DNAzyme conjugated nanomaterials for biosensing applications

Gong, Liang; Lv, Yifan; Liang, Hao; Huan, Shuangyan; Zhang, Xiaobing; Zhang, Wei Jun

doi:10.1515/revac-2014-0006

Cited by 8 publications

(4 citation statements)

References 28 publications

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“…This is because the nanomaterials usually have unique physical and chemical properties. By combining some specific nanomaterials with G4hemin DNAzymes, the newly synthesized complexes can carry multiple labels for signal amplification, 16 and thereby the sensitivity of sensors can be significantly improved. To achieve this goal, Chen et al 17 prepared a thrombin electrochemical aptamer sensor based on the G4-hemin DNAzyme and the gold nanoparticles (AuNPs) that functionalized with octahedral copper(I) oxide (Cu 2 O).…”

Section: ■ Introductionmentioning

confidence: 99%

Amplified Electrochemical Hydrogen Peroxide Sensing Based on Cu-Porphyrin Metal–Organic Framework Nanofilm and G-Quadruplex-Hemin DNAzyme

Chen

Bai

et al. 2020

ACS Appl. Mater. Interfaces

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A novel electrochemical hydrogen peroxide (H 2 O 2 ) sensor based on Cu-porphyrin(Cu-TCPP)/G-quadruplex-hemin nanocomposite was constructed by assembling two-dimensional Cu-TCPP metal−organic framework (MOF) nanofilm and G-quadruplex-hemin DNAzyme. The Cu-TCPP synthesized by the surfactantassisted method has a wrinkled two-dimensional nanofilm morphology, which gives it a large surface area and accessible active sites. Cu-TCPP exhibits peroxidase activity and good stability and can catalyze the reduction of H 2 O 2 . In addition, Cu-TCPP can be used as a nanocarrier for G-quadruplex-hemin DNAzyme with strong peroxidase activity to achieve "biological barcode" amplification and improve stability. The cooperative interaction of Cu-TCPP and G-quadruplex-hemin DNAzyme effectively amplifies the electrochemical response signal. Electrochemical studies have shown that the constructed sensor exhibits good electrochemical sensing performance with three linear ranges: 0.08 μM to 0.11 mM, 0.11−0.91 mM, and 0.91−8.1 mM, with sensitivities of 2315.86, 301.00, and 65.71 μA/(mM cm 2 ), respectively, and the detection limit was 0.03 μM. In addition, the sensor shows good selectivity. In summary, this study provides a simple and effective new strategy for electrochemical sensing based on twodimensional MOFs and artificial enzymes.

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Section: ■ Introductionmentioning

confidence: 99%

Amplified Electrochemical Hydrogen Peroxide Sensing Based on Cu-Porphyrin Metal–Organic Framework Nanofilm and G-Quadruplex-Hemin DNAzyme

Chen

Bai

et al. 2020

ACS Appl. Mater. Interfaces

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“…Nanomaterials are materials with a size between 1 and 100 nm, with a large surface area and unique optical, electrical, and mechanical properties [ 42 ]. Combining the various characteristics of these nanomaterials with the catalytic characteristics of DNAzyme provides advantages such as the generation of optical signals and the role of a delivery vehicle for cell delivery [ 43 ].…”

Section: Dnazyme With Nanomaterialsmentioning

confidence: 99%

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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“…We are particularly interested in isolating fluorogenic RCDs (named RFDs) directly from random-sequence libraries to cleave the fluorogenic substrate. Due to the cleavage of the RNA linkage located between a pair of fluorophore/quencher modified nucleotides, RFDs can be conveniently used as real-time fluorescent sensors. , Although modifications of the existing RCDs with fluorophores and quenchers also represent an excellent option, such an approach could significantly affect the catalytic activity of an RCD …”

Section: Discovery Of Rna-cleaving Fluorogenic Dnazymes (Rfds)mentioning

confidence: 99%

Discovery and Biosensing Applications of Diverse RNA-Cleaving DNAzymes

2017

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DNA-based enzymes, or DNAzymes, are not known to exist in Nature but can be isolated from random-sequence DNA pools using test tube selection techniques. Since the report of the first DNAzyme in 1994, many catalytic DNA molecules for catalyzing wide-ranging chemical transformations have been isolated and studied. Our laboratory has a keen interest in searching for diverse DNAzymes capable of cleaving RNA-containing substrates, determining their sequence requirements and structural properties, and examining their potential as biosensors. This Account begins with the description of an accidental discovery on the sequence adaptability of a small DNAzyme known as "8-17", when we performed 16 parallel selections to search for DNAzymes that targeted each and every possible dinucleotide junction of RNA for cleavage. DNAzyme 8-17 dominated all the selection pools targeting purine-containing junctions. In-depth sequence analysis revealed that 8-17 could manifest itself in many sequence options defined by the requirement of four absolutely conserved nucleotides. This study also exposed the fact that 8-17 had poor activity toward pyrimidine-pyrimidine junctions. With this information in hand, we proceeded to the discovery of diverse non-8-17 DNAzymes that exhibited robust catalytic activity under physiological conditions. These DNAzymes were found to universally interact with their substrates through two Watson-Crick binding arms and have a catalytic core of varying length and secondary-structure complexity. RNA-cleaving DNAzymes were also isolated to function at acidic conditions (pH 3-5), and these molecules exhibited intriguing pH profiles, with the highest activity precisely matching the pH used for their selection. Interestingly, these DNAzymes appear to use non-Watson-Crick interactions in defining their structures. More recently, we have embarked on the development of ligand-responsive RNA-cleaving fluorogenic DNAzymes that can recognize specific bacterial pathogens, such as Escherichia coli and Clostridium difficile, using a method that does not require a priori identification of a specific biomarker. Instead, the crude extracellular mixture as a whole is used as the target to drive the DNAzyme isolation. High recognition specificity can be achieved with a double-selection approach in which a DNA library is negatively selected against the cellular mixture prepared from unintended bacteria, followed by positive selection against the same mixture derived from a specific species or strain of bacterial pathogen. Finally, we have shown that DNAzymes' compatibility with DNA replication can benefit the design of amplification mechanisms that uniquely link the action of RNA-cleaving DNAzymes to rolling circle amplification, an isothermal DNA amplification technique. These methods are well suited for translating the target-binding and cleavage activity of an analyte-activated RNA-cleaving DNAzyme into the production of massive amounts of DNA amplicons to achieve ultrahigh detection sensitivity. Given the high chemical stabil...

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DNAzyme conjugated nanomaterials for biosensing applications

Cited by 8 publications

References 28 publications

Amplified Electrochemical Hydrogen Peroxide Sensing Based on Cu-Porphyrin Metal–Organic Framework Nanofilm and G-Quadruplex-Hemin DNAzyme

Amplified Electrochemical Hydrogen Peroxide Sensing Based on Cu-Porphyrin Metal–Organic Framework Nanofilm and G-Quadruplex-Hemin DNAzyme

Advances and Trends in miRNA Analysis Using DNAzyme-Based Biosensors

Discovery and Biosensing Applications of Diverse RNA-Cleaving DNAzymes

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