1
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Bar N, Chowdhury P, Biswas D, Ray A, Das GK. Synthesis of an advanced metal-guided photochromic system for molecular keypad lock: detailed experimental findings and theoretical understanding. NEW J CHEM 2022. [DOI: 10.1039/d1nj06158e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
The dye-containing Schiff base metal complex is a new member of the photochromic family with advantages, such as long-wavelength absorption, high molar absorption coefficient, quick-photoresponse, and excellent fatigue resistance.
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Affiliation(s)
- Nandagopal Bar
- Polymer & Nano Research Laboratory, Department of Chemistry, Siksha Bhavana, Visva-Bharati University, Santiniketan – 731 235, India
| | - Pranesh Chowdhury
- Polymer & Nano Research Laboratory, Department of Chemistry, Siksha Bhavana, Visva-Bharati University, Santiniketan – 731 235, India
| | - Debrupa Biswas
- Polymer & Nano Research Laboratory, Department of Chemistry, Siksha Bhavana, Visva-Bharati University, Santiniketan – 731 235, India
| | - Arindam Ray
- Polymer & Nano Research Laboratory, Department of Chemistry, Siksha Bhavana, Visva-Bharati University, Santiniketan – 731 235, India
| | - Gourab Kanti Das
- Polymer & Nano Research Laboratory, Department of Chemistry, Siksha Bhavana, Visva-Bharati University, Santiniketan – 731 235, India
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2
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Deore PS, Manderville RA. Ratiometric fluorescent sensing of the parallel G-quadruplex produced by PS2.M: implications for K + detection. Analyst 2020; 145:1288-1293. [PMID: 31895357 DOI: 10.1039/c9an02122a] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Fluorescent ligands that selectively bind to a specific G-quadruplex (GQ) topology (antiparallel, hybrid or parallel) are highly sought after for aptasensor development and nanodevice construction. The coumarin-benzothiazole hybrid (BnBtC) is an internal charge transfer (ICT) ratiometric fluorescent probe, which displays two well-resolved emission bands at ∼450 nm for the coumarin component and ∼650 nm for the ICT band. The red ICT emission of BnBtC displays turn-on responses to protic solvent polarity and upon binding GQ structures, especially those produced by the hemin binding aptamer (PS2.M). In the present work, BnBtC was found to exhibit enhanced ICT emission upon binding the parallel GQ topology of PS2.M that is selectively produced in the presence of K+. This ability to discriminate K+ from other cationic metal ions through a turn-on ratiometric fluorescent response demonstrates the potential utility of the BnBtC probe for biosensor applications.
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Affiliation(s)
- Prashant S Deore
- Departments of Chemistry & Toxicology, University of Guelph, Guelph, Ontario N1G 2W1, Canada.
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3
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A molecular device: A DNA molecular lock driven by the nicking enzymes. Comput Struct Biotechnol J 2020; 18:2107-2116. [PMID: 32913580 PMCID: PMC7451616 DOI: 10.1016/j.csbj.2020.08.004] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2020] [Revised: 07/28/2020] [Accepted: 08/01/2020] [Indexed: 11/22/2022] Open
Abstract
As people are placing more and more importance on information security, how to realize the protection of information has become a hotspot of current research. As a security device, DNA molecular locks have great potential to realize information protection at the molecular level. However, building a highly secure molecular lock is still a serious challenge. Therefore, taking advantage of the DNA strand displacement and enzyme control technology, we constructed a molecular lock with a self-destructive mechanism. This molecular lock is mainly composed of logic circuits and takes nicking enzymes as inputs. To build this molecular lock, we first constructed a series of cascade circuits, including a YES–YES cascade circuit and a YES–AND cascade circuit. Then, an Inhibit logic gate was constructed to explore the inhibitory properties between different combinations of two nicking enzymes. Finally, using the characteristics of mutual inhibition between several enzymes, a DNA molecular lock driven by three nicking enzymes was constructed. In this molecular device, only the correct sequence of nicking enzymes can be input to ensure the normal operation of the molecular lock. Once the wrong password is entered, the device will be destroyed and cannot be recovered, which effectively prevents intruders from cracking the lock through exhaustive methods. The molecular lock has the function of simulating an electronic keyboard, which can realize the protection of information at the molecular level, and provides a new implementation method for building more advanced and complex molecular devices.
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4
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Tandon A, Song Y, Mitta SB, Yoo S, Park S, Lee S, Raza MT, Ha TH, Park SH. Demonstration of Arithmetic Calculations by DNA Tile-Based Algorithmic Self-Assembly. ACS NANO 2020; 14:5260-5267. [PMID: 32159938 DOI: 10.1021/acsnano.0c01387] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Owing to its high information density, energy efficiency, and massive parallelism, DNA computing has undergone several advances and made significant contributions to nanotechnology. Notably, arithmetic calculations implemented by multiple logic gates such as adders and subtractors have received much attention because of their well-established logic algorithms and feasibility of experimental implementation. Although small molecules have been used to implement these computations, a DNA tile-based calculator has been rarely addressed owing to complexity of rule design and experimental challenges for direct verification. Here, we construct a DNA-based calculator with three types of building blocks (propagator, connector, and solution tiles) to perform addition and subtraction operations through algorithmic self-assembly. An atomic force microscope is used to verify the solutions. Our method provides a potential platform for the construction of various types of DNA algorithmic crystals (such as flip-flops, encoders, and multiplexers) by embedding multiple logic gate operations in the DNA base sequences.
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Affiliation(s)
- Anshula Tandon
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT), Sungkyunkwan University, Suwon 16419, Korea
| | - Yongwoo Song
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT), Sungkyunkwan University, Suwon 16419, Korea
| | - Sekhar Babu Mitta
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT), Sungkyunkwan University, Suwon 16419, Korea
| | - Sanghyun Yoo
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT), Sungkyunkwan University, Suwon 16419, Korea
| | - Suyoun Park
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT), Sungkyunkwan University, Suwon 16419, Korea
| | - Sungjin Lee
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT), Sungkyunkwan University, Suwon 16419, Korea
| | - Muhammad Tayyab Raza
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT), Sungkyunkwan University, Suwon 16419, Korea
| | - Tai Hwan Ha
- Future Biotechnology Research Division, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 34141, Korea
| | - Sung Ha Park
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT), Sungkyunkwan University, Suwon 16419, Korea
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5
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Zhang Y, Wang F, Chao J, Xie M, Liu H, Pan M, Kopperger E, Liu X, Li Q, Shi J, Wang L, Hu J, Wang L, Simmel FC, Fan C. DNA origami cryptography for secure communication. Nat Commun 2019; 10:5469. [PMID: 31784537 PMCID: PMC6884444 DOI: 10.1038/s41467-019-13517-3] [Citation(s) in RCA: 66] [Impact Index Per Article: 13.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2019] [Accepted: 10/29/2019] [Indexed: 11/15/2022] Open
Abstract
Biomolecular cryptography exploiting specific biomolecular interactions for data encryption represents a unique approach for information security. However, constructing protocols based on biomolecular reactions to guarantee confidentiality, integrity and availability (CIA) of information remains a challenge. Here we develop DNA origami cryptography (DOC) that exploits folding of a M13 viral scaffold into nanometer-scale self-assembled braille-like patterns for secure communication, which can create a key with a size of over 700 bits. The intrinsic nanoscale addressability of DNA origami additionally allows for protein binding-based steganography, which further protects message confidentiality in DOC. The integrity of a transmitted message can be ensured by establishing specific linkages between several DNA origamis carrying parts of the message. The versatility of DOC is further demonstrated by transmitting various data formats including text, musical notes and images, supporting its great potential for meeting the rapidly increasing CIA demands of next-generation cryptography. Biomolecular cyptography that exploits specific interactions could be used for data encryption. Here the authors use the folding of M13 DNA to encrypt information for secure communication.
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Affiliation(s)
- Yinan Zhang
- School of Chemistry and Chemical Engineering, and Institute of Molecular Medicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, 200240, China.,Division of Physical Biology, CAS Key Laboratory of Interfacial Physics and Technology, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai, 201800, China
| | - Fei Wang
- School of Chemistry and Chemical Engineering, and Institute of Molecular Medicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, 200240, China
| | - Jie Chao
- Key Laboratory for Organic Electronics & Information Displays (KLOEID), Institute of Advanced Materials (IAM) and School of Materials Science and Engineering, Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing, 210046, China
| | - Mo Xie
- Division of Physical Biology, CAS Key Laboratory of Interfacial Physics and Technology, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai, 201800, China
| | - Huajie Liu
- School of Chemical Science and Engineering, Shanghai Research Institute for Intelligent Autonomous Systems, Key Laboratory of Advanced Civil Engineering Materials of Ministry of Education, Tongji University, Shanghai, 200092, China.
| | - Muchen Pan
- Division of Physical Biology, CAS Key Laboratory of Interfacial Physics and Technology, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai, 201800, China
| | - Enzo Kopperger
- Physics of Synthetic Biological Systems (E14), Physics Department, Technische Universität München, Am Coulombwall 4a, 85748, Garching, Germany
| | - Xiaoguo Liu
- School of Chemistry and Chemical Engineering, and Institute of Molecular Medicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, 200240, China
| | - Qian Li
- School of Chemistry and Chemical Engineering, and Institute of Molecular Medicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, 200240, China
| | - Jiye Shi
- Division of Physical Biology, CAS Key Laboratory of Interfacial Physics and Technology, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai, 201800, China
| | - Lihua Wang
- Division of Physical Biology, CAS Key Laboratory of Interfacial Physics and Technology, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai, 201800, China.,Shanghai Key Laboratory of Green Chemistry and Chemical Processes, School of Chemistry and Molecular Engineering, East China Normal University, 500 Dongchuan Road, Shanghai, 200241, China
| | - Jun Hu
- Division of Physical Biology, CAS Key Laboratory of Interfacial Physics and Technology, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai, 201800, China.,Shanghai Synchrotron Radiation Facility, Zhangjiang Laboratory, Shanghai Advanced Research Institute, Chinese Academy of Sciences, Shanghai, 201210, China
| | - Lianhui Wang
- Key Laboratory for Organic Electronics & Information Displays (KLOEID), Institute of Advanced Materials (IAM) and School of Materials Science and Engineering, Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing, 210046, China
| | - Friedrich C Simmel
- Physics of Synthetic Biological Systems (E14), Physics Department, Technische Universität München, Am Coulombwall 4a, 85748, Garching, Germany
| | - Chunhai Fan
- School of Chemistry and Chemical Engineering, and Institute of Molecular Medicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, 200240, China.
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6
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Lustgarten O, Carmieli R, Motiei L, Margulies D. A Molecular Secret Sharing Scheme. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201809855] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Omer Lustgarten
- Department of Organic Chemistry; Weizmann Institute of Science; Rehovot 7610001 Israel
| | - Raanan Carmieli
- Department of Chemical Research Support; Weizmann Institute of Science; Rehovot 7610001 Israel
| | - Leila Motiei
- Department of Organic Chemistry; Weizmann Institute of Science; Rehovot 7610001 Israel
| | - David Margulies
- Department of Organic Chemistry; Weizmann Institute of Science; Rehovot 7610001 Israel
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7
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Lustgarten O, Carmieli R, Motiei L, Margulies D. A Molecular Secret Sharing Scheme. Angew Chem Int Ed Engl 2018; 58:184-188. [DOI: 10.1002/anie.201809855] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2018] [Revised: 10/03/2018] [Indexed: 12/18/2022]
Affiliation(s)
- Omer Lustgarten
- Department of Organic Chemistry; Weizmann Institute of Science; Rehovot 7610001 Israel
| | - Raanan Carmieli
- Department of Chemical Research Support; Weizmann Institute of Science; Rehovot 7610001 Israel
| | - Leila Motiei
- Department of Organic Chemistry; Weizmann Institute of Science; Rehovot 7610001 Israel
| | - David Margulies
- Department of Organic Chemistry; Weizmann Institute of Science; Rehovot 7610001 Israel
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8
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Yu Z, Zhou W, Ma G, Li Y, Fan L, Li X, Lu Y. Insights into the Competition between K+ and Pb2+ Binding to a G-Quadruplex and Discovery of a Novel K+–Pb2+–Quadruplex Intermediate. J Phys Chem B 2018; 122:9382-9388. [DOI: 10.1021/acs.jpcb.8b08161] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Affiliation(s)
- Ze Yu
- College of Chemistry, Beijing Normal University, Beijing 100875, P. R. China
| | - Wei Zhou
- College of Chemistry, Beijing Normal University, Beijing 100875, P. R. China
| | - Ge Ma
- College of Chemistry, Beijing Normal University, Beijing 100875, P. R. China
| | - Yunchao Li
- College of Chemistry, Beijing Normal University, Beijing 100875, P. R. China
| | - Louzhen Fan
- College of Chemistry, Beijing Normal University, Beijing 100875, P. R. China
| | - Xiaohong Li
- College of Chemistry, Beijing Normal University, Beijing 100875, P. R. China
| | - Yi Lu
- Department of Chemistry, Department of Materials Science and Engineering, University of Illinois at Urbana and Champaign, Urbana, Illinois 61801, United States
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9
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Boukis AC, Reiter K, Frölich M, Hofheinz D, Meier MAR. Multicomponent reactions provide key molecules for secret communication. Nat Commun 2018; 9:1439. [PMID: 29651145 PMCID: PMC5897361 DOI: 10.1038/s41467-018-03784-x] [Citation(s) in RCA: 122] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2017] [Accepted: 03/13/2018] [Indexed: 01/24/2023] Open
Abstract
A convenient and inherently more secure communication channel for encoding messages via specifically designed molecular keys is introduced by combining advanced encryption standard cryptography with molecular steganography. The necessary molecular keys require large structural diversity, thus suggesting the application of multicomponent reactions. Herein, the Ugi four-component reaction of perfluorinated acids is utilized to establish an exemplary database consisting of 130 commercially available components. Considering all permutations, this combinatorial approach can unambiguously provide 500,000 molecular keys in only one synthetic procedure per key. The molecular keys are transferred nondigitally and concealed by either adsorption onto paper, coffee, tea or sugar as well as by dissolution in a perfume or in blood. Re-isolation and purification from these disguises is simplified by the perfluorinated sidechains of the molecular keys. High resolution tandem mass spectrometry can unequivocally determine the molecular structure and thus the identity of the key for a subsequent decryption of an encoded message.
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Affiliation(s)
- Andreas C Boukis
- Laboratory of Applied Chemistry, Institute of Organic Chemistry (IOC), Karlsruhe Institute of Technology (KIT), Straße am Forum 7, Karlsruhe, 76131, Germany
| | - Kevin Reiter
- Institute of Nano Technology (INT), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, Eggenstein-Leopoldshafen, 76344, Germany
| | - Maximiliane Frölich
- Laboratory of Applied Chemistry, Institute of Organic Chemistry (IOC), Karlsruhe Institute of Technology (KIT), Straße am Forum 7, Karlsruhe, 76131, Germany
| | - Dennis Hofheinz
- Institute for Theoretical Informatics (ITI), Karlsruhe Institute of Technology (KIT), Am Fasanengarten 5, Karlsruhe, 76131, Germany
| | - Michael A R Meier
- Laboratory of Applied Chemistry, Institute of Organic Chemistry (IOC), Karlsruhe Institute of Technology (KIT), Straße am Forum 7, Karlsruhe, 76131, Germany.
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10
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Lin X, Liu Y, Deng J, Lyu Y, Qian P, Li Y, Wang S. Multiple advanced logic gates made of DNA-Ag nanocluster and the application for intelligent detection of pathogenic bacterial genes. Chem Sci 2018; 9:1774-1781. [PMID: 29675221 PMCID: PMC5892130 DOI: 10.1039/c7sc05246d] [Citation(s) in RCA: 56] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2017] [Accepted: 01/05/2018] [Indexed: 12/19/2022] Open
Abstract
The integration of multiple DNA logic gates on a universal platform to implement advance logic functions is a critical challenge for DNA computing. Herein, a straightforward and powerful strategy in which a guanine-rich DNA sequence lighting up a silver nanocluster and fluorophore was developed to construct a library of logic gates on a simple DNA-templated silver nanoclusters (DNA-AgNCs) platform. This library included basic logic gates, YES, AND, OR, INHIBIT, and XOR, which were further integrated into complex logic circuits to implement diverse advanced arithmetic/non-arithmetic functions including half-adder, half-subtractor, multiplexer, and demultiplexer. Under UV irradiation, all the logic functions could be instantly visualized, confirming an excellent repeatability. The logic operations were entirely based on DNA hybridization in an enzyme-free and label-free condition, avoiding waste accumulation and reducing cost consumption. Interestingly, a DNA-AgNCs-based multiplexer was, for the first time, used as an intelligent biosensor to identify pathogenic genes, E. coli and S. aureus genes, with a high sensitivity. The investigation provides a prototype for the wireless integration of multiple devices on even the simplest single-strand DNA platform to perform diverse complex functions in a straightforward and cost-effective way.
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Affiliation(s)
- Xiaodong Lin
- Key Laboratory of Food Nutrition and Safety (Ministry of Education) , College of Food Engineering and Biotechnology , Tianjin University of Science and Technology , Tianjin 300457 , China .
| | - Yaqing Liu
- Key Laboratory of Food Nutrition and Safety (Ministry of Education) , College of Food Engineering and Biotechnology , Tianjin University of Science and Technology , Tianjin 300457 , China .
| | - Jiankang Deng
- Key Laboratory of Food Nutrition and Safety (Ministry of Education) , College of Food Engineering and Biotechnology , Tianjin University of Science and Technology , Tianjin 300457 , China .
| | - Yanlong Lyu
- Key Laboratory of Food Nutrition and Safety (Ministry of Education) , College of Food Engineering and Biotechnology , Tianjin University of Science and Technology , Tianjin 300457 , China .
| | - Pengcheng Qian
- Key Laboratory of Food Nutrition and Safety (Ministry of Education) , College of Food Engineering and Biotechnology , Tianjin University of Science and Technology , Tianjin 300457 , China .
| | - Yunfei Li
- Key Laboratory of Food Nutrition and Safety (Ministry of Education) , College of Food Engineering and Biotechnology , Tianjin University of Science and Technology , Tianjin 300457 , China .
| | - Shuo Wang
- Tianjin Key Laboratory of Food Science and Health , School of Medicine , Nankai University , Tianjin 300071 , China .
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11
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A resettable and reprogrammable keypad lock based on electrochromic Prussian blue films and biocatalysis of immobilized glucose oxidase in a bipolar electrode system. Biosens Bioelectron 2018; 99:163-169. [DOI: 10.1016/j.bios.2017.07.054] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2017] [Revised: 07/08/2017] [Accepted: 07/21/2017] [Indexed: 12/19/2022]
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12
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Renuka KD, Lekshmi CL, Joseph K, Mahesh S. Sustainable Bioresource-Derived Components for Molecular Keypad Lock and IMPLICATION Logic Gate Construction. ChemistrySelect 2017. [DOI: 10.1002/slct.201702020] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- Kizhisseri Devi Renuka
- Department of Chemistry and Centre of Excellence in Nanoscience and Technology; Department of Chemistry; Indian Institute of Space Science and Technology (IIST), Valiyamala; Thiruvananthapuram 69554, Kerala India
| | - C. Lalitha Lekshmi
- Department of Chemistry and Centre of Excellence in Nanoscience and Technology; Department of Chemistry; Indian Institute of Space Science and Technology (IIST), Valiyamala; Thiruvananthapuram 69554, Kerala India
| | - Kuruvilla Joseph
- Department of Chemistry and Centre of Excellence in Nanoscience and Technology; Department of Chemistry; Indian Institute of Space Science and Technology (IIST), Valiyamala; Thiruvananthapuram 69554, Kerala India
| | - Sankarapillai Mahesh
- Department of Chemistry and Centre of Excellence in Nanoscience and Technology; Department of Chemistry; Indian Institute of Space Science and Technology (IIST), Valiyamala; Thiruvananthapuram 69554, Kerala India
- Polymers and Speciality Chemicals Division; Vikram Sarabhai Space Centre (VSSC); Thiruvananthapuram 695022, Kerala India
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13
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Gao J, Liu Y, Lin X, Deng J, Yin J, Wang S. Implementation of cascade logic gates and majority logic gate on a simple and universal molecular platform. Sci Rep 2017; 7:14014. [PMID: 29070871 PMCID: PMC5656625 DOI: 10.1038/s41598-017-14416-7] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2017] [Accepted: 10/11/2017] [Indexed: 12/18/2022] Open
Abstract
Wiring a series of simple logic gates to process complex data is significantly important and a large challenge for untraditional molecular computing systems. The programmable property of DNA endows its powerful application in molecular computing. In our investigation, it was found that DNA exhibits excellent peroxidase-like activity in a colorimetric system of TMB/H2O2/Hemin (TMB, 3,3′, 5,5′-Tetramethylbenzidine) in the presence of K+ and Cu2+, which is significantly inhibited by the addition of an antioxidant. According to the modulated catalytic activity of this DNA-based catalyst, three cascade logic gates including AND-OR-INH (INHIBIT), AND-INH and OR-INH were successfully constructed. Interestingly, by only modulating the concentration of Cu2+, a majority logic gate with a single-vote veto function was realized following the same threshold value as that of the cascade logic gates. The strategy is quite straightforward and versatile and provides an instructive method for constructing multiple logic gates on a simple platform to implement complex molecular computing.
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Affiliation(s)
- Jinting Gao
- Key Laboratory of Food Nutrition and Safety (Ministry of Education of China), College of Food Engineering and Biotechnology, Tianjin University of Science and Technology, Tianjin Economic and Technological Development Area, the 13th Avenue, No. 29, Tianjin, 300457, China
| | - Yaqing Liu
- Key Laboratory of Food Nutrition and Safety (Ministry of Education of China), College of Food Engineering and Biotechnology, Tianjin University of Science and Technology, Tianjin Economic and Technological Development Area, the 13th Avenue, No. 29, Tianjin, 300457, China.
| | - Xiaodong Lin
- Key Laboratory of Food Nutrition and Safety (Ministry of Education of China), College of Food Engineering and Biotechnology, Tianjin University of Science and Technology, Tianjin Economic and Technological Development Area, the 13th Avenue, No. 29, Tianjin, 300457, China
| | - Jiankang Deng
- Key Laboratory of Food Nutrition and Safety (Ministry of Education of China), College of Food Engineering and Biotechnology, Tianjin University of Science and Technology, Tianjin Economic and Technological Development Area, the 13th Avenue, No. 29, Tianjin, 300457, China
| | - Jinjin Yin
- Key Laboratory of Food Nutrition and Safety (Ministry of Education of China), College of Food Engineering and Biotechnology, Tianjin University of Science and Technology, Tianjin Economic and Technological Development Area, the 13th Avenue, No. 29, Tianjin, 300457, China
| | - Shuo Wang
- Key Laboratory of Food Nutrition and Safety (Ministry of Education of China), College of Food Engineering and Biotechnology, Tianjin University of Science and Technology, Tianjin Economic and Technological Development Area, the 13th Avenue, No. 29, Tianjin, 300457, China.
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14
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User Authorization at the Molecular Scale. Chemphyschem 2017; 18:1678-1687. [DOI: 10.1002/cphc.201700506] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2017] [Revised: 06/01/2017] [Indexed: 12/31/2022]
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15
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A Strategic Design of an Opto-Chemical Security Device with Resettable and Reconfigurable Password Based Upon Dual Channel Two-in-One Chemosensor Molecule. Sci Rep 2017; 7:42811. [PMID: 28216657 PMCID: PMC5316941 DOI: 10.1038/srep42811] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2016] [Accepted: 01/16/2017] [Indexed: 12/21/2022] Open
Abstract
A simple strategy is proposed to design and develop an intelligent device based on dual channel ion responsive spectral properties of a commercially available molecule, harmine (HM). The system can process different sets of opto-chemical inputs generating different patterns as fluorescence outputs at specific wavelengths which can provide an additional level of protection exploiting both password and pattern recognitions. The proposed system could have the potential to come up with highly secured combinatorial locks at the molecular level that could pose valuable real time and on-site applications for user authentication.
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16
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Yu X, Li M, Li T, Zhou S, Liu H. A resettable and reprogrammable biomolecular keypad lock with dual outputs based on glucose oxidase-Au nanoclusters-Prussian blue nanocomposite films on an electrode surface. NANOSCALE 2016; 8:20027-20036. [PMID: 27883152 DOI: 10.1039/c6nr07344a] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
In this work, electrochromic Prussian blue (PB) films were electrodeposited on the surface of indium tin oxide (ITO) electrodes, and a dispersion mixture of glucose oxidase (GOD), chitosan (CS) and gold nanoclusters (AuNCs) was then cast on the PB surface to form CS-AuNC-GOD/PB nanocomposite film electrodes. The blue PB component in the films could be changed into its colourless reduced form of Prussian white (PW) upon application of -0.2 V. The addition of glucose to the solution would produce H2O2 with the help of GOD in the films and oxygen in the solution, which could oxidize PW back to PB. In the meantime, the fluorescence emission signal of the AuNCs in the films was greatly influenced by the form of PB/PW. Based on these properties, the amperometric current, fluorescence intensity and UV-vis absorbance of the film electrodes demonstrated potential- and glucose-sensitive ON-OFF behaviors. Thus, a 2-input/3-output biomolecular logic gate system with 3 different types of output signals and a 2-to-1 encoder were developed. Furthermore, a resettable and reprogrammable 3-input biomolecular keypad lock was established with fluorescence intensity and UV-vis absorbance as dual outputs, which greatly enhanced the security level of the keypad lock. This work reported for the first time an enzyme-based keypad lock with dual outputs, which might open a new avenue to design more complicated biomolecular keypad lock systems.
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Affiliation(s)
- Xue Yu
- College of Chemistry, Beijing Normal University, Beijing 100875, P. R. China.
| | - Menglu Li
- College of Chemistry, Beijing Normal University, Beijing 100875, P. R. China.
| | - Tianrui Li
- Beijing No. 55 High School, Beijing 100027, P. R. China
| | - Shuo Zhou
- Beijing No. 55 High School, Beijing 100027, P. R. China
| | - Hongyun Liu
- College of Chemistry, Beijing Normal University, Beijing 100875, P. R. China.
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17
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Aptamer-based biosensor for label-free detection of ethanolamine by electrochemical impedance spectroscopy. Anal Chim Acta 2016; 936:222-8. [PMID: 27566359 DOI: 10.1016/j.aca.2016.06.056] [Citation(s) in RCA: 49] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2016] [Revised: 06/28/2016] [Accepted: 06/30/2016] [Indexed: 11/22/2022]
Abstract
A label-free sensing assay for ethanolamine (EA) detection based on G-quadruplex-EA binding interaction is presented by using G-rich aptamer DNA (Ap-DNA) and electrochemical impedance spectroscopy (EIS). The presence of K(+) induces the Ap-DNA to form a K(+)-stabilized G-quadruplex structure which provides binding sites for EA. The sensing mechanism was further confirmed by circular dichroism (CD) spectroscopy and EIS measurement. As a result, the charge transfer resistance (RCT) is strongly increased as demonstrated by using the ferro/ferricyanide ([Fe(CN)6](3-/4-)) as a redox probe. Under the optimized conditions, a linear relationship between ΔRCT and EA concentration was obtained over the range of 0.16 nM and 16 nM EA, with a detection limit of 0.08 nM. Interference by other selected chemicals with similar structure was negligible. Analytical results of EA spiked into tap water and serum by the sensor suggested the assay could be successfully applied to real sample analysis. With the advantages of high sensitivity, selectivity and simple sensor construction, this method is potentially suitable for the on-site monitoring of EA contamination.
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18
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Abstract
Since ancient times, steganography, the art of concealing information, has largely relied on secret inks as a tool for hiding messages. However, as the methods for detecting these inks improved, the use of simple and accessible chemicals as a means to secure communication was practically abolished. Here, we describe a method that enables one to conceal multiple different messages within the emission spectra of a unimolecular fluorescent sensor. Similar to secret inks, this molecular-scale messaging sensor (m-SMS) can be hidden on regular paper and the messages can be encoded or decoded within seconds using common chemicals, including commercial ingredients that can be obtained in grocery stores or pharmacies. Unlike with invisible inks, however, uncovering these messages by an unauthorized user is almost impossible because they are protected by three different defence mechanisms: steganography, cryptography and by entering a password, which are used to hide, encrypt or prevent access to the information, respectively. Although historically common chemicals were frequently used as secret inks, the ease of readout could not prevent unauthorized reading. Here, the authors report a multi-analyte sensor that can conceal and encrypt messages by responding to simple chemicals, demonstrating a chemical means to secure communication.
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19
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Wang L, Lian W, Liu H. A Resettable Keypad Lock with Visible Readout Based on Closed Bipolar Electrochemistry and Electrochromic Poly(3-methylthiophene) Films. Chemistry 2016; 22:4825-32. [DOI: 10.1002/chem.201504812] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2015] [Indexed: 12/21/2022]
Affiliation(s)
- Lei Wang
- College of Chemistry; Beijing Normal University; Beijing 100875 People's Republic of China
| | - Wenjing Lian
- College of Chemistry; Beijing Normal University; Beijing 100875 People's Republic of China
| | - Hongyun Liu
- College of Chemistry; Beijing Normal University; Beijing 100875 People's Republic of China
- Key Laboratory of Theoretical and Computational Photochemistry; Ministry of Education; College of Chemistry; Beijing Normal University; Beijing 100875 People's Republic of China
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20
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Fan D, Zhu J, Liu Y, Wang E, Dong S. Label-free and enzyme-free platform for the construction of advanced DNA logic devices based on the assembly of graphene oxide and DNA-templated AgNCs. NANOSCALE 2016; 8:3834-3840. [PMID: 26814682 DOI: 10.1039/c6nr00032k] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
DNA-based molecular logic computation has drawn extensive attention in bioanalysis, intelligent diagnostics of diseases and other nanotechnology areas. Herein, taking 2-to-1 and 4-to-2 encoders and a 1-to-2 decoder as model molecular logic devices, we for the first time combined the quenching ability of GO (graphene oxide) to DNA-templated AgNCs with G-quadruplex-enhanced fluorescence intensity of porphyrin dyes for the construction of label-free and enzyme-free dual-output advanced DNA molecular logic devices. Also, through the application of negative logic conversion to an XOR logic gate and combined with an INHIBIT logic gate, we also operated a label-free and enzyme-free comparator.
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Affiliation(s)
- Daoqing Fan
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, PR China.
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21
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Wang C, Guo Z, Zhang L, Zhang N, Zhang K, Xu J, Wang H, Shi H, Qin M, Ren L. DNA based signal amplified molecularly imprinted polymer electrochemical sensor for multiplex detection. RSC Adv 2016. [DOI: 10.1039/c6ra05797g] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Abstract
Fabrication process of the electrochemical sensor based on MIPs/GE for the determination of FA, FR, Hg2+, and target DNA.
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22
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Chen H, Sun H, Zhang X, Sun X, Shi Y, Xu S, Tang Y. A colorimetric and fluorometric dual-modal DNA logic gate based on the response of a cyanine dye supramolecule to G-quadruplexes. NEW J CHEM 2016. [DOI: 10.1039/c5nj02652k] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The INHIBIT DNA logic gate with dual-modal outputs based on the response of MTC aggregates to G-quadruplexes.
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Affiliation(s)
- Hongbo Chen
- National Laboratory for Molecular Sciences
- Center for Molecular Sciences
- State Key Laboratory for Structural Chemistry of Unstable and Stable Species
- Institute of Chemistry Chinese Academy of Sciences
- Beijing
| | - Hongxia Sun
- National Laboratory for Molecular Sciences
- Center for Molecular Sciences
- State Key Laboratory for Structural Chemistry of Unstable and Stable Species
- Institute of Chemistry Chinese Academy of Sciences
- Beijing
| | - Xiufeng Zhang
- College of Chemistry Engineering
- North China University of Science and Technology
- Tangshan
- China
| | - Xiaoran Sun
- College of Chemistry Engineering
- North China University of Science and Technology
- Tangshan
- China
| | - Yunhua Shi
- National Laboratory for Molecular Sciences
- Center for Molecular Sciences
- State Key Laboratory for Structural Chemistry of Unstable and Stable Species
- Institute of Chemistry Chinese Academy of Sciences
- Beijing
| | - Shujuan Xu
- National Laboratory for Molecular Sciences
- Center for Molecular Sciences
- State Key Laboratory for Structural Chemistry of Unstable and Stable Species
- Institute of Chemistry Chinese Academy of Sciences
- Beijing
| | - Yalin Tang
- National Laboratory for Molecular Sciences
- Center for Molecular Sciences
- State Key Laboratory for Structural Chemistry of Unstable and Stable Species
- Institute of Chemistry Chinese Academy of Sciences
- Beijing
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23
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A simple three-input DNA-based system works as a full-subtractor. Sci Rep 2015; 5:10686. [PMID: 26095534 PMCID: PMC4476036 DOI: 10.1038/srep10686] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2014] [Accepted: 04/21/2015] [Indexed: 12/28/2022] Open
Abstract
Over the past decade, DNA has demonstrated remarkable potential in fabrication of molecular logic and arithmetic systems. In this work, a simple DNA-based system mimicking a full-subtractor that handles three inputs including one minuend and two subtrahends for eight input/output conditions is successfully designed. The whole system is established by one gate molecule and three input sequences, all made of single-stranded DNA sequences.
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24
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Yang M, Zhang X, Liu H, Kang H, Zhu Z, Yang W, Tan W. Stable DNA Nanomachine Based on Duplex-Triplex Transition for Ratiometric Imaging Instantaneous pH Changes in Living Cells. Anal Chem 2015; 87:5854-9. [PMID: 26016566 PMCID: PMC4928482 DOI: 10.1021/acs.analchem.5b01233] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2015] [Accepted: 05/27/2015] [Indexed: 02/07/2023]
Abstract
DNA nanomachines are becoming useful tools for molecular recognition, imaging, and diagnostics and have drawn gradual attention. Unfortunately, the present application of most DNA nanomachines is limited in vitro, so expanding their application in organism has become a primary focus. Hence, a novel DNA nanomachine named t-switch, based on the DNA duplex-triplex transition, is developed for monitoring the intracellular pH gradient. Our strategy is based on the DNA triplex structure containing C(+)-G-C triplets and pH-dependent Förster resonance energy transfer (FRET). Our results indicate that the t-switch is an efficient reporter of pH from pH 5.3 to 6.0 with a fast response of a few seconds. Also the uptake of the t-switch is speedy. In order to protect the t-switch from enzymatic degradation, PEI is used for modification of our DNA nanomachine. At the same time, the dynamic range could be extended to pH 4.6-7.8. The successful application of this pH-depended DNA nanomachine and motoring spatiotemporal pH changes associated with endocytosis is strong evidence of the possibility of self-assembly DNA nanomachine for imaging, targeted therapies, and controllable drug delivery.
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Affiliation(s)
- Mengqi Yang
- Key
Laboratory of Cluster Science of Ministry of Education, Beijing Key
Laboratory of Photoelectronic/Electrophotonic Conversion Materials,
School of Chemistry, Beijing Institute of
Technology, 5 Zhongguancun
Road, Beijing 100081, P. R. China
| | - Xiaoling Zhang
- Key
Laboratory of Cluster Science of Ministry of Education, Beijing Key
Laboratory of Photoelectronic/Electrophotonic Conversion Materials,
School of Chemistry, Beijing Institute of
Technology, 5 Zhongguancun
Road, Beijing 100081, P. R. China
| | - Haipeng Liu
- College
of Engineering, Wayne State University, Detroit, Michigan 48202, United States
| | - Huaizhi Kang
- College
of Chemistry and Chemical Engineering, Xiamen
University, Xiamen, Fujian 361005, P.
R. China
| | - Zhi Zhu
- College
of Chemistry and Chemical Engineering, Xiamen
University, Xiamen, Fujian 361005, P.
R. China
| | - Wen Yang
- Key
Laboratory of Cluster Science of Ministry of Education, Beijing Key
Laboratory of Photoelectronic/Electrophotonic Conversion Materials,
School of Chemistry, Beijing Institute of
Technology, 5 Zhongguancun
Road, Beijing 100081, P. R. China
| | - Weihong Tan
- Center
for Research at Bio/nano Interface, Department
of Chemistry, Department of Physiology and
Functional Genomics, Shands Cancer Center, UF Genetics Institute, and McKnight Brain Institute, University of
Florida, Gainesville, Florida 32611-7200, United States
- Molecular
Science and Biomedicine Laboratory, State Key Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, College
of Biology, Collaborative Innovation Center for Molecular Engineering
and Theranostics, Hunan University, Changsha 410082, P. R. China
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25
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He Y, Chen Y, Li C, Cui H. Molecular encoder-decoder based on an assembly of graphene oxide with dye-labelled DNA. Chem Commun (Camb) 2015; 50:7994-7. [PMID: 24915303 DOI: 10.1039/c4cc01242a] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
A general strategy was developed to fabricate 2-to-1, 4-to-2 and 8-to-3 molecular encoders and a 1-to-2 decoder by assembling graphene oxide with various dye-labeled DNAs.
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Affiliation(s)
- Yi He
- CAS Key Laboratory of Soft Matter Chemistry, Department of Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, P. R. China.
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26
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Wang H, Wang DM, Huang CZ. Highly sensitive chemiluminescent detection of lead ion based on its displacement of potassium in G-Quadruplex DNAzyme. Analyst 2015; 140:5742-7. [DOI: 10.1039/c5an00884k] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A simple and highly sensitive chemiluminescence (CL) detection method for Pb2+ in biosamples, such as human hairs, based on its displacement of potassium in G-Quadruplex DNAzyme, was successfully developed.
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Affiliation(s)
- Hong Wang
- Education Ministry Key Laboratory on Luminescence and Real-Time Analytical Chemistry
- College of Chemistry and Chemical Engineering
- Southwest University
- Chongqing 400715
- China
| | - Dong Mei Wang
- Education Ministry Key Laboratory on Luminescence and Real-Time Analytical Chemistry
- College of Chemistry and Chemical Engineering
- Southwest University
- Chongqing 400715
- China
| | - Cheng Zhi Huang
- Education Ministry Key Laboratory on Luminescence and Real-Time Analytical Chemistry
- College of Chemistry and Chemical Engineering
- Southwest University
- Chongqing 400715
- China
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27
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Ren J, Wang T, Wang E, Wang J. Versatile G-quadruplex-mediated strategies in label-free biosensors and logic systems. Analyst 2015; 140:2556-72. [DOI: 10.1039/c4an02282c] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
This review addresses how G-quadruplex (G4)-mediated biosensors convert the events of target recognition into a measurable physical signal. The application of label-free G4-strategies in the construction of logic systems is also discussed.
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Affiliation(s)
- Jiangtao Ren
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Tianshu Wang
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Erkang Wang
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Jin Wang
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
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28
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Liu S, Li M, Yu X, Li CZ, Liu H. Biomacromolecular logic gate, encoder/decoder and keypad lock based on DNA damage with electrochemiluminescence and electrochemical signals as outputs. Chem Commun (Camb) 2015. [DOI: 10.1039/c5cc04412j] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Biomacromolecular logic devices including a keypad lock were developed based on the damage of natural DNA in Ru(bpy)32+ solution.
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Affiliation(s)
- Shuang Liu
- College of Chemistry
- Beijing Normal University
- Beijing 100875
- People's Republic of China
| | - Menglu Li
- College of Chemistry
- Beijing Normal University
- Beijing 100875
- People's Republic of China
| | - Xue Yu
- College of Chemistry
- Beijing Normal University
- Beijing 100875
- People's Republic of China
| | - Chen-Zhong Li
- Nanobioengineering/Bioelectronics Laboratory
- Department of Biomedical Engineering
- Florida International University
- Miami
- USA
| | - Hongyun Liu
- College of Chemistry
- Beijing Normal University
- Beijing 100875
- People's Republic of China
- Key Laboratory of Theoretical and Computational Photochemistry
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29
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Chen J, Zhou S, Wen J. Concatenated Logic Circuits Based on a Three-Way DNA Junction: A Keypad-Lock Security System with Visible Readout and an Automatic Reset Function. Angew Chem Int Ed Engl 2014; 54:446-50. [DOI: 10.1002/anie.201408334] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2014] [Revised: 10/27/2014] [Indexed: 12/19/2022]
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30
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Chen J, Zhou S, Wen J. Concatenated Logic Circuits Based on a Three-Way DNA Junction: A Keypad-Lock Security System with Visible Readout and an Automatic Reset Function. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201408334] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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31
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Jiang XJ, Ng DKP. Sequential logic operations with a molecular keypad lock with four inputs and dual fluorescence outputs. Angew Chem Int Ed Engl 2014; 53:10481-4. [PMID: 25078949 DOI: 10.1002/anie.201406002] [Citation(s) in RCA: 62] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2014] [Indexed: 12/19/2022]
Abstract
A novel coumarin-rhodamine conjugate was prepared, and its metal binding properties were studied by UV/Vis and fluorescence spectroscopy. The conjugate serves as a ratiometric and highly selective fluorescent sensor for Hg(2+) ions. Its metal-responsive spectral properties were utilized to construct a molecular keypad lock with four inputs and dual fluorescence outputs. The complexity of this molecular logic network can greatly enhance the security level of this device.
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Affiliation(s)
- Xiong-Jie Jiang
- Department of Chemistry, The Chinese University of Hong Kong, Shatin, N.T., Hong Kong (China)
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32
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Jiang XJ, Ng DKP. Sequential Logic Operations with a Molecular Keypad Lock with Four Inputs and Dual Fluorescence Outputs. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201406002] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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33
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Huang Z, Wang H, Yang W. Glutathione-facilitated design and fabrication of gold nanoparticle-based logic gates and keypad lock. NANOSCALE 2014; 6:8300-8305. [PMID: 24933044 DOI: 10.1039/c4nr01615g] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
In this paper, we describe how we developed a simple design and fabrication method for logic gates and a device by using a commercially available tripeptide, namely glutathione (GSH), together with metal ions and disodium ethylenediaminetetraacetate (EDTA) to control the dispersion and aggregation of gold nanoparticles (NPs). With the fast adsorption of GSH on gold NPs and the strong coordination of GSH with metal ions, the addition of GSH and Pb(2+) ions immediately resulted in the aggregation of gold NPs, giving rise to an AND function. Either Pb(2+) or Ba(2+) ions induced the aggregation of gold NPs in the presence of GSH, supporting an OR gate. Based on the fact that EDTA has a strong capacity to bind metal ions, thus preventing the aggregation of gold NPs, an INHIBIT gate was also fabricated. More interestingly, we found that the addition sequence of GSH and Hg(2+) ions influenced the aggregation of gold NPs in a controlled manner, which was used to design a sequential logic gate and a three-input keypad lock for potential use in information security. The GSH strategy addresses concerns of low cost, simple fabrication, versatile design and easy operation, and offers a promising platform for the development of functional logic systems.
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Affiliation(s)
- Zhenzhen Huang
- State Key Laboratory of Supramolecular Structure and Materials, College of Chemistry, Jilin University, Changchun 130012, P.R. China.
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34
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Smart materials based on DNA aptamers: taking aptasensing to the next level. SENSORS 2014; 14:3156-71. [PMID: 24553083 PMCID: PMC3958272 DOI: 10.3390/s140203156] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/18/2013] [Revised: 01/10/2014] [Accepted: 02/08/2014] [Indexed: 01/03/2023]
Abstract
"Smart" materials are an emerging category of multifunctional materials with physical or chemical properties that can be controllably altered in response to an external stimulus. By combining the standard properties of the advanced material with the unique ability to recognize and adapt in response to a change in their environment, these materials are finding applications in areas such as sensing and drug delivery. While the majority of these materials are responsive to physical or chemical changes, a particularly exciting area of research seeks to develop smart materials that are sensitive to specific molecular or biomolecular stimuli. These systems require the integration of a molecular recognition probe specific to the target molecule of interest. The ease of synthesis and labeling, low cost, and stability of DNA aptamers make them uniquely suited to effectively serve as molecular recognition probes in novel smart material systems. This review will highlight current work in the area of aptamer-based smart materials and prospects for their future applications.
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35
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Wang K, Ren J, Fan D, Liu Y, Wang E. Integration of graphene oxide and DNA as a universal platform for multiple arithmetic logic units. Chem Commun (Camb) 2014; 50:14390-3. [DOI: 10.1039/c4cc06033d] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Multiple logic gates were integrated on a universal GO–DNA platform to implement both half adder and half subtractor functions.
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Affiliation(s)
- Kun Wang
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun 130022, China
- University of Chinese Academy of Sciences
| | - Jiangtao Ren
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun 130022, China
- University of Chinese Academy of Sciences
| | - Daoqing Fan
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun 130022, China
- University of Chinese Academy of Sciences
| | - Yaqing Liu
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun 130022, China
- University of Chinese Academy of Sciences
| | - Erkang Wang
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun 130022, China
- University of Chinese Academy of Sciences
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36
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Self-assembled, functionalized graphene and DNA as a universal platform for colorimetric assays. Biomaterials 2013; 34:4810-7. [DOI: 10.1016/j.biomaterials.2013.03.039] [Citation(s) in RCA: 97] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2013] [Accepted: 03/14/2013] [Indexed: 11/17/2022]
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37
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Chen S, Guo Z, Zhu S, Shi WE, Zhu W. A multiaddressable photochromic bisthienylethene with sequence-dependent responses: construction of an INHIBIT logic gate and a keypad lock. ACS APPLIED MATERIALS & INTERFACES 2013; 5:5623-5629. [PMID: 23734835 DOI: 10.1021/am4009506] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
A photochromic bisthienylethene derivative (BIT) containing two imidazole units has been synthesized and fully characterized. When triggered by chemical ions (Ag(+)), protons, and light, BIT can behave as an absorbance switch, leading to a multiaddressable system. BIT exhibits sequence-dependent responses via efficient interaction of the specific imidazole unit with protons and Ag(+). Furthermore, an INHIBIT logic gate and a keypad lock with three inputs are constructed with the unimolecular platform by employing an absorption mode at different wavelengths as outputs on the basis of an appropriate combination of chemical and photonic stimuli.
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Affiliation(s)
- Shangjun Chen
- Shanghai Key Laboratory of Functional Materials Chemistry, East China University of Science and Technology, Shanghai 200237, PR China
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38
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Zhou Z, Liu Y, Dong S. DNA-templated Ag nanoclusters as signal transducers for a label-free and resettable keypad lock. Chem Commun (Camb) 2013; 49:3107-9. [PMID: 23471116 DOI: 10.1039/c3cc39272d] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We present a unique, label-free and resettable molecular keypad lock that utilizes DNA-modulated Ag nanoclusters (Ag NCs) as signal responsers. The present work demonstrates the first example that exonuclease-catalyzed DNA hydrolysis reaction could be used to achieve the RESET function of a molecular keypad without complicated procedures.
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Affiliation(s)
- Zhixue Zhou
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, People's Republic of China
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39
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He HZ, Leung KH, Yang H, Shiu-Hin Chan D, Leung CH, Zhou J, Bourdoncle A, Mergny JL, Ma DL. Label-free detection of sub-nanomolar lead(II) ions in aqueous solution using a metal-based luminescent switch-on probe. Biosens Bioelectron 2013; 41:871-4. [DOI: 10.1016/j.bios.2012.08.060] [Citation(s) in RCA: 72] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2012] [Revised: 08/17/2012] [Accepted: 08/30/2012] [Indexed: 12/22/2022]
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40
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Du Y, Li B, Wang E. "Fitting" makes "sensing" simple: label-free detection strategies based on nucleic acid aptamers. Acc Chem Res 2013; 46:203-13. [PMID: 23214491 DOI: 10.1021/ar300011g] [Citation(s) in RCA: 174] [Impact Index Per Article: 15.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Nucleic acid aptamers are small sequences of DNA made via in vitro selection techniques to bind targets with high affinity and specificity. The term aptamer derives from the Latin, aptus, meaning "to fit", emphasizing the lock-and-key relationship between aptamers and their binding targets. In 2004, aptamers began to attract researchers' attention as new binding elements for biosensors (i.e. aptasensors). Their advantages over other sensors include a diverse range of possible target molecules, high target affinity, simple synthesis, and ability to form Watson-Crick base pairs. These attributes create an enormous array of possible sensing applications and target molecules, spanning nearly all detection methods and readout techniques. In particular, aptamers provide an opportunity for designing "label-free" sensors, meaning sensors that do not require covalently labeling a signal probe to either the analyte or the recognition element (here, the aptamer). "Label-free" systems previously could only analyze large molecules using a few readout techniques, such as when employing the other recognition elements like antibodies. "Label-free" methods are one of the most effective and promising strategies for faster, simpler, and more convenient detection, since they avoid the expensive and tedious labeling process and challenging labeling reactions, while retaining the highest degree of activity and affinity for the recognition element. "Label-free" sensors are one of the most promising future biosensors. In this Account, we describe our efforts exploring and constructing such label-free sensing strategies based on aptamers. Our methods have included using various readout techniques, employing novel nanomaterials, importing lab-on-a-chip platforms, and improving logical recognition. The resulting sensors demonstrate that aptamers are ideal tools for "label-free" sensors. We divide this Account into three main parts describing three strategies for designing "label-free" sensors: (1) Label-free, separation-free strategies. These include colorimetric sensors based on G-quadruplex-hemin complex, and fluorescent sensors based on fluorescent small molecules, novel conjugated polymers, and metal ion clusters. (2) Label-free, separation-required strategies. In this part, electrochemical sensors are introduced, including sensors with different subtechniques using an electrode array. (3) Logic sensors. Some logic recognition systems are introduced. We emphasize that label-free aptasensors are not merely simple. We hope our introduction illustrates the powerful, flexible, and smart functions of aptamers in carrying out various detection tasks or playing various recognition games. Our work is only a start. We believe this field will bring additional knowledge on general designs, anti-interference, multianalysis, minimization, and auto-operation of aptamer biosensors.
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Affiliation(s)
- Yan Du
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P.R. China
| | - Bingling Li
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P.R. China
| | - Erkang Wang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P.R. China
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Pu F, Liu Z, Ren J, Qu X. Nucleic acid–mesoporous silica nanoparticle conjugates for keypad lock security operation. Chem Commun (Camb) 2013; 49:2305-7. [DOI: 10.1039/c3cc38883b] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
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Hong W, Du Y, Wang T, Liu J, Liu Y, Wang J, Wang E. A DNA-Based and Electrochemically Transduced Keypad Lock System with Reset Function. Chemistry 2012; 18:14939-42. [DOI: 10.1002/chem.201203286] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2012] [Indexed: 01/25/2023]
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Zhang Z, Sharon E, Freeman R, Liu X, Willner I. Fluorescence detection of DNA, adenosine-5'-triphosphate (ATP), and telomerase activity by zinc(II)-protoporphyrin IX/G-quadruplex labels. Anal Chem 2012; 84:4789-97. [PMID: 22540661 DOI: 10.1021/ac300348v] [Citation(s) in RCA: 138] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
The zinc(II)-protoporphyrin IX (ZnPPIX) fluorophore binds to G-quadruplexes, and this results in the enhanced fluorescence of the fluorophore. This property enabled the development of DNA sensors, aptasensors, and a sensor following telomerase activity. The DNA sensor is based on the design of a hairpin structure that includes a "caged" inactive G-quadruplex sequence. Upon opening the hairpin by the analyte DNA, the resulting fluorescence of the ZnPPIX/G-quadruplex provides the readout signal for the sensing event (detection limit 5 nM). Addition of Exonuclease III to the system allows the recycling of the analyte and its amplified analysis (detection limit, 200 pM). The association of the ZnPPIX to G-quadruplex aptamer-substrate complexes allowed the detection of adenosine-5'-triphosphate (ATP, detection limit 10 μM). Finally, the association of ZnPPIX to the G-quadruplex repeat units of telomers allowed the detection of telomerase activity originating from 380 ± 20 cancer 293T cell extract.
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Affiliation(s)
- Zhanxia Zhang
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
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Guo Z, Zhu W, Tian H. Dicyanomethylene-4H-pyran chromophores for OLED emitters, logic gates and optical chemosensors. Chem Commun (Camb) 2012; 48:6073-84. [PMID: 22576048 DOI: 10.1039/c2cc31581e] [Citation(s) in RCA: 230] [Impact Index Per Article: 19.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Dicyanomethylene-4H-pyran (DCM) chromophores are typical donor-π-acceptor (D-π-A) type chromophores with a broad absorption band resulting from an ultra-fast internal charge-transfer (ICT) process. In 1989, Tang et al. firstly introduced a DCM derivative as a highly fluorescent dopant in organic electroluminescent diodes (OLEDs). Integration of ICT chromophore-receptor systems based on DCM chromophores with ion-induced shifts in absorption or emission is a convenient method to perform the logic expression for molecular logic gates. In recent years, various DCM-type derivatives have been explored due to their excellent optical-electronic properties and diverse structural modification. This feature article provides an insight into how the structural modification of DCM chromophores can be utilized for OLED emitters, logic gates and optical chemosensors. In addition, the aggregation-induced-emission (AIE) of DCM derivatives for further optical applications was also introduced.
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Affiliation(s)
- Zhiqian Guo
- Key Laboratory for Advanced Materials and Institute of Fine Chemicals, East China University of Science and Technology, Shanghai 200237, PR China
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