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Updated: Feb 25, 2026

Continuous Fluorescence-Based Endonuclease-Coupled DNA Methylation Assay to Screen for DNA Methyltransferase Inhibitors
Published on: August 5, 2022
DNMT1-maintained hypermethylation of Krüppel-like factor 5 involves in the progression of clear cell renal cell
Rong-Jie Fu1, Wei He2, Xiao-Bo Wang3
1Institute of Health Sciences, Shanghai Institutes for Biological Sciences (SIBS), University of Chinese Academy of Sciences, Chinese Academy of Sciences (CAS) &Shanghai Jiao Tong University School of Medicine (SJTU-SM), Shanghai, China.
Abstract:
Clear cell renal cell carcinoma (ccRCC) is the major subtype of renal cell carcinoma (RCC) that is resistant to conventional radiation and chemotherapy. It is a challenge to explore effective therapeutic targets and drugs for this kind of cancer. Transcription factor Krüppel-like factor 5 (KLF5) exerts diverse functions in various tumor types. By analyzing cohorts of the Cancer Genome Atlas (TCGA) data sets, we find that KLF5 expression is suppressed in ccRCC patients and higher level of KLF5 expression is associated with better prognostic outcome. Our further investigations demonstrate that KLF5 genomic loci are hypermethylated at proximal exon 4 and suppression of DNA methyltransferase 1 (DNMT1) expression by ShRNAs or a methylation inhibitor 5-Aza-CdR can recover KLF5 expression. Meanwhile, there is a negative correlation between expressions of KLF5 and DNMT1 in ccRCC tissues. Ectopic KLF5 expression inhibits ccRCC cell proliferation and migration/invasion in vitro and decreases xenograft growth and metastasis in vivo. Moreover, 5-Aza-CdR, a chemotherapy drug as DNMTs' inhibitor that can induce KLF5 expression, suppresses ccRCC cell growth, while knockdown of KLF5 abolishes 5-Aza-CdR-induced growth inhibition. Collectively, our data demonstrate that KLF5 inhibits ccRCC growth as a tumor suppressor and highlight the potential of 5-Aza-CdR to release KLF5 expression as a therapeutic modality for the treatment of ccRCC.
Insights
Krüppel-like factor 5 (KLF5) acts as a tumor suppressor in clear cell renal cell carcinoma (ccRCC). Restoring KLF5 expression via the drug 5-Aza-CdR shows promise for treating ccRCC.
Area of Science:
- Oncology
- Molecular Biology
- Epigenetics
Background:
- Clear cell renal cell carcinoma (ccRCC) is a major subtype of renal cell carcinoma (RCC) resistant to conventional therapies.
- Identifying effective therapeutic targets for ccRCC remains a significant challenge.
- Krüppel-like factor 5 (KLF5) plays varied roles in different cancers.
Purpose of the Study:
- To investigate the role of KLF5 in ccRCC.
- To explore the relationship between KLF5, DNA methylation, and ccRCC progression.
- To evaluate the therapeutic potential of modulating KLF5 expression in ccRCC.
Main Methods:
- Analysis of Cancer Genome Atlas (TCGA) data sets for KLF5 expression and patient prognosis.
- Investigation of KLF5 gene methylation status and its regulation by DNA methyltransferase 1 (DNMT1).
- In vitro and in vivo experiments assessing the effects of KLF5 expression and 5-Aza-CdR treatment on ccRCC cells.
Main Results:
- KLF5 expression is suppressed in ccRCC, and higher KLF5 levels correlate with better prognosis.
- KLF5 genomic loci are hypermethylated, and DNMT1 suppression or 5-Aza-CdR treatment restores KLF5 expression.
- Ectopic KLF5 expression inhibits ccRCC cell proliferation, migration, invasion, and metastasis.
- 5-Aza-CdR suppresses ccRCC growth by inducing KLF5 expression, an effect abolished by KLF5 knockdown.
Conclusions:
- KLF5 functions as a tumor suppressor in ccRCC.
- Epigenetic silencing of KLF5 via hypermethylation contributes to ccRCC development.
- 5-Aza-CdR, a DNMT inhibitor, shows therapeutic potential for ccRCC by reactivating KLF5.
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