Effective construction of a AuNPs–DNA system for the implementation of various advanced logic gates

In this work, we integrate DNA computing at the nanoscale on the basis of the self-assembly of single stranded polyA-DNA on AuNPs as a precursor solution. As a “lab-on-a-nanoparticle”, the intelligent DNA strand modified AuNPs could be operated to realize a variety of Boolean logic gates including half adder, half subtractor, 2:1 encoder and 4:2 encoder under enzyme-free conditions for the first time. The signal readout methods, FAM fluorescence, G-quadruplex enhanced fluorescence of NMM and the i-motif structure enhanced fluorescence of CV were used to report the final signal in different logic operations, respectively. The mechanisms were further investigated by native polyacrylamide gel electrophoresis. These investigations provide a wider field of vision towards prototypical DNA-based circuits in biological systems and promote the development of advanced logic circuits.

[1]  Changtong Wu,et al.  An enzyme-free and DNA-based Feynman gate for logically reversible operation. , 2015, Chemical communications.

[2]  Imrich Géci,et al.  A novel FRET pair for detection of parallel DNA triplexes by the LightCycler , 2010, BMC biotechnology.

[3]  Shaojun Dong,et al.  Molecular aptamer beacon tuned DNA strand displacement to transform small molecules into DNA logic outputs. , 2014, Chemical communications.

[4]  Haojun Liang,et al.  Synchronized assembly of gold nanoparticles driven by a dynamic DNA-fueled molecular machine. , 2012, Journal of the American Chemical Society.

[5]  Alexander Prokup,et al.  Interfacing synthetic DNA logic operations with protein outputs. , 2014, Angewandte Chemie.

[6]  Hua Cui,et al.  Molecular encoder-decoder based on an assembly of graphene oxide with dye-labelled DNA. , 2014, Chemical communications.

[7]  Wei Hong,et al.  A resettable and reprogrammable DNA-based security system to identify multiple users with hierarchy. , 2014, ACS nano.

[8]  Haonan Wang,et al.  Gold Nanoparticle-Based Facile Detection of Human Serum Albumin and Its Application as an INHIBIT Logic Gate. , 2015, ACS applied materials & interfaces.

[9]  V. Víglaský,et al.  Formation of highly ordered multimers in G-quadruplexes. , 2014, Biochemistry.

[10]  Jiangtao Ren,et al.  Application of DNA machine in amplified DNA detection. , 2014, Chemical communications.

[11]  Yi Lu,et al.  An exceptionally simple strategy for DNA-functionalized up-conversion nanoparticles as biocompatible agents for nanoassembly, DNA delivery, and imaging. , 2013, Journal of the American Chemical Society.

[12]  Engin U Akkaya,et al.  Cascading of molecular logic gates for advanced functions: a self-reporting, activatable photosensitizer. , 2013, Angewandte Chemie.

[13]  Chunhai Fan,et al.  Designed diblock oligonucleotide for the synthesis of spatially isolated and highly hybridizable functionalization of DNA-gold nanoparticle nanoconjugates. , 2012, Journal of the American Chemical Society.

[14]  Milan N Stojanovic,et al.  Networking particles over distance using oligonucleotide-based devices. , 2007, Journal of the American Chemical Society.

[15]  Wei Fang,et al.  Toehold-mediated DNA logic gates based on host-guest DNA-GNPs. , 2014, Chemical communications.

[16]  Michael Famulok,et al.  Input-Dependent Induction of Oligonucleotide Structural Motifs for Performing Molecular Logic , 2012, Journal of the American Chemical Society.

[17]  Pier Paolo Pompa,et al.  Absolute and direct microRNA quantification using DNA-gold nanoparticle probes. , 2014, Journal of the American Chemical Society.

[18]  Cuichen Wu,et al.  A logical molecular circuit for programmable and autonomous regulation of protein activity using DNA aptamer-protein interactions. , 2012, Journal of the American Chemical Society.

[19]  Mark R. Servos,et al.  Instantaneous and quantitative functionalization of gold nanoparticles with thiolated DNA using a pH-assisted and surfactant-free route. , 2012, Journal of the American Chemical Society.

[20]  Xiaoling Zhang,et al.  An aptamer cross-linked hydrogel as a colorimetric platform for visual detection. , 2010, Angewandte Chemie.

[21]  Bin Yang,et al.  Intelligent layered nanoflare: "lab-on-a-nanoparticle" for multiple DNA logic gate operations and efficient intracellular delivery. , 2014, Nanoscale.

[22]  J. Tour,et al.  Molecular electronics. Synthesis and testing of components. , 2000, Accounts of chemical research.

[23]  Shaojun Dong,et al.  DNA-based advanced logic circuits for nonarithmetic information processing , 2015 .

[24]  Janez Plavec,et al.  A new pathway of DNA G-quadruplex formation. , 2014, Angewandte Chemie.

[25]  Haonan Wang,et al.  Glutathione-facilitated design and fabrication of gold nanoparticle-based logic gates and keypad lock. , 2014, Nanoscale.

[26]  Yaqing Liu,et al.  Enzyme-free and DNA-based multiplexer and demultiplexer. , 2015, Chemical communications.

[27]  Hailong Li,et al.  Implementation of Arithmetic Functions on a Simple and Universal Molecular Beacon Platform , 2015, Advanced science.

[28]  J. Fraser Stoddart,et al.  Logic Operations at the Molecular Level. An XOR Gate Based on a Molecular Machine , 1997 .

[29]  Milko E van der Boom,et al.  Redox-active monolayers as a versatile platform for integrating boolean logic gates. , 2008, Angewandte Chemie.