摘要
目的探索SOX13基因来源的环状RNA hsairc004777的特征分析及功能预测。方法探究了hsairc004777的基本特征, 包括验证反向剪接位点, RNase R消化实验, 细胞内RNA的胞质胞核分布, 蛋白翻译潜能的预测。此外, 使用生物信息学方法, 预测hsairc004777结合的微小RNA(microRNA, miRNA)以及miRNA的靶基因, 并且构建了circRNA-miRNA-mRNA的网络图。再对预测到的miRNA的靶基因进行基因本体论(gene ontology, GO)功能富集分析和信号通路富集分析。结果 hsairc004777的形成是由SOX13基因第4号外显子反向剪接至第2号外显子, hsairc004777能抵抗RNase R处理, 主要分布在细胞质。生信预测hsairc004777通过作为hsa-miR-1225-3p、hsa-miR-637、hsa-miR-139-5p、hsa-miR-145-5p、hsa-miR-384、hsa-miR-660-5p、hsa-miR-942-5p、hsa-miR-331-3p这8个miRNA的海绵来发挥作用;hsairc004777潜在结合的8个miRNA的靶基因在对聚合酶Ⅱ启动子转录的正调控、DNA模板、骨骼肌细胞分化等生物过程显著富集。结论成功探索了SOX13基因来源的环状RNA hsairc004777的特征, 并且从circRNA-miRNA-mRNA网络图中预测了它的功能, 为进一步研究hsairc004777奠定了基础, 也为更深入研究SOX13提供了思路。
Objective To explore the characteristics and predict the function of the circular RNA hsa_circ_0004777 derived from SOX13.Methods The basic features of hsa_circ_0004777 were explored in terms of back-splicing sites verification,RNase R digestion,cytoplasmic and nuclear distribution of the intracellular RNA,and prediction of protein translational potential.In addition,bioinformatics approach was used to predict the microRNAs(miRNAs)that hsa_circ_0004777 binds to and the miRNA targets;a circRNA-miRNA-mRNA network was subsequently mapped.Gene ontology(GO)function enrichment and signaling pathway enrichment analyses were performed on the predicted target genes of miRNA.Results Hsa_circ_0004777 was formed by back-splicing from exon 4 to exon 2 of SOX13 gene,resistant to RNase R digestion,and was mainly localized in the cytoplasm.Bioinformatics prediction demonstrated that hsa_circ_0004777 functions as a sponge to eight miRNAs(hsa-miR-1225-3p,hsa-miR-637,hsa-miR-139-5p,hsa-miR-145-5p,hsa-miR-384,hsa-miR-660-5p,hsa-miR-942-5p,and hsa-miR-331-3p).The target genes of these eight miRNAs potentially bound by hsa_circ_0004777 were found to be significantly enriched in biological processes such as positive regulation of transcription from polymerase II promoter,DNA-templated,and skeletal muscle cell differentiation.Conclusion The SOX13-derived circular RNA hsa_circ_0004777 was successfully characterized,and its function was predicted based on the circRNA-miRNA-mRNA network map.These findings would back up further studies on hsa_circ_0004777 and offer insights into SOX13.
作者
肖瑶
姚文霞
周新科
潘劲辉
林铭珍
李本
黄伟
梁敏
Xiao Yao;Yao Wenxia;Zhou Xinke;Pan Jinhui;Lin Mingzhen;Li Ben;Huang Wei;Liang Min(Department of Oncology,Fifth Affiliated Hospital of Guangzhou Medical University,Guangzhou 510700,China)
出处
《中华生物医学工程杂志》
CAS
2022年第3期269-276,共8页
Chinese Journal of Biomedical Engineering
基金
广东省基础与应用基础研究基金,区域联合基金青年项目(2021A1515110976)
广东省医学科学技术研究基金面上项目(A2021430)
广州市科技计划项目(202102020088)
广州市卫生健康科技重大项目(2021A031005)。
