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High-quality genome assembly and resequencing of modern cotton cultivars provide resources for crop improvement
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...
| Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Formato: | Online Artículo Texto |
| Lenguaje: | English |
| Publicado: |
Nature Publishing Group US
2021
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| Materias: | |
| Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8423627/ https://www.ncbi.nlm.nih.gov/pubmed/34373642 http://dx.doi.org/10.1038/s41588-021-00910-2 |
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| author | Ma, Zhiying Zhang, Yan Wu, Liqiang Zhang, Guiyin Sun, Zhengwen Li, Zhikun Jiang, Yafei Ke, Huifeng Chen, Bin Liu, Zhengwen Gu, Qishen Wang, Zhicheng Wang, Guoning Yang, Jun Wu, Jinhua Yan, Yuanyuan Meng, Chengsheng Li, Lihua Li, Xiuxin Mo, Shaojing Wu, Nan Ma, Limei Chen, Liting Zhang, Man Si, Aijun Yang, Zhanwu Wang, Nan Wu, Lizhu Zhang, Dongmei Cui, Yanru Cui, Jing Lv, Xing Li, Yang Shi, Rongkang Duan, Yihong Tian, Shilin Wang, Xingfen |
| author_facet | Ma, Zhiying Zhang, Yan Wu, Liqiang Zhang, Guiyin Sun, Zhengwen Li, Zhikun Jiang, Yafei Ke, Huifeng Chen, Bin Liu, Zhengwen Gu, Qishen Wang, Zhicheng Wang, Guoning Yang, Jun Wu, Jinhua Yan, Yuanyuan Meng, Chengsheng Li, Lihua Li, Xiuxin Mo, Shaojing Wu, Nan Ma, Limei Chen, Liting Zhang, Man Si, Aijun Yang, Zhanwu Wang, Nan Wu, Lizhu Zhang, Dongmei Cui, Yanru Cui, Jing Lv, Xing Li, Yang Shi, Rongkang Duan, Yihong Tian, Shilin Wang, Xingfen |
| author_sort | Ma, Zhiying |
| collection | PubMed |
| description | 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. |
| format | Online Article Text |
| id | pubmed-8423627 |
| institution | National Center for Biotechnology Information |
| language | English |
| publishDate | 2021 |
| publisher | Nature Publishing Group US |
| record_format | MEDLINE/PubMed |
| spelling | pubmed-84236272021-09-27 High-quality genome assembly and resequencing of modern cotton cultivars provide resources for crop improvement Ma, Zhiying Zhang, Yan Wu, Liqiang Zhang, Guiyin Sun, Zhengwen Li, Zhikun Jiang, Yafei Ke, Huifeng Chen, Bin Liu, Zhengwen Gu, Qishen Wang, Zhicheng Wang, Guoning Yang, Jun Wu, Jinhua Yan, Yuanyuan Meng, Chengsheng Li, Lihua Li, Xiuxin Mo, Shaojing Wu, Nan Ma, Limei Chen, Liting Zhang, Man Si, Aijun Yang, Zhanwu Wang, Nan Wu, Lizhu Zhang, Dongmei Cui, Yanru Cui, Jing Lv, Xing Li, Yang Shi, Rongkang Duan, Yihong Tian, Shilin Wang, Xingfen Nat Genet Article 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. Nature Publishing Group US 2021-08-09 2021 /pmc/articles/PMC8423627/ /pubmed/34373642 http://dx.doi.org/10.1038/s41588-021-00910-2 Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . |
| spellingShingle | Article Ma, Zhiying Zhang, Yan Wu, Liqiang Zhang, Guiyin Sun, Zhengwen Li, Zhikun Jiang, Yafei Ke, Huifeng Chen, Bin Liu, Zhengwen Gu, Qishen Wang, Zhicheng Wang, Guoning Yang, Jun Wu, Jinhua Yan, Yuanyuan Meng, Chengsheng Li, Lihua Li, Xiuxin Mo, Shaojing Wu, Nan Ma, Limei Chen, Liting Zhang, Man Si, Aijun Yang, Zhanwu Wang, Nan Wu, Lizhu Zhang, Dongmei Cui, Yanru Cui, Jing Lv, Xing Li, Yang Shi, Rongkang Duan, Yihong Tian, Shilin Wang, Xingfen High-quality genome assembly and resequencing of modern cotton cultivars provide resources for crop improvement |
| title | High-quality genome assembly and resequencing of modern cotton cultivars provide resources for crop improvement |
| title_full | High-quality genome assembly and resequencing of modern cotton cultivars provide resources for crop improvement |
| title_fullStr | High-quality genome assembly and resequencing of modern cotton cultivars provide resources for crop improvement |
| title_full_unstemmed | High-quality genome assembly and resequencing of modern cotton cultivars provide resources for crop improvement |
| title_short | High-quality genome assembly and resequencing of modern cotton cultivars provide resources for crop improvement |
| title_sort | high-quality genome assembly and resequencing of modern cotton cultivars provide resources for crop improvement |
| topic | Article |
| url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8423627/ https://www.ncbi.nlm.nih.gov/pubmed/34373642 http://dx.doi.org/10.1038/s41588-021-00910-2 |
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