The genome and GeneBank genomics of allotetraploid Nicotiana tabacum provide insights into genome evolution and complex trait regulation
Nicotiana tabacum is an allotetraploid hybrid of Nicotiana sylvestris and Nicotiana tomentosiformis and a model organism in genetics. However, features of subgenome evolution, expression coordination, genetic diversity and complex traits regulation of N. tabacum remain unresolved. Here we present ch...
| Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Springer
2025
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/174451 |
| _version_ | 1855516500236959744 |
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| author | Zan, Yanjun Chen, Shuai Ren, Min Liu, Guoxiang Liu, Yutong Han, Yu Dong, Yang Zhang, Yao Si, Huan Liu, Zhengwen Liu, Dan Zhang, Xingwei Tong, Ying Li, Yuan Jiang, Caihong Wen, Liuying Xiao, Zhiliang Sun, Yangyang Geng, Ruimei Ji, Yan Feng, Quanfu Wang, Yuanying Ye, Guoyou Fang, Lingzhao Chen, Yong Cheng, Lirui Yang, Aiguo |
| author_browse | Chen, Shuai Chen, Yong Cheng, Lirui Dong, Yang Fang, Lingzhao Feng, Quanfu Geng, Ruimei Han, Yu Ji, Yan Jiang, Caihong Li, Yuan Liu, Dan Liu, Guoxiang Liu, Yutong Liu, Zhengwen Ren, Min Si, Huan Sun, Yangyang Tong, Ying Wang, Yuanying Wen, Liuying Xiao, Zhiliang Yang, Aiguo Ye, Guoyou Zan, Yanjun Zhang, Xingwei Zhang, Yao |
| author_facet | Zan, Yanjun Chen, Shuai Ren, Min Liu, Guoxiang Liu, Yutong Han, Yu Dong, Yang Zhang, Yao Si, Huan Liu, Zhengwen Liu, Dan Zhang, Xingwei Tong, Ying Li, Yuan Jiang, Caihong Wen, Liuying Xiao, Zhiliang Sun, Yangyang Geng, Ruimei Ji, Yan Feng, Quanfu Wang, Yuanying Ye, Guoyou Fang, Lingzhao Chen, Yong Cheng, Lirui Yang, Aiguo |
| author_sort | Zan, Yanjun |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Nicotiana tabacum is an allotetraploid hybrid of Nicotiana sylvestris and Nicotiana tomentosiformis and a model organism in genetics. However, features of subgenome evolution, expression coordination, genetic diversity and complex traits regulation of N. tabacum remain unresolved. Here we present chromosome-scale assemblies for all three species, and genotype and phenotypic data for 5,196 N. tabacum germplasms. Chromosome rearrangements and epigenetic modifications are associated with genome evolution and expression coordination following polyploidization. Two subgenomes and genes biased toward one subgenome contributed unevenly to complex trait variation. Using 178 marker–trait associations, a reference genotype-to-phenotype map was built for 39 morphological, developmental and disease resistance traits, and a novel gene regulating leaf width was validated. Signatures of positive and polygenic selection during the process of selective breeding were detected. Our study provides insights into genome evolution, complex traits regulation in allotetraploid N. tabacum and the use of GeneBank-scale resources for advancing genetic and genomic research. |
| format | Journal Article |
| id | CGSpace174451 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2025 |
| publishDateRange | 2025 |
| publishDateSort | 2025 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace1744512025-11-12T04:55:37Z The genome and GeneBank genomics of allotetraploid Nicotiana tabacum provide insights into genome evolution and complex trait regulation Zan, Yanjun Chen, Shuai Ren, Min Liu, Guoxiang Liu, Yutong Han, Yu Dong, Yang Zhang, Yao Si, Huan Liu, Zhengwen Liu, Dan Zhang, Xingwei Tong, Ying Li, Yuan Jiang, Caihong Wen, Liuying Xiao, Zhiliang Sun, Yangyang Geng, Ruimei Ji, Yan Feng, Quanfu Wang, Yuanying Ye, Guoyou Fang, Lingzhao Chen, Yong Cheng, Lirui Yang, Aiguo Nicotiana tabacum polyploidy chromosomes epigenetics gene expression genetic diversity quantitative trait loci genetic markers Nicotiana tabacum is an allotetraploid hybrid of Nicotiana sylvestris and Nicotiana tomentosiformis and a model organism in genetics. However, features of subgenome evolution, expression coordination, genetic diversity and complex traits regulation of N. tabacum remain unresolved. Here we present chromosome-scale assemblies for all three species, and genotype and phenotypic data for 5,196 N. tabacum germplasms. Chromosome rearrangements and epigenetic modifications are associated with genome evolution and expression coordination following polyploidization. Two subgenomes and genes biased toward one subgenome contributed unevenly to complex trait variation. Using 178 marker–trait associations, a reference genotype-to-phenotype map was built for 39 morphological, developmental and disease resistance traits, and a novel gene regulating leaf width was validated. Signatures of positive and polygenic selection during the process of selective breeding were detected. Our study provides insights into genome evolution, complex traits regulation in allotetraploid N. tabacum and the use of GeneBank-scale resources for advancing genetic and genomic research. 2025-04 2025-05-07T08:48:24Z 2025-05-07T08:48:24Z Journal Article https://hdl.handle.net/10568/174451 en Open Access application/pdf Springer Zan, Yanjun, Shuai Chen, Min Ren, Guoxiang Liu, Yutong Liu, Yu Han, Yang Dong et al. "The genome and GeneBank genomics of allotetraploid Nicotiana tabacum provide insights into genome evolution and complex trait regulation." Nature Genetics (2025): 1-11. |
| spellingShingle | Nicotiana tabacum polyploidy chromosomes epigenetics gene expression genetic diversity quantitative trait loci genetic markers Zan, Yanjun Chen, Shuai Ren, Min Liu, Guoxiang Liu, Yutong Han, Yu Dong, Yang Zhang, Yao Si, Huan Liu, Zhengwen Liu, Dan Zhang, Xingwei Tong, Ying Li, Yuan Jiang, Caihong Wen, Liuying Xiao, Zhiliang Sun, Yangyang Geng, Ruimei Ji, Yan Feng, Quanfu Wang, Yuanying Ye, Guoyou Fang, Lingzhao Chen, Yong Cheng, Lirui Yang, Aiguo The genome and GeneBank genomics of allotetraploid Nicotiana tabacum provide insights into genome evolution and complex trait regulation |
| title | The genome and GeneBank genomics of allotetraploid Nicotiana tabacum provide insights into genome evolution and complex trait regulation |
| title_full | The genome and GeneBank genomics of allotetraploid Nicotiana tabacum provide insights into genome evolution and complex trait regulation |
| title_fullStr | The genome and GeneBank genomics of allotetraploid Nicotiana tabacum provide insights into genome evolution and complex trait regulation |
| title_full_unstemmed | The genome and GeneBank genomics of allotetraploid Nicotiana tabacum provide insights into genome evolution and complex trait regulation |
| title_short | The genome and GeneBank genomics of allotetraploid Nicotiana tabacum provide insights into genome evolution and complex trait regulation |
| title_sort | genome and genebank genomics of allotetraploid nicotiana tabacum provide insights into genome evolution and complex trait regulation |
| topic | Nicotiana tabacum polyploidy chromosomes epigenetics gene expression genetic diversity quantitative trait loci genetic markers |
| url | https://hdl.handle.net/10568/174451 |
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