Transcriptomic sequencing analysis of key long noncoding RNAs and mRNAs expression profiles in postoperative recurrence of hepatocellular carcinoma

Article type: Research Article

Authors: Yao, Xiaohui^{a; f; 1} | Liu, Shan^{c; 1} | Xia, Huan^{b; 1} | Li, Hanhan^c | Wang, Zhijie^d | Su, Le^e | Guo, Wei^c | Chen, Hanrui^{c; *}

Affiliations: [a] The Research Center of Basic Integrative Medicine, School of Basic Medical Sciences, Guangzhou University of Chinese Medicine, Guangzhou, Guangdong, China | [b] College of Life Science and Technology, Jinan University, Guangzhou, Guangdong, China | [c] The First Affiliated Hospital of Guangzhou University of Chinese Medicine, Guangzhou University of Chinese Medicine, Guangzhou, Guangdong, China | [d] Shanxi Province Hospital of Traditional Chinese Medicine, Taiyuan, Shanxi, China | [e] Department of Gynecology and Pediatrics, Traditional Chinese Medicine Hospital of Haizhu District, Guangzhou, Guangdong, China | [f] Shenzhen TCM Anorectal Hospital (Futian), Shenzhen, Guangdong, China

Correspondence: [*] Corresponding author: Hanrui Chen, The First Affiliated Hospital of Guangzhou University of Chinese Medicine, Guangzhou University of Chinese Medicine, 16 Ji Chang Road, Guangzhou, Guangdong 516001, China. E-mail: chenhanrui1689@gzucm.edu.cn.

Note: [1] These authors contributed equally to this work.

Abstract: BACKGROUND: Recurrence is the main cause of death in hepatocellular carcinoma (HCC) patients after liver resection. OBJECTIVE: The long non-coding RNAs (lncRNAs) have been reported participated in progression and prognosis of HCC, however, the vital role of lncRNA in postoperative recurrence of HCC has rarely been systematically identified. METHODS: RNA-sequencing (RNA-seq) was performed between orthotopic model of HCC and hepatoma postoperative recurrent model to comprehensively analyze the integrated transcriptome expression profiles of lncRNA and mRNA. Quantitative Real-Time Polymerase Chain Reaction (qRT-PCR) was then conducted to quantify the expression levels of DElncRNAs and their target mRNAs. RESULTS: In our study, 211 lncRNAs (P-value < 0.05) and 1125 mRNAs (P-adjust < 0.05) were significantly differentially expressed (DE) between two groups. Moreover, gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses showed that DElncRNAs and DEmRNAs were mainly enriched in lipid metabolism, including Arachidonic acid metabolism, PPAR signaling pathway, Steroid hormone biosynthesis, Linoleic acid metabolism, Inflammatory mediator regulation of TRP channels, and Fatty acid degradation. Furthermore, we constructed lncRNA-mRNA interaction networks and protein-protein interaction (PPI) network, and verified by qRT-PCR, suggesting that increased DEIncRNAs (XLOC_063499 and XLOC_042016) may prevent HCC recurrence after surgery by upregulating on targeted cytochrome P450 (CYP) family genes in the lipid metabolism pathway, such as cyp3a16, cyp3a44, cyp2c39, cyp2c40 and cyp2c68. CONCLUSION: Overall, Our findings provided new insights for further investigation of biological function in lncRNA related HCC recurrence.

Keywords: LncRNA, RNA-seq, postoperative recurrence of HCC, HCC recurrence, hepatoma postoperative recurrent model, CYP

DOI: 10.3233/THC-230123

Journal: Technology and Health Care, vol. 32, no. 2, pp. 735-747, 2024