 2026Article
- A pangenome reference and population studies link structural variants with breeding traits in Gossypium hirsutum.Nature genetics · 2026Article
- GhUGT84A1 underlying a novel locus qOC-A03-1 regulates cottonseed oil content revealed by integrated deep resequencing and QTL mapping.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Chromosome-level genome assembly and population genomics analysis ofPlant diversity · 2026Article
- Bridging the Divide: Integrating Cottonseed Oil Content with Agronomic Trait Improvement in Upland Cotton (Plants (Basel, Switzerland) · 2026Review
- Structural Variation and 3D Genome-Driven DNA/RNA Methylation Divergence Contributing to Cotton Fiber Domestication.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 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
- 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
34 more citing papers are in PubMed but not listed here.
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Authors and funding
37 authors at 2 institutions in 1 country.
Zhiying Ma *State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China. mzhy@hebau.edu.cn.ORCID http://orcid.org/0000-0002-0298-757X
Yan Zhang *State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China. zhangyan7235@126.com.ORCID http://orcid.org/0000-0002-1596-8060
Liqiang Wu *State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.ORCID http://orcid.org/0000-0001-6754-8175
Guiyin Zhang *State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.ORCID http://orcid.org/0000-0003-3851-1263
Zhengwen Sun *State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Zhikun Li *State Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Yafei Jiang *Novogene Bioinformatics Institute, Beijing, China.
Huifeng KeState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.ORCID http://orcid.org/0000-0002-3779-0814
Bin ChenState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Zhengwen LiuState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.ORCID http://orcid.org/0000-0002-8540-9694
Qishen GuState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.ORCID http://orcid.org/0000-0001-9666-5020
Zhicheng WangState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Guoning WangState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.ORCID http://orcid.org/0000-0002-8914-5235
Jun YangState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.ORCID http://orcid.org/0000-0002-1537-8159
Jinhua WuState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Yuanyuan YanState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.ORCID http://orcid.org/0000-0002-9608-2324
Chengsheng MengState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Lihua LiState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Xiuxin LiNovogene Bioinformatics Institute, Beijing, China.
Shaojing MoState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Nan WuState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.ORCID http://orcid.org/0000-0002-8627-535X
Limei MaState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Liting ChenState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Man ZhangState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Aijun SiState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Zhanwu YangState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Nan WangState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Lizhu WuState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Dongmei ZhangState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.ORCID http://orcid.org/0000-0003-4560-9058
Yanru CuiState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Jing CuiState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Xing LvState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Yang LiState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Rongkang ShiState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Yihong DuanState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China.
Shilin TianNovogene Bioinformatics Institute, Beijing, China. tianshilin@novogene.com.ORCID http://orcid.org/0000-0001-8958-1806
Xingfen WangState Key Laboratory of North China Crop Improvement and Regulation, Key Laboratory for Crop Germplasm Resources of Hebei, Hebei Agricultural University, Baoding, China. cotton@hebau.edu.cn.ORCID http://orcid.org/0000-0002-8576-4565
Hebei Agricultural University · CNNovogene Bioinformatics Institute · CN
Funding
No grant is acknowledged in the PubMed record.
Abstract
Cotton produces natural fiber for the textile industry. The genetic effects of genomic structural variations underlying agronomic traits remain unclear. Here, we generate two high-quality genomes of Gossypium hirsutum cv. NDM8 and Gossypium barbadense acc. Pima90, and identify large-scale structural variations in the two species and 1,081 G. hirsutum accessions. The density of structural variations is higher in the D-subgenome than in the A-subgenome, indicating that the D-subgenome undergoes stronger selection during species formation and variety development. Many structural variations in genes and/or regulatory regions potentially influencing agronomic traits were discovered. Of 446 significantly associated structural variations, those for fiber quality and Verticillium wilt resistance are located mainly in the D-subgenome and those for yield mainly in the A-subgenome. Our research provides insight into the role of structural variations in genotype-to-phenotype relationships and their potential utility in crop improvement.
Indexed as
AgricultureCotton FiberGenetic LinkageGenetic VariationGenome, PlantGenotypeGossypiumPhenotypeQuantitative Trait LociSequence Analysis, DNATextile Industry
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