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Hashem A, Hossain MAM, Marlinda AR, Mamun MA, Simarani K, Johan MR. Rapid and sensitive detection of box turtles using an electrochemical DNA biosensor based on a gold/graphene nanocomposite. BEILSTEIN JOURNAL OF NANOTECHNOLOGY 2022; 13:1458-1472. [PMID: 36570614 PMCID: PMC9749552 DOI: 10.3762/bjnano.13.120] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/05/2022] [Accepted: 11/16/2022] [Indexed: 06/17/2023]
Abstract
The Southeast Asian box turtle, Cuora amboinensis, is an ecologically important endangered species which needs an onsite monitoring device to protect it from extinction. An electrochemical DNA biosensor was developed to detect the C. amboinensis mitochondrial cytochrome b gene based on an in silico designed probe using bioinformatics tools, and it was also validated in wet-lab experiments. As a detection platform, a screen-printed carbon electrode (SPCE) enhanced with a nanocomposite containing gold nanoparticles and graphene was used. The morphology of the nanoparticles was analysed by field-emission scanning electron microscopy and structural characteristics were analysed by using energy-dispersive X-ray, UV-vis, and Fourier-transform infrared spectroscopy. The electrochemical characteristics of the modified electrodes were studied by cyclic voltammetry, differential pulse voltammetry (DPV), and electrochemical impedance spectroscopy. The thiol-modified synthetic DNA probe was immobilised on modified SPCEs to facilitate hybridisation with the reverse complementary DNA. The turtle DNA was distinguished based on hybridisation-induced electrochemical change in the presence of methylene blue compared to their mismatches, noncomplementary, and nontarget species DNA measured by DPV. The developed biosensor exhibited a selective response towards reverse complementary DNAs and was able to discriminate turtles from other species. The modified electrode displayed good linearity for reverse complementary DNAs in the range of 1 × 10-11-5 × 10-6 M with a limit of detection of 0.85 × 10-12 M. This indicates that the proposed biosensor has the potential to be applied for the detection of real turtle species.
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Affiliation(s)
- Abu Hashem
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
- Microbial Biotechnology Division, National Institute of Biotechnology, Ganakbari, Ashulia, Savar, Dhaka-1349, Bangladesh
| | - M A Motalib Hossain
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
| | - Ab Rahman Marlinda
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
| | - Mohammad Al Mamun
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
- Department of Chemistry, Jagannath University, Dhaka-1100, Bangladesh
| | - Khanom Simarani
- Department of Microbiology, Institute of Biological Sciences, Faculty of Sciences, University of Malaya, 50603, Kuala Lumpur, Malaysia
| | - Mohd Rafie Johan
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
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Lee S, Kim WJ, Chung M. Enhanced electrochemical biosensing on gold electrodes with a ferri/ferrocyanide redox couple. Analyst 2021; 146:5236-5244. [PMID: 34378551 DOI: 10.1039/d1an00952d] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Detection of specific DNA is important in many fields. Label-free DNA sensing performed by electrochemical impedance spectroscopy (EIS) or using a quartz crystal microbalance (QCM) is widely employed for this purpose. Gold electrodes are mainly used for these techniques due to their chemical stability. However, ferro/ferricyanide used as a redox couple was found to etch the gold electrode and this significantly limited the repeatability of the EIS measurement. Inductively coupled plasma mass spectrometry (ICP-MS) and QCM experiments provided important clues about the gold dissolution mechanism and revealed that phosphate buffer promotes the dissolution of gold in the presence of the ferri/ferrocyanide redox couple. Tris buffered conditions, which provide the most stable environment, enabled the investigation of experimental parameters with a Q-sense electrochemistry module (QEM), which can perform QCM and EIS measurements simultaneously and revealed the principal factors that influence changes in the impedance. With the reproducible measurements, the estimation of an optimum probe-DNA concentration for detecting complementary DNA is demonstrated. In order to amplify the detection signal of target DNA, we sought to maximize the difference in response between the probe-only and target DNA by controlling the concentration of probe DNA. We showed that an intermediate probe-DNA concentration yields optimum signal amplification.
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Affiliation(s)
- Seowon Lee
- Department of Chemical Engineering, Hongik University, Mapo-gu, Seoul 04066, Republic of Korea.
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Yaralı E, Erdem A. Cobalt Phthalocyanine-Ionic Liquid Composite Modified Electrodes for the Voltammetric Detection of DNA Hybridization Related to Hepatitis B Virus. MICROMACHINES 2021; 12:753. [PMID: 34206863 PMCID: PMC8306960 DOI: 10.3390/mi12070753] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/02/2021] [Revised: 06/14/2021] [Accepted: 06/23/2021] [Indexed: 11/17/2022]
Abstract
In this study, cobalt phthalocyanine (CoPc) and ionic liquid (IL) modified pencil graphite electrodes (PGEs) were designed and implemented to detect sequence-selective DNA hybridization related to the Hepatitis B virus (HBV). The surface characterization of CoPc-IL-PGEs was investigated by scanning electron microscopy (SEM), and the electrochemical behavior of electrodes were studied by electrochemical impedance spectroscopy (EIS) and cyclic voltammetry (CV) techniques. The voltammetric detection of hybridization was investigated by evaluating the guanine oxidation signal, measured by differential pulse voltammetry (DPV) technique. The implementation of our biosensor to serum samples was also examined using fetal bovine serum (FBS). The detection limit was established as 0.19 µg/mL in phosphate buffer solution (PBS) (pH 7.40) and 2.48 µg/mL in FBS medium. The selectivity of our assay regarding HBV DNA hybridization in FBS medium was tested in the presence of other DNA sequences. With this aim, the hybridization of DNA probe with non-complementary (NC) or mismatched DNA sequence (MM), or in the presence of mixture samples containing DNA target NC (1:1) or DNA target MM (1:1), was studied based on the changes in guanine signal.
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Affiliation(s)
- Ece Yaralı
- Department of Analytical Chemistry, Faculty of Pharmacy, Ege University, Bornova, Izmir 35100, Turkey;
- Department of Materials Science and Engineering, Graduate School of Natural and Applied Science, Ege University, Bornova, Izmir 35100, Turkey
| | - Arzum Erdem
- Department of Analytical Chemistry, Faculty of Pharmacy, Ege University, Bornova, Izmir 35100, Turkey;
- Department of Materials Science and Engineering, Graduate School of Natural and Applied Science, Ege University, Bornova, Izmir 35100, Turkey
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Electrochemical DNA Sensor Based on the Copolymer of Proflavine and Azure B for Doxorubicin Determination. NANOMATERIALS 2020; 10:nano10050924. [PMID: 32397677 PMCID: PMC7279264 DOI: 10.3390/nano10050924] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/06/2020] [Revised: 05/05/2020] [Accepted: 05/08/2020] [Indexed: 01/31/2023]
Abstract
A DNA sensor has been developed for the determination of doxorubicin by consecutive electropolymerization of an equimolar mixture of Azure B and proflavine and adsorption of native DNA from salmon sperm on a polymer film. Electrochemical investigation showed a difference in the behavior of individual drugs polymerized and their mixture. The use of the copolymer offered some advantages, i.e., a higher roughness of the surface, a wider range of the pH sensitivity of the response, a denser and more robust film, etc. The formation of the polymer film and its redox properties were studied using scanning electron microscopy and electrochemical impedance spectroscopy. For the doxorubicin determination, its solution was mixed with DNA and applied on the polymer surface. After that, charge transfer resistance was assessed in the presence of [Fe(CN)6]3-/4- as the redox probe. Its value regularly grew with the doxorubicin concentration in the range from 0.03 to 10 nM (limit of detection 0.01 nM). The DNA sensor was tested on the doxorubicin preparations and spiked samples mimicking blood serum. The recovery was found to be 98-106%. The DNA sensor developed can find application for the determination of drug residues in blood and for the pharmacokinetics studies.
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Porfireva AV, Goida AI, Rogov AM, Evtugyn GA. Impedimetric DNA Sensor Based on Poly(proflavine) for Determination of Anthracycline Drugs. ELECTROANAL 2020. [DOI: 10.1002/elan.201900653] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Affiliation(s)
- Anna V. Porfireva
- Analytical Chemistry Department of Kazan Federal University Kremlevskaya, 18 420008 Kazan Russian Federation
| | - Anastasia I. Goida
- Analytical Chemistry Department of Kazan Federal University Kremlevskaya, 18 420008 Kazan Russian Federation
| | - Alexey M. Rogov
- Interdisciplinary Center of Analytical Microscopy of Kazan Federal University 18 Kremlevskaya Street Kazan 420008 Russian Federation
| | - Gennady A. Evtugyn
- Analytical Chemistry Department of Kazan Federal University Kremlevskaya, 18 420008 Kazan Russian Federation
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Clausmeyer J, Nebel M, Grützke S, Kayran YU, Schuhmann W. Local Surface Modifications Investigated by Combining Scanning Electrochemical Microscopy and Surface-Enhanced Raman Scattering. Chempluschem 2018; 83:414-417. [DOI: 10.1002/cplu.201800031] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2018] [Revised: 03/20/2018] [Indexed: 11/08/2022]
Affiliation(s)
- Jan Clausmeyer
- Analytical Chemistry, Center for Electrochemical Sciences (CES); Ruhr-Universität Bochum; Universitätsstrasse 150 44780 Bochum Germany
| | - Michaela Nebel
- Sensolytics GmbH; Universitätsstrasse 142 44799 Bochum Germany
| | - Stefanie Grützke
- Analytical Chemistry, Center for Electrochemical Sciences (CES); Ruhr-Universität Bochum; Universitätsstrasse 150 44780 Bochum Germany
| | - Yasin U. Kayran
- Analytical Chemistry, Center for Electrochemical Sciences (CES); Ruhr-Universität Bochum; Universitätsstrasse 150 44780 Bochum Germany
| | - Wolfgang Schuhmann
- Analytical Chemistry, Center for Electrochemical Sciences (CES); Ruhr-Universität Bochum; Universitätsstrasse 150 44780 Bochum Germany
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Eksin E, Erdem A. Chitosan-carbon Nanofiber Modified Single-use Graphite Electrodes Developed for Electrochemical Detection of DNA Hybridization Related to Hepatitis B Virus. ELECTROANAL 2016. [DOI: 10.1002/elan.201501113] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Affiliation(s)
- Ece Eksin
- Faculty of Pharmacy; Analytical Chemistry Department
- The Institute of Natural and Applied Sciences; Biotechnology department Ege University; 35100 Bornova, Izmir TURKEY
| | - Arzum Erdem
- Faculty of Pharmacy; Analytical Chemistry Department
- The Institute of Natural and Applied Sciences; Biotechnology department Ege University; 35100 Bornova, Izmir TURKEY
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Vogt S, Su Q, Gutiérrez-Sánchez C, Nöll G. Critical View on Electrochemical Impedance Spectroscopy Using the Ferri/Ferrocyanide Redox Couple at Gold Electrodes. Anal Chem 2016; 88:4383-90. [PMID: 26990929 DOI: 10.1021/acs.analchem.5b04814] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
Electrochemical or faradaic impedance spectroscopy (EIS) using the ferri/ferrocyanide couple as a redox probe at gold working electrodes was evaluated with respect to its ability to monitor consecutive surface modification steps. As a model reaction, the reversible hybridization and dehybridization of DNA was studied. Thiol-modified single stranded DNA (ssDNA, 20 bases, capture probe) was chemisorbed to a gold electrode and treated with a solution of short thiols to release nonspecifically adsorbed DNA before hybridization with complementary ssDNA (20 bases, target) was carried out. Reversible dehybridization was achieved by intense rinsing with pure water. The experimental procedures were optimized by kinetic surface plasmon resonance (SPR) and quartz crystal microbalance with dissipation (QCM-D) measurements to maximize the increase in reflectivity or decrease in frequency upon hybridization before hybridization/dehybridization was also monitored by EIS. In contrast to SPR and QCM-D, repeatable EIS measurements were not possible at first. Combined SPR/EIS and QCM-D/EIS measurements revealed that during EIS the gold surface is seriously damaged due to the presence of CN(-) ions, which are released from the ferri/ferrocyanide redox probe. Even at optimized experimental conditions, etching the gold electrodes could not be completely suppressed and the repeatability of the EIS measurements was limited. In three out of four experimental runs, only two hybridization/dehybridization steps could be monitored reversibly by EIS. Thereafter etching the gold electrode significantly contributed to the EIS spectra whereas the QCM-D response was still repeatable. Hence great care has to be taken when this technique is used to monitor surface modification at gold electrodes.
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Affiliation(s)
- Stephan Vogt
- Nöll Junior Research Group, Organic Chemistry, Chemistry and Biology Department, Faculty IV, Siegen University , Adolf-Reichwein-Strasse 2, 57068 Siegen, Germany
| | - Qiang Su
- Nöll Junior Research Group, Organic Chemistry, Chemistry and Biology Department, Faculty IV, Siegen University , Adolf-Reichwein-Strasse 2, 57068 Siegen, Germany
| | - Cristina Gutiérrez-Sánchez
- Nöll Junior Research Group, Organic Chemistry, Chemistry and Biology Department, Faculty IV, Siegen University , Adolf-Reichwein-Strasse 2, 57068 Siegen, Germany
| | - Gilbert Nöll
- Nöll Junior Research Group, Organic Chemistry, Chemistry and Biology Department, Faculty IV, Siegen University , Adolf-Reichwein-Strasse 2, 57068 Siegen, Germany
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Liwinska W, Symonowicz M, Stanislawska I, Lyp M, Stojek Z, Zabost E. Environmentally sensitive nanohydrogels decorated with a three-strand oligonucleotide helix for controlled loading and prolonged release of intercalators. RSC Adv 2016. [DOI: 10.1039/c6ra16592c] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Biocompatible nanohydrogels modified with three-segment oligonucleotide hybrids were used for controlled loading and prolonged release of anticancer intercalators in hyperthermia treatment.
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Affiliation(s)
| | | | | | - Marek Lyp
- College of Rehabilitation
- Warsaw
- Poland
| | | | - Ewelina Zabost
- Faculty of Chemistry
- University of Warsaw
- 02-093 Warsaw
- Poland
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10
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Yun W, Jiang J, Cai D, Wang X, Sang G, Liao J, Lu T, Yan K. Ultrasensitive electrochemical detection of UO22+ based on DNAzyme and isothermal enzyme-free amplification. RSC Adv 2016. [DOI: 10.1039/c5ra22773a] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
A novel enzyme-free amplification biosensor for uranyl detection was developed based on UO22+-specific DNAzyme and a hybridization chain reaction.
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Affiliation(s)
- Wen Yun
- Science and Technology on Surface Physics and Chemistry Laboratory
- Jiangyou 621908
- China
| | - Jiaolai Jiang
- Science and Technology on Surface Physics and Chemistry Laboratory
- Jiangyou 621908
- China
| | - Dingzhou Cai
- Science and Technology on Surface Physics and Chemistry Laboratory
- Jiangyou 621908
- China
| | - Xiaofang Wang
- Science and Technology on Surface Physics and Chemistry Laboratory
- Jiangyou 621908
- China
| | - Ge Sang
- Science and Technology on Surface Physics and Chemistry Laboratory
- Jiangyou 621908
- China
| | - Junsheng Liao
- Science and Technology on Surface Physics and Chemistry Laboratory
- Jiangyou 621908
- China
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Erdem A, Eksin E, Congur G. Indicator-free electrochemical biosensor for microRNA detection based on carbon nanofibers modified screen printed electrodes. J Electroanal Chem (Lausanne) 2015. [DOI: 10.1016/j.jelechem.2015.07.031] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
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Papadopoulou E, Meneghello M, Marafini P, Johnson RP, Brown T, Bartlett PN. The effect of temperature on electrochemically driven denaturation monitored by SERS. Bioelectrochemistry 2015; 106:353-8. [PMID: 26145815 DOI: 10.1016/j.bioelechem.2015.06.007] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2014] [Revised: 05/11/2015] [Accepted: 06/21/2015] [Indexed: 10/23/2022]
Abstract
Scanning the electrochemical potential negative results in the gradual denaturation of dsDNA immobilised at a nanostructure gold electrode, the DNA melting is monitored by SERS. We demonstrate the effect of the experimental temperature on the electrochemically driven melting (E-melting) by carrying out experiments between 10 and 28 °C using two DNA duplexes (20 and 21 base pairs). Significant temperature dependence for both the melting potentials, Em, and the steepness of the melting curves was found over the range 10 to 18 °C. Above 18 °C the results were found to be independent of temperature. The relative temperature insensitivity of the melting potentials above 18 °C is advantageous for the application of the electrochemically driven melting technique because precise temperature control is not necessary for measurements that are carried out around room temperature. Conversely temperature dependence below 18 °C offers a way to improve discrimination for highly similar DNA sequences.
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Affiliation(s)
| | - Marta Meneghello
- Chemistry, University of Southampton, Highfield, Southampton SO17 1BJ, UK
| | - Pietro Marafini
- Department of Chemistry, University of Oxford, Chemistry Research Laboratory, Oxford OX1 3TA, UK
| | - Robert P Johnson
- Chemistry, University of Southampton, Highfield, Southampton SO17 1BJ, UK
| | - Tom Brown
- Department of Chemistry, University of Oxford, Chemistry Research Laboratory, Oxford OX1 3TA, UK
| | - Philip N Bartlett
- Chemistry, University of Southampton, Highfield, Southampton SO17 1BJ, UK.
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Pilehvar S, Jambrec D, Gebala M, Schuhmann W, De Wael K. Intercalation of Proflavine in ssDNA Aptamers: Effect on Binding of the Specific Target Chloramphenicol. ELECTROANAL 2015. [DOI: 10.1002/elan.201500192] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Zheng Q, Wu H, Shen Z, Gao W, Yu Y, Ma Y, Guang W, Guo Q, Yan R, Wang J, Ding K. An electrochemical DNA sensor based on polyaniline/graphene: high sensitivity to DNA sequences in a wide range. Analyst 2015; 140:6660-70. [DOI: 10.1039/c5an01088h] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
In the platform constructed by a polyaniline/graphene composite, double-stranded DNA, resulting from hybridization of a DNA probe, was escaping from or remaining on the sensor surface.
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Bouffier L, Wang BS, Roget A, Livache T, Demeunynck M, Mailley P. Electrochemical transduction of DNA hybridization at modified electrodes by using an electroactive pyridoacridone intercalator. Anal Bioanal Chem 2013; 406:1163-72. [PMID: 24026515 DOI: 10.1007/s00216-013-7314-2] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2013] [Revised: 08/09/2013] [Accepted: 08/15/2013] [Indexed: 11/25/2022]
Abstract
A synthetic redox probe structurally related to natural pyridoacridones was designed and electrochemically characterised. These heterocycles behave as DNA intercalators due to their extended planar structure that promotes stacking in between nucleic acid base pairs. Electrochemical characterization by cyclic voltammetry revealed a quasi-reversible electrochemical behaviour occurring at a mild negative potential in aqueous solution. The study of the mechanism showed that the iminoquinone redox moiety acts similarly to quinone involving a two-electron reduction coupled with proton transfer. The easily accessible potential region with respect to aqueous electro-inactive window makes the pyridoacridone ring suitable for the indirect electrochemical detection of chemically unlabelled DNA. Its usefulness as electrochemical hybridization indicator was assessed on immobilised DNA and compared to doxorubicin. The voltamperometric response of the intercalator acts as an indicator of the presence of double-stranded DNA at the electrode surface and allows the selective transduction of immobilised oligonucleotide hybridization at both macro- and microscale electrodes.
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Liu A, Xu T, Ren Q, Yuan M, Dong W, Tang W. Graphene modulated 2D assembly of plasmonic gold nanostructure on diamond-like carbon substrate for surface-enhanced Raman scattering. Electrochem commun 2012. [DOI: 10.1016/j.elecom.2012.09.027] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
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Gebala M, Schuhmann W. Understanding properties of electrified interfaces as a prerequisite for label-free DNA hybridization detection. Phys Chem Chem Phys 2012; 14:14933-42. [DOI: 10.1039/c2cp42382k] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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