Sensitive detection of DNA methyltransferase using the dendritic rolling circle amplification-induced fluorescence

• Published in: Analytica chimica acta Vol. 956; pp. 57 - 62
• Main Authors: Song, Weiling, Luan, Yawen, Guo, Xiaoyan, He, Peng, Zhang, Xiaoru
• Format: Journal Article
• Language: English
• Published: Netherlands Elsevier B.V 01.03.2017
• Subjects: Dendritic rolling circle amplification; DNA; DNA Methylation; DNA methyltransferase; DNA Modification Methylases - analysis; DNA Probes; DNA, Catalytic; DNAzyme; Fluorescence; Nucleic Acid Amplification Techniques; Nucleic Acid Conformation; DNAzyme; Fluorescence; DNA methyltransferase; DNA; Dendritic rolling circle amplification
• ISSN: 0003-2670; 1873-4324
• DOI: 10.1016/j.aca.2016.12.020

The analysis of DNA methylation and MTase activities is very important in the early clinical diagnosis of cancer, on purposes of providing insights into the mechanism of gene repression and developing novel drugs of treating methylation-related diseases. Combining the dendritic rolling circle amplification and Mg2+-dependent DNAzyme with a function of catalyzing the generation of a fluorophore-labeled nucleic acid acting as readout signal for the analyses, a new fluorescent method for DNA methyltransferase detection was reported. In the presence of DNA methyltransferases (MTase), the methylation-responsive sequence of double-stranded DNA probe was methylated and then cleaved by the methylation-sensitive restriction endonuclease DpnI. The cleaved hybrid DNA probe then functioned as a signal primer to initiate the dendritic rolling circle amplification reaction, containing a circular DNA and a structurally tailored hairpin structure. Subsequently, the circular nucleic acid template produced a complementary sequence to the Mg2+-dependent DNAzyme and a sequence identical to the loop region of the co-added hairpin structure. At last, a fluorescence readout signal was afforded by the DNAzyme-catalyzed cleavage of a fluorophore/quencher-modified substrate. This method enabled the analysis of the target MTase with a detection limit up to 0.36 U mL−1, and a dynamic range was obtained from 1.0 to 10 U mL−1. Moreover, the proposed strategy was successfully applied in real sample assay. With this assay, the inhibitors of MTase were evaluated and screened which might be helpful for the discovery of anticancer drugs. [Display omitted] •Mg2+-dependent DNAzyme and signal amplification strategy were implemented for the detection of DNA methyltransferase.•The dendritic rolling circle amplification was employed for signal amplified process.•This strategy exhibits an excellent specificity and is successfully applied in evaluation of the inhibitors of MTase.