二氧化硅暴露对呼吸道上皮细胞基因表达的影响

doi:10.3969/j.issn.1004-616x.2024.04.004

摘要/Abstract

摘要： 目的：采用生物信息学方法探讨人原代支气管上皮NHBE细胞暴露于SiO₂后的基因表达变化，筛选关键基因并进行实验验证，从而为硅肺病的诊断和治疗提供新思路。方法：从GEO数据库获取数据集GSE62769，采用R语言3.6.3对基因表达数据矩阵进行差异表达基因(DEGs)筛选、GO功能富集分析及KEGG信号通路分析。同时采用STRING数据库和Cytoscape软件构建蛋白质-蛋白质相互作用(PPI)网络，MCODE插件筛选关键基因。最后以0、50、100、200 μg/mL SiO2暴露于A549细胞24 h，采用逆转录荧光定量PCR(RT-qPCR)法对关键基因表达水平的生信分析结果进行了扩展性验证。结果：生物信息学分析共筛选出48个DEGs。GO和KEGG分析结果显示，DEGs主要参与脂多糖反应、对细菌来源分子的反应等生物学过程，细胞因子-细胞因子受体相互作用等信号通路。11个关键基因为CXCL8、CXCL10、TLR2、JUN、ICAM1、CXCL1、MMP1、TNFAIP3、CCL20、CXCL2和CXCL3。RT-qPCR实验结果显示，在200 μg/mL SiO₂混悬液干预下A549细胞中CXCL8、JUN、ICAM1、CXCL1、MMP1、TNFAIP3、CCL20和CXCL3基因的mRNA表达均显著上调，与生物信息学分析中暴露于SiO2的NHBE细胞的基因表达趋势一致。结论：基于生物信息学方法和体外实验验证，筛选得到了呼吸系统上皮细胞中11个与SiO₂暴露相关的异常表达基因，可为硅肺病的发生机制提供新的科学依据，同时为硅肺病早期诊断和治疗提供了新靶标。

关键词: 硅肺, 上皮细胞, 二氧化硅, 生物信息学, 差异表达基因

Abstract: OBJECTIVE：Bioinformatics method was used to explore changes of gene expression in NHBE cells exposed to SiO₂ and key genes were verified by experiments，to provide information for enhanced diagnosis and treatment of silicosis. METHODS：GSE62769，a dataset related to silica，was obtained from GEO database. The differentially expressed genes (DEGs)，GO functional enrichment analysis and KEGG signal pathway analysis were carried out with R language 3.6.3. At the same time，the protein-protein interaction (PPI) network was constructed by STRING database and Cytoscape software，and key genes were screened by MCODE plug-in. Finally，A549 cells were exposed to 0，50，100，200 μg/mL SiO₂ for 24 h and the bioinformatics analysis results of key gene expression levels were extensively verified by RT-qPCR method. RESULTS：A total of 48 DEGs were screened. The results of GO and KEGG analysis showed that DEGs were mainly involved in biological processes such as lipopolysaccharide reaction and reaction to bacterial molecules，etc.，and signal pathways such as cytokine-cytokine receptor interaction，etc. Eleven key genes of PPI network were selected by MCODE plug-in，which were CXCL8，CXCL10，TLR2，JUN，ICAM1，CXCL1，MMP1，TNFAIP3，CCL20，CXCL2 and CXCL3.Results from RT-qPCR analyses showed that expressions of CXCL8，JUN，ICAM1，CXCL1，MMP1，TNFAIP3，CCL20 and CXCL3 were significantly up-regulated in the A549 cells treated with 200 μg/mL SiO₂ suspension，which was consistent with the trend of gene expression on NHBE cells in bioinformatics analysis. CONCLUSION：Based on bioinformatics and experimental verification methods，11 key DEG related to SiO₂ exposed respiratory epithelial cells were screened. Our results provided new information on pathogenesis of silicosis，and identified several possible targets for the early diagnosis and treatment of silicosis.

Key words: silicosis, epithelial cells, silica, bioinformatics, differentially expressed genes

中图分类号:

R135.2

吴梦宇, 德小明, 单婧, 李洁, 张映驰, 徐海明. 二氧化硅暴露对呼吸道上皮细胞基因表达的影响[J]. 癌变·畸变·突变, 2024, 36(4): 268-274,280.

WU Mengyu, DE Xiaoming, SHAN Jing, LI Jie, ZHANG Yingchi, XU Haiming. Effect of silica exposure on gene expression in respiratory epithelium[J]. Carcinogenesis, Teratogenesis & Mutagenesis, 2024, 36(4): 268-274,280.

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