代谢综合征肾损害患者尿液外泌体微小RNA差异表达谱的生物信息学分析

Bioinformatics analysis of differentially expressed miRNA in urine exosomes of metabolic syndrome patients with renal damage

  • 摘要: 目的 探讨代谢综合征(MS)肾损害患者尿液外泌体中的微小RNA(miRNA)差异表达谱,探究miRNA在MS肾损害发病中的作用。方法 选取2018年5月至2019年12月在联勤保障部队第九〇〇医院确诊为MS肾损害和MS无肾损害的患者,以及健康体检者。利用实时定量PCR技术及高通量测序技术检测MS肾损害患者(MSK组,n=3)及健康体检者(对照组,n=3)尿液外泌体miRNA的表达情况。对差异表达miRNA进行生物信息学分析,探索靶基因的主要生物学功能。对差异表达的miRNA及其靶基因进行临床验证(MS肾损害患者、MS无肾损害患者、健康受试者各14例)。结果 经过高通量测序技术分析,MSK组和对照组之间存在33个差异表达的尿液外泌体miRNA(P<0.05)。经过小样本量的实时定量PCR检测,提取到11个差异表达的miRNA(P<0.05),7个高表达(miRNA-449a, miRNA-449b-5p, miRNA-449c-5p, miRNA-122-3p, miRNA-618,miRNA-217-5p, miRNA-2115-3p),4个低表达(miRNA-4662a-5p, miRNA-1-3p, miRNA-3114-3p, miRNA-95-3p)。最终选取差异有统计学意义且稳定表达的miRNA-449a进行临床验证。京都基因和基因组百科全书(KEGG)富集分析发现,miRNA-449a靶基因主要参与丝裂原活化蛋白激酶(MAPK)信号通路、转化生长因子β(TGF-β)信号通路、Wnt信号通路等信号转导途径。尿液外泌体miRNA-449a在MSK组、MS无肾损害患者组(MS组)和对照组三组间比较,差异存在统计学意义(0.70±0.32比0.42±0.28比0.06±0.06,F=26.062,P<0.001),MSK组的尿液外泌体miRNA-449a表达水平明显上调。尿液外泌体miRNA-449a表达与血肌酐、尿微量白蛋白与肌酐比值呈正相关(P<0.05)。MSK组尿液外泌体miRNA-449a下游靶基因Bcl-2 mRNA相对表达较MS组下调(0.02±0.01比0.06±0.01,t=102.756,P<0.001)。结论 MS肾损害患者尿液外泌体miRNA存在差异性表达。生物信息学分析提示差异表达Bcl-2等基因可能参与MS肾损害的发生和发展。

     

    Abstract: Objective To detect differentially expressed microRNA(miRNA) in urine exosomes of metabolic syndrome(MS) patients with renal damage, and to explore the role of miRNAs in the pathogenesis of renal damage in MS. Methods The patients who were diagnosed with MS renal damage and MS without renal damage at the 900th Hospital of Joint Logistic Support Force, PLA from May 2018 to December 2019, as well as the health examinations were selected. Real-time quantitative polymerase chain reaction(PCR) and high-throughput sequencing were used to detect the expression of urinary exosomal miRNAs in MS renal damage patients(MS renal damage group, n=3) and health examinations(control group, n=3). Bioinformatics analysis of differentially expressed miRNAs was performed to explore the main biological functions of the target genes. The differentially expressed miRNAs and their target genes were verified in 14 MS patients with renal damage, 14 MS patients without renal damage, and 14 health examinations. Results High-throughput sequencing analysis showed that 33 differentially expressed miRNAs in urinary exosome were present between the MS renal damage group and the control group(P<0.05). Real-time quantitative PCR with a small sample size showed that there were 11 differentially expressed miRNAs(P<0.05), among which 7 were up-regulated(miRNA-449a, miRNA-449b-5p, miRNA-449c-5p, miRNA-122-3p, miRNA-618, miRNA-217-5p, miRNA-2115-3p), 4 were down-regulated(miRNA-4662a-5p, miRNA-1-3p, miRNA-3114-3p, miRNA-95-3p). Then miRNA-449a was selected for further clinical validation due to its significant difference and stable expression(P<0.05). Kyoto Encyclopedia of Genes and Genomes(KEGG) pathway enrichment analysis showed that target genes of differentially expressed miRNA may participate in the progression of MS renal damage through mitogen-activated protein kinase(MAPK) signal pathway, transforming growth factor β(TGF-β) signal pathway, Wnt signal pathway and other pathway. MiRNA-449a in urine exosomes was significantly different among MS renal damage group, MS without renal damage group and control group(0.70±0.32 vs 0.42±0.28 vs 0.06±0.06, F=26.062, P<0.001), and the expression of miRNA-449a in patients with MS renal damage was significantly up-regulated. The expression of miR-449a in patients with MS renal damage was positively correlated with serum creatinine and urinary microalbumin to creatinine ratio(P<0.05). The expression of Bcl-2 mRNA(downstream target gene of miRNA-449a) in MS patients with renal damage was significantly down-regulated comparing to MS patients without renal damage(0.02±0.01 vs 0.06±0.01, t=102.756, P<0.001). Conclusions There are differentially expressed miRNAs in urinary exosomal of MS patients with renal damage. Bioinformatics analysis suggests that genes such as differentially expressed Bcl-2 mRNA may be involved in the development and progression of renal damage in MS.

     

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