Identifying mRNA editing deaminase targets by RNA-Seq.
Identifying mRNA editing deaminase targets by RNA-Seq.
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通过 RNA-Seq 识别 mRNA 编辑脱氨酶靶标。
DOI：
10.1007/978-1-61779-018-8_6
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发表时间：
2011
期刊：
影响因子：
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通讯作者：
Papavasiliou,FNina
中科院分区：
文献类型：
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作者：
Rosenberg,BradR;Dewell,Scott;Papavasiliou,FNina
RNA编辑脱氨酶作用于不同生物体中的多种靶标。许多这样的酶已被证明作用于mRNA，所产生的核苷酸变化修改转录本的信息内容。虽然mRNA编辑酶的脱氨酶活性很容易在体外证明，但鉴定其生理靶点已被证明具有挑战性。超高通量测序技术的最新进展已经允许全转录组测序和表达谱分析（RNA-Seq）。我们已经开发了一个系统，以确定新的mRNA编辑脱氨基靶点的基础上RNA-Seq数据的比较分析。这种方法的有效性和实用性已在APOBEC 1中得到证实，APOBEC 1是一种在哺乳动物小肠中具有已知且充分表征的mRNA编辑靶点的胞苷脱氨酶。
RNA editing deaminases act on a variety of targets in different organisms. A number of such enzymes have been shown to act on mRNA, with the resultant nucleotide changes modifying a transcript’s information content. Though the deaminase activity of mRNA editing enzymes is readily demonstratedin vitro, identifying their physiological targets has proved challenging. Recent advances in ultra high-throughput sequencing technologies have allowed for whole transcriptome sequencing and expression profiling (RNA-Seq). We have developed a system to identify novel mRNA editing deamination targets based on comparative analysis of RNA-Seq data. The efficacy and utility of this approach is demonstrated for APOBEC1, a cytidine deaminase with a known and well-characterized mRNA editing target in the mammalian small intestine.