Construction of a novel mRNA-miRNA-lncRNA/circRNA triple subnetwork associated with immunity and aging in intervertebral disc degeneration.

IF 1.1 4区生物学 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY

Nucleosides, Nucleotides & Nucleic Acids Pub Date : 2024-03-31 DOI:10.1080/15257770.2024.2334353

Wei Liu, Hui-Min Li, Guangchao Bai

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引用次数: 0

Abstract

Objective: Intervertebral disk degeneration (IVDD) is one of the most common causes of low back pain. However, in the etiology of IVDD, the specific method by which nucleus pulposus (NP) cell senescence and the immune response induce disease is uncertain.

Methods: Gene Expression Omnibus database was used to find differentially expressed genes (DEGs), differentially expressed miRNAs (DE miRNAs), differentially expressed lncRNAs (DE lncRNAs), and differentially expressed circRNAs (DE circRNAs). Functional enrichment analysis was performed through Enrichr database. Potential regulatory miRNAs, lncRNAs and circRNAs of mRNAs were predicted by ENCORI and circBank, respectively.

Results: We identified 198 upregulated and 131 downregulated genes, 39 upregulated and 22 downregulated miRNAs, 2152 upregulated and 564 downregulated lncRNAs, and 352 upregulated and 279 downregulated circRNAs as DEGs, DE miRNAs, DE lncRNAs, DE circRNAs, respectively. Functional enrichment analysis revealed that they were significantly enriched in Toll-like receptor signaling route and the NF-kappa B signaling pathway. An mRNA-miRNA-lncRNA/circRNA network linked to the pathogenesis of NP cells in IVDD was constructed based on node degree and differential expression level. Eight immune-related DEGs (6 upregulated and 2 downregulated genes) and five aging-related DEGs (3 upregulated and 2 downregulated genes) were identified in the critical network.

Conclusion: We established a novel immune-related and aging-related triple regulatory network of mRNA-miRNA-lncRNA/circRNA ceRNA, among which all RNAs may be utilized as the pathogenesis biomarker of NP cells in IVDD.

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构建与椎间盘变性中免疫和衰老相关的新型 mRNA-miRNA-lncRNA/circRNA 三重亚网络。

目的：椎间盘变性（IVDD）是导致腰背痛的最常见原因之一。然而，在 IVDD 的病因学中，髓核细胞衰老和免疫反应诱发疾病的具体方法尚不确定：方法：利用基因表达总库（Gene Expression Omnibus）数据库寻找差异表达基因（DEGs）、差异表达miRNAs（DE miRNAs）、差异表达lncRNAs（DE lncRNAs）和差异表达circRNAs（DE circRNAs）。通过 Enrichr 数据库进行了功能富集分析。ENCORI和circBank分别预测了mRNA的潜在调控miRNA、lncRNA和circRNA：结果：我们发现了198个上调基因和131个下调基因、39个上调miRNAs和22个下调miRNAs、2152个上调lncRNAs和564个下调lncRNAs、352个上调circRNAs和279个下调circRNAs，分别为DEGs、DE miRNAs、DE lncRNAs和DE circRNAs。功能富集分析显示，它们在Toll样受体信号转导途径和NF-kappa B信号转导途径中明显富集。根据节点度和差异表达水平，构建了与IVDD中NP细胞发病机制相关的mRNA-miRNA-lncRNA/circRNA网络。在关键网络中发现了8个免疫相关的DEGs（6个上调基因和2个下调基因）和5个衰老相关的DEGs（3个上调基因和2个下调基因）：我们建立了一个由mRNA-miRNA-lncRNA/circRNA ceRNA组成的新型免疫相关和衰老相关三重调控网络，其中所有RNA均可作为IVDD中NP细胞的发病机制生物标志物。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Nucleosides, Nucleotides & Nucleic Acids 生物-生化与分子生物学

CiteScore

2.60

自引率

7.70%

发文量

审稿时长

6 months

期刊介绍： Nucleosides, Nucleotides & Nucleic Acids publishes research articles, short notices, and concise, critical reviews of related topics that focus on the chemistry and biology of nucleosides, nucleotides, and nucleic acids. Complete with experimental details, this all-inclusive journal emphasizes the synthesis, biological activities, new and improved synthetic methods, and significant observations related to new compounds.