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Genome-Wide Analysis of DNA Methylation in Gastrointestinal Cancer
Published on: September 18, 2020
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Comparative Transcriptome Provides a Systematic Perspective on Epstein-Barr Virus-Associated Gastric Carcinoma Cell
Jun-Ting Huang1,2, Jian-Ning Chen1, Yuan-Hua Bi1
1Department of Pathology, The Third Affiliated Hospital, Sun Yat-sen University, Guangzhou, People's Republic of China.
Oncotargets and Therapy
|November 1, 2021
Summary
Epstein-Barr virus (EBV) infection significantly alters gene expression in gastric carcinoma (GC) cells, impacting oncogenesis. This study reveals key molecular players in EBV-associated GC (EBVaGC) progression, offering insights for future research.
Area of Science:
- Oncology
- Virology
- Genomics
Background:
- Epstein-Barr virus (EBV) is linked to various cancers, including a distinct subtype of gastric carcinoma (EBVaGC).
- The molecular mechanisms driving EBVaGC progression are not fully understood, despite differences in clinical and pathological features compared to EBV-negative GC.
- Genome-wide transcriptome analysis is a powerful tool for understanding viral infection's role in cancer progression.
Purpose of the Study:
- To identify gene expression signatures in EBV-associated gastric carcinoma (EBVaGC) using comparative RNA sequencing.
- To elucidate the roles of differentially expressed mRNAs, lncRNAs, and circRNAs in EBVaGC development and progression.
- To establish a circRNA-miRNA-mRNA network for identifying key elements in EBVaGC pathogenesis.
Main Methods:
- Comparative RNA sequencing of GC and EBVaGC cell lines.
- Bioinformatic analysis of differentially expressed (DE) genes, including mRNAs, lncRNAs, and circRNAs.
- Gene ontology and pathway enrichment analysis to determine the functions of DE genes.
- Construction of a circRNA-miRNA-mRNA regulatory network.
Main Results:
- Identification of 4438 DE mRNAs, 3650 DE lncRNAs, and 248 DE circRNAs in GC cells post-EBV infection, many related to oncogenesis.
- DE mRNAs are implicated in host cell modification and mitosis, while DE lncRNAs may mediate virus-cell interactions.
- DE circRNAs function in DNA repair and protein modification, potentially acting as miRNA sponges.
- A circRNA-miRNA-mRNA network was established to pinpoint critical factors in EBVaGC progression.
Conclusions:
- This study provides the first comprehensive transcriptome landscape of EBV-associated gastric carcinoma (EBVaGC).
- The findings offer a valuable resource for future investigations into the genomic, genetic, and molecular mechanisms of EBVaGC.
- Understanding these molecular alterations is crucial for advancing the study and potential treatment of EBVaGC.
