Baysal Serdar
Faculty of Science, Molecular Biology and Genetics, İhsan Doğramacı Bilkent University, Ankara, Turkiye.
Sir William Dunn School of Pathology, University of Oxford, United Kingdom.
Turk J Biol. 2024 Oct 22;48(6):442-455. doi: 10.55730/1300-0152.2718. eCollection 2024.
BACKGROUND/AIM: Previous studies on general transcription factor II E (GTF2E) showed that it is associated with certain groups of diseases, such as colon cancer and trichothiodystrophy, but the global effect of GTF2E on cellular processes is still not widely characterized. This study aimed to investigate and characterize the effect of GTF2E on the transcription level of genes and identify the cellular processes and diseases associated with GTF2E.
The human colorectal carcinoma cell line HCT116 used in the study was transfected at a 30 nM concentration with siGTF2E1 or nontarget negative siRNA. After 72 h, cells were harvested and prepared for further analysis. A whole transcriptome analysis was performed on the HCT116 cell line obtained from the siGTF2E1 knockdown of the HCT116 cells (n = 3) and their nontarget negative siRNA controls (n = 3) using RNA sequencing. Cell viability was tested using an MTS assay.
Compared with the control group, 166 genes were identified at the time of the GTF2E1 knockdown and expressed differentially in the knockdown group, including 66 upregulated genes and 100 downregulated genes. One significantly enriched Gene Ontology term was identified, involving carbohydrate binding. One oncogene related to B cell chronic lymphocytic leukemia (B-CLL) was identified. Five genes associated with colon carcinoma were determined. Eleven genes involved in the development of atherosclerosis were identified. GTF2E1 knockdown caused a decrease in cell viability.
The GTF2E1 knockdown group exhibited an altered expression of multiple genes, some of which are related to the development of atherosclerosis, colon carcinoma, and B-CLL. This might shed light on the different regulatory effects of GTF2E and its association with certain diseases.
背景/目的：先前关于通用转录因子II E（GTF2E）的研究表明，它与某些疾病组相关，如结肠癌和毛发硫营养不良，但GTF2E对细胞过程的整体影响仍未得到广泛表征。本研究旨在调查和表征GTF2E对基因转录水平的影响，并确定与GTF2E相关的细胞过程和疾病。
研究中使用的人结肠癌细胞系HCT116以30 nM的浓度用siGTF2E1或非靶向阴性siRNA转染。72小时后，收获细胞并准备进行进一步分析。使用RNA测序对从HCT116细胞的siGTF2E1敲低获得的HCT116细胞系（n = 3）及其非靶向阴性siRNA对照（n = 3）进行全转录组分析。使用MTS测定法测试细胞活力。
与对照组相比，在GTF2E1敲低时鉴定出166个基因，并且在敲低组中差异表达，包括66个上调基因和100个下调基因。鉴定出一个显著富集的基因本体术语，涉及碳水化合物结合。鉴定出一个与B细胞慢性淋巴细胞白血病（B-CLL）相关的癌基因。确定了五个与结肠癌相关的基因。鉴定出11个参与动脉粥样硬化发展的基因。GTF2E1敲低导致细胞活力下降。
GTF2E1敲低组表现出多个基因表达改变，其中一些与动脉粥样硬化、结肠癌和B-CLL的发展相关。这可能有助于揭示GTF2E的不同调节作用及其与某些疾病的关联。
