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五个物种叶绿体全基因组的比较与系统发育分析

Comparative and Phylogenetic Analysis of Complete Chloroplast Genomes of Five Species.

作者信息

Tang Yujuan, Yang Xiangyan, Luo Shixing, Huang Guodi, Zhang Yu, Zhao Ying, Li Riwang, Guo Limei, Ran Mengyang, Gao Aiping, Huang Jianfeng

机构信息

Guangxi Subtropical Crops Research Institute, Nanning 530001, China.

Guangxi Engineering Research Center of Green and Efficient Development for Mango Industry, Nanning 530001, China.

出版信息

Genes (Basel). 2025 May 30;16(6):666. doi: 10.3390/genes16060666.


DOI:10.3390/genes16060666
PMID:40565558
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12192436/
Abstract

: Mango, which is known as the "King of Tropical Fruits", is an evergreen plant belonging to the Anacardiaceae family. It belongs to the genus , which comprises 69 species of plants found in tropical and subtropical regions, including India, Indonesia, the Malay Peninsula, Thailand, and South China. However, research on the structural information of complete chloroplast genomes of is limited. : The rapid advancement of high-throughput sequencing technology enables the acquisition of the entire chloroplast (cp) genome sequence, providing a molecular foundation for phylogenetic research. This work sequenced the chloroplast genomes of six samples, performed a comparative analysis of the cp genomes, and investigated the evolutionary relationships within the genus. : All six samples showed a single circular molecule with a quadripartite structure, ranging from 157,604 bp to 158,889 bp in length. The number of RNA editing sites ranged from 60 to 61, with ndhB exhibiting the highest number of RNA editing sites across all species. Seven genes-namely, , , , , , , and -exhibited a Ka/Ks value > 1, suggesting they may be under positive selection. Phylogenetic analysis revealed that showed a close relationship between and . : Our comprehensive analysis of the whole cp genomes of the five species offers significant insights regarding their phylogenetic reconstruction. Moreover, it elucidates the evolutionary processes of the cp genome within the genus.

摘要

芒果被誉为“热带水果之王”,是一种属于漆树科的常绿植物。它属于[属名]属,该属包括69种植物,分布于热带和亚热带地区,包括印度、印度尼西亚、马来半岛、泰国和中国南方。然而,关于[属名]完整叶绿体基因组结构信息的研究有限。:高通量测序技术的快速发展使得能够获取整个叶绿体(cp)基因组序列,为系统发育研究提供了分子基础。这项工作对六个[属名]样本的叶绿体基因组进行了测序,对cp基因组进行了比较分析,并研究了[属名]属内的进化关系。:所有六个[属名]样本均显示出具有四分体结构的单环分子,长度在157,604 bp至158,889 bp之间。RNA编辑位点的数量在60到61之间,其中ndhB在所有物种中表现出最高的RNA编辑位点数量。七个基因,即[基因名1]、[基因名2]、[基因名3]、[基因名4]、[基因名5]、[基因名6]和[基因名7],其Ka/Ks值>1,表明它们可能处于正选择之下。系统发育分析表明,[属名]在[某两个物种名]和[某两个物种名]之间显示出密切关系。:我们对五个[属名]物种的整个cp基因组的综合分析为它们的系统发育重建提供了重要见解。此外,它阐明了[属名]属内cp基因组的进化过程。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/826114b59d2a/genes-16-00666-g009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/aef5bb2e5762/genes-16-00666-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/fc5eaaa93561/genes-16-00666-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/4f8caa18b4d5/genes-16-00666-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/b9063b2d4d7f/genes-16-00666-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/dd6044b2645e/genes-16-00666-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/c4436294cec3/genes-16-00666-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/d768f2a1ac47/genes-16-00666-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/37bdc421f467/genes-16-00666-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/826114b59d2a/genes-16-00666-g009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/aef5bb2e5762/genes-16-00666-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/fc5eaaa93561/genes-16-00666-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/4f8caa18b4d5/genes-16-00666-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/b9063b2d4d7f/genes-16-00666-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/dd6044b2645e/genes-16-00666-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/c4436294cec3/genes-16-00666-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/d768f2a1ac47/genes-16-00666-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/37bdc421f467/genes-16-00666-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab1/12192436/826114b59d2a/genes-16-00666-g009.jpg

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引用本文的文献

[1]
Comparative Genomics and Phylogenetics of Chloroplasts Reveal Lower Rates of Genetic Variation in Mango ().

Ecol Evol. 2025-8-8

本文引用的文献

[1]
Comparative Analysis of Complete Chloroplast Genomes and Phylogenetic Relationships in Medicinally Important Pantropical Genus s.s. (Leguminosae) from Southern Africa and Eastern Asia.

Int J Mol Sci. 2025-1-5

[2]
Complete Chloroplast Genomes and Phylogenetic Relationships of and (Nyctaginaceae).

Int J Mol Sci. 2023-8-22

[3]
Sequencing and Analysis of Complete Chloroplast Genomes Provide Insight into the Evolution and Phylogeny of Chinese Kale ( var. ).

Int J Mol Sci. 2023-6-17

[4]
A Comparative Analysis of the Chloroplast Genomes of Three Medicinal Plants.

Genes (Basel). 2023-2-22

[5]
Rieske FeS overexpression in tobacco provides increased abundance and activity of cytochrome b f.

Physiol Plant. 2022-11

[6]
Comparative Analysis of Complete Chloroplast Genomes of Nine Species of (Lauraceae): Hypervariable Regions, Positive Selection, and Phylogenetic Relationships.

Genes (Basel). 2022-8-28

[7]
Comparative Analysis of Chloroplast Genome and New Insights Into Phylogenetic Relationships of and Tribe Polygonateae.

Front Plant Sci. 2022-6-24

[8]
Comparative Analysis of the Chloroplast Genome for Species: Genome Structure and Phylogenetic Relationships.

Front Genet. 2022-5-31

[9]
Comparative Analysis the Complete Chloroplast Genomes of Nine Species: Genomic Features, Comparative Analysis, and Phylogenetic Implications.

Front Plant Sci. 2022-2-10

[10]
Comparative Analyses of Chloroplast Genomes: Genetic Structure, Screening for Loci With Suitable Polymorphism, Positive Selection Genes, and Phylogenetic Relationships Within Celastrineae.

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