DNA Triplexes‐Guided Assembly of G‐Quadruplexes for Constructing Label‐free Fluorescent Logic Gates

Xu, Lijun; Hong, Shanni; Zhou, Lu; Wang, Jine; Zhang, Jianye; Pei, Renjun

doi:10.1002/asia.201600626

Cited by 7 publications

(3 citation statements)

References 51 publications

(27 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Xu et al combined G-quadruplexes with another pH-sensitive unusual structure, a pyrimidine triplex. This nanostructure acts as an AND logic gate for H + and K + input, an INHIBIT gate for H + and Ag + (silver ions hinder the formation of Hoogsteen hydrogen bonding involved in G-quadruplex structures but do not prevent triplex formation), and a NOR gate for Ag + and Cu 2+ (G4 structures being disrupted by both ions) . Guo et al used silver ions and cysteine to build an IMPLICATION logic gate with triphenylmethane (TPM) fluorescence readout: Ag + quenches TPM fluorescence only if cysteine is absent.…”

Section: Reconfigurable Structures and Nanodevicesmentioning

confidence: 99%

See 1 more Smart Citation

DNA Quadruple Helices in Nanotechnology

2019

View full text Add to dashboard Cite

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.

show abstract

Section: Reconfigurable Structures and Nanodevicesmentioning

confidence: 99%

“…This nanostructure acts as an AND logic gate for H + and K + input, an INHIBIT gate for H + and Ag + (silver ions hinder the formation of Hoogsteen hydrogen bonding involved in G-quadruplex structures but do not prevent triplex formation), and a NOR gate for Ag + and Cu 2+ (G4 structures being disrupted by both ions). 205…”

Section: Dna Logic Gatesmentioning

confidence: 99%

DNA Quadruple Helices in Nanotechnology

2019

View full text Add to dashboard Cite

show abstract

“…To give an example, Pei's group used metal-ion triggered assembly of C•G-C + triplex to flexibly control the formation of G4 and constructed AND, OR, INH gates with the fluorescence of N-methyl mesoporphyrin IX (NMM) as outputs. [68] For the hairpin-derived MB, the fascinating merits of this structure are its high flexibility, low background, and elimination of tedious nano-quenchers. A famous example of MB-based Figure 9.…”

Section: Triplex Molecular Beacon and Artificially-modified Dnamentioning

confidence: 99%

Propelling DNA Computing with Materials’ Power: Recent Advancements in Innovative DNA Logic Computing Systems and Smart Bio‐Applications

Fan

Wang

et al. 2020

Advanced Science

View full text Add to dashboard Cite

DNA computing is recognized as one of the most outstanding candidates of next-generation molecular computers that perform Boolean logic using DNAs as basic elements. Benefiting from DNAs' inherent merits of low-cost, easy-synthesis, excellent biocompatibility, and high programmability, DNA computing has evoked substantial interests and gained burgeoning advancements in recent decades, and also exhibited amazing magic in smart bio-applications. In this review, recent achievements of DNA logic computing systems using multifarious materials as building blocks are summarized. Initially, the operating principles and functions of different logic devices (common logic gates, advanced arithmetic and non-arithmetic logic devices, versatile logic library, etc.) are elaborated. Afterward, state-of-the-art DNA computing systems based on diverse "toolbox" materials, including typical functional DNA motifs (aptamer, metal-ion dependent DNAzyme, G-quadruplex, i-motif, triplex, etc.), DNA tool-enzymes, non-DNA biomaterials (natural enzyme, protein, antibody), nanomaterials (AuNPs, magnetic beads, graphene oxide, polydopamine nanoparticles, carbon nanotubes, DNA-templated nanoclusters, upconversion nanoparticles, quantum dots, etc.) or polymers, 2D/3D DNA nanostructures (circular/interlocked DNA, DNA tetrahedron/polyhedron, DNA origami, etc.) are reviewed. The smart bio-applications of DNA computing to the fields of intelligent analysis/diagnosis, cell imaging/therapy, amongst others, are further outlined. More importantly, current "Achilles' heels" and challenges are discussed, and future promising directions of this field are also recommended.

show abstract

Simultaneous G‐Quadruplex DNA Logic

Bader

Cockroft

2018

Chemistry A European J

View full text Add to dashboard Cite

A fundamental principle of digital computer operation is Boolean logic, where inputs and outputs are described by binary integer voltages. Similarly, inputs and outputs may be processed on the molecular level as exemplified by synthetic circuits that exploit the programmability of DNA base-pairing. Unlike modern computers, which execute large numbers of logic gates in parallel, most implementations of molecular logic have been limited to single computing tasks, or sensing applications. This work reports three G-quadruplex-based logic gates that operate simultaneously in a single reaction vessel. The gates respond to unique Boolean DNA inputs by undergoing topological conversion from duplex to G-quadruplex states that were resolved using a thioflavin T dye and gel electrophoresis. The modular, addressable, and label-free approach could be incorporated into DNA-based sensors, or used for resolving and debugging parallel processes in DNA computing applications.

show abstract

DNA Triplexes‐Guided Assembly of G‐Quadruplexes for Constructing Label‐free Fluorescent Logic Gates

Cited by 7 publications

References 51 publications

DNA Quadruple Helices in Nanotechnology

DNA Quadruple Helices in Nanotechnology

Propelling DNA Computing with Materials’ Power: Recent Advancements in Innovative DNA Logic Computing Systems and Smart Bio‐Applications

Simultaneous G‐Quadruplex DNA Logic

Contact Info

Product

Resources

About