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(松科)的完整叶绿体基因组序列及其系统发育意义。

The complete chloroplast genome sequence of (Pinaceae) and its phylogenetic implications.

作者信息

Lv Shiqi, Chen Jiao, Li Bingbing, Fu Taotao, Song Mingliang, Zhang Pengtao, Liu Kang, Kou Yixuan, Wang Jing

机构信息

College of Life Sciences and Engineering, Henan University of Urban Construction, Pingdingshan, China.

Xifeng Experimental Station on Soil and Water Conservation of Yellow River Conservancy Commission, Qingyang, China.

出版信息

Mitochondrial DNA B Resour. 2024 Jan 26;9(1):182-185. doi: 10.1080/23802359.2024.2305710. eCollection 2024.

DOI:10.1080/23802359.2024.2305710
PMID:38288249
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10823889/
Abstract

is a critically endangered conifer and occurs only in central Bhutan, northwestern Yunnan and southeastern Xizang in China. In this study, the complete chloroplast genome of was first assembled based on next-generation sequencing. The genome sequence was 116,919 bp in length with an overall GC content of 38.75%. A total of 106 functional genes were detected in the genome, including 72 protein-coding genes (PCGs), 30 transfer RNA (tRNA) genes, and four ribosomal RNA (rRNA) genes. The phylogenetic tree reconstructed by 12 chloroplast genomes revealed that is most closely related to in subsection of .

摘要

是一种极度濒危的针叶树,仅分布于不丹中部、中国云南西北部和西藏东南部。在本研究中,首次基于二代测序组装了该物种的完整叶绿体基因组。基因组序列长度为116,919 bp,总体GC含量为38.75%。在基因组中总共检测到106个功能基因,包括72个蛋白质编码基因(PCG)、30个转运RNA(tRNA)基因和4个核糖体RNA(rRNA)基因。由12个叶绿体基因组重建的系统发育树表明,该物种与[属名] [亚组名]中的[物种名]关系最为密切。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/66c6/10823889/f516024739b3/TMDN_A_2305710_F0003_C.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/66c6/10823889/33e40237b5c4/TMDN_A_2305710_F0001_C.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/66c6/10823889/c2bff7b3607c/TMDN_A_2305710_F0002_C.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/66c6/10823889/f516024739b3/TMDN_A_2305710_F0003_C.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/66c6/10823889/33e40237b5c4/TMDN_A_2305710_F0001_C.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/66c6/10823889/c2bff7b3607c/TMDN_A_2305710_F0002_C.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/66c6/10823889/f516024739b3/TMDN_A_2305710_F0003_C.jpg

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本文引用的文献

1
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Mol Ecol Resour. 2023 Apr;23(3):694-704. doi: 10.1111/1755-0998.13729. Epub 2023 Jan 1.
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Phylotranscriptomics reveals the evolutionary history of subtropical East Asian white pines: further insights into gymnosperm diversification.系统发育转录组学揭示了东亚亚热带白皮松的进化历史:对裸子植物多样化的进一步洞察。
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Characterization of the complete chloroplast genome of (Pinaceae), an endangered and endemic species in China.
中国濒危特有物种**(松科)**的叶绿体全基因组特征分析
Mitochondrial DNA B Resour. 2018 Oct 29;3(2):1195-1197. doi: 10.1080/23802359.2018.1519381.
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The complete chloroplast genome sequence of L. (Pinaceae).
Mitochondrial DNA B Resour. 2019 Nov 22;4(2):4202-4203. doi: 10.1080/23802359.2019.1693297.
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Evolutionary legacy of a forest plantation tree species (): Implications for widespread afforestation.人工林树种的进化遗产():对广泛造林的影响
Evol Appl. 2020 Jul 27;13(10):2646-2662. doi: 10.1111/eva.13064. eCollection 2020 Dec.
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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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Incorporating fossils into the Pinaceae tree of life.将化石纳入松科植物的生命之树。
Am J Bot. 2018 Aug;105(8):1329-1344. doi: 10.1002/ajb2.1139. Epub 2018 Aug 9.
8
NOVOPlasty: de novo assembly of organelle genomes from whole genome data.NOVOPlasty:从头组装细胞器基因组的全基因组数据。
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9
Evolutionary dynamics of the plastid inverted repeat: the effects of expansion, contraction, and loss on substitution rates.质体反向重复序列的进化动力学:扩增、收缩和缺失对替换率的影响。
New Phytol. 2016 Mar;209(4):1747-56. doi: 10.1111/nph.13743. Epub 2015 Nov 17.
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