Identification of RNA editing sites in cotton (Gossypium hirsutum) chloroplasts and editing events that affect secondary and three-dimensional protein structures
Identification of RNA editing sites in cotton (Gossypium hirsutum) chloroplasts and editing events that affect secondary and three-dimensional protein structures
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DOI：
10.4238/2012.april.19.4
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发表时间：
2012-01-01
影响因子：
0.4
通讯作者：
Yu, S. X.
中科院分区：
文献类型：
--
作者：
Jiang, Y.;Fan, S. L.;Yu, S. X.
RNA编辑可以改变初级转录物中的单个核苷酸，这可能导致编辑的RNA编码的氨基酸偏离DNA模板预测的氨基酸。我们研究了棉花叶绿体基因组中蛋白质编码基因的RNA编辑位点。在27个转录本中发现了54个编辑位点，这是迄今为止被子植物中发现的最高编辑频率。所有的编辑位点都是C → U转换，偏向于ndh基因和U_A背景。通过对各种被子植物中已发表的编辑型的研究，我们发现RNA编辑主要是将氨基酸从亲水性转变为疏水性，并恢复进化上保守的氨基酸。利用生物信息学分析编辑事件对蛋白质二级和三维结构的影响，发现21个编辑位点可以影响蛋白质二级结构，7个编辑位点可以改变蛋白质三维结构。这些结果表明，棉花叶绿体转录本中的24个编辑位点可能在其蛋白质结构和功能中起重要作用。
RNA editing can alter individual nucleotides in primary transcripts, which can cause the amino acids encoded by edited RNA to deviate from the ones predicted from the DNA template. We investigated RNA editing sites of protein-coding genes from the chloroplast genome of cotton. Fifty-four editing sites were identified in 27 transcripts, which is the highest editing frequency found until now in angiosperms. All these editing sites were C-to-U conversion, biased toward ndh genes and U_A context. Examining published editotypes in various angiosperms, we found that RNA editing mostly converts amino acid from hydrophilic to hydrophobic and restores evolutionary conserved amino acids. Using bioinformatics to analyze the effect of editing events on protein secondary and three-dimensional structures, we found that 21 editing sites can affect protein secondary structures and seven editing sites can alter three-dimensional protein structures. These results imply that 24 editing sites in cotton chloroplast transcripts may play an important role in their protein structures and functions.