The complete chloroplast genome of Aristolochia fangchi provided insights into the phylogeny and species identification of Aristolochia.

IF 2.3 3区 生物学 Q3 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Genome Pub Date : 2024-03-01 Epub Date: 2023-12-13 DOI:10.1139/gen-2023-0068
Qingqun Cai, Shiyin Feng, Xiasheng Zheng
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Abstract

Aristolochia fangchi is an important species within the family Aristolochiaceae, most of which contain nephrotoxic aristolochic acid. The inadvertent use of Aristolochiaceae plants as raw ingredients in the manufacturing of patent medicine poses a significant risk warranting considerable attention. In this study, we assembled and analyzed the complete chloroplast genome of Aristolochia fangchi, which is a 159 867 bp long circular molecule. Functional annotation of the A. fangchi plastome unveiled a total of 113 genes, including 79 protein-coding genes, 30 tRNA genes, and 4 rRNA genes. Subsequently, a series of genome structure and characteristic evaluations were conducted against the A. fangchi plastome. Further phylogenetic analysis suggested that a plausible phylogenetic relationship among Aristolochiaceae derived from the concatenated sequences of shared conserved genes rather than from the entire chloroplast genome with one IR copy. Finally, a DNA polymorphism assessment against a dozen Aristolochia plastomes yielded multiple potential regions for biomarker designation. Six pairs of primers were generated and underwent both in silico and actual PCR validations. In conclusion, this study identified the unique characteristics of the A. fangchi plastome, providing invaluable insights for further investigations on species identification and the phylogeny evolution between A. fangchi and its related species.

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马兜铃科植物芳奇的完整叶绿体基因组为马兜铃科植物的系统发育和物种鉴定提供了见解。
马兜铃科植物马兜铃属(Aristolochia fangchi)是马兜铃科植物中的一个重要品种,其中大部分含有肾毒性马兜铃酸。不慎将马兜铃科植物作为原料用于中成药的生产具有重大风险,值得高度重视。在这项研究中,我们组装并分析了方知子叶绿体的完整基因组,这是一个长达 159,867 bp 的环状分子。方池叶绿体基因组的功能注释共揭示了 113 个基因,包括 79 个蛋白质编码基因、30 个 tRNA 基因和 4 个 rRNA 基因。随后,针对方池虫质体进行了一系列基因组结构和特征评估。进一步的系统发育分析表明,马兜铃科植物之间合理的系统发育关系来源于共享保守基因的连接序列,而不是来自于整个叶绿体基因组的一个红外拷贝。最后,针对十几个马兜铃质体进行的 DNA 多态性评估发现了多个潜在的生物标记区域。生成了六对引物,并进行了硅学和实际 PCR 验证。总之,这项研究确定了方知子质体的独特特征,为进一步研究方知子及其相关物种之间的物种鉴定和系统进化提供了宝贵的见解。
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来源期刊
Genome
Genome 生物-生物工程与应用微生物
CiteScore
5.30
自引率
3.20%
发文量
42
审稿时长
6-12 weeks
期刊介绍: Genome is a monthly journal, established in 1959, that publishes original research articles, reviews, mini-reviews, current opinions, and commentaries. Areas of interest include general genetics and genomics, cytogenetics, molecular and evolutionary genetics, developmental genetics, population genetics, phylogenomics, molecular identification, as well as emerging areas such as ecological, comparative, and functional genomics.
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