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(竹亚科)的完整叶绿体基因组序列

Complete chloroplast genome sequence of (Bambuseae).

作者信息

Zheng Ying, Hou Dan, Zhuo Juan, Zheng Renhong, Wang Yong, Li Benxiang, Yu Xuejun, Lin Xinchun

机构信息

State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou, Zhejiang, P. R. China.

Yibin Forestry and Bamboo Industry Research Institute, Yibin, Sichuan, P. R. China.

出版信息

Mitochondrial DNA B Resour. 2020 Jul 23;5(3):2972-2973. doi: 10.1080/23802359.2020.1793699.

DOI:10.1080/23802359.2020.1793699
PMID:33458020
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7781895/
Abstract

is a tropical woody bamboo widely distributed in Sichuan and southeastern of China with important economic and ecological values. We performed a complete chloroplast (cp) genome of . using Illumina NovaSeq PE150 platform. The length of complete cp sequence is 139,500 bp in size with a pair of inverted repeat (IR) regions of 43,587 bp, which separates a large single-copy (LSC) region of 83,036 bp and a small single-copy (SSC) region of 12,875 bp. Plastid genome contains 132 genes, including 84 protein-coding genes, 40 tRNA genes, and 8 rRNA genes. Phylogenetic analysis based on 30 cp genomes indicates that is closely related to in Bambuseae.

摘要

是一种热带木本竹子,广泛分布于中国四川和东南部,具有重要的经济和生态价值。我们使用Illumina NovaSeq PE150平台对其进行了完整的叶绿体(cp)基因组测序。完整的cp序列长度为139,500 bp,有一对43,587 bp的反向重复(IR)区域,将83,036 bp的大单拷贝(LSC)区域和12,875 bp的小单拷贝(SSC)区域分开。质体基因组包含132个基因,包括84个蛋白质编码基因、40个tRNA基因和8个rRNA基因。基于30个cp基因组的系统发育分析表明,它与竹亚科中的 密切相关。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1421/7781895/7e96a4870808/TMDN_A_1793699_F0001_C.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1421/7781895/7e96a4870808/TMDN_A_1793699_F0001_C.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1421/7781895/7e96a4870808/TMDN_A_1793699_F0001_C.jpg

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本文引用的文献

1
PGA: a software package for rapid, accurate, and flexible batch annotation of plastomes.PGA:一个用于叶绿体基因组快速、准确且灵活批量注释的软件包。
Plant Methods. 2019 May 21;15:50. doi: 10.1186/s13007-019-0435-7. eCollection 2019.
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RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference.RAxML-NG:用于最大似然系统发育推断的快速、可扩展和用户友好的工具。
Bioinformatics. 2019 Nov 1;35(21):4453-4455. doi: 10.1093/bioinformatics/btz305.
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Reconstructing mitochondrial genomes directly from genomic next-generation sequencing reads--a baiting and iterative mapping approach.
完整的叶绿体基因组特征 及其与其他竹亚科物种的比较和进化分析。
Genes (Basel). 2022 Aug 24;13(9):1519. doi: 10.3390/genes13091519.
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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