bta-miR-34b/c和bta-miR-449a/b/c靶基因预测及生物信息学分析

doi:10.16431/j.cnki.1671-7236.2022.07.003

摘要/Abstract

摘要： 【目的】试验旨在对bta-miR-34b/c和bta-miR-449a/b/c的序列保守性、转录因子和靶基因进行生物信息学预测和分析，探究其影响精子发生的作用机制，为研究其生物学功能及作用机制提供指导和思路。【方法】利用miRBase数据库获取不同物种的bta-miR-34b/c和bta-miR-449a/b/c序列并进行相似性分析；通过TargetScan、miRWalk、miRDB等方法预测bta-miR-34b/c和bta-miR-449a/b/c的靶基因，对获得的靶基因集合分别进行GO功能和KEGG通路富集分析；通过AnimalTFDB获取共同调控bta-miR-34b/c和bta-miR-449a/b/c的转录因子，并构建TF-miRNA-mRNA作用网络。【结果】bta-miR-34b/c和bta-miR-449a/b/c在不同物种间高度保守。预测得到2个转录因子和49个候选靶基因，这些靶基因主要富集在精子发生、钙离子依赖性胞吐的调节、胰岛素分泌的调节等GO条目，以及HIF-1信号通路、甲状腺激素信号通路、Wnt信号通路等KEGG通路。bta-miR-34b/c、bta-miR-449a/b/c与上游转录因子NR2C2和HIC1，下游靶基因AXL、E2F3、DAAM1等共同构成的作用网络通过调控减数分裂、细胞周期、细胞凋亡、精子细胞能量代谢等生物过程影响精子发生。【结论】bta-miR-34b/c、bta-miR-449a/b/c通过上游转录因子和下游靶基因组成的分子调控网络共同调节精子发生过程。

关键词: miR-34b/c; miR-449a/b/c; 精子发生; 靶基因; 转录因子

Abstract: 【Objective】 This study was aimed to predict and analyze the sequence conservation,transcription factors and target genes of bta-miR-34b/c and bta-miR-449a/b/c by bioinformatics,and explore the mechanism which affected spermatogenesis,so as to provide guidance and ideas for studying its biological function and mechanism of action.【Method】 The miRBase database was used to obtain and analyze the sequence characteristics of bta-miR-34b/c and bta-miR-449a/b/c in different species for similarity.TargetScan,miRWalk,miRDB and other methods were used to predict target genes of bta-miR-34b/c and bta-miR-449a/b/c,and the target genes were performed to GO functional and KEGG pathway enrichment analysis.The transcription factors that simultaneously regulated bta-miR-34b/c and bta-miR-449a/b/c were obtained by AnimalTFDB,and the TF-miRNA-mRNA interaction network was constructed.【Result】 bta-miR-34b/c and bta-miR-449a/b/c were highly conserved among different species.According to the prediction results,2 transcription factors and 49 candidate target genes were obtained.These target genes were mainly enriched in spermatogenesis,regulation of calcium-dependent exocytosis,regulation of insulin secretion and other GO items,as well as HIF-1 signaling pathway and thyroid hormone signaling pathway,Wnt signaling pathway and other KEGG pathways.The interaction network composed of bta-miR-34b/c,bta-miR-449a/b/c,upstream transcription factors NR2C2 and HIC1,and downstream target genes AXL,E2F3,DAAM1,etc affected spermatogenesis by regulating meiosis,cell cycle,apoptosis,sperm cell energy metabolism and other biological processes.【Conclusion】 The spermatogenesis were regulated by molecular interactive network of bta-miR-34b/c and bta-miR-449a/b/c with transcription factors and target genes.

Key words: miR-34b/c; miR-449a/b/c; spermatogenesis; target genes; transcription factors

中图分类号:

杜鑫泽, 马鑫浩, 张殿琦, 杜嘉伟, 马婧, 谢琨成, 何杰, 昝林森. bta-miR-34b/c和bta-miR-449a/b/c靶基因预测及生物信息学分析[J]. 中国畜牧兽医, 2022, 49(7): 2451-2461.

DU Xinze, MA Xinhao, ZHANG Dianqi, DU Jiawei, MA Jing, XIE Kuncheng, HE Jie, ZAN Linsen. Target Gene Prediction and Bioinformatics Analysis of bta-miR-34b/c and bta-miR-449a/b/c[J]. China Animal Husbandry and Veterinary Medicine, 2022, 49(7): 2451-2461.

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