Chromosome-level and haplotype-resolved genome provides insight into the tetraploid hybrid origin of patchouli

doi:10.1038/s41467-022-31121-w

	Chromosome-level and haplotype-resolved genome provides insight into the tetraploid hybrid origin of patchouli
	Shen, Yanting 1; Li, Wanying ; Zeng, Ying ; Li, Zhipeng ; Chen, Yiqiong ; Zhang, Jixiang 2; Zhao, Hong 3; Feng, Lingfang ; Ma, Dongming ; Mo, Xiaolu 5; Ouyang, Puyue 5; Huang, Lili ; Wang, Zheng 3; Jiao, Yuannian6,7 ; Wang, Hong-bin
	2022
发表期刊	NATURE COMMUNICATIONS
卷号	13 期号:1
摘要	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.
学科领域	Multidisciplinary Sciences
DOI	10.1038/s41467-022-31121-w
收录类别	SCI
语种	英语
WOS关键词	POGOSTEMON-CABLIN BENTH. ; IN-VITRO INDUCTION ; EVOLUTIONARY GENETICS ; PHYLOGENETIC ANALYSIS ; WEB SERVER ; IDENTIFICATION ; ACCURATE ; PROGRAM ; PLANT ; ANNOTATION
WOS研究方向	Science Citation Index Expanded (SCI-EXPANDED)
WOS记录号	WOS:000812688600004
出版者	NATURE PORTFOLIO
文献子类	Article
出版地	BERLIN
EISSN	2041-1723
资助机构	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]
作者邮箱	shenyanting@gzucm.edu.cn ; wanghongbin@gzucm.edu.cn
作品OA属性	gold, Green Published
引用统计	被引频次：17[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.ibcas.ac.cn/handle/2S10CLM1/28780
专题	系统与进化植物学国家重点实验室
作者单位	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
推荐引用方式 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).

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