Prediction of miRNA interaction with mRNA of stroke candidate genes
Prediction of miRNA interaction with mRNA of stroke candidate genes
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DOI：
10.1007/s10072-019-04158-x
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发表时间：
2019-11-30
影响因子：
3.3
通讯作者：
Ivashchenko, Anatoliy
中科院分区：
文献类型：
--
作者：
Kondybayeva, Aida;Akimniyazova, Aigul;Ivashchenko, Anatoliy
背景 人们正在积极研究 miRNA 在受中风影响的组织中的作用，但仍不清楚哪些 miRNA 和靶基因参与中风的发展。方法 MirTarget 程序定义了 miRNA 与 mRNA 结合的以下特征：结合起始位点、mRNA 中结合位点的位置、miRNA 与 mRNA 结合的自由能以及 miRNA 和 mRNA 的相互作用方案。结果 确定了 6565 个 miRNA 与中风候选基因 mRNA 的相互作用。中风候选基因的 mRNA 与 miRNA 的关联取决于基因表达水平。一些高表达的候选基因是 miR-619-5p 和 miR-5095 的靶标，它们的结合位点位于重叠的 mRNA 核苷酸序列（簇）上。 miR-619-5p 和 miR-5095 与 15 个基因的 mRNA 结合。 miR-1273f、d、e 结合簇位于高表达基因的 mRNA 中。所有簇中 miR-1273d 和 miR-1273e 结合的起始位点分别位于具有 1 个和 10 个核苷酸的序列中。多个miR-574-5p和ID00470.5p-miR结合位点簇以及miR-466、ID01030.3p-miR和ID00436.3p-miR结合位点簇存在于一些低水平表达的基因的mRNA中。结论 将 miRNA 结合位点组织成簇会减少 mRNA 的长度，并在 miRNA 之间产生与靶基因 mRNA 结合的竞争。 miRNA 与靶基因关联的特征可用于推荐中风诊断的标记物。
Background The role of miRNA in tissue affected by stroke is actively studied, but it remains unclear which miRNAs and target genes are involved in the development of stroke. Methods The MirTarget program defines the following features of a miRNA binding to a mRNA: the binding start site, the location of the binding site in mRNA, the free energy of a miRNA binding with a mRNA, and the interaction schemes of miRNA and mRNA. Results The interaction of 6565 miRNAs with mRNAs of stroke candidate genes was determined. The association of the mRNAs of stroke candidate genes with miRNAs depends on the level of gene expression. Some highly expressed candidate genes are targets of miR-619-5p and miR-5095, which have binding sites located on overlapping mRNA nucleotide sequences (clusters). miR-619-5p and miR-5095 bind to mRNA of 15 genes. Clusters for the binding of miR-1273f,d,e are in mRNAs of highly expressed genes. The start sites of miR-1273d and miR-1273e binding in all clusters are in sequences with one and ten nucleotides, respectively. The clusters of multiple miR-574-5p and ID00470.5p-miR binding sites and the clusters of the miR-466, ID01030.3p-miR, and ID00436.3p-miR binding sites are in mRNAs of some genes expressed at low levels. Conclusion The organization of miRNA binding sites into clusters reduces the length of mRNA and creates competition between miRNAs for binding to mRNA of a target gene. The characteristics of miRNA associations with target genes can be used to recommend markers for a diagnosis of stroke.