全转录组 RNA 测序揭示大鼠长期空间复合应力下的 CeRNA 调控网络

IF 4.6 Q2 MATERIALS SCIENCE, BIOMATERIALS ACS Applied Bio Materials Pub Date : 2024-03-03 DOI:10.1016/j.lssr.2024.02.008
YiShu Yin , JunLian Liu , Chong Xu , DeYong Zeng , YuanBing Zhu , XiaoRui Wu , QuanChun Fan , Shuang Zhao , JiaPing Wang , Yu Liu , YongZhi Li , Weihong Lu
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引用次数: 0

摘要

为了系统评估模拟长期太空飞行复合应激(LSCS)对海马的影响,并深入了解其转录组格局和分子机制,我们对6只大鼠海马的对照组(Ctrl)和模拟长期太空飞行复合应激组(LSCS)进行了全转录组测序。随后,我们对对照组和LSCS组进行了差异表达分析,并进行了富集分析和功能相互作用预测分析,以研究LSCS中的基因调控回路。此外,还构建了竞争性内源性 RNA(ceRNA)网络,以深入了解基因相互作用。结果表明,与对照组相比,LSCS样本中发现了276种差异表达的信使RNA(DEmRNAs)、139种差异表达的长非编码RNA(DElncRNAs)、103种差异表达的环状RNA(DEcircRNAs)和52种差异表达的microRNA(DEmiRNAs),然后对它们进行了基因本体(GO)术语和京都基因组百科全书(KEGG)通路的富集分析,以发现其潜在功能。PI3K-Akt信号通路和MAPK信号通路可能在LSCS的发病机制中发挥重要作用。利用预测的340对DE构建了ceRNA网络,发现了220对DEmiRNA-DEmRNA、76对DEmiRNA-DElncRNA和44对DEmiRNA-DEcircRNA的相互作用。此外,在这些 ceRNA 中,我们还发现了一个关键靶点。总之,我们首次对海马对LSCS的反应进行了完整的转录组分析,其中涉及潜在的ceRNA网络,从而为研究LSCS的内在机制提供了基础。
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Whole-transcriptome RNA sequencing reveals CeRNA regulatory network under long-term space composite stress in Rats

To systematically evaluate the effect of simulated long-term spaceflight composite stress (LSCS) in hippocampus and gain more insights into the transcriptomic landscape and molecular mechanism, we performed whole-transcriptome sequencing based on the control group (Ctrl) and the simulated long-term spaceflight composite stress group (LSCS) from six hippocampus of rats. Subsequently, differential expression analysis was performed on the Ctrl and LSCS groups, followed by enrichment analysis and functional interaction prediction analysis to investigate gene-regulatory circuits in LSCS. In addition, competitive endogenous RNA (ceRNA) network was constructed to gain insights into genetic interaction. The result showed that 276 differentially expressed messenger RNAs (DEmRNAs), 139 differentially expressed long non-coding RNAs (DElncRNAs), 103 differentially expressed circular RNAs (DEcircRNAs), and 52 differentially expressed microRNAs (DEmiRNAs) were found in LSCS samples compared with the controls, which were then subjected to enrichment analysis of Gene Ontology (GO) term and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways to find potential functions. PI3K-Akt signaling pathway and MAPK signaling pathway may play fundamental roles in the pathogenesis of LSCS. A ceRNA network was constructed with the predicted 340 DE pairs, which revealed the interaction roles of 220 DEmiRNA-DEmRNA pairs, 76 DEmiRNA-DElncRNA pairs, and 44 DEmiRNA-DEcircRNA pairs. Further, Thrombospondins2 was found to be a key target among those ceRNAs. Overall, we conducted for the first time a full transcriptomic analysis of the response of hippocampus to the LSCS that involved a potential ceRNA network, thus providing a basis to study the underlying mechanism of the LSCS.

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来源期刊
ACS Applied Bio Materials
ACS Applied Bio Materials Chemistry-Chemistry (all)
CiteScore
9.40
自引率
2.10%
发文量
464
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