Gossypium latifolium genome reveals the genetic basis of domestication of upland cotton from semi-wild races to cultivars
The genetic basis for Gossypium hirsutum race latifolium, the putative ancestor of cultivated upland cotton, emerging from the semi-wild races to be domesticated into cultivated upland cotton is unknown. Here, we reported a high-quality genome assembly of G. latifolium. Comparative genome analyses r...
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KeAi Communications Co., Ltd.
2025-06-01
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| Series: | Crop Journal |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2214514125000893 |
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| author | Chao Fu Nian Wang Qingying Meng Zhiyong Xu Yu Le Xianlong Zhang Yangyang Wei Renhai Peng Chao Shen Zhongxu Lin |
| author_facet | Chao Fu Nian Wang Qingying Meng Zhiyong Xu Yu Le Xianlong Zhang Yangyang Wei Renhai Peng Chao Shen Zhongxu Lin |
| author_sort | Chao Fu |
| collection | DOAJ |
| description | The genetic basis for Gossypium hirsutum race latifolium, the putative ancestor of cultivated upland cotton, emerging from the semi-wild races to be domesticated into cultivated upland cotton is unknown. Here, we reported a high-quality genome assembly of G. latifolium. Comparative genome analyses revealed substantial variations in both gene group composition and genomic sequences across 13 cotton genomes, including the expansion of photosynthesis-related gene groups in G. latifolium compared with other races and the pivotal contribution of structural variations (SVs) to G. hirsutum domestication. Based on the resequencing reads and constructed pan-genome of upland cotton, co-selection regions and SVs with significant frequency differences among different populations were identified. Genes located in these regions or affected by these variations may characterize the differences between G. latifolium and other races, and could be involved in maintenance of upland cotton domestication phenotypes. These findings may assist in mining genes for upland cotton improvement and improving the understanding of the genetic basis of upland cotton domestication. |
| format | Article |
| id | doaj-art-fbefbcc532ab4dc5bfb5431b68ebb4fb |
| institution | Kabale University |
| issn | 2214-5141 |
| language | English |
| publishDate | 2025-06-01 |
| publisher | KeAi Communications Co., Ltd. |
| record_format | Article |
| series | Crop Journal |
| spelling | doaj-art-fbefbcc532ab4dc5bfb5431b68ebb4fb2025-08-20T03:47:13ZengKeAi Communications Co., Ltd.Crop Journal2214-51412025-06-0113392994110.1016/j.cj.2025.02.014Gossypium latifolium genome reveals the genetic basis of domestication of upland cotton from semi-wild races to cultivarsChao Fu0Nian Wang1Qingying Meng2Zhiyong Xu3Yu Le4Xianlong Zhang5Yangyang Wei6Renhai Peng7Chao Shen8Zhongxu Lin9National Key Laboratory of Crop Genetic Improvement, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, Hubei, ChinaNational Key Laboratory of Crop Genetic Improvement, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, Hubei, ChinaNational Key Laboratory of Crop Genetic Improvement, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, Hubei, ChinaNational Key Laboratory of Crop Genetic Improvement, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, Hubei, ChinaNational Key Laboratory of Crop Genetic Improvement, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, Hubei, ChinaNational Key Laboratory of Crop Genetic Improvement, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, Hubei, ChinaResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology, Anyang 455000, Henan, ChinaResearch Base, Anyang Institute of Technology, State Key Laboratory of Cotton Biology, Anyang 455000, Henan, ChinaGuangdong Provincial Key Laboratory for Green Agricultural Production and Intelligent Equipment, College of Biological and Food Engineering, Guangdong University of Petrochemical Technology, Maoming 525000, Guangdong, China; Corresponding authors.National Key Laboratory of Crop Genetic Improvement, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, Hubei, China; Corresponding authors.The genetic basis for Gossypium hirsutum race latifolium, the putative ancestor of cultivated upland cotton, emerging from the semi-wild races to be domesticated into cultivated upland cotton is unknown. Here, we reported a high-quality genome assembly of G. latifolium. Comparative genome analyses revealed substantial variations in both gene group composition and genomic sequences across 13 cotton genomes, including the expansion of photosynthesis-related gene groups in G. latifolium compared with other races and the pivotal contribution of structural variations (SVs) to G. hirsutum domestication. Based on the resequencing reads and constructed pan-genome of upland cotton, co-selection regions and SVs with significant frequency differences among different populations were identified. Genes located in these regions or affected by these variations may characterize the differences between G. latifolium and other races, and could be involved in maintenance of upland cotton domestication phenotypes. These findings may assist in mining genes for upland cotton improvement and improving the understanding of the genetic basis of upland cotton domestication.http://www.sciencedirect.com/science/article/pii/S2214514125000893G. latifoliumGenome assemblyComparative genome analysisStructural variationsDomestication |
| spellingShingle | Chao Fu Nian Wang Qingying Meng Zhiyong Xu Yu Le Xianlong Zhang Yangyang Wei Renhai Peng Chao Shen Zhongxu Lin Gossypium latifolium genome reveals the genetic basis of domestication of upland cotton from semi-wild races to cultivars Crop Journal G. latifolium Genome assembly Comparative genome analysis Structural variations Domestication |
| title | Gossypium latifolium genome reveals the genetic basis of domestication of upland cotton from semi-wild races to cultivars |
| title_full | Gossypium latifolium genome reveals the genetic basis of domestication of upland cotton from semi-wild races to cultivars |
| title_fullStr | Gossypium latifolium genome reveals the genetic basis of domestication of upland cotton from semi-wild races to cultivars |
| title_full_unstemmed | Gossypium latifolium genome reveals the genetic basis of domestication of upland cotton from semi-wild races to cultivars |
| title_short | Gossypium latifolium genome reveals the genetic basis of domestication of upland cotton from semi-wild races to cultivars |
| title_sort | gossypium latifolium genome reveals the genetic basis of domestication of upland cotton from semi wild races to cultivars |
| topic | G. latifolium Genome assembly Comparative genome analysis Structural variations Domestication |
| url | http://www.sciencedirect.com/science/article/pii/S2214514125000893 |
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