Phylogenomic Analysis of Dichrocephala benthamii and Comparative Analysis within Tribe Astereae (Asteraceae).

IF 1.7 4区生物学 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY

Genetics and Molecular Biology Pub Date : 2024-10-21 eCollection Date: 2024-01-01 DOI:10.1590/1678-4685-GMB-2023-0340

Hui Chen, Tingyu Li, Xinyu Chen, Xinyi Zheng, Tianmeng Qu, Bo Li, Zhixi Fu

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引用次数: 0

Abstract

Dichrocephala benthamii C. B. Clarke has long been used as traditional Chinese medicine. However, the chloroplast (cp) genome of D. benthamii is poorly understood so far. In this study, we sequenced and analyzed the cp genome of D. benthamii. The results showed that the cp genome is 152,350 bp in length, with a pair of inverted repeat regions (IRa and IRb, each 24,982 bp), a large single-copy (LSC) region comprising 84,136 bp, and a small single-copy (SSC) region comprising 18,250 bp. The GC content of the cp genome was 37.3%. A total of 134 genes were identified, including 87 protein-coding genes (CDS), 38 tRNA genes, 8 rRNA genes, and 1 pseudogene (ycf1). Expansion or contraction of IR regions were detected in D. benthamii and other species of the tribe Astereae. Additionally, our analyses showed the types of sequence repeats and the highly variable regions discovered by analyzing the border regions, sequence divergence, and hot spots. The phylogenetic analysis revealed D. benthamii is the basal group of Astereae. The results of this study will be a significant contribution to the genetics and species identification related to D. benthamii.

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Dichrocephala benthamii 的系统发生组分析和菊科（Asteraceae）内的比较分析。

Dichrocephala benthamii C. B. Clarke 长期以来一直被用作传统中药。然而，迄今为止，人们对本草纲目的叶绿体（cp）基因组了解甚少。在这项研究中，我们对大腹便便草的 cp 基因组进行了测序和分析。结果显示，cp基因组全长152,350 bp，有一对倒位重复区（IRa和IRb，各24,982 bp），一个由84,136 bp组成的大单拷贝区（LSC）和一个由18,250 bp组成的小单拷贝区（SSC）。cp 基因组的 GC 含量为 37.3%。共鉴定出 134 个基因，包括 87 个蛋白质编码基因（CDS）、38 个 tRNA 基因、8 个 rRNA 基因和 1 个假基因（ycf1）。在 D. benthamii 和 Astereae 家族的其他物种中发现了 IR 区域的扩展或收缩。此外，我们的分析还显示了序列重复的类型，以及通过分析边界区域、序列分歧和热点发现的高变异区域。系统进化分析表明，D. benthamii是Astereae的基干类群。本研究的结果将对与 D. benthamii 相关的遗传学和物种鉴定做出重要贡献。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Genetics and Molecular Biology 生物-生化与分子生物学

CiteScore

4.20

自引率

4.80%

发文量

111

审稿时长

3 months

期刊介绍： Genetics and Molecular Biology (formerly named Revista Brasileira de Genética/Brazilian Journal of Genetics - ISSN 0100-8455) is published by the Sociedade Brasileira de Genética (Brazilian Society of Genetics). The Journal considers contributions that present the results of original research in genetics, evolution and related scientific disciplines. Manuscripts presenting methods and applications only, without an analysis of genetic data, will not be considered.