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| Chromosome-level and haplotype-resolved genome provides insight into the tetraploid hybrid origin of patchouli | |
Shen, Yanting1; Li, Wanying; Zeng, Ying; Li, Zhipeng; Chen, Yiqiong; Zhang, Jixiang2; Zhao, Hong3; Feng, Lingfang; Ma, Dongming; Mo, Xiaolu5; Ouyang, Puyue5; Huang, Lili; Wang, Zheng3; Jiao, Yuannian6,7 ; Wang, Hong-bin
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| 2022 | |
| Source Publication | NATURE COMMUNICATIONS
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| Volume | 13Issue:1 |
| Abstract | The ploidy level of patchouli, an aromatic plant in the Lamiaceae family, remain unclear. Here, the authors assemble a chromosome-level and haplotype-resolved genome for patchouli and reveal that it is tetraploid hybrid as well as compensated aneuploidy. Patchouli (Pogostemon cablin (Blanco) Benth.), a member of the Lamiaceae family, is an important aromatic plant that has been widely used in medicine and perfumery. Here, we report a 1.94 Gb chromosome-scale assembly of the patchouli genome (contig N50 = 7.97 Mb). The gene annotation reveals that tandem duplication of sesquiterpene biosynthetic genes may be a major contributor to the biosynthesis of patchouli bioactivity components. We further phase the genome into two distinct subgenomes (A and B), and identify a chromosome substitution event that have occurred between them. Further investigations show that a burst of universal LTR-RTs in the A subgenome lead to the divergence between two subgenomes. However, no significant subgenome dominance is detected. Finally, we track the evolutionary scenario of patchouli including whole genome tetraploidization, subgenome divergency, hybridization, and chromosome substitution, which are the key forces to determine the complexity of patchouli genome. Our work sheds light on the evolutionary history of patchouli and offers unprecedented genomic resources for fundamental patchouli research and elite germplasm development. |
| Subject Area | Multidisciplinary Sciences |
| DOI | 10.1038/s41467-022-31121-w |
| Indexed By | SCI |
| Language | 英语 |
| WOS Keyword | POGOSTEMON-CABLIN BENTH. ; IN-VITRO INDUCTION ; EVOLUTIONARY GENETICS ; PHYLOGENETIC ANALYSIS ; WEB SERVER ; IDENTIFICATION ; ACCURATE ; PROGRAM ; PLANT ; ANNOTATION |
| WOS Research Area | Science Citation Index Expanded (SCI-EXPANDED) |
| WOS ID | WOS:000812688600004 |
| Publisher | NATURE PORTFOLIO |
| Subtype | Article |
| Publication Place | BERLIN |
| EISSN | 2041-1723 |
| Funding Organization | National Natural Science Foundation of China [31900209] ; Department of Science and Technology of Guangdong Province [2019B030316019] ; Innovation Team Project of Guangdong Provincial Department of Education [2020KCXTD010] |
| Corresponding Author Email | shenyanting@gzucm.edu.cn ; wanghongbin@gzucm.edu.cn |
| OA | gold, Green Published |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | http://ir.ibcas.ac.cn/handle/2S10CLM1/28780 |
| Collection | 系统与进化植物学国家重点实验室 |
| Affiliation | 1.Guangzhou Univ Chinese Med, Inst Med Plant Physiol & Ecol, Sch Pharmaceut Sci, Guangzhou, Peoples R China 2.Chinese Acad Sci, Innovat Acad Seed Design, Inst Genet & Dev Biol, State Key Lab Plant Cell & Chromosome Engn, Beijing, Peoples R China 3.Chinese Acad Sci, Inst Genet & Dev Biol, State Key Lab Mol Dev Biol, Beijing, Peoples R China 4.Beijing Acad Agr & Forestry Sci, Beijing Vegetable Res Ctr, Beijing Key Lab Vegetable Germplasm Improvement, Minist Agr,Key Lab Biol & Genet Improvement Hort, Beijing, Peoples R China 5.Guangzhou Univ Chinese Med, Minist Educ, Key Lab Chinese Med Resource Lingnan, Guangzhou, Peoples R China 6.Guangdong Food & Drug Vocat Coll, Sch Tradit Chinese Med, Guangzhou, Peoples R China 7.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China 8.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 9.Guangzhou Univ Chinese Med, State Key Lab Dampness Syndrome Chinese Med, Guangzhou, Peoples R China |
| Recommended Citation GB/T 7714 | Shen, Yanting,Li, Wanying,Zeng, Ying,et al. Chromosome-level and haplotype-resolved genome provides insight into the tetraploid hybrid origin of patchouli[J]. NATURE COMMUNICATIONS,2022,13(1). |
| APA | Shen, Yanting.,Li, Wanying.,Zeng, Ying.,Li, Zhipeng.,Chen, Yiqiong.,...&Wang, Hong-bin.(2022).Chromosome-level and haplotype-resolved genome provides insight into the tetraploid hybrid origin of patchouli.NATURE COMMUNICATIONS,13(1). |
| MLA | Shen, Yanting,et al."Chromosome-level and haplotype-resolved genome provides insight into the tetraploid hybrid origin of patchouli".NATURE COMMUNICATIONS 13.1(2022). |
| Files in This Item: | ||||||
| File Name/Size | DocType | Version | Access | License | ||
| Shen-2022-Chromosome（2683KB） | 期刊论文 | 出版稿 | 开放获取 | CC BY-NC-SA | View Application Full Text | |
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