Biomolecular logic devices based on stimuli-responsive PNIPAM-DNA film electrodes and bioelectrocatalysis of natural DNA with Ru(bpy)32+ as mediator.

In the present work, PNIPAM-DNA films were fabricated on the surface of electrodes by GOD-induced radical polymerization, where PNIPAM is poly(N-isopropylacrylamide), DNA represents natural DNA from salmon testes, and GOD is glucose oxidase. The prepared film electrodes demonstrated reversible temperature-, SO42--, and pH-switched cyclic voltammetry (CV) and electrochemiluminescence (ECL) behaviors toward tris(2,2'-bipyridine)ruthenium(II) (Ru(bpy)32+) in solution. Particularly, both CV and ECL signals at 1.15 V belonging to Ru(bpy)32+ were significantly amplified by the electrocatalysis of DNA in the films. Moreover, the addition of ferrocenemethanol (FcMeOH) into the solution led to the substantial quenching of the ECL signal of the system and produced a new CV peak pair at 0.35 V. Based upon these experiments, a 4-input/7-output logic gate system was successfully built, which also lead to a 2-to-1 encoder and a 1-to-2 decoder. On the same platform, a more complicated logic device, a half-adder, was also constructed. The present system combined electrocatalysis of natural DNA mediated by Ru(bpy)32+ and multiple stimuli-responsive PNIPAM-DNA films together with simultaneously obtained CV and ECL signals as outputs, leading to the development of novel types of biocomputing systems.

[1]  Tanyu Wang,et al.  Detection of ferrocenemethanol and molecular oxygen based on electrogenerated chemiluminescence quenching at a bipolar electrode. , 2013, Langmuir : the ACS journal of surfaces and colloids.

[2]  J. Rusling,et al.  Simultaneous direct electrochemiluminescence and catalytic voltammetry detection of DNA in ultrathin films. , 2003, Journal of the American Chemical Society.

[3]  Shaojun Dong,et al.  Multifunctional Graphene/DNA-Based Platform for the Construction of Enzyme-Free Ternary Logic Gates. , 2016, ACS applied materials & interfaces.

[4]  Guonan Chen,et al.  Electrochemiluminescent behavior of N6-isopentenyl-adenine/Ru(bpy)32+ system on an electrically heated ionic liquid/carbon paste electrode , 2009 .

[5]  Vinod K. Gupta,et al.  A Novel DNA Biosensor Based on a Pencil Graphite Electrode Modified with Polypyrrole/Functionalized Multiwalled Carbon Nanotubes for Determination of 6-Mercaptopurine Anticancer Drug , 2015 .

[6]  S. Krishnan,et al.  Electrochemiluminescent arrays for cytochrome P450-activated genotoxicity screening. DNA damage from benzo[a]pyrene metabolites. , 2007, Analytical chemistry.

[7]  Hongyun Liu,et al.  Enzymatic logic calculation systems based on solid-state electrochemiluminescence and molecularly imprinted polymer film electrodes. , 2018, Biosensors & bioelectronics.

[8]  Paolo Bertoncello,et al.  Nanostructured materials for electrochemiluminescence (ECL)-based detection methods: recent advances and future perspectives. , 2009, Biosensors & bioelectronics.

[9]  Harumi Sato,et al.  Conformational Change of Poly(N-isopropylacrylamide) during the Coil-Globule Transition Investigated by Attenuated Total Reflection/Infrared Spectroscopy and Density Functional Theory Calculation†. , 2002, The journal of physical chemistry. A.

[10]  M. Taher,et al.  A nanostructure label-free DNA biosensor for ciprofloxacin analysis as a chemotherapeutic agent: an experimental and theoretical investigation , 2017 .

[11]  Evgeny Katz,et al.  Digital biosensors with built-in logic for biomedical applications—biosensors based on a biocomputing concept , 2010, Analytical and bioanalytical chemistry.

[12]  Toyoichi Tanaka,et al.  NMR study of poly(N-isopropylacrylamide) gels near phase transition , 1991 .

[13]  D. Dey,et al.  Development of a DNA sensor using a molecular logic gate , 2013, Journal of biological physics.

[14]  C. Bowman,et al.  Kinetics of interfacial radical polymerization initiated by a glucose-oxidase mediated redox system. , 2012, Biomaterials.

[15]  Uwe Pischel,et al.  Molecules with a sense of logic: a progress report. , 2015, Chemical Society reviews.

[16]  Lei Wang,et al.  Multiple-stimuli responsive bioelectrocatalysis based on reduced graphene oxide/poly(N-isopropylacrylamide) composite films and its application in the fabrication of logic gates. , 2015, ACS applied materials & interfaces.

[17]  Guobao Xu,et al.  Applications and trends in electrochemiluminescence. , 2010, Chemical Society reviews.

[18]  M. Richter Electrochemiluminescence (ECL). , 2004, Chemical reviews.

[19]  Nicolaas A. Vermeulen,et al.  Modulating the binding of polycyclic aromatic hydrocarbons inside a hexacationic cage by anion-π interactions. , 2014, Angewandte Chemie.

[20]  Giacomo Bergamini,et al.  Old molecules, new concepts: [Ru(bpy)(3)](2+) as a molecular encoder-decoder. , 2009, Angewandte Chemie.

[21]  Chen-Zhong Li,et al.  Biomacromolecular logic gate, encoder/decoder and keypad lock based on DNA damage with electrochemiluminescence and electrochemical signals as outputs. , 2015, Chemical communications.

[22]  A. P. de Silva,et al.  Molecular logic and computing. , 2007, Nature nanotechnology.

[23]  Swapnil Bhatia,et al.  A single-layer platform for Boolean logic and arithmetic through DNA excision in mammalian cells , 2017, Nature Biotechnology.

[24]  W. Miao Electrogenerated chemiluminescence and its biorelated applications. , 2008, Chemical reviews.

[25]  J. Rusling,et al.  Detection of chemically induced DNA damage in layered films by catalytic square wave voltammetry using Ru(bpy)3(2+). , 2001, Analytical chemistry.

[26]  E. Katz,et al.  Enzyme-based multiplexer and demultiplexer. , 2010, The journal of physical chemistry. B.

[27]  Jinghua Yu,et al.  A sensitive signal-off aptasensor for adenosine triphosphate based on the quenching of Ru(bpy)32+-doped silica nanoparticles electrochemiluminescence by ferrocene , 2014 .

[28]  Hongyun Liu,et al.  Multi-Switchable Bioelectrocatalysis Based on Semi-Interpenetrating Polymer Network Films Prepared by Enzyme-Induced Polymerization , 2014 .

[29]  J. Gooding,et al.  Dual Bioresponsive Mesoporous Silica Nanocarrier as an “AND” Logic Gate for Targeted Drug Delivery Cancer Cells , 2014 .

[30]  S. Chakraborty,et al.  Development of a sensor to study the DNA conformation using molecular logic gates. , 2015, Spectrochimica acta. Part A, Molecular and biomolecular spectroscopy.

[31]  Michael A. Lowe,et al.  Electrochemistry of individual monolayer graphene sheets. , 2011, ACS nano.

[32]  Lenys Fernández,et al.  Electrochemical evaluation of ferrocene carboxylic acids confined on surfactant–clay modified glassy carbon electrodes: oxidation of ascorbic acid and uric acid , 2005 .

[33]  Changming Mao,et al.  Ultrasensitive DNA detection by cycle isothermal amplification based on nicking endonuclease and its application to logic gates. , 2011, Biosensors & bioelectronics.

[34]  Junlin Wen,et al.  Concatenated logic circuits based on a three-way DNA junction: a keypad-lock security system with visible readout and an automatic reset function. , 2014, Angewandte Chemie.

[35]  Wenhua Gao,et al.  A novel electrochemiluminescence ethanol biosensor based on tris(2,2'-bipyridine) ruthenium (II) and alcohol dehydrogenase immobilized in graphene/bovine serum albumin composite film. , 2013, Biosensors & bioelectronics.

[36]  J. Landers,et al.  Quenching of the electrochemiluminescence of tris(2,2'-bipyridine)ruthenium(II) by ferrocene and its potential application to quantitative DNA detection. , 2006, Journal of the American Chemical Society.

[37]  H. G. Schild Poly(N-isopropylacrylamide): experiment, theory and application , 1992 .

[38]  Yan Du,et al.  Label free electrochemiluminescence protocol for sensitive DNA detection with a tris(2,2'-bipyridyl)ruthenium(II) modified electrode based on nucleic acid oxidation , 2007 .

[39]  R. Freitag,et al.  Salt Effects on the Thermoprecipitation of Poly-(N-isopropylacrylamide) Oligomers from Aqueous Solution , 2002 .

[40]  Jiye Shi,et al.  Programming Cell Adhesion for On-Chip Sequential Boolean Logic Functions. , 2017, Journal of the American Chemical Society.

[41]  E. Wang,et al.  Implementation of half adder and half subtractor with a simple and universal DNA-based platform , 2013 .

[42]  L. Bulhões,et al.  Determination of chloramphenicol in tablets by electrogenerated chemiluminescence , 2004 .

[43]  Hongyun Liu,et al.  Multi-input and -output logic circuits based on bioelectrocatalysis with horseradish peroxidase and glucose oxidase immobilized in multi-responsive copolymer films on electrodes. , 2016, Biosensors & bioelectronics.

[44]  Sai Bi,et al.  Initiator-catalyzed self-assembly of duplex-looped DNA hairpin motif based on strand displacement reaction for logic operations and amplified biosensing. , 2016, Biosensors & bioelectronics.

[45]  Guangfeng Wang,et al.  A glucose oxidase immobilization platform for glucose biosensor using ZnO hollow nanospheres , 2011 .

[46]  I. Willner,et al.  From cascaded catalytic nucleic acids to enzyme-DNA nanostructures: controlling reactivity, sensing, logic operations, and assembly of complex structures. , 2014, Chemical reviews.

[47]  Hongyun Liu,et al.  Biomacromolecular Logic Devices Based on Simultaneous Electrocatalytic and Electrochemiluminescence Responses of Ru(bpy)32+ at Molecularly Imprinted Polymer Film Electrodes , 2015 .

[48]  N. Hu,et al.  pH-switchable bioelectrocatalysis based on layer-by-layer films assembled with glucose oxidase and branched poly(ethyleneimine) , 2011 .

[49]  A. Bard,et al.  Electrogenerated chemiluminescent determination of oxalate. , 1983, Analytical chemistry.

[50]  Xiaoqing Zhu,et al.  Tyramine Hydrochloride Based Label-Free System for Operating Various DNA Logic Gates and a DNA Caliper for Base Number Measurements. , 2017, Chemphyschem : a European journal of chemical physics and physical chemistry.

[51]  Vladimir Privman,et al.  Enzyme-based logic systems for information processing. , 2009, Chemical Society reviews.

[52]  Xue Yu,et al.  A resettable and reprogrammable keypad lock based on electrochromic Prussian blue films and biocatalysis of immobilized glucose oxidase in a bipolar electrode system. , 2018, Biosensors & bioelectronics.

[53]  Xiuhua Zhang,et al.  Visual multiple recognition of protein biomarkers based on an array of aptamer modified gold nanoparticles in biocomputing to strip biosensor logic operations. , 2016, Biosensors & bioelectronics.

[54]  Frédéric Kanoufi,et al.  Cyclic voltammetry and scanning electrochemical microscopy of ferrocenemethanol at monolayer and bilayer-modified gold electrodes , 2003 .

[55]  R. Levine,et al.  DNA computing circuits using libraries of DNAzyme subunits. , 2010, Nature nanotechnology.