hsa-miR-422a靶基因在增生性瘢痕中的表达及生物信息分析
Expression of hsa-miR-422a in hypertrophic scars: a bioinformatics analysis
摘要目的:检测hsa-miR-422a在增生性瘢痕的表达,用生物信息学方法预测其靶基因,并分析其生物学功能。方法:2020年6—12月,上海交通大学医学院附属第九人民医院整复外科收集3份增生性瘢痕组织和3份上睑单睑患者皮肤组织(男3例,女3例,年龄20~42岁,平均28.3岁),分离培养成纤维细胞,用实时定量PCR检测hsa-miR-422a表达;用starBase和TargetScan数据库预测hsa-miR-422a靶向基因及长链非编码RNA(lncRNAs),构建ceRNA网络。对hsa-miR-422a靶基因进行GO功能注释和KEGG通路分析;通过构建蛋白-蛋白互作(PPI)网络筛选关键基因,并预测其生物学功能。用实时定量PCR检测验证关键靶基因在增生性瘢痕组织的表达。结果:增生性瘢痕组织和成纤维细胞中,hsa-miR-422a表达量明显低于正常皮肤( P<0.05)。starBase和TargetScan数据库预测到hsa-miR-422a靶向的133个基因和1 033个lncRNA,由此构建以hsa-miR-422a为中心的ceRNA网络。靶基因PPI网络分析筛选出MAPK1、GRB2和IGF1R等10个关键基因,其功能主要与蛋白丝氨酸/苏氨酸/酪氨酸激酶活动、泛素蛋白连接酶结合、成纤维细胞生长因子受体通路、肌细胞增殖等相关,且主要富集于FoxO、mTOR、Toll样受体、Ras、MAPK、PI3K-Akt、干细胞调控等通路。关键靶基因MAPK1、GRB2和IGF1R在增生性瘢痕组织中表达明显高于正常皮肤( P<0.05)。 结论:hsa-miR-422a在增生性瘢痕表达较低,可能与MAPK1等关键靶基因构成ceRNA网络,在增生性瘢痕的发生发展中发挥调控作用。
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abstractsObjective:To evaluate the expression level of hsa-miR-422a in hypertrophic scars and to identify the target genes of hsa-miR-422a along with their biological functions using bioinformatics approaches.Methods:From June 2020 to December 2020, tissue samples of 3 hypertrophic scar and 3 normal skin were collected from patients (3 males, 3 females, aged 20-42 years) in Department of Plastic and Reconstructive Surgery, Shanghai Ninth People′s Hospital, Shanghai Jiaotong University School of Medicine. Primary fibroblasts were isolated and cultured. Real-time quantitative PCR was performed to quantify the expression of hsa-miR-422a. To construct a ceRNA network, starbase and Target Scandata bases were utilized to predict genes as well as long noncoding RNAs (lncRNAs) that may sponge hsa-miR-422a. GO and KEGG pathway enrichment analyses were conducted on the target genes of hsa-miR-422a; protein-protein interaction (PPI) networks were constructed to identify the hub genes whose functions were predicted by functional enrichment analyses. The expression of hub genes was validated through real-time quantitative PCR in hypertrophic scars.Results:The expression of hsa-miR-422a was significantly lower in the hypertrophic scar tissue samples and fibroblasts compared to that in the normal skin ( P<0.05). 133 target genes as well as 1033 lncRNAs were predicted by starBase and TargetScandata bases and used to construct an hsa-miR-422a-centered ceRNA network. PPI networks of the target genes revealed 10 hub genes, including MAPK1, GRB2, and IGF1R, which were discovered to be related to protein serine/threonine/tyrosine kinase activity, ubiquitin protein ligase binding, fibroblast growth factor receptor signaling pathway, muscle cell proliferation, and many others; besides, they may be involved in FoxO, mTOR, Toll-like receptor, Ras, MAPK, PI3K-Akt signaling pathways and signaling pathways regulating pluripotency of stem cells. Three hub genes (MAPK1, GRB2, and IGF1R) were significantly upregulated in hypertrophic scars ( P<0.05). Conclusions:hsa-miR-422a is significantly downregulated in the hypertrophic scars and may target hub genes such as MAPK1 in ceRNA networks, ultimately modulating hypertrophic scar formation.
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