Comparative chloroplast genome analyses provide new insights into molecular markers for distinguishing Arnebiae Radix and its substitutes (tribe Lithospermeae, Boraginaceae)
Sheng Wang , Yiheng Wang , Jiahui Sun , Xingyong Cui , Enze Li , Ruishan Wang , Qi Li , Pengfei Zhang , Wenpan Dong , Lanping Guo , Luqi Huang
{"title":"Comparative chloroplast genome analyses provide new insights into molecular markers for distinguishing Arnebiae Radix and its substitutes (tribe Lithospermeae, Boraginaceae)","authors":"Sheng Wang , Yiheng Wang , Jiahui Sun , Xingyong Cui , Enze Li , Ruishan Wang , Qi Li , Pengfei Zhang , Wenpan Dong , Lanping Guo , Luqi Huang","doi":"10.1016/j.phymed.2024.156338","DOIUrl":null,"url":null,"abstract":"<div><h3>Background</h3><div><em>Arnebiae Radix</em> has long been used in traditional medicine for its pleiotropic properties. However, distinguishing <em>Arnebiae Radix</em> from its substitutes or closely related species has been challenging due to limited phenotypic characteristics.</div></div><div><h3>Purpose</h3><div>We aimed to identify the molecular markers for distinguishing <em>Arnebiae Radix</em> from its confusion species.</div></div><div><h3>Study design</h3><div>Chloroplast genome sequences were used to identify the markers.</div></div><div><h3>Methods</h3><div>Chloroplast genomes from 15 species across five genera, including all historically used source plants, were sequenced and assembled.</div></div><div><h3>Results</h3><div>The results revealed significant similarities across all chloroplast genomes in terms of structure, size, gene content, repeat sequences pattens, and codon usage patterns. Phylogenetic analysis showed that the genera <em>Lithospermum, Buglossoides</em>, and <em>Aegonychon</em> formed one clade, while <em>Arnebia guttata, Ar. decumbens</em>, and <em>Ar. euchroma</em> form another. Despite most regions of the chloroplast genomes are highly conserved, three regions—<em>petA-psbJ, ndhF-rpl32</em>, and <em>ycf1</em>—exhibited high variability among difference species, providing high-resolution markers for species identification. Specifically, 376 and 325 species-specific sites were identified in <em>Ar. euchroma</em> and <em>Ar. guttata</em>, respectively. Additionally, four species-specific sites were identified as novel molecular markers, potentially aiding in distinguishing <em>Arnebiae Radix</em> and its confusion or substitute species.</div></div><div><h3>Conclusion</h3><div>This study provided new genetic insights for differentiating <em>Arnebiae Radix</em> and its confusion species, paving the way for further exploration of these medicinal plants.</div></div>","PeriodicalId":20212,"journal":{"name":"Phytomedicine","volume":"136 ","pages":"Article 156338"},"PeriodicalIF":6.7000,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Phytomedicine","FirstCategoryId":"3","ListUrlMain":"https://www.sciencedirect.com/science/article/pii/S0944711324009930","RegionNum":1,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"CHEMISTRY, MEDICINAL","Score":null,"Total":0}
引用次数: 0
Abstract
Background
Arnebiae Radix has long been used in traditional medicine for its pleiotropic properties. However, distinguishing Arnebiae Radix from its substitutes or closely related species has been challenging due to limited phenotypic characteristics.
Purpose
We aimed to identify the molecular markers for distinguishing Arnebiae Radix from its confusion species.
Study design
Chloroplast genome sequences were used to identify the markers.
Methods
Chloroplast genomes from 15 species across five genera, including all historically used source plants, were sequenced and assembled.
Results
The results revealed significant similarities across all chloroplast genomes in terms of structure, size, gene content, repeat sequences pattens, and codon usage patterns. Phylogenetic analysis showed that the genera Lithospermum, Buglossoides, and Aegonychon formed one clade, while Arnebia guttata, Ar. decumbens, and Ar. euchroma form another. Despite most regions of the chloroplast genomes are highly conserved, three regions—petA-psbJ, ndhF-rpl32, and ycf1—exhibited high variability among difference species, providing high-resolution markers for species identification. Specifically, 376 and 325 species-specific sites were identified in Ar. euchroma and Ar. guttata, respectively. Additionally, four species-specific sites were identified as novel molecular markers, potentially aiding in distinguishing Arnebiae Radix and its confusion or substitute species.
Conclusion
This study provided new genetic insights for differentiating Arnebiae Radix and its confusion species, paving the way for further exploration of these medicinal plants.
期刊介绍：
Phytomedicine is a therapy-oriented journal that publishes innovative studies on the efficacy, safety, quality, and mechanisms of action of specified plant extracts, phytopharmaceuticals, and their isolated constituents. This includes clinical, pharmacological, pharmacokinetic, and toxicological studies of herbal medicinal products, preparations, and purified compounds with defined and consistent quality, ensuring reproducible pharmacological activity. Founded in 1994, Phytomedicine aims to focus and stimulate research in this field and establish internationally accepted scientific standards for pharmacological studies, proof of clinical efficacy, and safety of phytomedicines.
京公网安备 11010802042870号
京ICP备2023020795号-1
分享
求助内容：
应助结果提醒方式：
扫码关注我们
