Journal of Proteomics & Bioinformatics
Open Access

Abstract

Ribosome Biogenesis: A Major Player in the Exosome of Gastric Cancer

Chun-yan Lv*, Xian-kui Cheng, Yuan Zhong, You-li Jian, Ming-ming He and Tao Lei

Objective: To identify of vital genes in the blood exosome related to the process of gastric carcinogenesis and help to reduce mortality rates through early diagnosis and the development of new anticancer therapies.

Method: The Ribo-Nucleic Acids (RNAs) data of blood exosomes from patients with Gastric Cancer (GC) and healthy controls were downlinked from exoRBase database and the differential expression of messenger RNA (mRNA), long non coding RNA (lncRNA) and circular RNA (circRNA) were analyzed using R language. Then the relevant RNAs and their corresponding micro RNA (miRNA) data predicted by Encyclopedia of RNA Interactomes (ENCORI), miRcode and other databases, were imported into the competing endogenous RNA (ceRNA) network. Finally, The Database for Annotation, Visualization and Integrated Discovery (DAVID) was accessed to investigate the Differentially Expressed mRNA (DEmRNAs), Gene Ontology (GO) annotations and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis.

Results: A total of 62 mRNAs, 3 lncRNAs and 15 circRNAs were differentially expressed. The ceRNA network was constructed with cytoscape software, including 192 mRNA nodes, 32 lncRNA nodes, 28 circRNA nodes and 152 miRNA nodes, with the top 10 hub genes EMSY, Zinc finger E-Box-Binding homeobox 2 (ZEB 2), Ligand Dependent Nuclear Receptor Corepressor (LCOR), Major Facilitator Superfamily Domain containing 14A (MFSD 14A), ERBB2 Interacting Protein (ERBB2IP), hsa-miR-363-3p, hsa-miR-137, hsa-miR-27a-3p, hsa-miR-23b-3p and hsa_circ_0000038. According to GO annotation, the biological processes mainly in cytoplasmic translation, the cell component were mostly in the ribosome and its subunit and the major molecular functions included structural constituent of ribosome, etc. The KEGG revealed that the DEmRNA were primarily enriched in mRNA monitoring pathway.

Conclusion: A ceRNA network in the blood exosome of GC were built, the hub genes were screened out, the biological process, cell component, molecular function and enrichment pathway of DEmRNA were explored, which proved that the ribosome biogenesis was a major player in the exosome of gastric cancer and this provide precise targets for making a diagnosis and giving treatment of GC.

Published Date: 2024-03-15; Received Date: 2024-02-14