利用 RNA-seq 数据鉴定和分析卵巢浆液性囊腺瘤中的 RNA 编辑事件。

Identification and Analysis of RNA Editing Events in Ovarian Serous Cystadenoma Using RNA-seq Data.

机构信息

Department of Biomedical Engineering, Nanjing University of Aeronautics and Astronautics, Nanjing 211106, China.

出版信息

Curr Gene Ther. 2021;21(3):258-269. doi: 10.2174/1566523221666210211111324.

DOI:10.2174/1566523221666210211111324

PMID:33573552

Abstract

BACKGROUND

Recent studies have revealed thousands of A-to-I RNA editing events in primates. These events are closely related to the occurrence and development of multiple cancers, but the origination and general functions of these events in ovarian cancer remain incompletely understood.

OBJECTIVE

To further the determination of molecular mechanisms of ovarian cancer from the perspective of RNA editing.

METHODS

Here, we used the SNP-free RNA editing Identification Toolkit (SPRINT) to detect RNA editing sites. These editing sites were then annotated, and related functional analysis was performed.

RESULTS

In this study, about 1.7 million RES were detected in each sample, and 98% of these sites were due to A-to-G editing and were mainly distributed in non-coding regions. More than 1,000 A-- to-G RES were detected in CDS regions, and nearly 700 could lead to amino acid changes. Our results also showed that editing in the 3'UTR regions could influence miRNA-target binding. We predicted the network of changed miRNA-mRNA interaction caused by the A-to-I RNA editing sites. We also screened the differential RNA editing sites between ovarian cancer and adjacent normal tissues. We then performed GO and KEGG pathway enrichment analysis on the genes that contained these differential RNA editing sites. Finally, we identified the potential dysregulated RNA editing events in ovarian cancer samples.

CONCLUSION

This study systematically identified and analyzed RNA editing events in ovarian cancer and laid a foundation to explore the regulatory mechanism of RNA editing and its function in ovarian cancer.

摘要

背景

最近的研究揭示了灵长类动物中数千个 A-to-I RNA 编辑事件。这些事件与多种癌症的发生和发展密切相关，但这些事件在卵巢癌中的起源和一般功能仍不完全清楚。

目的

从 RNA 编辑的角度进一步确定卵巢癌的分子机制。

方法

在这里，我们使用无 SNP RNA 编辑识别工具包 (SPRINT) 来检测 RNA 编辑位点。然后对这些编辑位点进行注释，并进行相关的功能分析。

结果

在本研究中，每个样本中检测到约 170 万个 RES，其中 98%的位点是由于 A-to-G 编辑引起的，主要分布在非编码区域。在 CDS 区域中检测到超过 1000 个 A--to-G RES，其中近 700 个可导致氨基酸变化。我们的结果还表明，3'UTR 区域的编辑可以影响 miRNA 靶标结合。我们预测了由 A-to-I RNA 编辑位点引起的改变 miRNA-mRNA 相互作用的网络。我们还筛选了卵巢癌和相邻正常组织之间的差异 RNA 编辑位点。然后，我们对包含这些差异 RNA 编辑位点的基因进行了 GO 和 KEGG 通路富集分析。最后，我们确定了卵巢癌样本中潜在的失调 RNA 编辑事件。