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The Chromosome Level Genome and Genome-wide Association Study for the Agronomic Traits of Panax Notoginseng
The Chinese ginseng Panax notoginseng is a domesticated herb with significant medicinal and economic value. Here we report a chromosome-level P. notoginseng genome assembly with a high (∼79%) repetitive sequence content. The juxtaposition with the widely distributed, closely related Korean ginseng (...
| Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Formato: | Online Artículo Texto |
| Lenguaje: | English |
| Publicado: |
Elsevier
2020
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| Materias: | |
| Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7509215/ https://www.ncbi.nlm.nih.gov/pubmed/33083766 http://dx.doi.org/10.1016/j.isci.2020.101538 |
| _version_ | 1783585559935975424 |
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| author | Fan, Guangyi Liu, Xiaochuan Sun, Shuai Shi, Chengcheng Du, Xiao Han, Kai Yang, Binrui Fu, Yuanyuan Liu, Minghua Seim, Inge Zhang, He Xu, Qiwu Wang, Jiahao Su, Xiaoshan Shao, Libin Zhu, Yuanfang Shao, Yunchang Zhao, Yunpeng Wong, Andrew KC. Zhuang, Dennis Chen, Wenbin Zhang, Gengyun Yang, Huanming Xu, Xun Tsui, Stephen Kwok-Wing Liu, Xin Lee, Simon Ming-Yue |
| author_facet | Fan, Guangyi Liu, Xiaochuan Sun, Shuai Shi, Chengcheng Du, Xiao Han, Kai Yang, Binrui Fu, Yuanyuan Liu, Minghua Seim, Inge Zhang, He Xu, Qiwu Wang, Jiahao Su, Xiaoshan Shao, Libin Zhu, Yuanfang Shao, Yunchang Zhao, Yunpeng Wong, Andrew KC. Zhuang, Dennis Chen, Wenbin Zhang, Gengyun Yang, Huanming Xu, Xun Tsui, Stephen Kwok-Wing Liu, Xin Lee, Simon Ming-Yue |
| author_sort | Fan, Guangyi |
| collection | PubMed |
| description | The Chinese ginseng Panax notoginseng is a domesticated herb with significant medicinal and economic value. Here we report a chromosome-level P. notoginseng genome assembly with a high (∼79%) repetitive sequence content. The juxtaposition with the widely distributed, closely related Korean ginseng (Panax ginseng) genome revealed contraction of plant defense genes (in particular R-genes) in the P. notoginseng genome. We also investigated the reasons for the larger genome size of Panax species, revealing contributions from two Panax-specific whole-genome duplication events and transposable element expansion. Transcriptome data and comparative genome analysis revealed the candidate genes involved in the ginsenoside synthesis pathway. We also performed a genome-wide association study on 240 cultivated P. notoginseng individuals and identified the associated genes with dry root weight (63 genes) and stem thickness (168 genes). The P. notoginseng genome represents a critical step toward harnessing the full potential of an economically important and enigmatic plant. |
| format | Online Article Text |
| id | pubmed-7509215 |
| institution | National Center for Biotechnology Information |
| language | English |
| publishDate | 2020 |
| publisher | Elsevier |
| record_format | MEDLINE/PubMed |
| spelling | pubmed-75092152020-09-28 The Chromosome Level Genome and Genome-wide Association Study for the Agronomic Traits of Panax Notoginseng Fan, Guangyi Liu, Xiaochuan Sun, Shuai Shi, Chengcheng Du, Xiao Han, Kai Yang, Binrui Fu, Yuanyuan Liu, Minghua Seim, Inge Zhang, He Xu, Qiwu Wang, Jiahao Su, Xiaoshan Shao, Libin Zhu, Yuanfang Shao, Yunchang Zhao, Yunpeng Wong, Andrew KC. Zhuang, Dennis Chen, Wenbin Zhang, Gengyun Yang, Huanming Xu, Xun Tsui, Stephen Kwok-Wing Liu, Xin Lee, Simon Ming-Yue iScience Article The Chinese ginseng Panax notoginseng is a domesticated herb with significant medicinal and economic value. Here we report a chromosome-level P. notoginseng genome assembly with a high (∼79%) repetitive sequence content. The juxtaposition with the widely distributed, closely related Korean ginseng (Panax ginseng) genome revealed contraction of plant defense genes (in particular R-genes) in the P. notoginseng genome. We also investigated the reasons for the larger genome size of Panax species, revealing contributions from two Panax-specific whole-genome duplication events and transposable element expansion. Transcriptome data and comparative genome analysis revealed the candidate genes involved in the ginsenoside synthesis pathway. We also performed a genome-wide association study on 240 cultivated P. notoginseng individuals and identified the associated genes with dry root weight (63 genes) and stem thickness (168 genes). The P. notoginseng genome represents a critical step toward harnessing the full potential of an economically important and enigmatic plant. Elsevier 2020-09-08 /pmc/articles/PMC7509215/ /pubmed/33083766 http://dx.doi.org/10.1016/j.isci.2020.101538 Text en © 2020 The Author(s) http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/). |
| spellingShingle | Article Fan, Guangyi Liu, Xiaochuan Sun, Shuai Shi, Chengcheng Du, Xiao Han, Kai Yang, Binrui Fu, Yuanyuan Liu, Minghua Seim, Inge Zhang, He Xu, Qiwu Wang, Jiahao Su, Xiaoshan Shao, Libin Zhu, Yuanfang Shao, Yunchang Zhao, Yunpeng Wong, Andrew KC. Zhuang, Dennis Chen, Wenbin Zhang, Gengyun Yang, Huanming Xu, Xun Tsui, Stephen Kwok-Wing Liu, Xin Lee, Simon Ming-Yue The Chromosome Level Genome and Genome-wide Association Study for the Agronomic Traits of Panax Notoginseng |
| title | The Chromosome Level Genome and Genome-wide Association Study for the Agronomic Traits of Panax Notoginseng |
| title_full | The Chromosome Level Genome and Genome-wide Association Study for the Agronomic Traits of Panax Notoginseng |
| title_fullStr | The Chromosome Level Genome and Genome-wide Association Study for the Agronomic Traits of Panax Notoginseng |
| title_full_unstemmed | The Chromosome Level Genome and Genome-wide Association Study for the Agronomic Traits of Panax Notoginseng |
| title_short | The Chromosome Level Genome and Genome-wide Association Study for the Agronomic Traits of Panax Notoginseng |
| title_sort | chromosome level genome and genome-wide association study for the agronomic traits of panax notoginseng |
| topic | Article |
| url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7509215/ https://www.ncbi.nlm.nih.gov/pubmed/33083766 http://dx.doi.org/10.1016/j.isci.2020.101538 |
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