The code within the code: microRNAs target coding regions.
The code within the code: microRNAs target coding regions.
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DOI：
10.4161/cc.9.8.11202
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发表时间：
2010-04-15
期刊：
影响因子：
--
通讯作者：
Coller HA
中科院分区：
文献类型：
--
作者：
Forman JJ;Coller HA
蛋白质的编码序列必须包含规范氨基酸序列所需的信息。然而，遗传密码的冗余性也为在编码区域内嵌入其他类型的信息创造了潜力。在基于进化保守的编码区功能基序的全基因组计算筛选中，高度保守的基序包括一些预期的基序，一些新的基序和已知microrna的编码区靶点，通常被认为是针对3 '非翻译区（utr） （www.SiteSifter.org）。我们在此报告了对已发表的蛋白质组学实验的分析，该实验进一步支持编码区microRNA结合位点的功能作用，尽管其作用弱于3 ' UTR中的位点。我们还证明了在编码区域的末端以及3 ' UTR的开始和结束的位置偏差具有更大的保守性。转录本3 ‘端microRNA结合位点的有效性增加可能反映了与poly(A)尾部的接近性或与5 ’端7mGpppN“帽”的相互作用，一旦信息循环，它在物理上与该区域相邻。3 ' UTR位点的有效性可能反映了RNA结合蛋白的协同作用。最后，终止密码子附近增加的microRNA保守性提示我们可能参与了执行无义介导的衰变的蛋白质，因为这一过程是通过标记终止密码子来激活的，这些终止密码子带有诱导转录物降解的因子。
The coding sequence of a protein must contain the information required for the canonical amino acid sequence. However, the redundancy of the genetic code creates potential for embedding other types of information within coding regions as well. In a genome-wide computational screen for functional motifs within coding regions based on evolutionary conservation, highly conserved motifs included some expected motifs, some novel motifs and coding region target sites for known microRNAs, which are generally presumed to target 3’ untranslated regions (UTRs) (www.SiteSifter.org). We report here an analysis of published proteomics experiments that further support a functional role for coding region microRNA binding sites, though the effects are weaker than for sites in the 3’ UTR. We also demonstrate a positional bias with greater conservation for sites at the end of the coding region, and the beginning and end of the 3’ UTR. An increased effectiveness of microRNA binding sites at the 3’ end of transcripts could reflect proximity to the poly(A) tail or interactions with the 5’ terminal 7mGpppN “cap”, which is physically adjacent to this region once the message is circularized. The effectiveness of 3’ UTR sites could reflect a cooperative role for RNA binding proteins. Finally, increased microRNA conservation near the stop codon suggests to us the possible involvement of proteins that execute nonsense-mediated decay, since this process is activated by tagging of termination codons with factors that induce transcript degradation.
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影响因子：
64.8
作者：
Baek, Daehyun;Villen, Judit;Shin, Chanseok;Camargo, Fernando D.;Gygi, Steven P.;Bartel, David P.
通讯作者：
Bartel, David P.
DOI：
10.1083/jcb.200611086
发表时间：
2007-09-24
期刊：
The Journal of cell biology
影响因子：
--
作者：
Durand S;Cougot N;Mahuteau-Betzer F;Nguyen CH;Grierson DS;Bertrand E;Tazi J;Lejeune F
通讯作者：
Lejeune F
影响因子：
11.4
作者：
Ding, Xavier C.;Grosshans, Helge
通讯作者：
Grosshans, Helge
影响因子：
64.5
作者：
Eulalio, Ana;Huntzinger, Eric;Izaurralde, Elisa
通讯作者：
Izaurralde, Elisa
影响因子：
7.5
作者：
Chekulaeva, Marina;Filipowicz, Witold
通讯作者：
Filipowicz, Witold