Structural diversity of eukaryotic 18S rRNA and its impact on alignment and phylogenetic reconstruction
Structural diversity of eukaryotic 18S rRNA and its impact on alignment and phylogenetic reconstruction
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真核18S rRNA的结构多样性及其对比对和系统发育重建的影响
DOI：
10.1007/s13238-011-1017-2
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发表时间：
2011-02
期刊：
影响因子：
--
通讯作者：
Wenjun Bu
中科院分区：
文献类型：
--
作者：
Qiang Xie;Jinzhong Lin;Yan Qin;Jianfu Zhou;Wenjun Bu
核糖体 RNA 很重要，因为它们催化肽和蛋白质的合成。 18S rRNA二级结构的比较研究揭示了其许多长度保守区和长度可变区的基本位置。近年来，GenBank 中记录了更多长度不寻常的 18S rDNA 序列。这些数据使得认识 18S rRNA 二级和三级结构的多样性以及识别 18S rDNA 的长度保守部分成为可能。这项研究涵盖了几乎所有已知真核生物门的最长 18S rDNA 序列。我们阐释了基于生物信息学的结构，表明长度变异较大的区域、长度变异较小的区域、内含子的剪接位点以及A小相互作用位点大多分布在18S rRNA的不同部分。此外，这项研究表明，一些长度可变区域或插入位置可能非常接近有孔虫生物体18S rRNA的功能部分。 18S rRNA 的三级结构和二级结构可能比以前想象的更加多样化。除了揭示这个有趣的基因如何进化之外，它还可以帮助消除真核生物 18S rDNA 比对中的歧义，并提高 18S rDNA 在系统发育重建中的性能。本文还首次报道了古生菌和真核生物共有但细菌很少共有的六种核苷酸，这可能进一步支持真核生物起源于古生菌的假设。
Ribosomal RNAs are important because they catalyze the synthesis of peptides and proteins. Comparative studies of the secondary structure of 18S rRNA have revealed the basic locations of its many length-conserved and length-variable regions. In recent years, many more sequences of 18S rDNA with unusual lengths have been documented in GenBank. These data make it possible to recognize the diversity of the secondary and tertiary structures of 18S rRNAs and to identify the length-conserved parts of 18S rDNAs. The longest 18S rDNA sequences of almost every known eukaryotic phylum were included in this study. We illustrated the bioinformatics-based structure to show that, the regions that are more length-variable, regions that are less length-variable, the splicing sites for introns, and the sites of A-minor interactions are mostly distributed in different parts of the 18S rRNA. Additionally, this study revealed that some length-variable regions or insertion positions could be quite close to the functional part of the 18S rRNA of Foraminifera organisms. The tertiary structure as well as the secondary structure of 18S rRNA can be more diverse than what was previously supposed. Besides revealing how this interesting gene evolves, it can help to remove ambiguity from the alignment of eukaryotic 18S rDNAs and to improve the performance of 18S rDNA in phylogenetic reconstruction. Six nucleotides shared by Archaea and Eukaryota but rarely by Bacteria are also reported here for the first time, which might further support the supposed origin of eukaryote from archaeans.
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影响因子：
2.5
作者：
S. Polet;C. Berney;J. Fahrni;J. Pawłowski
通讯作者：
S. Polet;C. Berney;J. Fahrni;J. Pawłowski
影响因子：
64.5
作者：
Spahn, CMT;Beckmann, R;Frank, J
通讯作者：
Frank, J
核糖体和翻译
DOI：
10.1007/978-1-4615-7817-8_4
发表时间：
1999
期刊：
The Journal of Biological Chemistry
影响因子：
--
作者：
A. Spirin
通讯作者：
A. Spirin
影响因子：
4.1
作者：
Hudelot, C;Gowri-Shankar, V;Higgs, PG
通讯作者：
Higgs, PG
影响因子：
10.7
作者：
Burki, Fabien;Pawlowski, Jan
通讯作者：
Pawlowski, Jan