51
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Li L, Wen Y, Xu L, Xu Q, Song S, Zuo X, Yan J, Zhang W, Liu G. Development of mercury (II) ion biosensors based on mercury-specific oligonucleotide probes. Biosens Bioelectron 2015; 75:433-45. [PMID: 26356764 DOI: 10.1016/j.bios.2015.09.003] [Citation(s) in RCA: 63] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2015] [Revised: 08/21/2015] [Accepted: 09/01/2015] [Indexed: 10/23/2022]
Abstract
Mercury (II) ion (Hg(2+)) contamination can be accumulated along the food chain and cause serious threat to the public health. Plenty of research effort thus has been devoted to the development of fast, sensitive and selective biosensors for monitoring Hg(2+). Thymine was demonstrated to specifically combine with Hg(2+) and form a thymine-Hg(2+)-thymine (T-Hg(2+)-T) structure, with binding constant even higher than T-A Watson-Crick pair in DNA duplex. Recently, various novel Hg(2+) biosensors have been developed based on T-rich Mercury-Specific Oligonucleotide (MSO) probes, and exhibited advanced selectivity and excellent sensitivity for Hg(2+) detection. In this review, we explained recent development of MSO-based Hg(2+) biosensors mainly in 3 groups: fluorescent biosensors, colorimetric biosensors and electrochemical biosensors.
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Affiliation(s)
- Lanying Li
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology, Shanghai 201203, PR China
| | - Yanli Wen
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology, Shanghai 201203, PR China
| | - Li Xu
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology, Shanghai 201203, PR China
| | - Qin Xu
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology, Shanghai 201203, PR China
| | - Shiping Song
- Laboratory of Physical Biology, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, PR China
| | - Xiaolei Zuo
- Laboratory of Physical Biology, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, PR China
| | - Juan Yan
- College of Food Science and Technology, Shanghai Ocean University, 999 Hucheng Huan Road, Pudong District, Shanghai 201306, PR China.
| | - Weijia Zhang
- College of Food Science and Technology, Shanghai Ocean University, 999 Hucheng Huan Road, Pudong District, Shanghai 201306, PR China
| | - Gang Liu
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology, Shanghai 201203, PR China
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52
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Zhu G, Zhang CY. Functional nucleic acid-based sensors for heavy metal ion assays. Analyst 2015; 139:6326-42. [PMID: 25356810 DOI: 10.1039/c4an01069h] [Citation(s) in RCA: 68] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Heavy metal contaminants such as lead ions (Pb(2+)), mercury ions (Hg(2+)) and silver ions (Ag(+)) can cause significant harm to humans and generate enduring bioaccumulation in ecological systems. Even though a variety of methods have been developed for Pb(2+), Hg(2+) and Ag(+) assays, most of them are usually laborious and time-consuming with poor sensitivity. Due to their unique advantages of excellent catalytic properties and high affinity for heavy metal ions, functional nucleic acids such as DNAzymes and aptamers show great promise in the development of novel sensors for heavy metal ion assays. In this review, we summarize the development of functional nucleic acid-based sensors for the detection of Pb(2+), Hg(2+) and Ag(+), and especially focus on two categories including the direct assay and the amplification-based assay. We highlight the emerging trends in the development of sensitive and selective sensors for heavy metal ion assays as well.
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Affiliation(s)
- Guichi Zhu
- Single-Molecule Detection and Imaging Laboratory, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Guangdong 518055, China.
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53
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Shi H, Li D, Xu F, He X, Wang K, Ye X, Tang J, He C. A label-free activatable aptamer probe for colorimetric detection of cancer cells based on binding-triggered in situ catalysis of split DNAzyme. Analyst 2015; 139:4181-4. [PMID: 25037636 DOI: 10.1039/c4an00561a] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
A novel label-free tailed hairpin-shaped activatable aptamer probe (THAAP) was developed by rationally integrating an aptamer and a split G-quadruplex into one sequence. Based on target recognition-triggered in situ catalysis of split DNAzyme, the THAAP strategy achieved a simple, fast, washing-free, specific and quantitative colorimetric assay of human leukemic CCRF-CEM cells.
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Affiliation(s)
- Hui Shi
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Institute of Biology, Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province, Changsha 410082, China.
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54
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Park C, Jang K, Lee S, You J, Lee S, Ha H, Yun K, Kim J, Lee H, Park J, Na S. A highly sensitive, direct and label-free technique for Hg(2+) detection using Kelvin probe force microscopy. NANOTECHNOLOGY 2015; 26:305501. [PMID: 26152847 DOI: 10.1088/0957-4484/26/30/305501] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
For several decades, various nanomaterials have been used in a wide range of industrial fields, research areas, and commercial products. Among many nanomaterials, nano-sized mercury materials are one of the most widely used nanomaterials in real life. However, due to the high toxicity of Hg(2+), it is imperative to develop an effective and practical detection method for Hg(2+) to protect human health and environment. In this study, a highly sensitive, label-free method of detecting Hg(2+) that requires only a single drop of solution was developed. The detection mechanism is based on the different surface potential arising from Hg(2+) binding to mismatched thymine-thymine sequences, creating a very stable base pair. The surface potential is measured with Kelvin probe force microscopy (KPFM) to a molecular resolution. The developed method is capable of detecting 2 fmol of Hg(2+), which is 500 times more sensitive than previously reported techniques. Moreover, our method can selectively detect Hg(2+) and can also be applied to tap water and river water. This KPFM-based Hg(2+) detection method can be used as an early detection technique for practical applications.
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Affiliation(s)
- Chanho Park
- Department of Mechanical Engineering, Korea University, Seoul 136-701, Korea
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55
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An enhanced chemiluminescence resonance energy transfer system based on target recycling G-guadruplexes/hemin DNAzyme catalysis and its application in ultrasensitive detection of DNA. Talanta 2015; 138:59-63. [DOI: 10.1016/j.talanta.2015.02.004] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2014] [Revised: 01/29/2015] [Accepted: 02/01/2015] [Indexed: 11/15/2022]
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56
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Zhang S, Li H, Wang Z, Liu J, Zhang H, Wang B, Yang Z. A strongly coupled Au/Fe3O4/GO hybrid material with enhanced nanozyme activity for highly sensitive colorimetric detection, and rapid and efficient removal of Hg(2+) in aqueous solutions. NANOSCALE 2015; 7:8495-502. [PMID: 25896803 DOI: 10.1039/c5nr00527b] [Citation(s) in RCA: 81] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
We have developed an efficient strategy for synthesizing a strongly coupled Au/Fe3O4/GO hybrid material to improve the catalytic activity, stability, and separation capability of Au nanoparticles (NPs) and Hg(2+). The hybrid material can be synthesized by the direct anchoring of Au and Fe3O4 NPs on the functional groups of GO. This approach affords strong chemical attachments between the NPs and GO, allowing this hybrid material to ultrasensitively detect Hg(2+) in aqueous solutions with a detection limit as low as 0.15 nM. In addition, the deposition of Hg(0) on the surface of Au/Fe3O4/GO could be quickly (within 30 min) and efficiently (>99% elimination efficiency) removed by the simple application of an external magnetic field and then Au/Fe3O4/GO could be subsequently reused at least 15 times, with the elimination efficiency remaining high (>96%).
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Affiliation(s)
- Shouting Zhang
- Key Laboratory of Nonferrous Metal Chemistry and Resources Utilization of Gansu Province, State Key Laboratory of Applied Organic Chemistry, and Key Laboratory of Special Function Materials and Structure Design, Ministry of Education, Lanzhou University Gansu, Lanzhou, 730000, People's Republic of China.
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57
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BSA-stabilized Pt nanozyme for peroxidase mimetics and its application on colorimetric detection of mercury(II) ions. Biosens Bioelectron 2015; 66:251-8. [DOI: 10.1016/j.bios.2014.11.032] [Citation(s) in RCA: 225] [Impact Index Per Article: 25.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2014] [Revised: 10/25/2014] [Accepted: 11/18/2014] [Indexed: 01/27/2023]
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58
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Pang Y, Rong Z, Xiao R, Wang S. "Turn on" and label-free core-shell Ag@SiO2 nanoparticles-based metal-enhanced fluorescent (MEF) aptasensor for Hg(2+). Sci Rep 2015; 5:9451. [PMID: 25819733 PMCID: PMC4377581 DOI: 10.1038/srep09451] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2014] [Accepted: 02/12/2015] [Indexed: 12/23/2022] Open
Abstract
A turn on and label-free fluorescent apasensor for Hg(2+) with high sensitivity and selectivity has been demonstrated in this report. Firstly, core-shell Ag@SiO2 nanoparticles (NPs) were synthetized as a Metal-Enhanced Fluorescent (MEF) substrate, T-rich DNA aptamers were immobilized on the surface of Ag@SiO2 NPs and thiazole orange (TO) was selected as fluorescent reporter. After Hg(2+) was added to the aptamer-Ag@SiO2 NPs and TO mixture buffer solution, the aptamer strand can bind Hg(2+) to form T-Hg(2+)-T complex with a hairpin structure which TO can insert into. When clamped by the nucleic acid bases, the fluorescence quanta yield of TO will be increased under laser excitation and emitted a fluorescence emission. Furthermore, the fluorescence emission can be amplified largely by the MEF effect of the Ag@SiO2 NPs. The whole experiment can be finished within 30 min and the limit of detection is 0.33 nM even with interference by high concentrations of other metal ions. Finally, the sensor was applied for detecting Hg(2+) in different real water samples with satisfying recoveries over 94%.
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Affiliation(s)
- Yuanfeng Pang
- Beijing Institute of Radiation Medicine, 27 Taiping Road, Beijing, China
| | - Zhen Rong
- Beijing Institute of Radiation Medicine, 27 Taiping Road, Beijing, China
| | - Rui Xiao
- Beijing Institute of Radiation Medicine, 27 Taiping Road, Beijing, China
| | - Shengqi Wang
- Beijing Institute of Radiation Medicine, 27 Taiping Road, Beijing, China
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59
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Ultrasensitive electrochemical detection of avian influenza A (H7N9) virus DNA based on isothermal exponential amplification coupled with hybridization chain reaction of DNAzyme nanowires. Biosens Bioelectron 2015; 64:566-71. [DOI: 10.1016/j.bios.2014.09.080] [Citation(s) in RCA: 66] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2014] [Revised: 09/18/2014] [Accepted: 09/29/2014] [Indexed: 12/27/2022]
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60
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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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61
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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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62
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Tanaka Y, Kondo J, Sychrovský V, Šebera J, Dairaku T, Saneyoshi H, Urata H, Torigoe H, Ono A. Structures, physicochemical properties, and applications of T–HgII–T, C–AgI–C, and other metallo-base-pairs. Chem Commun (Camb) 2015; 51:17343-60. [DOI: 10.1039/c5cc02693h] [Citation(s) in RCA: 118] [Impact Index Per Article: 13.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
In this feature article, recent progress and future perspectives of metal-mediated base-pairs such as T–Hg(ii)–T and C–Ag(i)–C are presented.
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Affiliation(s)
- Yoshiyuki Tanaka
- Faculty of Pharmaceutical Sciences
- Tokushima Bunri University
- Tokushima
- Japan
- Graduate School of Pharmaceutical Sciences
| | - Jiro Kondo
- Department of Materials and Life Sciences
- Faculty of Science and Technology
- Sophia University
- Chiyoda-ku
- Japan
| | - Vladimír Sychrovský
- Institute of Organic Chemistry and Biochemistry
- Academy of Sciences of the Czech Republic
- Praha 6
- Czech Republic
| | - Jakub Šebera
- Institute of Organic Chemistry and Biochemistry
- Academy of Sciences of the Czech Republic
- Praha 6
- Czech Republic
- Institute of Physics
| | - Takenori Dairaku
- Graduate School of Pharmaceutical Sciences
- Tohoku University
- Sendai
- Japan
| | - Hisao Saneyoshi
- Department of Material & Life Chemistry
- Kanagawa University
- Yokohama
- Japan
| | - Hidehito Urata
- Osaka University of Pharmaceutical Sciences
- Takatsuki
- Japan
| | - Hidetaka Torigoe
- Department of Applied Chemistry
- Faculty of Science
- Tokyo University of Science
- Shinjuku-ku
- Japan
| | - Akira Ono
- Department of Material & Life Chemistry
- Kanagawa University
- Yokohama
- Japan
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63
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Chen H, Sun H, Zhang X, Sun X, Shi Y, Tang Y. A supramolecular probe for colorimetric detection of Pb2+ based on recognition of G-quadruplex. RSC Adv 2015. [DOI: 10.1039/c4ra11395k] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
A colorimetric probe of Pb2+ has been designed based on the mechanism that a supramolecular probe selectively recognized the Pb2+-induced conformational transition of G-quadruplexes.
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Affiliation(s)
- Hongbo Chen
- College of Chemistry Engineering
- Hebei United University
- Tangshan
- PR China
- National Laboratory for Molecular Sciences
| | - 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 100190
| | - Xiufeng Zhang
- College of Chemistry Engineering
- Hebei United University
- Tangshan
- PR China
| | - Xiaoran Sun
- College of Chemistry Engineering
- Hebei United University
- Tangshan
- PR 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 100190
| | - 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 100190
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64
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Chen G, Guo Z, Zeng G, Tang L. Fluorescent and colorimetric sensors for environmental mercury detection. Analyst 2015; 140:5400-43. [DOI: 10.1039/c5an00389j] [Citation(s) in RCA: 253] [Impact Index Per Article: 28.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
The development of fluorescent and colorimetric sensing strategies for environmental mercury is described.
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Affiliation(s)
- Guiqiu Chen
- College of Environmental Science and Engineering
- Hunan University
- Changsha 410082
- P.R. China
- Key Laboratory of Environmental Biology and Pollution Control
| | - Zhi Guo
- College of Environmental Science and Engineering
- Hunan University
- Changsha 410082
- P.R. China
- Key Laboratory of Environmental Biology and Pollution Control
| | - Guangming Zeng
- College of Environmental Science and Engineering
- Hunan University
- Changsha 410082
- P.R. China
- Key Laboratory of Environmental Biology and Pollution Control
| | - Lin Tang
- College of Environmental Science and Engineering
- Hunan University
- Changsha 410082
- P.R. China
- Key Laboratory of Environmental Biology and Pollution Control
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65
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Zhang S, Wang K, Li Z, Feng Z, Sun T. Lab in a tube: a fast-assembled colorimetric sensor for highly sensitive detection of oligonucleotides based on a hybridization chain reaction. RSC Adv 2015. [DOI: 10.1039/c5ra04613k] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023] Open
Abstract
Upon adding THBV, the self-assembly of THBV with H1 allows the rest of the DNA sequence of H1 to accelerate H1–H2 complex formation. The G-quadruplex at the end of the H1–H2 complex could catalyze TMB into a colored product.
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Affiliation(s)
- Siqi Zhang
- College of Sciences
- Northeastern University
- Shenyang
- China
| | - Kun Wang
- Department of Chemistry and Environmental Engineering
- Changchun University of Science and Technology
- Changchun
- China
| | - Zhenyu Li
- College of Sciences
- Northeastern University
- Shenyang
- China
| | - Zhongmin Feng
- College of Sciences
- Northeastern University
- Shenyang
- China
| | - Ting Sun
- College of Sciences
- Northeastern University
- Shenyang
- China
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66
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Li C, Dai P, Rao X, Shao L, Cheng G, He P, Fang Y. An ultra-sensitive colorimetric Hg2+-sensing assay based on DNAzyme-modified Au NP aggregation, MNPs and an endonuclease. Talanta 2015; 132:463-8. [DOI: 10.1016/j.talanta.2014.09.037] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2014] [Revised: 09/18/2014] [Accepted: 09/28/2014] [Indexed: 10/24/2022]
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67
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Chen H, Zhang X, Sun H, Sun X, Shi Y, Xu S, Tang Y. Visual detection of mercury(ii) based on recognition of the G-quadruplex conformational transition by a cyanine dye supramolecule. Analyst 2015; 140:7170-4. [DOI: 10.1039/c5an01507c] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
Visual detection of mercury(ii) based on recognition of the G-quadruplex conformational transition by a cyanine dye supramolecule is reported.
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Affiliation(s)
- Hongbo Chen
- College of Chemistry Engineering
- North China University of Science and Technology
- Tangshan
- PR China
- National Laboratory for Molecular Sciences
| | - Xiufeng Zhang
- College of Chemistry Engineering
- North China University of Science and Technology
- Tangshan
- PR China
| | - 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
- PR China
| | - Xiaoran Sun
- College of Chemistry Engineering
- North China University of Science and Technology
- Tangshan
- PR 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
- PR China
| | - 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
- PR China
| | - 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
- PR China
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68
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Wei Y, Li B, Wang X, Duan Y. A nano-graphite-DNA hybrid sensor for magnified fluorescent detection of mercury(II) ions in aqueous solution. Analyst 2014; 139:1618-21. [PMID: 24555179 DOI: 10.1039/c3an01482g] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this communication, we present a nano-graphite-DNA hybrid sensor for fluorescent detection of mercury(II) ions in aqueous solution for the first time. Furthermore, an amplification strategy based on nano-graphite for Hg(2+) detection by using DNase I was demonstrated. The proposed amplified assay was simple and cost-effective with a limit of detection (LOD) for Hg(2+) of 0.5 nM, which was about 20-fold lower than that of traditional unamplified homogeneous assays. We further demonstrated its practical application to detect Hg(2+) in a real sample.
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Affiliation(s)
- Yin Wei
- Research Center of Analytical Instrumentation, Analytical Testing Center, College of Chemistry, Sichuan University, Chengdu, China.
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69
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Li T, Lohmann F, Famulok M. Interlocked DNA nanostructures controlled by a reversible logic circuit. Nat Commun 2014; 5:4940. [PMID: 25229207 PMCID: PMC4199106 DOI: 10.1038/ncomms5940] [Citation(s) in RCA: 76] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2014] [Accepted: 08/07/2014] [Indexed: 12/04/2022] Open
Abstract
DNA nanostructures constitute attractive devices for logic computing and nanomechanics. An emerging interest is to integrate these two fields and devise intelligent DNA nanorobots. Here we report a reversible logic circuit built on the programmable assembly of a double-stranded (ds) DNA [3]pseudocatenane that serves as a rigid scaffold to position two separate branched-out head-motifs, a bimolecular i-motif and a G-quadruplex. The G-quadruplex only forms when preceded by the assembly of the i-motif. The formation of the latter, in turn, requires acidic pH and unhindered mobility of the head-motif containing dsDNA nanorings with respect to the central ring to which they are interlocked, triggered by release oligodeoxynucleotides. We employ these features to convert the structural changes into Boolean operations with fluorescence labelling. The nanostructure behaves as a reversible logic circuit consisting of tandem YES and AND gates. Such reversible logic circuits integrated into functional nanodevices may guide future intelligent DNA nanorobots to manipulate cascade reactions in biological systems.
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Affiliation(s)
- Tao Li
- Chemical Biology and Medicinal Chemistry Unit, Life and Medical Science (LIMES) Institute, University of Bonn, 53121 Bonn, Germany
| | - Finn Lohmann
- Chemical Biology and Medicinal Chemistry Unit, Life and Medical Science (LIMES) Institute, University of Bonn, 53121 Bonn, Germany
| | - Michael Famulok
- Chemical Biology and Medicinal Chemistry Unit, Life and Medical Science (LIMES) Institute, University of Bonn, 53121 Bonn, Germany
- Center of Advanced European Studies and Research (CAESAR), Ludwig-Erhard-Allee 2, 53175 Bonn, Germany
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70
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Kosman J, Wu YT, Gluszynska A, Juskowiak B. N-Methyl-4-hydrazino-7-nitrobenzofurazan: a fluorogenic substrate for peroxidase-like DNAzyme, and its potential application. Anal Bioanal Chem 2014; 406:7049-57. [PMID: 25213215 PMCID: PMC4206775 DOI: 10.1007/s00216-014-8119-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2014] [Revised: 08/15/2014] [Accepted: 08/18/2014] [Indexed: 01/31/2023]
Abstract
Characterization and optimization studies of N-methyl-4-hydrazino-7-nitrobenzofurazan (MNBDH) as a new fluorogenic substrate in the peroxidation reaction catalyzed by DNAzyme are reported. The effects of pH, H2O2 concentration, metal-cation type, and the concentration and type of surfactant on the fluorescence intensity were investigated. The optimized reaction was subsequently used for the development of an assay for DNA detection based on a molecular-beacon probe. The use of a fluorogenic substrate enabled the detection of a single-stranded DNA target with a 1 nmol L(-1) detection limit.
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Affiliation(s)
- Joanna Kosman
- Faculty of Chemistry, Adam Mickiewicz University in Poznan, Umultowska 89b, 61-614, Poznan, Poland,
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71
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Chen GH, Chen WY, Yen YC, Wang CW, Chang HT, Chen CF. Detection of mercury(II) ions using colorimetric gold nanoparticles on paper-based analytical devices. Anal Chem 2014; 86:6843-9. [PMID: 24932699 DOI: 10.1021/ac5008688] [Citation(s) in RCA: 307] [Impact Index Per Article: 30.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
An on-field colorimetric sensing strategy employing gold nanoparticles (AuNPs) and a paper-based analytical platform was investigated for mercury ion (Hg(2+)) detection at water sources. By utilizing thymine-Hg(2+)-thymine (T-Hg(2+)-T) coordination chemistry, label-free detection oligonucleotide sequences were attached to unmodified gold nanoparticles to provide rapid mercury ion sensing without complicated and time-consuming thiolated or other costly labeled probe preparation processes. Not only is this strategy's sensing mechanism specific toward Hg(2+), rather than other metal ions, but also the conformational change in the detection oligonucleotide sequences introduces different degrees of AuNP aggregation that causes the color of AuNPs to exhibit a mixture variance. To eliminate the use of sophisticated equipment and minimize the power requirement for data analysis and transmission, the color variance of multiple detection results were transferred and concentrated on cellulose-based paper analytical devices, and the data were subsequently transmitted for the readout and storage of results using cloud computing via a smartphone. As a result, a detection limit of 50 nM for Hg(2+) spiked pond and river water could be achieved. Furthermore, multiple tests could be performed simultaneously with a 40 min turnaround time. These results suggest that the proposed platform possesses the capability for sensitive and high-throughput on-site mercury pollution monitoring in resource-constrained settings.
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Affiliation(s)
- Guan-Hua Chen
- Graduate Institute of Biomedical Engineering, National Chung Hsing University , Taichung 402, Taiwan
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72
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Sett A, Das S, Bora U. Functional nucleic-acid-based sensors for environmental monitoring. Appl Biochem Biotechnol 2014; 174:1073-91. [PMID: 24903959 DOI: 10.1007/s12010-014-0990-3] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2014] [Accepted: 05/19/2014] [Indexed: 01/16/2023]
Abstract
Efforts to replace conventional chromatographic methods for environmental monitoring with cheaper and easy to use biosensors for precise detection and estimation of hazardous environmental toxicants, water or air borne pathogens as well as various other chemicals and biologics are gaining momentum. Out of the various types of biosensors classified according to their bio-recognition principle, nucleic-acid-based sensors have shown high potential in terms of cost, sensitivity, and specificity. The discovery of catalytic activities of RNA (ribozymes) and DNA (DNAzymes) which could be triggered by divalent metallic ions paved the way for their extensive use in detection of heavy metal contaminants in environment. This was followed with the invention of small oligonucleotide sequences called aptamers which can fold into specific 3D conformation under suitable conditions after binding to target molecules. Due to their high affinity, specificity, reusability, stability, and non-immunogenicity to vast array of targets like small and macromolecules from organic, inorganic, and biological origin, they can often be exploited as sensors in industrial waste management, pollution control, and environmental toxicology. Further, rational combination of the catalytic activity of DNAzymes and RNAzymes along with the sequence-specific binding ability of aptamers have given rise to the most advanced form of functional nucleic-acid-based sensors called aptazymes. Functional nucleic-acid-based sensors (FNASs) can be conjugated with fluorescent molecules, metallic nanoparticles, or quantum dots to aid in rapid detection of a variety of target molecules by target-induced structure switch (TISS) mode. Although intensive research is being carried out for further improvements of FNAs as sensors, challenges remain in integrating such bio-recognition element with advanced transduction platform to enable its use as a networked analytical system for tailor made analysis of environmental monitoring.
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Affiliation(s)
- Arghya Sett
- Bioengineering Research Laboratory, Department of Biotechnology, Indian Institute of Technology Guwahati, Guwahati, Assam, 781039, India
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73
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Wang F, Lu CH, Willner I. From cascaded catalytic nucleic acids to enzyme-DNA nanostructures: controlling reactivity, sensing, logic operations, and assembly of complex structures. Chem Rev 2014; 114:2881-941. [PMID: 24576227 DOI: 10.1021/cr400354z] [Citation(s) in RCA: 493] [Impact Index Per Article: 49.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Fuan Wang
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem , Jerusalem 91904, Israel
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74
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Abstract
Increasing interest in detecting metal ions in many chemical and biomedical fields has created demands for developing sensors and imaging agents for metal ions with high sensitivity and selectivity. This review covers recent progress in DNA-based sensors and imaging agents for metal ions. Through both combinatorial selection and rational design, a number of metal-ion-dependent DNAzymes and metal-ion-binding DNA structures that can selectively recognize specific metal ions have been obtained. By attachment of these DNA molecules with signal reporters such as fluorophores, chromophores, electrochemical tags, and Raman tags, a number of DNA-based sensors for both diamagnetic and paramagnetic metal ions have been developed for fluorescent, colorimetric, electrochemical, and surface Raman detection. These sensors are highly sensitive (with a detection limit down to 11 ppt) and selective (with selectivity up to millions-fold) toward specific metal ions. In addition, through further development to simplify the operation, such as the use of "dipstick tests", portable fluorometers, computer-readable disks, and widely available glucose meters, these sensors have been applied for on-site and real-time environmental monitoring and point-of-care medical diagnostics. The use of these sensors for in situ cellular imaging has also been reported. The generality of the combinatorial selection to obtain DNAzymes for almost any metal ion in any oxidation state and the ease of modification of the DNA with different signal reporters make DNA an emerging and promising class of molecules for metal-ion sensing and imaging in many fields of applications.
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Affiliation(s)
- Yu Xiang
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA. Fax: 217-244-3186; Tel: 217-333-2619
| | - Yi Lu
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA. Fax: 217-244-3186; Tel: 217-333-2619
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75
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WANG K, TAO ZH, XU L, LIU YQ. Research and Development of Functionalized Aptamer based Biosensor. CHINESE JOURNAL OF ANALYTICAL CHEMISTRY 2014. [DOI: 10.1016/s1872-2040(13)60712-4] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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76
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Wu J, Zhu Y, Xue F, Mei Z, Yao L, Wang X, Zheng L, Liu J, Liu G, Peng C, Chen W. Recent trends in SELEX technique and its application to food safety monitoring. Mikrochim Acta 2014; 181:479-491. [PMID: 25419005 DOI: 10.1007/s00604-013-1156-7] [Citation(s) in RCA: 76] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
The method referred to as "systemic evolution of ligands by exponential enrichment" (SELEX) was introduced in 1990 and ever since has become an important tool for the identification and screening of aptamers. Such nucleic acids can recognize and bind to their corresponding targets (analytes) with high selectivity and affinity, and aptamers therefore have become attractive alternatives to traditional antibodies not the least because they are much more stable. Meanwhile, they have found numerous applications in different fields including food quality and safety monitoring. This review first gives an introduction into the selection process and to the evolution of SELEX, then covers applications of aptamers in the surveillance of food safety (with subsections on absorptiometric, electrochemical, fluorescent and other methods), and then gives conclusions and perspectives. The SELEX method excels by its features of in vitro, high throughput and ease of operation. This review contains 86 references.
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Affiliation(s)
- Jingjing Wu
- School of Biotechnology and Food Engineering, Anhui Provincial Key Lab of Functional Materials & Devices, Hefei University of Technology, Hefei 230009, People's Republic of China
| | - Yingyue Zhu
- School of Biotechnology and Food Engineering, Changshu Institute of Technology, Changshu 215500, People's Republic of China
| | - Feng Xue
- School of Biotechnology and Food Engineering, Anhui Provincial Key Lab of Functional Materials & Devices, Hefei University of Technology, Hefei 230009, People's Republic of China
| | - Zhanlong Mei
- School of Biotechnology and Food Engineering, Anhui Provincial Key Lab of Functional Materials & Devices, Hefei University of Technology, Hefei 230009, People's Republic of China
| | - Li Yao
- School of Biotechnology and Food Engineering, Anhui Provincial Key Lab of Functional Materials & Devices, Hefei University of Technology, Hefei 230009, People's Republic of China
| | - Xin Wang
- School of Biotechnology and Food Engineering, Anhui Provincial Key Lab of Functional Materials & Devices, Hefei University of Technology, Hefei 230009, People's Republic of China
| | - Lei Zheng
- School of Medical Engineering, Hefei University of Technology, Hefei 230009, People's Republic of China
| | - Jian Liu
- School of Biotechnology and Food Engineering, Anhui Provincial Key Lab of Functional Materials & Devices, Hefei University of Technology, Hefei 230009, People's Republic of China
| | - Guodong Liu
- Department of Chemistry and Biochemistry, North Dakota State University, Fargo, ND 58108, USA
| | - Chifang Peng
- School Food Science & Technology, Jiangnan University, Wuxi 214122, People's Republic of China
| | - Wei Chen
- School of Biotechnology and Food Engineering, Anhui Provincial Key Lab of Functional Materials & Devices, Hefei University of Technology, Hefei 230009, People's Republic of China
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77
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Zhang X, Han Y, Li J, Zhang L, Jia X, Wang E. Portable, Universal, and Visual Ion Sensing Platform Based on the Light Emitting Diode-Based Self-Referencing-Ion Selective Field-Effect Transistor. Anal Chem 2014; 86:1380-4. [DOI: 10.1021/ac403312f] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Xiaowei Zhang
- State Key
Laboratory of Electroanalytical Chemistry, Changchun Institute of
Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China
- Graduate School of the Chinese Academy of Sciences, Beijing, 100039, P. R. China
| | - Yanchao Han
- State Key
Laboratory of Electroanalytical Chemistry, Changchun Institute of
Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China
- Graduate School of the Chinese Academy of Sciences, Beijing, 100039, P. R. China
| | - Jing Li
- State Key
Laboratory of Electroanalytical Chemistry, Changchun Institute of
Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China
| | - Libing Zhang
- State Key
Laboratory of Electroanalytical Chemistry, Changchun Institute of
Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China
| | - Xiaofang Jia
- State Key
Laboratory of Electroanalytical Chemistry, Changchun Institute of
Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China
- Graduate School of the Chinese Academy of Sciences, Beijing, 100039, P. R. China
| | - Erkang Wang
- State Key
Laboratory of Electroanalytical Chemistry, Changchun Institute of
Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China
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78
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Lin S, He B, Shiu-Hin Chan D, Hong Chan PW, Leung CH, Ma DL. A G-quadruplex-based platform for the detection of Hg2+ ions using a luminescent iridium(iii) complex. RSC Adv 2014. [DOI: 10.1039/c4ra11240g] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
We report herein the synthesis of a series of cyclometalated iridium(iii) complexes as luminescent G-quadruplex-selective probes, which were used to construct an oligonucleotide-based platform for the dual detection and removal of Hg2+ ions.
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Affiliation(s)
- Sheng Lin
- Department of Chemistry
- Hong Kong Baptist University
- Hong Kong, China
| | - Bingyong He
- Department of Chemistry
- Hong Kong Baptist University
- Hong Kong, China
| | | | - Philip Wai Hong Chan
- School of Chemistry
- Monash University
- , Australia
- Division of Chemistry and Biological Chemistry
- School of Physical and Mathematical Sciences
| | - Chung-Hang Leung
- State Key Laboratory of Quality Research in Chinese Medicine
- Institute of Chinese Medical Sciences
- University of Macau
- Macao, China
| | - Dik-Lung Ma
- Department of Chemistry
- Hong Kong Baptist University
- Hong Kong, China
- Partner State Key Laboratory of Environmental and Biological Analysis
- Hong Kong Baptist University
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79
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Zhou Z, Peng L, Wang X, Xiang Y, Tong A. A new colorimetric strategy for monitoring caspase 3 activity by HRP-mimicking DNAzyme–peptide conjugates. Analyst 2014; 139:1178-83. [DOI: 10.1039/c3an02028b] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
A new colorimetric method is designed for the detection of caspase 3 activity by HRP-mimicking DNAzyme–peptide conjugates.
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Affiliation(s)
- Zhaojuan Zhou
- Department of Chemistry
- Beijing Key Laboratory for Microanalytical Methods and Instrumentation
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology
- Tsinghua University
- Beijing 100084, China
| | - Lu Peng
- Department of Chemistry
- Beijing Key Laboratory for Microanalytical Methods and Instrumentation
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology
- Tsinghua University
- Beijing 100084, China
| | - Xiaoyan Wang
- Department of Chemistry
- Beijing Key Laboratory for Microanalytical Methods and Instrumentation
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology
- Tsinghua University
- Beijing 100084, China
| | - Yu Xiang
- Department of Chemistry
- Beijing Key Laboratory for Microanalytical Methods and Instrumentation
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology
- Tsinghua University
- Beijing 100084, China
| | - Aijun Tong
- Department of Chemistry
- Beijing Key Laboratory for Microanalytical Methods and Instrumentation
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology
- Tsinghua University
- Beijing 100084, China
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80
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Qi C, Zhang N, Yan J, Liu X, Bing T, Mei H, Shangguan D. Activity enhancement of G-quadruplex/hemin DNAzyme by spermine. RSC Adv 2014. [DOI: 10.1039/c3ra45429k] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023] Open
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81
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Anandhakumar S, Rajaram R, Mathiyarasu J. Unusual seedless approach to gold nanoparticle synthesis: application to selective rapid naked eye detection of mercury(ii). Analyst 2014; 139:3356-9. [DOI: 10.1039/c4an00480a] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
Highly selective and sensitive naked eye detection of Hg2+was achieved based on the Hg2+–Au+interaction and AuIto Au0was observed in the absence of a seed.
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Affiliation(s)
- Sukeri Anandhakumar
- Electrodics and Electrocatalysis Division
- CSIR-Central Electrochemical Research Institute
- Karaikudi – 630006, India
| | - Rajendran Rajaram
- Electrodics and Electrocatalysis Division
- CSIR-Central Electrochemical Research Institute
- Karaikudi – 630006, India
| | - Jayaraman Mathiyarasu
- Electrodics and Electrocatalysis Division
- CSIR-Central Electrochemical Research Institute
- Karaikudi – 630006, India
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82
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Kong DM. Factors influencing the performance of G-quadruplex DNAzyme-based sensors. Methods 2013; 64:199-204. [DOI: 10.1016/j.ymeth.2013.07.013] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2013] [Accepted: 07/08/2013] [Indexed: 02/03/2023] Open
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83
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Li H, Wu Z, Qiu L, Liu J, Wang C, Shen G, Yu R. Ultrasensitive label-free amplified colorimetric detection of p53 based on G-quadruplex MBzymes. Biosens Bioelectron 2013; 50:180-5. [DOI: 10.1016/j.bios.2013.06.041] [Citation(s) in RCA: 52] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2013] [Revised: 06/19/2013] [Accepted: 06/19/2013] [Indexed: 11/27/2022]
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84
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Cai Y, Li N, Kong DM, Shen HX. Fluorogenic substrate screening for G-quadruplex DNAzyme-based sensors. Biosens Bioelectron 2013; 49:312-7. [DOI: 10.1016/j.bios.2013.05.034] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2013] [Revised: 05/16/2013] [Accepted: 05/20/2013] [Indexed: 10/26/2022]
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85
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G-Quadruplex conformational change driven by pH variation with potential application as a nanoswitch. Biochim Biophys Acta Gen Subj 2013; 1830:4935-42. [DOI: 10.1016/j.bbagen.2013.06.019] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2013] [Revised: 06/16/2013] [Accepted: 06/19/2013] [Indexed: 12/18/2022]
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86
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Amplified colorimetric detection of mercuric ions through autonomous assembly of G-quadruplex DNAzyme nanowires. Biosens Bioelectron 2013; 52:261-4. [PMID: 24060975 DOI: 10.1016/j.bios.2013.08.034] [Citation(s) in RCA: 74] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2013] [Revised: 07/19/2013] [Accepted: 08/06/2013] [Indexed: 11/22/2022]
Abstract
An amplified colorimetric detection of Hg(2+) is proposed by combining T-Hg(2+)-T base pairs and hybridization chain reaction (HCR). Two hairpins consisting of three-fourths and one-fourth of the horseradish peroxidase (HRP)-mimicking DNAzyme in inactive configuration are used as functional elements. In the presence of Hg(2+), one of the hairpins is opened by an assistant probe with the help of T-Hg(2+)-T base pairs and this triggers an autonomous cross-opening of the two hairpins using the strand displacement principle, resulting in the formation of DNA nanowires consisting of numerous reunited Q-quadruplex DNAzyme units. The resulting catalytically active hemin/G-quadruplex HRP-mimicking DNAzymes catalyze the oxidation of ABTS(2-) by H2O2 into a green-colored cationic radical ABTS(•+) for the colorimetric readout. This "turn-on" sensing system enables the high sensitive and selective detection of aqueous Hg(2+) with a detection limit of 9.7 pM.
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87
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Jiang J, He Y, Yu X, Zhao J, Cui H. A homogeneous hemin/G-quadruplex DNAzyme based turn-on chemiluminescence aptasensor for interferon-gamma detection via in-situ assembly of luminol functionalized gold nanoparticles, deoxyribonucleic acid, interferon-gamma and hemin. Anal Chim Acta 2013; 791:60-4. [DOI: 10.1016/j.aca.2013.06.048] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2013] [Revised: 06/23/2013] [Accepted: 06/28/2013] [Indexed: 01/09/2023]
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88
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McKeating KS, Graham D, Faulds K. Resonance Raman scattering of catalytic beacons for DNA detection. Chem Commun (Camb) 2013; 49:3206-8. [PMID: 23486766 DOI: 10.1039/c3cc40346g] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
A novel method for analysing the catalytic action of a DNAzyme is reported. Resonance Raman scattering (RRS) is shown to successfully monitor the oxidation of two different peroxidase substrates and has been implemented in an assay for the detection of target DNA, providing a more sensitive method of analysis than current colorimetric techniques.
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Affiliation(s)
- Kristy S McKeating
- Centre for Molecular Nanometrology, West CHEM, Department of Pure and Applied Chemistry, University of Strathclyde, 295 Cathedral St., Glasgow, G1 1XL, UK
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89
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Lu CH, Qi XJ, Orbach R, Yang HH, Mironi-Harpaz I, Seliktar D, Willner I. Switchable catalytic acrylamide hydrogels cross-linked by hemin/G-quadruplexes. NANO LETTERS 2013; 13:1298-1302. [PMID: 23421921 DOI: 10.1021/nl400078g] [Citation(s) in RCA: 134] [Impact Index Per Article: 12.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Copolymer chains consisting of acrylamide units and guanine (G)-containing oligonucleotide-tethered acrylamide units undergo, in the presence of K(+) ions, cross-linking by G-quadruplexes to yield a hydrogel. The hydrogel is dissociated upon addition of 18-crown-6 ether that traps the K(+) ions. Reversible formation and dissociation of the hydrogel is demonstrated by the cyclic addition of K(+) ions and 18-crown-6 ether, respectively. Formation of the hydrogel in the presence of hemin results in a hemin/G-quadruplex-cross-linked catalytic hydrogel mimicking the function of horseradish peroxidase, reflected by the catalyzed oxidation of 2,2'-azinobis-(3-ethylbenzthiazoline-6-sulfonic acid), ABTS(2-), by H2O2 to ABTS(·-) and by the catalyzed generation of chemiluminescence in the presence of luminol/H2O2. Cyclic "ON" and "OFF" activation of the catalytic functions of the hydrogel are demonstrated upon the formation of the hydrogel in the presence of K(+) ions and its dissociation by 18-crown-6 ether, respectively. The hydrogel is characterized by rheology measurements, circular dichroism, and probing its chemical and photophysical properties.
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Affiliation(s)
- Chun-Hua Lu
- Institute of Chemistry, The Hebrew University of Jerusalem and The Center for Nanoscience and Nanotechnology, Jerusalem 91904, Israel
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90
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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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91
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Yan L, Chen Z, Zhang Z, Qu C, Chen L, Shen D. Fluorescent sensing of mercury(ii) based on formation of catalytic gold nanoparticles. Analyst 2013; 138:4280-3. [DOI: 10.1039/c3an00725a] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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92
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Electrocatalytic assay of mercury(II) ions using a bifunctional oligonucleotide signal probe. Anal Chim Acta 2013; 762:47-53. [DOI: 10.1016/j.aca.2012.12.008] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2012] [Revised: 11/27/2012] [Accepted: 12/04/2012] [Indexed: 11/23/2022]
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93
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Su D, Yang X, Xia Q, Chai F, Wang C, Qu F. Colorimetric detection of Hg2+ using thioctic acid functionalized gold nanoparticles. RSC Adv 2013. [DOI: 10.1039/c3ra43276a] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022] Open
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94
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Jiang C, Yan C, Jiang J, Yu R. Colorimetric assay for T4 polynucleotide kinase activity based on the horseradish peroxidase-mimicking DNAzyme combined with λ exonuclease cleavage. Anal Chim Acta 2012; 766:88-93. [PMID: 23427805 DOI: 10.1016/j.aca.2012.12.034] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2012] [Revised: 11/12/2012] [Accepted: 12/19/2012] [Indexed: 10/27/2022]
Abstract
T4 polynucleotide kinase (PNK) plays a critical role in various cellular events. Here, we describe a novel colorimetric strategy for estimating the activity of PNK and screening its inhibitors taking advantage of the efficient cleavage of λ exonuclease and the horseradish peroxidase-mimicking DNAzyme (HRPzyme) signal amplification. A label-free hairpin DNA with the sequence of HRPzyme was utilized in the assay. The 5'-hydroxyl terminal of the hairpin DNA was firstly phosphorylated in the presence of PNK and then digested by λ exonuclease. As a result, the blocked 'HRPzyme' sequence of the hairpin DNA was released due to the removal of its completely complementary sequence. Using this strategy, the assay for PNK activity was successfully translated into the detection of HRPzyme. Because of the completely blocking and efficiently releasing of HRPzyme, the colorimetric method exhibited an excellent performance in PNK analysis with a low detection limit of 0.06 U mL(-1) and a wide detection range from 0.06 to 100 U mL(-1). Additionally, the effects of different inhibitors on PNK activity were also evaluated. The proposed strategy holds great potential in the development of high-throughput phosphorylation investigation as well as in the screening of the related drugs.
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Affiliation(s)
- Cheng Jiang
- State Key Laboratory for Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, PR China
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96
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Smith NM, Amrane S, Rosu F, Gabelica V, Mergny JL. Mercury-thymine interaction with a chair type G-quadruplex architecture. Chem Commun (Camb) 2012; 48:11464-6. [PMID: 23090661 DOI: 10.1039/c2cc36481f] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The T-Hg-T bond was utilized to cross-link two lateral loops of chair-type G-quadruplex DNA (G4-DNA) structures. Two out of five cross-linking geometries are able to increase the melting temperature and simultaneously reduce the polymorphism of the G4-DNA conformations.
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97
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Yu X, Liu X, Mou C, Wang Z. DNA-based chemiluminescent nanoprobes for highly sensitive and selective detection of mercury(II) ion. LUMINESCENCE 2012; 28:847-52. [PMID: 23097313 DOI: 10.1002/bio.2444] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2012] [Revised: 08/29/2012] [Accepted: 08/30/2012] [Indexed: 11/09/2022]
Abstract
A simple and sensitive DNA-stablized gold nanoparticle (AuNP)-based chemiluminescent (CL) probe for detecting mercury ion (Hg(2+)) in aqueous solution has been developed. The CL strategy relies upon the catalytic activity of unmodified AuNPs on the luminol-H2 O2 CL reaction, and the interaction of unmodified AuNPs with DNA. The unmodified AuNPs can effectively differentiate unstructured and folded DNA. The DNA desorbs from AuNPs in the presence of Hg(2+), leading to the increase in CL signal. By rationally varying the number of thymine in single-strand oligonucleotides, the detection range could be tuned. Employing single-strand oligonucleotides with 14 thymine in the detecting system, a sensitive linear range for Hg(2+) ions from 5.0 × 10(-10) to 1.0 × 10(-7) mol/L and a detection limit of 2.1 × 10(-10) mol/L are obtained. Changing the number of thymine to 10 and 6, it leads to a narrow detection range but a high sensitivity. Besides, DNA-based CL nanoprobes exhibit a remarkable selectivity for Hg(2+) ions over a variety of competing metal ions.
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Affiliation(s)
- Xijuan Yu
- Key Laboratory of Eco-chemical Engineering, Ministry of Education, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao, 266042, People's Republic of China
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98
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Specific binding of anionic porphyrin and phthalocyanine to the G-quadruplex with a variety of in vitro and in vivo applications. Molecules 2012; 17:10586-613. [PMID: 22951397 PMCID: PMC6268517 DOI: 10.3390/molecules170910586] [Citation(s) in RCA: 66] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2012] [Revised: 08/27/2012] [Accepted: 08/29/2012] [Indexed: 11/16/2022] Open
Abstract
The G-quadruplex, a four-stranded DNA structure with stacked guanine tetrads (G-quartets), has recently been attracting attention because of its critical roles in vitro and in vivo. In particular, the G-quadruplex functions as ligands for metal ions and aptamers for various molecules. Interestingly, the G-quadruplex can show peroxidase-like activity with an anionic porphyrin, iron (III) protoporphyrin IX (hemin). Importantly, hemin binds to G-quadruplexes with high selectivity over single-stranded DNA (ssDNA) and double-stranded DNA (dsDNA), which is attributable to an electrostatic repulsion of phosphate groups in ssDNA and dsDNA. The G-quadruplex and hemin-G-quadruplex complex allow development of sensing techniques to detect DNA, metal ions and proteins. In addition to hemin, anionic phthalocyanines also bind to the G-quadruplex formed by human telomere DNA, specifically over ssDNA and dsDNA. Since the binding of anionic phthalocyanines to the G-quadruplex causes an inhibition of telomerase activity, which plays a role in the immortal growth of cancer cells, anionic phthalocyanines are promising as novel anticancer drug candidates. This review focuses on the specific binding of hemin and anionic phthalocyanines to G-quadruplexes and the applications in vitro and in vivo of this binding property.
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Fabrication of a sensor chip containing Au and Ag electrodes and its application for sensitive Hg(II) determination using chronocoulometry. Anal Chim Acta 2012; 738:45-50. [DOI: 10.1016/j.aca.2012.06.019] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2012] [Revised: 06/08/2012] [Accepted: 06/11/2012] [Indexed: 11/18/2022]
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100
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Zhang Q, Cai Y, Li H, Kong DM, Shen HX. Sensitive dual DNAzymes-based sensors designed by grafting self-blocked G-quadruplex DNAzymes to the substrates of metal ion-triggered DNA/RNA-cleaving DNAzymes. Biosens Bioelectron 2012; 38:331-6. [PMID: 22784499 DOI: 10.1016/j.bios.2012.06.011] [Citation(s) in RCA: 51] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2012] [Revised: 06/07/2012] [Accepted: 06/11/2012] [Indexed: 10/28/2022]
Abstract
A universal label-free metal ion sensor design strategy was developed on the basis of a metal ion-specific DNA/RNA-cleaving DNAzyme and a G-quadruplex DNAzyme. In this strategy, the substrate strand of the DNA/RNA-cleaving DNAzyme was designed as an intramolecular stem-loop structure, and a G-rich sequence was caged in the double-stranded stem and could not form catalytically active G-quadruplex DNAzyme. The metal ion-triggered cleavage of the substrate strand could result in the release of the G-rich sequence and subsequent formation of a catalytic G-quadruplex DNAzyme. The self-blocking mechanism of the G-quadruplex DNAzyme provided the sensing system with a low background signal. The signal amplifications of both the DNA/RNA-cleaving DNAzyme and the G-quadruplex DNAzyme provided the sensing system with a high level of sensitivity. This sensor design strategy can be used for metal ions with reported specific DNA/RNA-cleaving DNAzymes and extended for metal ions with unique properties. As examples, dual DNAzymes-based Cu(2+), Pb(2+) and Hg(2+) sensors were designed. These "turn-on" colorimetric sensors can simply detect Cu(2+), Pb(2+) and Hg(2+) with high levels of sensitivity and selectivity, with detection limits of 4 nM, 14 nM and 4 nM, respectively.
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Affiliation(s)
- Qi Zhang
- State Key Laboratory of Medicinal Chemical Biology, Nankai University, Tianjin 300071, PR China
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