Simultaneous G‐Quadruplex DNA Logic

Bader, Antoine; Cockroft, Scott L.

doi:10.1002/chem.201800756

Cited by 18 publications

(10 citation statements)

References 67 publications

(17 reference statements)

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“…The principle is, once again, based on exposing or blocking (by Watson−Crick pairing) a Gquadruplex domain; the fluorescent output signal results from the light-up properties of a fluorescent G4 ligand, NMM. 198 The design is different for Bader and Cockroft, 199 who recently reported three G4-based logic gates (YES, OR, and AND) that operate simultaneously in a single test tube; these gates respond to unique Boolean DNA inputs by undergoing a G4-to-duplex topological conversion, which is revealed by Thioflavin T fluorescence. G4-based logic gates may also involve enzymes, as recently shown by Debnath et al 200 This device selectively can be used to detect the enzymatic activity of DNase I as well as perform logic operations and combinatorial logic systems; it can be implemented using different combinations of nucleases as inputs.…”

Section: Dna Logic Gatesmentioning

confidence: 99%

DNA Quadruple Helices in Nanotechnology

2019

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DNA has played an early and powerful role in the development of bottomup nanotechnologies, not least because of DNA's precise, predictable, and controllable properties of assembly on the nanometer scale. Watson−Crick complementarity has been used to build complex 2D and 3D architectures and design a number of nanometer-scale systems for molecular computing, transport, motors, and biosensing applications. Most of such devices are built with classical B-DNA helices and involve classical A-T/U and G-C base pairs. However, in addition to the above components underlying the iconic double helix, a number of alternative pairing schemes of nucleobases are known. This review focuses on two of these noncanonical classes of DNA helices: G-quadruplexes and the imotif. The unique properties of these two classes of DNA helix have been utilized toward some remarkable constructions and applications: G-wires; nanostructures such as DNA origami; reconfigurable structures and nanodevices; the formation and utilization of hemin-utilizing DNAzymes, capable of generating varied outputs from biosensing nanostructures; composite nanostructures made up of DNA as well as inorganic materials; and the construction of nanocarriers that show promise for the therapeutics of diseases.

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Section: Dna Logic Gatesmentioning

confidence: 99%

DNA Quadruple Helices in Nanotechnology

2019

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“…This strategy controlling inhibition of RNA polymerase progression using photocontrollable G-quadruplexes could be applied to any promoter. Additionally, the photocontrol of hyperstable G-quadruplexes could be applied to other nucleic acids such as aptamers, , DNAzymes, mRNAs, − and telomeres, , as well as to nanotechnologies such as DNA computing, , DNA machines, and construction of photocontrollable DNA structures. , …”

Section: Discussionmentioning

confidence: 99%

Transcription Driven by Reversible Photocontrol of Hyperstable G-Quadruplexes

Ogasawara

2018

ACS Synth. Biol.

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G-quadruplexes occur in promoter regions, 5′-untranslated regions of mRNA and telomeric regions, and they function as regulatory elements for various key biological events, such as transcription, translation, and telomere elongation. As the stability of G-quadruplexes dramatically impacts these biological processes, controlling G-quadruplex stability via external stimuli such as light enables regulation of important biological phenomena with high spatial and temporal resolution. Here, we report a method for reversible photoregulation of transcription by controlling the stability of Gquadruplexes via cis−trans photoisomerization of photochromic nucleobase (PCN). Transcription was effectively inhibited when the PCN-modified G-quadruplex was in a hyperstable state, whereas transcription activity recovered markedly when the G-quadruplex changed to an unstable state induced by trans to cis PCN photoisomerization. Moreover, a reversibly photoactivatable plasmid was constructed by introducing PCN-modified Gquadruplexes downstream of the cytomegalovirus promoter of the pCS2 plasmid, which was used to demonstrate photoregulation of gene expression in zebrafish embryos.

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“…In 2018, Bader and Cockroft modulated the conformation of a G-quadruplex by modulating its structure. A series of DNA logic gates (“YES”, “AND”, “OR”) were prepared using the G4 structure which could bind specifically with thioflavin T and release obvious fluorescence as a detection method, and they could be run simultaneously in the system without causing mutual influence.…”

Section: Applications Of Molecular Logic Gatesmentioning

confidence: 99%

Advances in Applications of Molecular Logic Gates

Liu

et al. 2021

ACS Omega

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Logic gates are devices that can perform Boolean logic operations and are the basic components of integrated circuits for information processing and storage. In recent years, molecular logic gates are gradually replacing traditional silicon-based electronic computers with their significant advantages and are used in research in water quality monitoring, heavy metal ion detection, disease diagnosis and treatment, food safety detection, and biological sensors. Logic gates at the molecular level have broad development prospects and huge development potential. In this review, the development and application of logic gates in various fields are used as the entry point to discuss the research progress of logic gates and logic circuits. At the same time, the application of logic gates in quite a few emerging fields is briefly summarized and predicted.

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Simultaneous G‐Quadruplex DNA Logic

Cited by 18 publications

References 67 publications

DNA Quadruple Helices in Nanotechnology

DNA Quadruple Helices in Nanotechnology

Transcription Driven by Reversible Photocontrol of Hyperstable G-Quadruplexes

Advances in Applications of Molecular Logic Gates

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