Advances and Trends in MiRNA Analysis Using DNAzyme-Based Biosensors

Overview

Journal Biosensors (Basel)

Specialty Biotechnology

Date 2023 Sep 27

PMID 37754090

Authors

Minhyuk Lee

Seungjae Kang

Sungjee Kim

Nokyoung Park

Affiliations

Soon will be listed here.

Abstract

miRNAs are endogenous small, non-coding RNA molecules that function in post-transcriptional regulation of gene expression. Because miRNA plays a pivotal role in maintaining the intracellular environment, and abnormal expression has been found in many cancer diseases, detection of miRNA as a biomarker is important for early diagnosis of disease and study of miRNA function. However, because miRNA is present in extremely low concentrations in cells and many types of miRNAs with similar sequences are mixed, traditional gene detection methods are not suitable for miRNA detection. Therefore, in order to overcome this limitation, a signal amplification process is essential for high sensitivity. In particular, enzyme-free signal amplification systems such as DNAzyme systems have been developed for miRNA analysis with high specificity. DNAzymes have the advantage of being more stable in the physiological environment than enzymes, easy to chemically synthesize, and biocompatible. In this review, we summarize and introduce the methods using DNAzyme-based biosensors, especially with regard to various signal amplification methods for high sensitivity and strategies for improving detection specificity. We also discuss the current challenges and trends of these DNAzyme-based biosensors.

Citing Articles

Nanotechnology-based non-viral vectors for gene delivery in cardiovascular diseases.

Jiao L, Sun Z, Sun Z, Liu J, Deng G, Wang X Front Bioeng Biotechnol. 2024; 12:1349077.

PMID: 38303912 PMC: 10830866. DOI: 10.3389/fbioe.2024.1349077.

References

Weng B, Wang Y, Wang S, Liu Y, Kang N, Liu S . An Intelligent Laser-Free Photodynamic Therapy Based on Endogenous miRNA-Amplified CRET Nanoplatform. Chemistry. 2023; 29(33):e202300861. DOI: 10.1002/chem.202300861. View

Tian Y, He Y, Chen Y, Yin P, Mao C . A DNAzyme that walks processively and autonomously along a one-dimensional track. Angew Chem Int Ed Engl. 2005; 44(28):4355-8. DOI: 10.1002/anie.200500703. View

Robertson D, Joyce G . Selection in vitro of an RNA enzyme that specifically cleaves single-stranded DNA. Nature. 1990; 344(6265):467-8. DOI: 10.1038/344467a0. View

Lizardi P, Huang X, Zhu Z, Thomas D, Ward D . Mutation detection and single-molecule counting using isothermal rolling-circle amplification. Nat Genet. 1998; 19(3):225-32. DOI: 10.1038/898. View

Dirks R, Pierce N . Triggered amplification by hybridization chain reaction. Proc Natl Acad Sci U S A. 2004; 101(43):15275-8. PMC: 524468. DOI: 10.1073/pnas.0407024101. View

Esquela-Kerscher A, Slack F . Oncomirs - microRNAs with a role in cancer. Nat Rev Cancer. 2006; 6(4):259-69. DOI: 10.1038/nrc1840. View

Yang L, Wu Q, Chen Y, Liu X, Wang F, Zhou X . Amplified MicroRNA Detection and Intracellular Imaging Based on an Autonomous and Catalytic Assembly of DNAzyme. ACS Sens. 2018; 4(1):110-117. DOI: 10.1021/acssensors.8b01000. View

Yuan R, Yu X, Zhang Y, Xu L, Cheng W, Tu Z . Target-triggered DNA nanoassembly on quantum dots and DNAzyme-modulated double quenching for ultrasensitive microRNA biosensing. Biosens Bioelectron. 2016; 92:342-348. DOI: 10.1016/j.bios.2016.11.002. View

Li X, Zhang H, Tang Y, Wu P, Xu S, Zhang X . A Both-End Blocked Peroxidase-Mimicking DNAzyme for Low-Background Chemiluminescent Sensing of miRNA. ACS Sens. 2017; 2(6):810-816. DOI: 10.1021/acssensors.7b00178. View

10.

Lee J, Na H, Lee S, Kim W . Advanced graphene oxide-based paper sensor for colorimetric detection of miRNA. Mikrochim Acta. 2021; 189(1):35. DOI: 10.1007/s00604-021-05140-1. View

11.

Ida J, Chan S, Glokler J, Lim Y, Choong Y, Lim T . G-Quadruplexes as An Alternative Recognition Element in Disease-Related Target Sensing. Molecules. 2019; 24(6). PMC: 6471233. DOI: 10.3390/molecules24061079. View

12.

Lu J, Getz G, Miska E, Alvarez-Saavedra E, Lamb J, Peck D . MicroRNA expression profiles classify human cancers. Nature. 2005; 435(7043):834-8. DOI: 10.1038/nature03702. View

13.

Mettenbrink E, Yang W, Wilhelm S . Bioimaging with Upconversion Nanoparticles. Adv Photonics Res. 2023; 3(12). PMC: 9858112. DOI: 10.1002/adpr.202200098. View

14.

Li P, Zhang H, Wang D, Tao Y, Zhang L, Zhang W . An efficient nonlinear hybridization chain reaction-based sensitive fluorescent assay for in situ estimation of calcium channel protein expression on bone marrow cells. Anal Chim Acta. 2018; 1041:25-32. DOI: 10.1016/j.aca.2018.08.031. View

15.

Santoro S, Joyce G . A general purpose RNA-cleaving DNA enzyme. Proc Natl Acad Sci U S A. 1997; 94(9):4262-6. PMC: 20710. DOI: 10.1073/pnas.94.9.4262. View

16.

Dellett M, Simpson D . Considerations for optimization of microRNA PCR assays for molecular diagnosis. Expert Rev Mol Diagn. 2016; 16(4):407-14. DOI: 10.1586/14737159.2016.1152184. View

17.

Silverman S . Catalytic DNA: Scope, Applications, and Biochemistry of Deoxyribozymes. Trends Biochem Sci. 2016; 41(7):595-609. PMC: 4930396. DOI: 10.1016/j.tibs.2016.04.010. View

18.

Li J, Zheng W, Kwon A, Lu Y . In vitro selection and characterization of a highly efficient Zn(II)-dependent RNA-cleaving deoxyribozyme. Nucleic Acids Res. 1999; 28(2):481-8. PMC: 102519. DOI: 10.1093/nar/28.2.481. View

19.

Cao X, Dong J, Sun R, Zhang X, Chen C, Zhu Q . A DNAzyme-enhanced nonlinear hybridization chain reaction for sensitive detection of microRNA. J Biol Chem. 2023; 299(6):104751. PMC: 10220273. DOI: 10.1016/j.jbc.2023.104751. View

20.

Chen J, Meng H, Tian Y, Yang R, Du D, Li Z . Recent advances in functionalized MnO nanosheets for biosensing and biomedicine applications. Nanoscale Horiz. 2020; 4(2):321-338. DOI: 10.1039/c8nh00274f. View