“Plug and Play” logic gate construction based on chemically triggered fluorescence switching of gold nanoparticles conjugated with Cy3-tagged aptamer

Zhang, Yali; Li, Cheuk‐Wing; Zhou, Lefei; Chen, Zhanpeng; Yi, Changqing

doi:10.1007/s00604-020-04421-5

Cited by 8 publications

(6 citation statements)

References 57 publications

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“…The excitation wavelength was 530 nm, while the emission spectrum had two peaks near 570 nm and 610 nm. Here, we used the peak intensity at 570 nm to calculate the fluorescence recovery efficiency and quantify the concentration of targets, which exhibited the maximum emission wavelength of Cy3 [ 35 ]. When the concentration of the 18S rDNA gene changed between 10 −4 pM to 10 5 pM, the fluorescence intensity increased with the increase of the target gene concentration.…”

Section: Resultsmentioning

confidence: 99%

A Sensitive and Portable Double-Layer Microfluidic Biochip for Harmful Algae Detection

Qiang

Han

et al. 2022

Micromachines

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Harmful algal blooms (HABs) are common disastrous ecological anomalies in coastal waters. An effective algae monitoring approach is important for natural disaster warning and environmental governance. However, conducting rapid and sensitive detection of multiple algae is still challenging. Here, we designed an ultrasensitive, rapid and portable double-layer microfluidic biochip for the simultaneous quantitative detection of six species of algae. Specific DNA probes based on the 18S ribosomal DNA (18S rDNA) gene fragments of HABs were designed and labeled with the fluorescent molecule cyanine-3 (Cy3). The biochip had multiple graphene oxide (GO) nanosheets-based reaction units, in which GO nanosheets were applied to transfer target DNA to the fluorescence signal through a photoluminescence detection system. The entire detection process of multiple algae was completed within 45 min with the linear range of fluorescence recovery of 0.1 fM–100 nM, and the detection limit reached 108 aM. The proposed approach has a simple detection process and high detection performance and is feasible to conduct accurate detection with matched portable detection equipment. It will have promising applications in marine natural disaster monitoring and environmental care.

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Section: Resultsmentioning

confidence: 99%

A Sensitive and Portable Double-Layer Microfluidic Biochip for Harmful Algae Detection

Qiang

Han

et al. 2022

Micromachines

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“…Inspired by the observations in the fluorescence switching of AuNPs-aptamers by antibiotics (CAP and Strep) and metal ions (Hg 2+ and Ni 2+ ), a fluorometric logic system was designed to implement logic operations such as YES, NOT, INH, OR and (2-4)-Decoder (figure 3). For a molecular logic operation, specific chemicals serve as its inputs, while the production of a particular chemical species serves as its outputs [40][41][42][43][44][45][46][47][48][49][50][51][52][53][54][55][56]. It has been well-documented that various chemical systems including biomacromolecules, organic molecules [51], and nanomaterials especially carbon dots [48,49,53,54], AuNPs [40,55,56] have been successfully conditioned to implement all 16 fundamental logic gates and even neural network molecular logic gates.…”

Section: Logic Gate Designmentioning

confidence: 99%

Development of gold nanoparticles-aptamer nanocomposite for multiplexed analysis of antibiotics and design of molecular logic gates

Yang¹,

Zhang²,

Zhao³

et al. 2021

Nanotechnology

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The widespread use of antibiotics caused severe problems of antibiotic residues in foodstuffs and water, posing a serious threat to public health and thus urging the development of sensitive, selective, and rapid detection methods for antibiotics. In this study, a fluorescence resonance energy transfer (FRET)-based system is developed for the multiplexed analysis of chloramphenicol (CAP) and streptomycin (Strep) with detection limits of 2.51 and 8.69 μg l−1, respectively. The FRET-based system consists of Cy3-tagged anti-CAP aptamer-conjugated gold nanoparticles (AuNPs) (referred to as AuNPs-AptCAP) and Cy5-tagged anti-Strep aptamer-conjugated AuNPs (referred to as AuNPs-AptStrep). In addition, AuNPs-AptCAP and AuNPs-AptStrep have been demonstrated to serve as signal transducers for implementing a series of logic operations such as YES, NOT, INH, OR, (2-4)-Decoder and even more complicated multi-level logic gates (OR-INH). Based on the outputs of logic operations, it could be figured out whether targeted analytes were present or not, thus enabling multiplex sensing and evaluation of pollution status. This proof of concept study might provide a new route for the enhanced sensing performance to distinguish different pollution status as well as the design of molecular mimics of logic elements to demonstrate better applicability.

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“…A combination of switching an aptamer from dsDNA to a target with a chain replacement strategy is known; the system used three-input data [ 57 ]. Also a system based on a combination of a fluorescent labeled aptamer, which is immobilized on the AuNPs surface in the form of a hairpin, and different metal ions is obtained recently [ 89 ].…”

Section: Optical Detectionmentioning

confidence: 99%

“…System, consisting of AuNPs conjugated with Cy3-tagged aptamer against chloramphenicol, was used to fabricate YES, PASS 0, INH, NOT, PASS 1, and NAND logic gates [ 89 ]. Initially ssDNA with the aptamer was in the form of a hairpin so the Cy3 label situated in the close proximity to the AuNPs surface.…”

Section: Optical Detectionmentioning

confidence: 99%

Logic Gates Based on DNA Aptamers

Andrianova

Kuznetsov

2020

Pharmaceuticals

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DNA bio-computing is an emerging trend in modern science that is based on interactions among biomolecules. Special types of DNAs are aptamers that are capable of selectively forming complexes with target compounds. This review is devoted to a discussion of logic gates based on aptamers for the purposes of medicine and analytical chemistry. The review considers different approaches to the creation of logic gates and identifies the general algorithms of their creation, as well as describes the methods of obtaining an output signal which can be divided into optical and electrochemical. Aptameric logic gates based on DNA origami and DNA nanorobots are also shown. The information presented in this article can be useful when creating new logic gates using existing aptamers and aptamers that will be selected in the future.

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“Plug and Play” logic gate construction based on chemically triggered fluorescence switching of gold nanoparticles conjugated with Cy3-tagged aptamer

Cited by 8 publications

References 57 publications

A Sensitive and Portable Double-Layer Microfluidic Biochip for Harmful Algae Detection

A Sensitive and Portable Double-Layer Microfluidic Biochip for Harmful Algae Detection

Development of gold nanoparticles-aptamer nanocomposite for multiplexed analysis of antibiotics and design of molecular logic gates

Logic Gates Based on DNA Aptamers

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