Ahmed Khalid, Omarova Zhannur, Sheikh Alisalman, Abuova Gulzhan, Ghias Kulsoom, Abidi Syed Hani
Department of Biological and Biomedical Sciences, Aga Khan University, Karachi, Pakistan.
Department of Biomedical Sciences, Nazarbayev University School of Medicine, Astana, Kazakhstan.
BMC Res Notes. 2024 Dec 31;17(1):398. doi: 10.1186/s13104-024-07050-w.
DU145 and LNCaP are classic prostate cancer cell lines. Characterizing their baseline transcriptomics profiles (without any intervention) can offer insights into baseline genetic features and oncogenic pathways that should be considered while interpreting findings after various experimental interventions such as exogenous gene transfection or drug treatment.
LNCaP and DU145 cell lines were cultured under normal conditions, followed by RNA extraction, cDNA conversion, library preparation, and RNA sequencing using the Illumina NovaSeq platform. The sequences were analyzed to identify differentially expressed genes (DEGs) and for gene ontology (GO) and pathway enrichment.
A total of 3916 and 2301 genes were found to be differentially upregulated and downregulated between LNCaP and DU145 cell lines, respectively. The GO and pathway analysis of up-regulated DEGs indicated significant enrichment of genes involved in extracellular matrix organization and cell-substrate adhesion, while down-regulated genes are involved in epithelial cell migration, cell death regulation, and cell proliferation.
The results showed significant differences in baseline gene expression and cellular pathways that may account for the varying metastatic potentials between LNCaP and DU145 cell lines, which should be considered when interpreting findings after experimental interventions.
DU145和LNCaP是经典的前列腺癌细胞系。对它们的基线转录组学图谱（无任何干预）进行表征，能够深入了解基线遗传特征和致癌途径，而在解释诸如外源基因转染或药物治疗等各种实验干预后的结果时，这些特征和途径是需要考虑的。
在正常条件下培养LNCaP和DU145细胞系，随后进行RNA提取、cDNA转化、文库制备，并使用Illumina NovaSeq平台进行RNA测序。对序列进行分析，以鉴定差异表达基因（DEG）并进行基因本体（GO）和通路富集分析。
在LNCaP和DU145细胞系之间，分别发现共有3916个基因差异上调和2301个基因差异下调。上调的DEG的GO和通路分析表明，参与细胞外基质组织和细胞-基质粘附的基因显著富集，而下调的基因则参与上皮细胞迁移、细胞死亡调节和细胞增殖。
结果显示，基线基因表达和细胞途径存在显著差异，这可能解释了LNCaP和DU145细胞系之间不同的转移潜能，在解释实验干预后的结果时应考虑这一点。
