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百合科(Liliaceae)某植物的完整质体基因组序列

The complete plastome sequence of (Liliaceae).

作者信息

Kim Hyoung Tae, Lim Ki-Byung

机构信息

Department of Horticulture, Kyungpook National University, Daegu, Republic of Korea.

Institute of Agricultural Science and Technology, Kyungpook National University, Daegu, Republic of Korea.

出版信息

Mitochondrial DNA B Resour. 2017 Dec 20;3(1):30-31. doi: 10.1080/23802359.2017.1419090.

DOI:10.1080/23802359.2017.1419090
PMID:33474055
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7800588/
Abstract

The flower shape of L. is different from that of the other European lilies. The phylogenetic position of the plant has been changed frequently. In the present study, we have sequenced the complete plastome of . The plastome sequence was 152,686 bp long, with a large single copy (LSC) region of 82,083 bp, a small single copy (SSC) region of 17,619 bp, and two inverted repeat (IR) regions of 26,492 bp each. It contained 133 genes, including 83 coding genes, 8 ribosomal RNAs, 38 transfer RNAs, and 4 pseudogenes. The GC contents of LSC, SSC, and IT were 34.8%, 30.7%, and 42.5%, respectively, corresponding to 37.0% of the total GC content. The phylogenetic position of was closely related to the north-eastern lilies.

摘要

L.的花形与其他欧洲百合不同。该植物的系统发育位置频繁变化。在本研究中,我们对L.的完整叶绿体基因组进行了测序。叶绿体基因组序列长152,686 bp,有一个82,083 bp的大单拷贝(LSC)区域、一个17,619 bp的小单拷贝(SSC)区域和两个各为26,492 bp的反向重复(IR)区域。它包含133个基因,包括83个编码基因、8个核糖体RNA、38个转运RNA和4个假基因。LSC、SSC和IR的GC含量分别为34.8%、30.7%和42.5%,占总GC含量的37.0%。L.的系统发育位置与东北百合密切相关。

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本文引用的文献

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Seven New Complete Plastome Sequences Reveal Rampant Independent Loss of the ndh Gene Family across Orchids and Associated Instability of the Inverted Repeat/Small Single-Copy Region Boundaries.七个新的完整质体基因组序列揭示了兰花中ndh基因家族的大量独立丢失以及反向重复/小单拷贝区域边界的相关不稳定性。
PLoS One. 2015 Nov 11;10(11):e0142215. doi: 10.1371/journal.pone.0142215. eCollection 2015.
2
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies.RAxML 版本 8:用于系统发育分析和大型系统发育后分析的工具。
Bioinformatics. 2014 May 1;30(9):1312-3. doi: 10.1093/bioinformatics/btu033. Epub 2014 Jan 21.
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Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data.
Geneious Basic:一个集成和可扩展的桌面软件平台,用于组织和分析序列数据。
Bioinformatics. 2012 Jun 15;28(12):1647-9. doi: 10.1093/bioinformatics/bts199. Epub 2012 Apr 27.
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MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform.MAFFT:一种基于快速傅里叶变换的快速多序列比对新方法。
Nucleic Acids Res. 2002 Jul 15;30(14):3059-66. doi: 10.1093/nar/gkf436.