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中国特有种(松科)的完整叶绿体基因组特征分析

Characterization of the complete chloroplast genome of (Pinaceae), an endemic to China.

作者信息

Zhao Yuemei, Zhou Tao, Chen Xiaodan, Zhang Xiao, Bai Guoqing, Zhao Guifang

机构信息

College of Biopharmaceutical and Food Engineering, Shangluo University, Shangluo, China.

School of Pharmacy, Xi'an Jiaotong University, China Xi'an.

出版信息

Mitochondrial DNA B Resour. 2018 Nov 21;4(1):23-24. doi: 10.1080/23802359.2018.1535851. eCollection 2019.

DOI:10.1080/23802359.2018.1535851
PMID:33365404
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7510650/
Abstract

, an endemic evergreen trees distributed in Qinling Mountains, is listed in China Species Red List as an endangered species. In this study, the complete chloroplast genome (cpDNA) sequence of was determined from Illumina pair-end sequencing data. The cpDNA is 121,329 bp in length, contains a large single copy region (LSC) of 72,843 bp and a small single copy region (SSC) of 46,126 bp, which were separated by a pair of inverted repeat (IR) regions of 1180 bp. The genome contains 120 genes, including 81 protein-coding genes, 4 ribosomal RNA genes, and 35 transfer RNA genes. The overall GC content of the whole genome is 38.3%, and the corresponding values of the LSC, SSC, and IR regions are 38.8, 37.1, and 37.5%, respectively. Phylogenetic analysis based on 20 chloroplast genomes indicates that is closely related to .

摘要

[某种植物名称]是一种分布于秦岭的地方性常绿乔木,被列入《中国物种红色名录》中的濒危物种。在本研究中,通过Illumina双端测序数据确定了[该植物名称]的完整叶绿体基因组(cpDNA)序列。该cpDNA长度为121,329 bp,包含一个72,843 bp的大单拷贝区域(LSC)和一个46,126 bp的小单拷贝区域(SSC),它们被一对1180 bp的反向重复(IR)区域隔开。该基因组包含120个基因,包括81个蛋白质编码基因、4个核糖体RNA基因和35个转运RNA基因。全基因组的总体GC含量为38.3%,LSC、SSC和IR区域的相应值分别为38.8%、37.1%和37.5%。基于20个叶绿体基因组的系统发育分析表明,[该植物名称]与[另一植物名称]密切相关。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9650/7510650/42f5bae260fd/TMDN_A_1535851_F0001_B.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9650/7510650/42f5bae260fd/TMDN_A_1535851_F0001_B.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9650/7510650/42f5bae260fd/TMDN_A_1535851_F0001_B.jpg

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本文引用的文献

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MEGA6: Molecular Evolutionary Genetics Analysis version 6.0.MEGA6:分子进化遗传学分析版本 6.0。
Mol Biol Evol. 2013 Dec;30(12):2725-9. doi: 10.1093/molbev/mst197. Epub 2013 Oct 16.
2
Reconstructing mitochondrial genomes directly from genomic next-generation sequencing reads--a baiting and iterative mapping approach.直接从基因组下一代测序读段重建线粒体基因组——一种诱饵和迭代映射方法。
Nucleic Acids Res. 2013 Jul;41(13):e129. doi: 10.1093/nar/gkt371. Epub 2013 May 9.
3
OrganellarGenomeDRAW--a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets.
细胞器基因组绘图软件--一套用于生成质体和线粒体基因组物理图谱以及可视化表达数据集的工具。
Nucleic Acids Res. 2013 Jul;41(Web Server issue):W575-81. doi: 10.1093/nar/gkt289. Epub 2013 Apr 22.