Cytosine-5 methylation-directed construction of a Au nanoparticle-based nanosensor for simultaneous detection of multiple DNA methyltransferases at the single-molecule level

Wang, Limin; Han, Xiao; Qiu, Jian-Ge; Jiang, Bing‐Hua; Zhang, Chunyang

doi:10.1039/d0sc03240a

Cited by 28 publications

(12 citation statements)

References 58 publications

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“…Single-molecule detection has gained overwhelming attention due to high signal-to-noise ratio, low sample consumption, and ultrahigh sensitivity. [41][42][43][44][45][46] We used two lung cancer biomarkers miR-155 and miR-21 as the targets. The presence of miR-155 and miR-21 can initiate three consecutive amplification reactions (i.e., cyclic strand displacement amplification (SDA), APE1-assisted cyclic cleavage, and rolling circle amplification (RCA)), converting extremely low abundant target miRNAs to abundant Cy5/Cy3 fluorophores-encoded DNA products whose digestion releases larger numbers of fluorescent molecules.…”

Section: Introductionmentioning

confidence: 99%

Multicolor fluorescence encoding of different microRNAs in lung cancer tissues at the single-molecule level

Chen

Liu

et al. 2021

Chem. Sci.

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Section: Introductionmentioning

confidence: 99%

Multicolor fluorescence encoding of different microRNAs in lung cancer tissues at the single-molecule level

Chen

Liu

et al. 2021

Chem. Sci.

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“…18 nanoparticles (AuNPs) and silver nanoparticles (AgNPs) are usually used to construct scattering probes to analyze and detect biomolecules, drugs, and food. 22,23 Since dark-field microscopy (DFM) has the advantages of high signal-to-noise ratio and sensitive response, it is often used to obtain the resonance light scattering signal of plasmonic nanoparticles. 24−26 At present, DFM is widely used in real-time and effective analysis of chemical reactions at the level of single nanoparticles.…”

Section: ■ Introductionmentioning

confidence: 99%

“…Plasmonic nanoparticles have bright and stable light scattering signals due to their localized surface plasmon resonance (LSPR) optical characteristics. − The LSPR of plasmonic nanoparticles has properties that are adjustable and related to different materials, morphologies, and sizes. − Due to these advantages, noble metals such as gold nanoparticles (AuNPs) and silver nanoparticles (AgNPs) are usually used to construct scattering probes to analyze and detect biomolecules, drugs, and food. , Since dark-field microscopy (DFM) has the advantages of high signal-to-noise ratio and sensitive response, it is often used to obtain the resonance light scattering signal of plasmonic nanoparticles. − At present, DFM is widely used in real-time and effective analysis of chemical reactions at the level of single nanoparticles. − …”

Section: Introductionmentioning

confidence: 99%

Weak Reaction Scatterometry of Plasmonic Resonance Light Scattering with Machine Learning

Peng

Luo

et al. 2021

Anal. Chem.

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Weak reactions are usually overlooked due to weak detectable features and susceptibility to interference from noise signals. Strategies for detecting weak reactions are essential for exploring reaction mechanisms and exploiting potential applications. Machine learning has recently been successfully used to identify patterns and trends in the data. Here, it is demonstrated that machine learning-based techniques can offer accurate local surface plasmon resonance (LSPR) scatterometry by improving the precision of the plasmonic scattering imaging in weak chemical reactions. Dark-field microscopy (DFM) imaging technique is the most effective method for high-sensitivity plasmonic nanoparticles LSPR scatterometry. Unfortunately, deviations caused by the instrument and operating errors are inevitable, and it is difficult to effectively detect the presence of weak reactions. Thus, introducing a machine learning calibration model to automatically calibrate the scattering signal of the nanoprobe in the reaction process can greatly improve the confidence of LSPR scatterometry under DFM imaging and allow DFM imaging to effectively monitor unobvious or weak reactions. By this approach, the weak oxidation of silver nanoparticles (AgNPs) in water by dissolved oxygen was successfully monitored. Moreover, a trivial reaction between AgNPs and mercury ions was detected in a dilute mercury solution with a concentration greater than 1.0 × 10 −10 mol/L. These results suggest the great potential of the combination of LSPR scatterometry and machine learning as a method for imaging analysis and intelligent sensing.

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“…et al constructed a gold nanoparticle-based nanosensor that can detect multiple DNA MTase enzymes at the single molecule level; simultaneously, Wang, Z.-Y. et al have recently reported a chemiluminescent sensor for bacteria and human DNA MTase quantification. , Although great progress has been made in the development of methods for monitoring the real-time activity of DNA MTases, the requirement for restriction endonucleases in these assays limits their application in compound screening, as the restriction endonuclease may be sensitive to antitumor drugs. , …”

Section: Introductionmentioning

confidence: 99%

FRET-Based Method for Direct, Real-Time Measurement of DNA Methyltransferase Activity

et al. 2020

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DNA methyltransferase activity is associated with a host of diseases, including cancers, where global hypomethylation of the genome, as well as marked changes in local DNA methylation patterns can be both diagnostic and prognostic for the disease. Despite this we currently lack a method for directly measuring the activity of the DNA methyltransferases, which would support the development of DNA methyltransferase-targeted therapies. Here, we demonstrate an assay for the direct measurement of methyltransferase activity, in real-time. We employ a fluorescent methyltransferase cofactor analogue, which when bound by the enzyme to a labelled target DNA sequence results in fluorescence resonance energy transfer (FRET) between the donor dye (DNA) and the acceptor dye (cofactor). We demonstrate that the method can be used to monitor the activity of DNA MTases in real time and can be applied to screen inhibitors of the DNA methyltransferases. We show this in both bulk phase and single molecule imaging experiments, highlighting the potential application of the assay in screening and biophysical studies of methyltransferase function.

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Cytosine-5 methylation-directed construction of a Au nanoparticle-based nanosensor for simultaneous detection of multiple DNA methyltransferases at the single-molecule level

Abstract: DNA methylation at cytosine/guanine dinucleotide islands (CpGIs) is the most prominent epigenetic modification in porokaryotic and eukaryotic genomes. DNA methyltransferases (MTases) are responsible for genomic methylation, and their aberrant activities...

Cited by 28 publications

References 58 publications

Multicolor fluorescence encoding of different microRNAs in lung cancer tissues at the single-molecule level

Multicolor fluorescence encoding of different microRNAs in lung cancer tissues at the single-molecule level

Weak Reaction Scatterometry of Plasmonic Resonance Light Scattering with Machine Learning

FRET-Based Method for Direct, Real-Time Measurement of DNA Methyltransferase Activity

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