Applying DNA barcoding to identify the cultivated provenance of Fritillaria taipaiensis P. Y. Li and its related species

IF 3.8 2区农林科学 Q1 PLANT SCIENCES Journal of Applied Research on Medicinal and Aromatic Plants Pub Date : 2024-01-17 DOI:10.1016/j.jarmap.2024.100530

Yuze Liang , Jie Zhang , Xue Wang , Tiantian Gao , Haifeng Li , Dequan Zhang

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Abstract

Fritillaria taipaiensis P. Y. Li is one of the original species of Fritillariae Cirrhosae Bulbus (FCB), namely “Chuanbeimu”. It is difficult to identify the cultivated provenance of the FCB based on morphology, because of complexity of its original species. Therefore, it is necessary to develop an efficient molecular method to discriminate these species. In the present study, nine plastid genomes from cultivated F. taipaiensis and its related species were newly obtained using Next-generation sequencing, in addition to ITS sequences from Sanger sequencing. Then, DNA super, universal, and specific barcodes were compared in identifying these cultivation provenances using P-distance, Tree-building, and Online-blast methods. For the Tree-building, all individuals of F. taipaiensis could be successfully identified and DNA super barcode showed the highest success rate (91.67%) and reliability. Moreover, the super barcode could discriminate 88.88% of the individuals of these species except that of F. sichuanica using the Online-blast method in the NCBI database; however, only two individuals of F. taipaiensis were successfully identified using ITS sequences. This study further demonstrated that DNA super barcode based on plastid genome possesses a perfect ability of species discrimination on cultivation provenance of FCB.

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应用DNA条形码鉴定Fritillaria taipaiensis P. Y. Li及其相关物种的栽培产地

Fritillaria taipaiensis P. Y. Li 是 Fritillariae Cirrhosae Bulbus（FCB）的原种之一，即 "川贝母"。由于川贝母原种的复杂性，很难根据形态鉴定川贝母的栽培产地。因此，有必要开发一种有效的分子方法来鉴别这些物种。在本研究中，除了桑格（Sanger）测序法获得的 ITS 序列外，还利用下一代测序法新获得了 9 个栽培太白金星及其相关物种的质粒基因组。然后，使用P-distance、Tree-building和Online-blast方法比较了DNA超级条形码、通用条形码和特异条形码在鉴定这些栽培产地中的作用。在 "建树 "法中，所有的太白金星个体都能被成功识别，DNA 超级条形码的识别成功率（91.67%）和可靠性最高。此外，在 NCBI 数据库中，使用在线突检法，超级条形码可鉴别出除四川蛙以外的 88.88% 的物种个体；但使用 ITS 序列仅成功鉴别出两个四川蛙个体。该研究进一步证明，基于质粒基因组的 DNA 超级条形码对 FCB 的栽培产地具有完美的物种鉴别能力。

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来源期刊

Journal of Applied Research on Medicinal and Aromatic Plants Pharmacology, Toxicology and Pharmaceutics-Drug Discovery

CiteScore

6.40

自引率

7.70%

发文量

审稿时长

41 days

期刊介绍： JARMAP is a peer reviewed and multidisciplinary communication platform, covering all aspects of the raw material supply chain of medicinal and aromatic plants. JARMAP aims to improve production of tailor made commodities by addressing the various requirements of manufacturers of herbal medicines, herbal teas, seasoning herbs, food and feed supplements and cosmetics. JARMAP covers research on genetic resources, breeding, wild-collection, domestication, propagation, cultivation, phytopathology and plant protection, mechanization, conservation, processing, quality assurance, analytics and economics. JARMAP publishes reviews, original research articles and short communications related to research.