Genome skimming as an efficient tool for authenticating commercial products of the pharmaceutically important Paris yunnanensis (Melanthiaceae)

doi:10.1186/s12870-023-04365-x

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	Genome skimming as an efficient tool for authenticating commercial products of the pharmaceutically important Paris yunnanensis (Melanthiaceae)
	Zhou,Nian; Tang,Lilei; Xie,Pingxuan; Miao,Ke; Yang,Chengjin; Liu,Haiyang; Ji,Yunheng
	2023
发表期刊	BMC PLANT BIOLOGY
卷号	23 期号:1 页码:344
摘要	BackgroundParis yunnanensis (Melanthiaceae) is a traditional Chinese medicinal plant of significant pharmaceutical importance. Due to previous taxonomic confusion, a congeneric species, Paris liiana, has been mistaken for P. yunnanensis and cultivated on a large scale, leading to the mixing of commercial products (i.e., seedlings and processed rhizomes) of P. yunnanensis with those of P. liiana. This may have adverse effects on quality control in the standardization of P. yunnanensis productions. As the lack of PCR amplifiable genomic DNA within processed rhizomes is an intractable obstacle to the authentication of P. yunnanensis products using PCR-based diagnostic tools, this study aimed to develop a PCR-free method to authenticate commercial P. yunnanensis products, by applying genome skimming to generate complete plastomes and nrDNA arrays for use as the molecular tags.ResultsBased on a dense intraspecies sampling of P. liiana and P. yunnanensis, the robustness of the proposed authentication systems was evaluated by phylogenetic inferences and experimental authentication of commercial seedling and processed rhizome samples. The results indicate that the genetic criteria of both complete plastomes and nrDNA arrays were consistent with the species boundaries to achieve accurate discrimination of P. yunnanensis and P. liinna. Owing to its desirable accuracy and sensitivity, genome skimming can serve as an effective and sensitive tool for monitoring and controlling the trade of P. yunnanensis products.ConclusionThis study provides a new way to solve the long-standing problem of the molecular authentication of processed plant products due to the lack of PCR amplifiable genomic DNA. The proposed authentication system will support quality control in the standardization of P. yunnanensis products in cultivation and drug production. This study also provides molecular evidence to clarify the long-standing taxonomic confusion regarding the species delimitation of P. yunnanensis, which will contribute to the rational exploration and conservation of the species.
关键词	Plastome Rhizoma Paridis Ribosomal DNA Species identification DNA BARCODE IQ-TREE CONSERVATION IDENTIFICATION OPPORTUNITIES RENAISSANCE CULTIVATION PERFORMANCE LIBRARY FOREST
学科领域	Plant Sciences
DOI	10.1186/s12870-023-04365-x
WOS记录号	WOS:001018507900001
引用统计
文献类型	期刊论文
条目标识符	http://ir.kib.ac.cn/handle/151853/74946
专题	中国科学院昆明植物研究所
推荐引用方式 GB/T 7714	Zhou,Nian,Tang,Lilei,Xie,Pingxuan,et al. Genome skimming as an efficient tool for authenticating commercial products of the pharmaceutically important Paris yunnanensis (Melanthiaceae)[J]. BMC PLANT BIOLOGY,2023,23(1):344.
APA	Zhou,Nian.,Tang,Lilei.,Xie,Pingxuan.,Miao,Ke.,Yang,Chengjin.,...&Ji,Yunheng.(2023).Genome skimming as an efficient tool for authenticating commercial products of the pharmaceutically important Paris yunnanensis (Melanthiaceae).BMC PLANT BIOLOGY,23(1),344.
MLA	Zhou,Nian,et al."Genome skimming as an efficient tool for authenticating commercial products of the pharmaceutically important Paris yunnanensis (Melanthiaceae)".BMC PLANT BIOLOGY 23.1(2023):344.

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