IDENTIFYING CONSTRAINTS ON THE HIGHER-ORDER STRUCTURE OF RNA - CONTINUED DEVELOPMENT AND APPLICATION OF COMPARATIVE SEQUENCE-ANALYSIS METHODS
IDENTIFYING CONSTRAINTS ON THE HIGHER-ORDER STRUCTURE OF RNA - CONTINUED DEVELOPMENT AND APPLICATION OF COMPARATIVE SEQUENCE-ANALYSIS METHODS
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DOI：
10.1093/nar/20.21.5785
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发表时间：
1992-11-11
影响因子：
14.9
通讯作者：
STORMO, GD
中科院分区：
文献类型：
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作者：
GUTELL, RR;POWER, A;STORMO, GD
比较序列分析解决了RNA折叠和RNA结构多样性的问题，并负责确定许多RNA分子的折叠，包括5S，16S和23S rRNA，tRNA，RNAse P RNA以及I组和II组内含子。最初，这种方法用于将这些序列折叠成其二级结构。最近，这种方法已经揭示了许多三级相关性，阐明了新的RNA结构基序，其中一些已经通过实验测试和验证，证实了这种方法的普遍应用。尽管比较方法在阐明高级结构方面取得了成功，但很明显，其他结构约束仍有待发现，除了包含额外系统发育多样性和序列数量总体增加的RNA序列数据集外，破译这些约束还需要更敏感和严格的协议。各种RNA数据库，包括tRNA和rRNA序列数据集，在数量和多样性方面继续增长。本文描述了更严格的比较分析方案的开发。我们在不同RNA数据集上的初步开发和应用非常令人鼓舞。对tRNA、16S和23S rRNA的这种分析证实了先前提出的关联，现在开始揭示这些分子的其他限制。其中一个子集涉及几个位置，相互关联，同时，这意味着大于碱基对的单位可以在系统发育约束下。
Comparative sequence analysis addresses the problem of RNA folding and RNA structural diversity, and is responsible for determining the folding of many RNA molecules, including 5S, 16S, and 23S rRNAs, tRNA, RNAse P RNA, and Group I and II introns. Initially this method was utilized to fold these sequences into their secondary structures. More recently, this method has revealed numerous tertiary correlations, elucidating novel RNA structural motifs, several of which have been experimentally tested and verified, substantiating the general application of this approach. As successful as the comparative methods have been in elucidating higher-order structure, it is clear that additional structure constraints remain to be found. Deciphering such constraints requires more sensitive and rigorous protocols, in addition to RNA sequence datasets that contain additional phylogenetic diversity and an overall increase in the number of sequences. Various RNA databases, including the tRNA and rRNA sequence datasets, continue to grow in number as well as diversity. Described herein is the development of more rigorous comparative analysis protocols. Our initial development and applications on different RNA datasets have been very encouraging. Such analyses on tRNA, 16S and 23S rRNA are substantiating previously proposed associations and are now beginning to reveal additional constraints on these molecules. A subset of these involve several positions that correlate simulataneously with one another, implying units larger than a basepair can be under a phylogenetic constraint.