Ratiometric fluorescent 3D DNA walker and catalyzed hairpin assembly for determination of microRNA

Li, Qing; Liang, Xuehua; Mu, Xiaomei; Tan, Li; Lu, Jiangnan; Hu, Kun; Zhao, Shulin; Tian, Jianniao

doi:10.1007/s00604-020-04324-5

Cited by 20 publications

(4 citation statements)

References 35 publications

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“…Therefore, the presence of the target ssDNA even at a small amount could result in a large formation of H1:H2 duplex that is easy to detect by, e.g., measuring the Förster resonance energy transfer (FRET) between two fluorophores being labeled on H1 and H2. This FRET based DNA sensor is very sensitive and is found to be widely used in various applications [11] , [12] , [13] . However, most of the work still rely on commercial fluorometers to measure FRET.…”

Section: Validation and Characterizationmentioning

confidence: 99%

Portable device for dual detection of fluorescence and absorbance for biosensing or chemical sensing applications

et al. 2022

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Section: Validation and Characterizationmentioning

confidence: 99%

Portable device for dual detection of fluorescence and absorbance for biosensing or chemical sensing applications

et al. 2022

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“…Ultraspecific fluorescent probes have been proposed to detect concentrations of nucleic acids in the picomolar range without the use of amplification methods. − Such amplification-free strategies dramatically shorten the assay duration and allow for point-of-care diagnostic tests. Fluorescently modified nucleotides are often designed to preserve the properties of canonical nucleobases and consequently the ability to form hydrogen-bonded base pairing, as well as enzyme and protein recognition .…”

Section: Introductionmentioning

confidence: 99%

Short Tandem Repeat DNA Profiling Using Perylene-Oligonucleotide Fluorescence Assay

Hernández Bustos,

Martiny,

Bom Pedersen

et al. 2023

Anal. Chem.

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We report an amplification-free genotyping method to determine the number of human short tandem repeats (STRs). DNA-based STR profiling is a robust method for genetic identification purposes such as forensics and biobanking and for identifying specific molecular subtypes of cancer. STR detection requires polymerase amplification, which introduces errors that obscure the correct genotype. We developed a new method that requires no polymerase. First, we synthesized perylene-nucleoside reagents and incorporated them into oligonucleotide probes that recognize five common human STRs. Using these probes and a bead-based hybridization approach, accurate STR detection was achieved in only 1.5 h, including DNA preparation steps, with up to a 1000-fold target DNA enrichment. This method was comparable to PCR-based assays. Using standard fluorometry, the limit of detection was 2.00 ± 0.07 pM for a given target. We used this assay to accurately identify STRs from 50 human subjects, achieving >98% consensus with sequencing data for STR genotyping.

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“…Owing to these merits, great efforts have been devoted to the development of ratiometric nanoplatforms for in vivo imaging of miRNA in cells. Gold nanoparticles (Au NPs), ,, quantum dots (QDs), , silver clusters, , and up-conversion nanoparticles (UCNPs) are the most used nanomaterials. AuNPs can be readily assembled with DNA probes and well quench the fluorophores getting closer to them, and thus, can exhibit FRET signals when they are assembled with dual fluorophores (donor and acceptor fluorophores) labeled DNA probes .…”

Section: Introductionmentioning

confidence: 99%

“…17−19 Owing to these merits, great efforts have been devoted to the development of ratiometric nanoplatforms for in vivo imaging of miRNA in cells. Gold nanoparticles (Au NPs), 10,20,21 quantum dots (QDs), 22,23 silver clusters, 16,24 and up-conversion nanoparticles (UCNPs) 25 to them, and thus, can exhibit FRET signals when they are assembled with dual fluorophores (donor and acceptor fluorophores) labeled DNA probes. 10 QDs, silver clusters, and UCNPs have inherent fluorescence, and thus, have effective FRET when they are combined with singlefluorophore-labeled DNA probes.…”

Section: Introductionmentioning

confidence: 99%

Ratiometric Fluorescence Imaging of Intracellular MicroRNA with NIR-Assisted Signal Amplification by a Ru-SiO₂@Polydopamine Nanoplatform

Deng

Liu

et al. 2021

ACS Appl. Mater. Interfaces

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Accurate and sensitive fluorescence imaging of intracellular miRNA is essential for understanding the mechanism underlying some physiological and pathological events, as well as the prevention and diagnosis of diseases. Herein, a highly sensitive ratiometric fluorescent nanoprobe for intracellular miRNA imaging was fabricated by integrating a Ru-SiO 2 @polydopamine (Ru-SiO 2 @PDA) nanoplatform with a near-infrared light (NIR)-assisted DNA strand displacement signal amplification strategy. The Ru-SiO 2 @PDA spheres have excellent biosafety, high photothermal effect, and unique photophysical properties that can both emit a stable red fluorescence and well quench the fluorophores getting closer to them. So, when the fuel DNA and carboxyfluorescein (FAM)-labeled signal DNA are co-assembled on their outer surfaces, the FAM's green fluorescence is quenched, and a low ratiometric signal is obtained. However, in the presence of miRNA, the target displaces the signal DNA from the capture DNA, releasing the signal DNA far away from the Ru-SiO 2 @PDA. Then, the green fluorescence recovers and leads to an enhanced I green / I red value. Under NIR light irradiation, the Ru-SiO 2 @PDA increases the local temperature around the probe and triggers the release of fuel DNA, which thus recycles the target miRNA and effectively amplifies the ratiometric signal. Using A549 cells as a model, the nanoprobe realizes the highly sensitive ratiometric fluorescence imaging of miRNA let-7a, as well as its in vivo up-and downregulation expressions. It provides a facile tool for highly sensitive and accurate intracellular miRNA detection through one-step incubation and may pave a new avenue for single-cell analysis.

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Ratiometric fluorescent 3D DNA walker and catalyzed hairpin assembly for determination of microRNA

Cited by 20 publications

References 35 publications

Portable device for dual detection of fluorescence and absorbance for biosensing or chemical sensing applications

Portable device for dual detection of fluorescence and absorbance for biosensing or chemical sensing applications

Short Tandem Repeat DNA Profiling Using Perylene-Oligonucleotide Fluorescence Assay

Ratiometric Fluorescence Imaging of Intracellular MicroRNA with NIR-Assisted Signal Amplification by a Ru-SiO₂@Polydopamine Nanoplatform

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Ratiometric fluorescent 3D DNA walker and catalyzed hairpin assembly for determination of microRNA

Cited by 20 publications

References 35 publications

Portable device for dual detection of fluorescence and absorbance for biosensing or chemical sensing applications

Portable device for dual detection of fluorescence and absorbance for biosensing or chemical sensing applications

Short Tandem Repeat DNA Profiling Using Perylene-Oligonucleotide Fluorescence Assay

Ratiometric Fluorescence Imaging of Intracellular MicroRNA with NIR-Assisted Signal Amplification by a Ru-SiO2@Polydopamine Nanoplatform

Contact Info

Product

Resources

About

Ratiometric Fluorescence Imaging of Intracellular MicroRNA with NIR-Assisted Signal Amplification by a Ru-SiO₂@Polydopamine Nanoplatform