A DNAzyme-enhanced nonlinear hybridization chain reaction for sensitive detection of microRNA

Cao, Xiuen; Dong, Jiani; Sun, Ruowei; Zhang, Xun; Chen, Chuanpin; Zhu, Qubo

doi:10.1016/j.jbc.2023.104751

Cited by 5 publications

(5 citation statements)

References 34 publications

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“…HCR-DNAzyme probe was designed to amplify the production of DNAzyme as a result of HCR in order to be applied as a biosensor for miRNA detection by coupling HCR with DNAzyme ( Figure 2 b) [ 32 ]. In the absence of an initiator strand, four types of hairpins coexist where the stem-loop structure is maintained stably.…”

Section: Signal Amplification Strategymentioning

confidence: 99%

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Advances and Trends in miRNA Analysis Using DNAzyme-Based Biosensors

Lee,

Kang,

Kim

et al. 2023

Biosensors

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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.

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Section: Signal Amplification Strategymentioning

confidence: 99%

“…( d ) Schematic illustration of the design of the RCD-based DNA walker amplification method for miRNA detection. (Adapted from [ 29 , 32 , 34 , 37 ].).…”

Section: Signal Amplification Strategymentioning

confidence: 99%

Advances and Trends in miRNA Analysis Using DNAzyme-Based Biosensors

Lee,

Kang,

Kim

et al. 2023

Biosensors

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“…[25][26][27] On one hand, the hybridization chain reaction (HCR) is one of the most common methods in enzyme-free isothermal nucleic acid amplication because of its versatility, controllability, and efficiency. [28][29][30][31] Under the induction of the target DNA, HCR occurs between two self-stable hairpin probes, and double-stranded DNAs (dsDNAs) with variable length are produced. On the other hand, various nanozymes are being explored to offer amplied signals by catalyzing some chromogenic reactions for highly sensitive determination, because of their high environmental stability, suitable catalytic activity, and simple synthesis schemes.…”

Section: Introductionmentioning

confidence: 99%

Target-triggered dual signal amplification based on HCR-enhanced nanozyme activity for the sensitive visual detection of Escherichia coli

Yan,

Wu,

Wang

et al. 2024

Anal. Methods

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“…However, the sensitivity of this traditional HCR system was suboptimal, and the reaction kinetics were limited . Hence, two-dimensional DNA biosensing systems, such as multibranch HCR − and net-like HCR, , have achieved exponential signal amplification of DNA structures in a two-dimensional space through DNA nanoassembly, building upon Dirks et al’s linear signal amplification foundation. The dumbbell hairpin is a specially designed probe that has been widely applied in liquid biopsy. − Chen et al designed a dumbbell hairpin that can recognize dual miRNAs simultaneously, combined Ag + and Hg 2+ , and used CdTe quantum dots and carbon dots to achieve signal amplification for enzyme-free amplification and instant detection of dual miRNAs in urine .…”

Section: Introductionmentioning

confidence: 99%

Dumbbell Dual-Hairpin Triggered DNA Nanonet Assembly for Cascade-Amplified Sensing of Exosomal MicroRNA

Li,

Tang,

Deng

et al. 2024

ACS Omega

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Exosomal microRNAs (miRNAs) are valuable biomarkers closely associated with cancer progression. Therefore, sensitive and specific exosomal miRNA biosensing has been employed for cancer diagnosis, prognosis, and prediction. In this study, a miRNA-based DNA nanonet assembly strategy is proposed, enabling the biosensing of exosomal miRNAs through dumbbell dual-hairpin under isothermal enzyme-free conditions. This strategy dexterously designs a specific dumbbell dual-hairpin that can selectively recognize exosomal miRNA, inducing conformational changes to cascade-generated X-shaped DNA structures, facilitating the extension of the X-shaped DNA in three-dimensional space, ultimately forming a DNA nanonet assembly. On the basis of the target miRNA, our design enriches the fluorescence signal through the cascade assembly of DNA nanonet and realizes the secondary signal amplification. Using exosomal miR-141 as the target, the resultant fluorescence sensing demonstrates an impressive detection limit of 57.6 pM and could identify miRNA sequences with single-base variants with high specificity. Through the analysis of plasma and urine samples, this method effectively distinguishes between benign prostatic hyperplasia, prostate cancer, and metastatic prostate cancer. Serving as a novel noninvasive and accurate screening and diagnostic tool for prostate cancer, this dumbbell dual-hairpin triggered DNA nanonet assembly strategy is promising for clinical applications.

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A DNAzyme-enhanced nonlinear hybridization chain reaction for sensitive detection of microRNA

Cited by 5 publications

References 34 publications

Advances and Trends in miRNA Analysis Using DNAzyme-Based Biosensors

Advances and Trends in miRNA Analysis Using DNAzyme-Based Biosensors

Target-triggered dual signal amplification based on HCR-enhanced nanozyme activity for the sensitive visual detection of Escherichia coli

Dumbbell Dual-Hairpin Triggered DNA Nanonet Assembly for Cascade-Amplified Sensing of Exosomal MicroRNA

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