Integrative analysis of serum proteomics and transcriptomics in hepatitis C.

IF 4 3区医学 Q2 VIROLOGY

Virology Journal Pub Date : 2025-03-13 DOI:10.1186/s12985-025-02690-1

Jianqiong Wang, Andong Xia, Min Tang, Shengjun Yang, Yandi Shen, Jinhua Dao, Rui Tao, Wei Yue

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引用次数: 0

Abstract

Object: Hepatitis C is a contagious disease caused by infection with the hepatitis C virus (HCV) through blood and mother-to-child routes. This study intends to characterize the serum molecular features of hepatitis C using proteomics and transcriptomics.

Methods: Ctrl (normal population), HCV (population with previous HCV infection), and chronic HCV (patients with persistent HCV infection) groups were set up, and the expression profiles of the proteomes and transcriptomes of serum samples were identified using TMT and RNA-seq. Bioinformatics was applied to perform enrichment analysis and PPI network construction of differentially expressed proteins/genes (DEPs/DEGs). RT-qPCR and western blot verified the expression differences of DEPs/DEGs.

Results: Compared to the Ctrl group, the HCV group had 356 DEPs in serum; compared to the HCV group, the chronic HCV group had 381 DEPs in serum. DEPs are predominantly immunoglobulins and exosomal proteins that regulate carbon dioxide transport, initiation of transcription, immune responses, and bacterial and viral infections. HSPA4, HSPD1, COPS5, PSMD2 and TCP1 are key HCV-associated proteins in DEPs. The HCV group had 684 DEGs compared to the Ctrl group, and the chronic HCV group had 350 DEGs compared to the HCV group. DEGs primarily encode the extracellular matrix and regulate wound healing, cellular communication, oxidative stress, cell adhesion, viral infection, and immunity. KIF11, CENPE, TTK, CDC20 and ASPM are HCV-related hub genes in DEGs. Combined analyses revealed interactions between DEPs and DEGs, especially EIF4A3, MNAT1, and UBE2D1. Moreover, the expression patterns of EIF4A3, EIF2B1, MNAT1, SNRNP70, and UBE2D1 in DEPs/DEGs from Ctrl, HCV, and chronic HCV groups were consistent with the sequencing results.

Conclusion: EIF4A3, EIF2B1, MNAT1, SNRNP70, and UBE2D1 are involved in the process of HCV infection and pathogenesis, and they may be potential biomarkers for the treatment of patients with hepatitis C.

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目的：丙型肝炎是一种通过血液和母婴途径感染丙型肝炎病毒（HCV）引起的传染性疾病。本研究旨在利用蛋白质组学和转录组学分析丙型肝炎的血清分子特征：方法：设立 Ctrl 组（正常人群）、HCV 组（既往感染过 HCV 的人群）和慢性 HCV 组（持续感染 HCV 的患者），使用 TMT 和 RNA-seq 鉴定血清样本的蛋白质组和转录组表达谱。应用生物信息学对差异表达蛋白/基因（DEPs/DEGs）进行富集分析并构建 PPI 网络。RT-qPCR 和 Western 印迹验证了 DEPs/DEGs 的表达差异：结果：与对照组相比，HCV 组血清中有 356 个 DEPs；与 HCV 组相比，慢性 HCV 组血清中有 381 个 DEPs。DEPs主要是免疫球蛋白和外泌体蛋白，可调节二氧化碳转运、转录启动、免疫反应以及细菌和病毒感染。HSPA4、HSPD1、COPS5、PSMD2 和 TCP1 是 DEPs 中与 HCV 相关的关键蛋白。与Ctrl组相比，HCV组有684个DEGs，与HCV组相比，慢性HCV组有350个DEGs。DEGs主要编码细胞外基质，调节伤口愈合、细胞通讯、氧化应激、细胞粘附、病毒感染和免疫。KIF11、CENPE、TTK、CDC20 和 ASPM 是 DEGs 中与 HCV 相关的枢纽基因。此外，EIF4A3、EIF2B1、MNAT1、SNRNP70和UBE2D1在Ctrl组、HCV组和慢性HCV组的DEPs/DEGs中的表达模式与测序结果一致：结论：EIF4A3、EIF2B1、MNAT1、SNRNP70和UBE2D1参与了HCV感染和发病过程，它们可能是治疗丙型肝炎患者的潜在生物标志物。

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

Virology Journal 医学-病毒学

CiteScore

7.40

自引率

2.10%

发文量

186

审稿时长

1 months

期刊介绍： Virology Journal is an open access, peer reviewed journal that considers articles on all aspects of virology, including research on the viruses of animals, plants and microbes. The journal welcomes basic research as well as pre-clinical and clinical studies of novel diagnostic tools, vaccines and anti-viral therapies. The Editorial policy of Virology Journal is to publish all research which is assessed by peer reviewers to be a coherent and sound addition to the scientific literature, and puts less emphasis on interest levels or perceived impact.