Selection of RNA aptamers that bind HIV-1 LTR DNA duplexes: strand invaders.
Selection of RNA aptamers that bind HIV-1 LTR DNA duplexes: strand invaders.
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DOI：
10.1093/nar/gkq696
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发表时间：
2010-12
影响因子：
14.9
通讯作者：
Engelke DR
中科院分区：
文献类型：
--
作者：
Srisawat C;Engelke DR
能够与双链DNA特异性结合的RNA是令人感兴趣的，因为它可能被用作调节靶基因转录的手段。为了探索RNA和双链体DNA之间可能的相互作用，我们选择了可以与人类免疫缺陷病毒1型DNA的长末端重复序列（LTR）结合的RNA适体。基于共有序列，将所选适体分为四个主要组，发现其位于预测的RNA二级结构的非茎区域，与靶结合中的作用一致。对适体共有序列的分析表明，保守片段可以通过沃森-克里克碱基配对与DNA的一条链中的优选序列形成双链体，假设适体侵入双链体。实验确定LTR上的适体结合位点优先位于双链靶DNA末端附近的这些位点，尽管选择方案被设计为最小化对末端的偏好。这里呈现的结果表明，可以在体外选择适体RNA，其在优选的DNA双链体序列处链侵入以形成稳定的复合物。
RNA that can specifically bind to double-stranded DNA is of interest because it might be used as a means to regulate transcription of the target genes. To explore possible interactions between RNA and duplex DNA, we selected for RNA aptamers that can bind to the long terminal repeats (LTRs) of human immunodeficiency virus type 1 DNA. The selected aptamers were classified into four major groups based on the consensus sequences, which were found to locate in the non-stem regions of the predicted RNA secondary structures, consistent with roles in target binding. Analysis of the aptamer consensus sequences suggested that the conserved segments could form duplexes via Watson–Crick base-pairing with preferred sequences in one strand of the DNA, assuming the aptamer invaded the duplex. The aptamer binding sites on the LTR were experimentally determined to be located preferentially at these sites near the termini of double-stranded target DNA, despite selection schemes that were designed to minimize preferences for termini. The results presented here show that aptamer RNAs can be selected in vitro that strand-invade at preferred DNA duplex sequences to form stable complexes.
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影响因子：
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