A Label-Free Fluorescent AND Logic Gate Aptasensor for Sensitive ATP Detection

Zhang, Jingjing; Yang, Chunzheng; Niu, Chaoqun; Liu, Chen; Cai, Xuepin; Du, Jie; Chen, Yong

doi:10.3390/s18103281

Cited by 6 publications

(6 citation statements)

References 42 publications

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“…Boolean logic gates have a wide range of applications, for example, in the construction of arithmetic units, including the half adder and the subtractor [ 21 , 24–27 ]. The arithmetic units are capable of carrying out simple binary mathematical operations necessary for digital computing (Supplementary Fig S5).…”

Section: Resultsmentioning

confidence: 99%

Implementation of novel boolean logic gates for IMPLICATION and XOR functions using riboregulators

Chen

et al. 2022

Bioengineered

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To date, several different types of synthetic genetic switches, including riboregulators, riboswitches, and toehold switches, have been developed to construct AND, OR, NOT, NAND, NOR, and NOT IMPLICATION (NIMP) gates. The logic gate can integrate multiple input signals following a set of algorithms and generate a response only if strictly defined conditions are met. However, there are still some logic gates that have not been implemented but are necessary to build complex genetic circuits. Here, based on the toehold switches and three-way-junction (3WJ) repressors, we designed two novel biological Boolean logic gates of IMPLICATION (IMP) and XOR. Subsequently, the outputs of these two logic gates were characterized by fluorescence analysis, indicating that they can achieve the truth tables of logical gates. Furthermore, the fluorescence intensity under the logical TRUE condition was significantly higher than under the logical FALSE condition, suggesting the high dynamic range of the ON/OFF ratios. Because of the programmability of synthetic RNA switches, the constructed RNA logic gates could serve as elementary units to build a versatile and powerful platform for translational regulation and RNA-based biological computation.

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Section: Resultsmentioning

confidence: 99%

Implementation of novel boolean logic gates for IMPLICATION and XOR functions using riboregulators

Chen

et al. 2022

Bioengineered

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“…Single-stranded DNA was adsorbed on the surface of GO through π-π stacking, fluorescence resonance energy transfer (FRET) occurred between PicoGreen dye combined with singlestranded DNA and GO, and fluorescence was quenched. But double-stranded DNA with perfect pairing did not have this property (Zhang et al 2018a;Li et al 2011;Zhang et al 2018b;Zhang et al 2018c). Scheme 1 exhibits the principle of an aptasensor for ATP detection.…”

Section: Resultsmentioning

confidence: 99%

A label-free logic gate hairpin aptasensor for sensitive detection of ATP based on graphene oxide and PicoGreen dye

Zhang

et al. 2021

J Anal Sci Technol

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Background In this paper, a simple, enzyme-free, label-free fluorescence, high sensitivity logic gate hairpin aptasensor was developed for adenosine triphosphate (ATP) detection based on graphene oxide (GO) and PicoGreen dye. Methods Using single-strand deoxyribonucleic acid (DNA) and adenosine triphosphate (ATP) as input signal and fluorescence signal as output signal, if single-strand DNA (DNA-L), single-strand DNA (DNA-S), and ATP were present at the same time, one segment of DNA-L formed a hairpin ring with ATP, and the other segment of DNA-L formed a completely complementary hairpin stem with DNA-S. The hairpin DNA was detached from the GO surface, and PicoGreen dye was embedded into the hairpin stem, and the fluorescence signal was enhanced. The molecular logic gate was constructed through the establishment of logic histogram, logic circuit, truth table, and logic formula. The biosensor-related performances including sensitivity, selectivity, and linearity were investigated, respectively. Results We have successfully constructed a AND logic gate. The detection limit of ATP is 138.0 pmol/L (3σ/slope) with detection range of 50–500 nmol/L (R2 = 0.98951), and its sensitivity is 4.748 × 106–6.875 × 108 a.u. (mol/L)−1. Conclusions The logic gate hairpin aptamer sensor has the advantages of high sensitivity, low detection limit, and low cost, and can be successfully applied to the detection of adenosine triphosphate (ATP) in actual human urine samples.

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“…This section discusses the restoration of fluorescence after desorption of labeled aptamers from graphene oxide sheets upon interaction with targets [ 76 ]; a similar scheme using different fluorescent labels is shown [ 77 ]; there is a logic on hemin-containing graphene nanosheets capable of catalyzing a peroxidase-like reaction, while the interaction of aptamers with targets led to the aggregation of nanosheets among themselves [ 70 ]; a half-adder and half-subtractor based on aptamers labeled with quantum dots and sorbed on graphene oxide were developed [ 64 ]. Another logic gate was created using dsDNA staining with a fluorescent dye [ 124 ].…”

Section: Optical Detectionmentioning

confidence: 99%

“…As with the previous gates, an AND gate was created, where ATP and ssDNA were used as inputs [ 124 ]. On the surface of graphene oxide, a DNA duplex containing an aptamer on ATP and a complementary sequence was physically immobilized through the single-stranded end.…”

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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A Label-Free Fluorescent AND Logic Gate Aptasensor for Sensitive ATP Detection

Cited by 6 publications

References 42 publications

Implementation of novel boolean logic gates for IMPLICATION and XOR functions using riboregulators

Implementation of novel boolean logic gates for IMPLICATION and XOR functions using riboregulators

A label-free logic gate hairpin aptasensor for sensitive detection of ATP based on graphene oxide and PicoGreen dye

Logic Gates Based on DNA Aptamers

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