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Published on: March 30, 2019
Microarray analysis of differentially expressed long non-coding RNAs in daidzein-treated lung cancer cells
Laifang Li1,2, Jun Liu2, Xiaobo Wang1,2
1Jiangxi Provincial Key Laboratory of Preventive Medicine, School of Public Health, Nanchang University, Nanchang, Jiangxi 330006, P.R. China.
Abstract:
Daidzein has been found to significantly inhibit the proliferation of lung cancer cells, while its potential molecular mechanisms remain unclear. To determine the molecular mechanism of daidzein on lung cancer cells, the Capital Bio Technology Human long non-coding (lnc) RNA Array v4, 4×180K chip was used to detect the gene expression profiles of 40,000 lncRNAs and 34,000 mRNAs in a human cancer cell line. Reverse transcription-quantitative (RT-q) PCR analysis was performed to detect the expression levels of target lncRNA and mRNAs in the H1299 cells treated with and without daidzein, using the lncRNA and mRNA gene chip. Bioinformatics analysis was performed to determine the differentially expressed genes from the results of the chip assays. There were 119 and 40 differentially expressed lncRNAs and mRNAs, respectively, that had a 2-fold change in expression level. A total of eight lncRNAs were upregulated in the H1299 lung cancer cells, while 111 lncRNAs were downregulated. Furthermore, five mRNAs were upregulated, and 35 mRNAs were downregulated. A total of six differentially expressed lncRNAs (ENST00000608897.1, ENST00000444196.1, ENST00000608741.1, XR_242163.1, ENST00000505196.1 and ENST00000498032.1) were randomly selected to validate the microarray data, which were consistent with the RT-qPCR analysis results. Differentially expressed mRNAs were enriched in important Gene Ontology terms and Kyoto Encyclopedia of Genes and Genomes pathways. Taken together, the results of the present study demonstrated that daidzein affected the expression level of lncRNAs in lung cancer cells, suggesting that daidzein may have potential effects on lung cancer cells.
Insights
Daidzein, a compound found in soy, impacts long non-coding RNA (lncRNA) and mRNA expression in lung cancer cells. This study reveals potential molecular mechanisms for daidzein
Area of Science:
- Molecular Biology
- Genomics
- Cancer Research
Background:
- Daidzein exhibits anti-proliferative effects on lung cancer cells.
- The precise molecular mechanisms underlying daidzein's action on lung cancer remain largely unknown.
Purpose of the Study:
- To elucidate the molecular mechanisms of daidzein in human lung cancer cells.
- To identify differentially expressed long non-coding RNAs (lncRNAs) and messenger RNAs (mRNAs) affected by daidzein treatment.
Main Methods:
- Utilized a Human lncRNA Array (4×180K) to profile lncRNA and mRNA expression in H1299 lung cancer cells.
- Employed Reverse Transcription-quantitative (RT-qPCR) PCR for validation of selected differentially expressed genes.
- Performed bioinformatics analysis to identify significant gene expression changes and pathway enrichment.
Main Results:
- Identified 119 differentially expressed lncRNAs and 40 differentially expressed mRNAs with a 2-fold change.
- Observed significant downregulation of lncRNAs (111) and mRNAs (35) in daidzein-treated cells.
- Validated microarray findings using RT-qPCR, confirming consistency in expression levels for selected lncRNAs.
Conclusions:
- Daidzein significantly alters the expression profiles of lncRNAs and mRNAs in lung cancer cells.
- The study suggests that daidzein's effects on lung cancer may be mediated through modulation of lncRNA expression.
- Further investigation into these differentially expressed genes could uncover novel therapeutic targets for lung cancer.
