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兰科植物叶绿体全基因组特征分析

Characterization of the complete chloroplast genome of orchid family species (Orchidaceae).

作者信息

Hu Guojia, Zhou Huijuan, Zhang Shuonxin, Zhao Peng

机构信息

Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, College of Life Sciences, Northwest University, Xi'an, China.

College of Forestry, Northwest A&F University, Yangling, China.

出版信息

Mitochondrial DNA B Resour. 2019 Dec 18;5(1):323-324. doi: 10.1080/23802359.2019.1703591.

DOI:10.1080/23802359.2019.1703591
PMID:33366539
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7748745/
Abstract

belongs to Orchid family (Orchidaceae), it has high ornamental and traditional medicinal value. The complete chloroplast genome of was sequenced using the Illumina Hiseq platform. The size of the chloroplast genome is 156,528 bp, with an average GC content of 36.8%. This chloroplast genome has containing a large single copy (LSC) region of 85,907 bp, a small single copy (SSC) region of 17,215 bp, and two inverted (IRa and IRb) repeat regions of two 26,703 bp. A total of 124 genes were annotated, including 78 protein-coding genes, 38 tRNA genes, and 8 rRNA genes. A maximum likelihood phylogenetic tree indicated that is closely related to in the genus based on 16 whole chloroplast genome sequences.

摘要

属于兰科(兰科),具有很高的观赏和传统药用价值。使用Illumina Hiseq平台对其完整叶绿体基因组进行了测序。该叶绿体基因组大小为156,528 bp,平均GC含量为36.8%。该叶绿体基因组包含一个85,907 bp的大单拷贝(LSC)区域、一个17,215 bp的小单拷贝(SSC)区域以及两个26,703 bp的反向(IRa和IRb)重复区域。总共注释了124个基因,包括78个蛋白质编码基因、38个tRNA基因和8个rRNA基因。基于16个完整叶绿体基因组序列构建的最大似然系统发育树表明,该物种与某属中的另一物种密切相关。 (注:原文中部分物种名缺失,已按格式完整翻译)

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b528/7748745/0ec42c46e8dc/TMDN_A_1703591_F0001_B.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b528/7748745/0ec42c46e8dc/TMDN_A_1703591_F0001_B.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b528/7748745/0ec42c46e8dc/TMDN_A_1703591_F0001_B.jpg

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本文引用的文献

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Mitochondrial DNA B Resour. 2019 Jul 11;4(2):2236-2237. doi: 10.1080/23802359.2019.1624637.
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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.
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RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models.RAxML-VI-HPC:基于最大似然法的系统发育分析,适用于数千个分类单元及混合模型。
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