1
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Xing X, Zhao Y, Zhao H, Zhang Y, Chen Z, Liu B, Ren B. Label-Free Detection of DNA Base Mutation and Hybridized DNA by an Electrostatically Modified 3D Plasmonic Array. ACS Sens 2024. [PMID: 39039996 DOI: 10.1021/acssensors.4c01060] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/24/2024]
Abstract
Surface-enhanced Raman scattering (SERS) represents a promising avenue for DNA detection as it offers intrinsic chemical insights with high sensitivity compared to conventional methods. However, label-free and quantitative detection of unmodified DNA by SERS remains a major challenge in DNA analysis. To overcome this challenge, we propose a positively charged plasmonic nanosurface for DNA capture and quantitative analysis. Highly sensitive and uniform SERS enhancement was realized by a three-dimensional plasmonic array supporting well-designed hybrid plasmonic modes. Subsequently, the plasmonic array was modified with an electrostatically functionalized PDDA (poly(diene-dimethylammonium-chloride)) self-assembled monolayer in a single step. The effectiveness of the resulting PDDA-SERS substrate was demonstrated by the label-free and quantitative detection of base content and base mutation in hybridized DNA. The PDDA-SERS substrate provides a robust platform for SERS analysis not only of DNA but also of other electronegative analytes.
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Affiliation(s)
- Xiaolu Xing
- College of Chemistry and Chemical Engineering, Lanzhou University, Lanzhou 730000, China
| | - Yuhao Zhao
- The First Clinical Medical College of Lanzhou University, Lanzhou 730000, China
| | - Haiyan Zhao
- The First Clinical Medical College of Lanzhou University, Lanzhou 730000, China
| | - Ying Zhang
- College of Chemistry and Chemical Engineering, Lanzhou University, Lanzhou 730000, China
| | - Ziqiu Chen
- College of Chemistry and Chemical Engineering, Lanzhou University, Lanzhou 730000, China
| | - Bowen Liu
- College of Chemistry and Chemical Engineering, Lanzhou University, Lanzhou 730000, China
| | - Bin Ren
- State Key Laboratory of Physical Chemistry of Solid Surfaces, Collaborative Innovation Center of Chemistry for Energy Materials (iChEM), The MOE Key Laboratory of Spectrochemical Analysis and Instrumentation, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China
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2
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Vacek J, Zatloukalová M, Dorčák V, Cifra M, Futera Z, Ostatná V. Electrochemistry in sensing of molecular interactions of proteins and their behavior in an electric field. Mikrochim Acta 2023; 190:442. [PMID: 37847341 PMCID: PMC10582152 DOI: 10.1007/s00604-023-05999-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2023] [Accepted: 09/12/2023] [Indexed: 10/18/2023]
Abstract
Electrochemical methods can be used not only for the sensitive analysis of proteins but also for deeper research into their structure, transport functions (transfer of electrons and protons), and sensing their interactions with soft and solid surfaces. Last but not least, electrochemical tools are useful for investigating the effect of an electric field on protein structure, the direct application of electrochemical methods for controlling protein function, or the micromanipulation of supramolecular protein structures. There are many experimental arrangements (modalities), from the classic configuration that works with an electrochemical cell to miniaturized electrochemical sensors and microchip platforms. The support of computational chemistry methods which appropriately complement the interpretation framework of experimental results is also important. This text describes recent directions in electrochemical methods for the determination of proteins and briefly summarizes available methodologies for the selective labeling of proteins using redox-active probes. Attention is also paid to the theoretical aspects of electron transport and the effect of an external electric field on the structure of selected proteins. Instead of providing a comprehensive overview, we aim to highlight areas of interest that have not been summarized recently, but, at the same time, represent current trends in the field.
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Affiliation(s)
- Jan Vacek
- Department of Medical Chemistry and Biochemistry, Faculty of Medicine and Dentistry, Palacky University, Hnevotinska 3, 77515, Olomouc, Czech Republic.
| | - Martina Zatloukalová
- Department of Medical Chemistry and Biochemistry, Faculty of Medicine and Dentistry, Palacky University, Hnevotinska 3, 77515, Olomouc, Czech Republic
| | - Vlastimil Dorčák
- Department of Medical Chemistry and Biochemistry, Faculty of Medicine and Dentistry, Palacky University, Hnevotinska 3, 77515, Olomouc, Czech Republic
| | - Michal Cifra
- Institute of Photonics and Electronics of the Czech Academy of Sciences, Chaberska 1014/57, 18200, Prague, Czech Republic
| | - Zdeněk Futera
- Faculty of Science, University of South Bohemia, Branisovska 1760, 37005, Ceske Budejovice, Czech Republic
| | - Veronika Ostatná
- Institute of Biophysics, The Czech Academy of Sciences, v.v.i., Kralovopolska 135, 61200, Brno, Czech Republic
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3
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Recent advances in biosensors and sequencing technologies for the detection of mutations. Microchem J 2023. [DOI: 10.1016/j.microc.2022.108306] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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4
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Demirhan A, Eksin E, Kilic Y, Erdem A. Low-Cost High-Resolution Potentiostat for Electrochemical Detection of Nucleic Acids and Biomolecular Interactions. MICROMACHINES 2022; 13:1610. [PMID: 36295963 PMCID: PMC9610652 DOI: 10.3390/mi13101610] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/14/2022] [Revised: 09/13/2022] [Accepted: 09/17/2022] [Indexed: 06/16/2023]
Abstract
A handheld USB-powered instrument developed for the electrochemical detection of nucleic acids and biomolecular interactions is presented. The proposed instrument is capable of scanning ± 2.25 V while measuring currents up to ±10 mA, with a minimum current resolution of 6.87 pA. Therefore, it is suitable for nucleic acid sensors, which have high background currents. A low-cost microcontroller with an on-chip 16-bit analog-to-digital converter, 12-bit digital-to-analog converter, and a built-in USB controller were used to miniaturize the system. The offset voltages and gain errors of the analog peripherals were calibrated to obtain a superior performance. Thus, a similar performance to those of the market-leader potentiostats was achieved, but at a fraction of their cost and size. The performance of the application of this proposed architecture was tested successfully and was found to be similar to a leading commercial device through a clinical application in the aspects of the detection of nucleic acids, such as calf thymus ssDNA and dsDNA, and their interactions with a protein (BSA) by using single-use graphite electrodes in combination with the differential pulse voltammetry technique.
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Affiliation(s)
- Alper Demirhan
- Department of Biotechnology, Graduate School of Natural and Applied Sciences, Ege University, Izmir 35100, Turkey
| | - Ece Eksin
- Department of Analytical Chemistry, Faculty of Pharmacy, Ege University, Izmir 35100, Turkey
| | - Yalin Kilic
- Department of Biomedical Engineering, Izmir University of Economics, Izmir 35330, Turkey
- Solar Biyoteknoloji Ltd. (SolarBiotec), Bayrakli, Izmir 35530, Turkey
| | - Arzum Erdem
- Department of Analytical Chemistry, Faculty of Pharmacy, Ege University, Izmir 35100, Turkey
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5
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Detection of breast cancer-related point-mutations using screen-printed and gold-plated electrochemical sensor arrays suitable for point-of-care applications. TALANTA OPEN 2022. [DOI: 10.1016/j.talo.2022.100150] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
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6
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Ngo LT, Wang WK, Tseng YT, Chang TC, Kuo PL, Chau LK, Huang TT. MutS protein-based fiber optic particle plasmon resonance biosensor for detecting single nucleotide polymorphisms. Anal Bioanal Chem 2021; 413:3329-3337. [PMID: 33712917 DOI: 10.1007/s00216-021-03271-1] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2020] [Revised: 02/08/2021] [Accepted: 03/04/2021] [Indexed: 01/29/2023]
Abstract
A new biosensing method is presented to detect gene mutation by integrating the MutS protein from bacteria with a fiber optic particle plasmon resonance (FOPPR) sensing system. In this method, the MutS protein is conjugated with gold nanoparticles (AuNPs) deposited on an optical fiber core surface. The target double-stranded DNA containing an A and C mismatched base pair in a sample can be captured by the MutS protein, causing increased absorption of green light launching into the fiber and hence a decrease in transmitted light intensity through the fiber. As the signal change is enhanced through consecutive total internal reflections along the fiber, the limit of detection for an AC mismatch heteroduplex DNA can be as low as 0.49 nM. Because a microfluidic chip is used to contain the optical fiber, the narrow channel width allows an analysis time as short as 15 min. Furthermore, the label-free and real-time nature of the FOPPR sensing system enables determination of binding affinity and kinetics between MutS and single-base mismatched DNA. The method has been validated using a heterozygous PCR sample from a patient to determine the allelic fraction. The obtained allelic fraction of 0.474 reasonably agrees with the expected allelic fraction of 0.5. Therefore, the MutS-functionalized FOPPR sensor may potentially provide a convenient quantitative tool to detect single nucleotide polymorphisms in biological samples with a short analysis time at the point-of-care sites.
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Affiliation(s)
- Loan Thi Ngo
- Department of Chemistry and Biochemistry and Center for Nano Bio-Detection, National Chung Cheng University, Chiayi, 62102, Taiwan
| | - Wei-Kai Wang
- Department of Dentistry, Institute of Oral Medicine, Department of Stomatology, National Cheng Kung University Hospital, College of Medicine, National Cheng Kung University, Tainan, 70101, Taiwan
| | - Yen-Ta Tseng
- Department of Chemistry and Biochemistry and Center for Nano Bio-Detection, National Chung Cheng University, Chiayi, 62102, Taiwan
| | - Ting-Chou Chang
- Department of Chemistry and Biochemistry and Center for Nano Bio-Detection, National Chung Cheng University, Chiayi, 62102, Taiwan
| | - Pao-Lin Kuo
- Department of Obstetrics Gynecology, National Cheng Kung University Hospital, College of Medicine and Hospital, National Cheng Kung University, Tainan, 70101, Taiwan
| | - Lai-Kwan Chau
- Department of Chemistry and Biochemistry and Center for Nano Bio-Detection, National Chung Cheng University, Chiayi, 62102, Taiwan.
| | - Tze-Ta Huang
- Department of Dentistry, Institute of Oral Medicine, Department of Stomatology, National Cheng Kung University Hospital, College of Medicine, National Cheng Kung University, Tainan, 70101, Taiwan.
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Zeng J, Dong M, Zhu B, Chen D, Li Y. A new method towards the detection of DNA mutation by Surface-Enhanced Raman Spectroscopy. Talanta 2021; 223:121746. [PMID: 33298270 DOI: 10.1016/j.talanta.2020.121746] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2020] [Revised: 09/29/2020] [Accepted: 10/05/2020] [Indexed: 12/15/2022]
Abstract
It is generally believed that the self-folding of single-stranded DNA depends on the hydrophobic effect of its internal bases, but the folding of a single-stranded DNA in a solution was not disordered and would be affected by the stacking effect of adjacent bases. In this work, we developed a new method to explore the stacking between adjacent bases using Surface-Enhanced Raman Spectroscopy (SERS) for the first time. Acidic titanium ions were introduced into silver nanoparticles as an aggregating agent (Ag@ITNPs), and obtained a symmetrical spectrum by normalizing the peak to deoxyribose at 955 cm-1. Based on the influence of adjacent base stacking on the spectrum, we first identified the point mutation sites accurately by SERS. Also, the base content and the DNA frameshift mutations in ssDNA were precisely analyzed. This new method has a simple experimental process and can accurately capture the changes in the base ring breathing peak intensity caused by different adjacent bases, and thus will provide potential application value in the field of gene diagnosis.
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Affiliation(s)
- Jiayu Zeng
- School of Chemistry and Chemical Engineering, Guizhou University, No. 2708, South Section of Huaxi Avenue, Guiyang City, Guizhou Province, China
| | - Meiyu Dong
- School of Chemistry and Chemical Engineering, Guizhou University, No. 2708, South Section of Huaxi Avenue, Guiyang City, Guizhou Province, China
| | - Bixue Zhu
- School of Chemistry and Chemical Engineering, Guizhou University, No. 2708, South Section of Huaxi Avenue, Guiyang City, Guizhou Province, China
| | - Dongmei Chen
- School of Chemistry and Chemical Engineering, Guizhou University, No. 2708, South Section of Huaxi Avenue, Guiyang City, Guizhou Province, China
| | - Yang Li
- School of Chemistry and Chemical Engineering, Guizhou University, No. 2708, South Section of Huaxi Avenue, Guiyang City, Guizhou Province, China.
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8
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Zeng J, Dong M, Zhu B, Gao X, Chen D, Li Y. Label-Free Detection of C–T Mutations by Surface-Enhanced Raman Spectroscopy Using Thiosulfate-Modified Nanoparticles. Anal Chem 2021; 93:1951-1956. [DOI: 10.1021/acs.analchem.0c04052] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Affiliation(s)
- Jiayu Zeng
- College of Chemistry and Chemical Engineering, Guizhou University, No. 2708, South Section of Huaxi Avenue, Guiyang City, Guizhou Province 550025, China
| | - Meiyu Dong
- College of Chemistry and Chemical Engineering, Guizhou University, No. 2708, South Section of Huaxi Avenue, Guiyang City, Guizhou Province 550025, China
| | - Bixue Zhu
- College of Chemistry and Chemical Engineering, Guizhou University, No. 2708, South Section of Huaxi Avenue, Guiyang City, Guizhou Province 550025, China
| | - Xin Gao
- School of Physics, Guizhou University, No. 2708, South Section of Huaxi Avenue, Guiyang City, Guizhou Province 550025, China
| | - Dongmei Chen
- College of Chemistry and Chemical Engineering, Guizhou University, No. 2708, South Section of Huaxi Avenue, Guiyang City, Guizhou Province 550025, China
| | - Yang Li
- College of Chemistry and Chemical Engineering, Guizhou University, No. 2708, South Section of Huaxi Avenue, Guiyang City, Guizhou Province 550025, China
- College of Pharmacy, Harbin Medical University, No. 157, Health Road, Nangang District, Harbin City, Heilongjiang Province 150086, China
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9
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Erdem A, Eksin E. Electrochemical Detection of Solution Phase Hybridization Related to Single Nucleotide Mutation by Carbon Nanofibers Enriched Electrodes. MATERIALS (BASEL, SWITZERLAND) 2019; 12:E3377. [PMID: 31623126 PMCID: PMC6829215 DOI: 10.3390/ma12203377] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/15/2019] [Revised: 10/06/2019] [Accepted: 10/11/2019] [Indexed: 12/16/2022]
Abstract
In the present study, a sensitive and selective impedimetric detection of solution-phase nucleic acid hybridization related to Factor V Leiden (FV Leiden) mutation was performed by carbon nanofibers (CNF) modified screen printed electrodes (SPE). The microscopic and electrochemical characterization of CNF-SPEs was explored in comparison to the unmodified electrodes. Since the FV Leiden mutation is a widespread inherited risk factor predisposing to venous thromboembolism, this study herein aimed to perform the impedimetric detection of FV Leiden mutation by a zip nucleic acid (ZNA) probe-based assay in combination with CNF-SPEs. The selectivity of the assay was then examined against the mutation-free DNA sequences as well as the synthetic PCR samples.
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Affiliation(s)
- Arzum Erdem
- Faculty of Pharmacy, Analytical Chemistry Department, Ege University, Bornova, Izmir 35100, Turkey.
- Biotechnology Department, Graduate School of Natural and Applied Sciences, Ege University, Bornova, Izmir 35100, Turkey.
| | - Ece Eksin
- Faculty of Pharmacy, Analytical Chemistry Department, Ege University, Bornova, Izmir 35100, Turkey.
- Biotechnology Department, Graduate School of Natural and Applied Sciences, Ege University, Bornova, Izmir 35100, Turkey.
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10
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Erdem A, Eksin E. ZNA probe immobilized single-use electrodes for impedimetric detection of nucleic acid hybridization related to single nucleotide mutation. Anal Chim Acta 2019; 1071:78-85. [PMID: 31128758 DOI: 10.1016/j.aca.2019.04.036] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2018] [Revised: 04/14/2019] [Accepted: 04/16/2019] [Indexed: 12/16/2022]
Abstract
The development of a low-cost and disposable biosensing technologies has received a great interest of healthcare for the sensitive and reliable detection of single nucleotide mutation related to single nucleotide polymorphisms (SNPs). In the present study, an impedimetric biosensing platform based on zip nucleic acids (ZNA) was developed for the sensitive detection of Factor V Leiden (FV Leiden) mutation. After optimization of experimental parameters, the sequence selective hybridization between ZNA probe and target related to FV Leiden mutation was evaluated via electrochemical impedance spectroscopy technique (EIS) by measuring changes at the charge transfer resistance, Rct. Sensitive and selective impedimetric analysis was performed using carbon nanofiber (CNF) modified screen printed electrodes (SPE) and multi-channel screen printed array of electrodes (MULTIx8 CNF-SPE) resulting in a relatively shorter time in comparison to conventional methods. The selectivity of ZNA probe to mutation-free DNA sequences was also investigated. The applicability of single-use ZNA biosensor was also tested in synthetic PCR samples containing a single base mutation.
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Affiliation(s)
- Arzum Erdem
- Faculty of Pharmacy, Analytical Chemistry Department, Ege University, Bornova, Izmir, 35100, Turkey; Biotechnology Department, Graduate School of Natural and Applied Sciences, Ege University, Bornova, Izmir, 35100, Turkey.
| | - Ece Eksin
- Faculty of Pharmacy, Analytical Chemistry Department, Ege University, Bornova, Izmir, 35100, Turkey; Biotechnology Department, Graduate School of Natural and Applied Sciences, Ege University, Bornova, Izmir, 35100, Turkey
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11
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Dual redox labeling of DNA as a tool for electrochemical detection of p53 protein-DNA interactions. Anal Chim Acta 2019; 1050:123-131. [DOI: 10.1016/j.aca.2018.10.053] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2018] [Revised: 10/04/2018] [Accepted: 10/23/2018] [Indexed: 12/18/2022]
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12
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Tichy V, Sebest P, Orsag P, Havran L, Pivonkova H, Fojta M. Protein p53 Binding to Cisplatin-modified DNA Targets Evaluated by Modification-specific Electrochemical Immunoprecipitation Assay. ELECTROANAL 2016. [DOI: 10.1002/elan.201600480] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Vlastimil Tichy
- Institute of Biophysics; Academy of Sciences of the Czech Republic, v.v.i.,; Kralovopolska 135 61265 Brno Czech Republic
| | - Peter Sebest
- Institute of Biophysics; Academy of Sciences of the Czech Republic, v.v.i.,; Kralovopolska 135 61265 Brno Czech Republic
| | - Petr Orsag
- Institute of Biophysics; Academy of Sciences of the Czech Republic, v.v.i.,; Kralovopolska 135 61265 Brno Czech Republic
- CEITEC-Central European Institute of Technology; Masaryk University; Kamenice 5 62500 Brno Czech Republic
| | - Ludek Havran
- Institute of Biophysics; Academy of Sciences of the Czech Republic, v.v.i.,; Kralovopolska 135 61265 Brno Czech Republic
| | - Hana Pivonkova
- Institute of Biophysics; Academy of Sciences of the Czech Republic, v.v.i.,; Kralovopolska 135 61265 Brno Czech Republic
| | - Miroslav Fojta
- Institute of Biophysics; Academy of Sciences of the Czech Republic, v.v.i.,; Kralovopolska 135 61265 Brno Czech Republic
- CEITEC-Central European Institute of Technology; Masaryk University; Kamenice 5 62500 Brno Czech Republic
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13
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Zhao C, Gao F, Weng S, Liu Q, Lin L, Lin X. An electrochemical sensor based on DNA polymerase and HRP-SiO2 nanoparticles for the ultrasensitive detection of K-ras gene point mutation. RSC Adv 2016. [DOI: 10.1039/c5ra24737c] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
Abstract
We developed a DNA sensor for the precise detection of point mutation of K-ras gene. The sensor was based on DNA replication, which employed the DNA polymerase I and the principle of base pairing, and can detect target DNA in mixture sample.
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Affiliation(s)
- Chengfei Zhao
- Pharmaceutical and Medical Technology College
- Putian University
- Putian 351100
- China
| | - Feng Gao
- Department of Pathology
- The First Affiliated Hospital of Fujian Medical University
- Fuzhou 350005
- China
| | - Shaohuang Weng
- Department of Pharmaceutical Analysis
- Faculty of Pharmacy
- Fujian Medical University
- Fuzhou 350108
- China
| | - Qicai Liu
- Department of Clinical Laboratory
- The First Affiliated Hospital of Fujian Medical University
- Fuzhou 350005
- China
| | - Liqing Lin
- Department of Pharmaceutical Analysis
- Faculty of Pharmacy
- Fujian Medical University
- Fuzhou 350108
- China
| | - Xinhua Lin
- Department of Pharmaceutical Analysis
- Faculty of Pharmacy
- Fujian Medical University
- Fuzhou 350108
- China
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14
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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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15
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Congur G, Plucnara M, Erdem A, Fojta M. Detection of p53 Gene by Using Genomagnetic Assay Combined with Carbon Nanotube Modified Disposable Sensor Technology. ELECTROANAL 2015. [DOI: 10.1002/elan.201400731] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
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16
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Paleček E, Tkáč J, Bartošík M, Bertók T, Ostatná V, Paleček J. Electrochemistry of nonconjugated proteins and glycoproteins. Toward sensors for biomedicine and glycomics. Chem Rev 2015; 115:2045-108. [PMID: 25659975 PMCID: PMC4360380 DOI: 10.1021/cr500279h] [Citation(s) in RCA: 214] [Impact Index Per Article: 23.8] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2014] [Indexed: 02/07/2023]
Affiliation(s)
- Emil Paleček
- Institute
of Biophysics Academy of Science of the Czech Republic, v.v.i., Královopolská
135, 612 65 Brno, Czech Republic
| | - Jan Tkáč
- Institute
of Chemistry, Slovak Academy of Sciences, Dúbravská cesta 9, 845 38 Bratislava, Slovakia
| | - Martin Bartošík
- Regional
Centre for Applied Molecular Oncology, Masaryk
Memorial Cancer Institute, Žlutý kopec 7, 656 53 Brno, Czech Republic
| | - Tomáš Bertók
- Institute
of Chemistry, Slovak Academy of Sciences, Dúbravská cesta 9, 845 38 Bratislava, Slovakia
| | - Veronika Ostatná
- Institute
of Biophysics Academy of Science of the Czech Republic, v.v.i., Královopolská
135, 612 65 Brno, Czech Republic
| | - Jan Paleček
- Central
European Institute of Technology, Masaryk
University, Kamenice
5, 625 00 Brno, Czech Republic
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17
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Dorčák V, Vargová V, Ostatná V, Paleček E. Lysine, Arginine, and Histidine Residues in Peptide-Catalyzed Hydrogen Evolution at Mercury Electrodes. ELECTROANAL 2015. [DOI: 10.1002/elan.201400644] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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18
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Bowater RP, Cobb AM, Pivonkova H, Havran L, Fojta M. Biophysical and electrochemical studies of protein–nucleic acid interactions. MONATSHEFTE FUR CHEMIE 2015. [DOI: 10.1007/s00706-014-1405-4] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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19
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Toh RJ, Peng WK, Han J, Pumera M. Direct in vivo electrochemical detection of haemoglobin in red blood cells. Sci Rep 2014; 4:6209. [PMID: 25163492 PMCID: PMC4147368 DOI: 10.1038/srep06209] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2014] [Accepted: 07/22/2014] [Indexed: 11/29/2022] Open
Abstract
The electrochemical behavior of iron ion in haemoglobin provides insight to the chemical activity in the red blood cell which is important in the field of hematology. Herein, the detection of haemoglobin in human red blood cells on glassy carbon electrode (GC) was demonstrated. Red blood cells or raw blood cells was immobilized on a glassy carbon electrode surface with Nafion films employed to sandwich the layer of biological sample firmly on the electrode surface. Cyclic voltammetry (CV) analyses revealed a well-defined reduction peak for haemoglobin at about -0.30 V (vs. Ag/AgCl) at the red blood cell (GC-Nf-RBC-3Nf) and blood (GC-Nf-B-3Nf) film modified GCE in a pH 3.5 phosphate buffer solution. We further demonstrated that the complex biological conditions of a human red blood cell displayed no interference with the detection of haemoglobin. Such findings shall have an implication on the possibilities of studying the electrochemical behaviour of haemoglobin directly from human blood, for various scientific and clinical purposes.
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Affiliation(s)
- Rou Jun Toh
- Division of Chemistry & Biological Chemistry School of Physical and Mathematical Sciences, Nanyang Technological University, 637371, Singapore
- BioSystems & Micromechanics IRG (BioSyM), Singapore-MIT Alliance for Research and Technology (SMART) Centre, 1 CREATE Way, #04-13/14 Enterprise Wing, 138602, Singapore
| | - Weng Kung Peng
- BioSystems & Micromechanics IRG (BioSyM), Singapore-MIT Alliance for Research and Technology (SMART) Centre, 1 CREATE Way, #04-13/14 Enterprise Wing, 138602, Singapore
| | - Jongyoon Han
- BioSystems & Micromechanics IRG (BioSyM), Singapore-MIT Alliance for Research and Technology (SMART) Centre, 1 CREATE Way, #04-13/14 Enterprise Wing, 138602, Singapore
- Department of Electrical Engineering and Computer Science, Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
| | - Martin Pumera
- Division of Chemistry & Biological Chemistry School of Physical and Mathematical Sciences, Nanyang Technological University, 637371, Singapore
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Němcová K, Sebest P, Havran L, Orság P, Fojta M, Pivoňková H. Electrochemical detection of DNA binding by tumor suppressor p53 protein using osmium-labeled oligonucleotide probes and catalytic hydrogen evolution at the mercury electrode. Anal Bioanal Chem 2014; 406:5843-52. [PMID: 25056872 DOI: 10.1007/s00216-014-7996-0] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2014] [Revised: 06/22/2014] [Accepted: 06/24/2014] [Indexed: 11/28/2022]
Abstract
In this paper, we present an electrochemical DNA-protein interaction assay based on a combination of protein-specific immunoprecipitation at magnetic beads (MBIP) with application of oligonucleotide (ON) probes labeled with an electroactive oxoosmium complex (Os,bipy). We show that double-stranded ONs bearing a dT20 tail labeled with Os,bipy are specifically recognized by the tumor suppressor p53 protein according to the presence or absence of a specific binding site (p53CON) in the double-stranded segment. We demonstrate the applicability of the Os,bipy-labeled probes in titration as well as competition MBIP assays to evaluate p53 relative affinity to various sequence-specific or structurally distinct unlabeled DNA substrates upon modulation of the p53-DNA binding by monoclonal antibodies used for the immunoprecipitation. To detect the p53-bound osmium-labeled probes, we took advantage of a catalytic peak yielded by Os,bipy-modified DNA at the mercury-based electrodes, allowing facile determination of subnanogram quantities of the labeled oligonucleotides. Versatility of the electrochemical MBIP technique and its general applicability in studies of any DNA-binding protein is discussed.
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Affiliation(s)
- Kateřina Němcová
- Institute of Biophysics, Academy of Sciences of the Czech Republic, v.v.i., Královopolská 135, 612 65, Brno, Czech Republic
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21
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Paleček E, Černocká H, Ostatná V, Navrátilová L, Brázdová M. Electrochemical sensing of tumor suppressor protein p53–deoxyribonucleic acid complex stability at an electrified interface. Anal Chim Acta 2014; 828:1-8. [DOI: 10.1016/j.aca.2014.03.029] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2014] [Revised: 03/21/2014] [Accepted: 03/24/2014] [Indexed: 10/25/2022]
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22
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Smerkova K, Dostalova S, Vaculovicova M, Kynicky J, Trnkova L, Kralik M, Adam V, Hubalek J, Provaznik I, Kizek R. Investigation of interaction between magnetic silica particles and lambda phage DNA fragment. J Pharm Biomed Anal 2013; 86:65-72. [DOI: 10.1016/j.jpba.2013.07.039] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2013] [Accepted: 07/29/2013] [Indexed: 11/25/2022]
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23
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Kayran YU, Ozkan-Ariksoysal D, Tezcanli B, Kosova B, Ozsoz M. A Ready-to-Use Electrochemical Kit Design for the Diagnosis of Single Nucleotide Polymorphisms. ELECTROANAL 2013. [DOI: 10.1002/elan.201300386] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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24
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Sequence-specific and DNA structure-dependent interactions of Escherichia coli MutS and human p53 with DNA. Anal Biochem 2013; 442:51-61. [PMID: 23928048 DOI: 10.1016/j.ab.2013.07.033] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2013] [Revised: 07/19/2013] [Accepted: 07/23/2013] [Indexed: 11/20/2022]
Abstract
Many proteins involved in DNA repair systems interact with DNA that has structure altered from the typical B-form helix. Using magnetic beads to immobilize DNAs containing various types of structures, we evaluated the in vitro binding activities of two well-characterized DNA repair proteins, Escherichia coli MutS and human p53. E. coli MutS bound to double-stranded DNAs, with higher affinity for a G/T mismatch compared to a G/A mismatch and highest affinity for larger non-B-DNA structures. E. coli MutS bound best to DNA between pH 6 and 9. Experiments discriminated between modes of p53-DNA binding, and increasing ionic strength reduced p53 binding to nonspecific double-stranded DNA, but had minor effects on binding to consensus response sequences or single-stranded DNA. Compared to nonspecific DNA sequences, p53 bound with a higher affinity to mismatches and base insertions, while binding to various hairpin structures was similar to that observed to its consensus DNA sequence. For hairpins containing CTG repeats, the extent of p53 binding was proportional to the size of the repeat. In summary, using the flexibility of the magnetic bead separation assay we demonstrate that pH and ionic strength influence the binding of two DNA repair proteins to a variety of DNA structures.
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25
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Electrochemical detection of individual single nucleotide polymorphisms using monobase-modified apoferritin-encapsulated nanoparticles. Biosens Bioelectron 2012; 37:11-8. [DOI: 10.1016/j.bios.2012.04.017] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2012] [Revised: 03/18/2012] [Accepted: 04/10/2012] [Indexed: 11/24/2022]
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26
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Affiliation(s)
- Emil Paleček
- Institute of Biophysics, Academy of Sciences of the Czech Republic, v.v.i., Kralovopolska 135, 612
65 Brno, Czech Republic
| | - Martin Bartošík
- Institute of Biophysics, Academy of Sciences of the Czech Republic, v.v.i., Kralovopolska 135, 612
65 Brno, Czech Republic
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27
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Zitka O, Merlos MA, Adam V, Ferrol N, Pohanka M, Hubalek J, Zehnalek J, Trnkova L, Kizek R. Electrochemistry of copper(II) induced complexes in mycorrhizal maize plant tissues. JOURNAL OF HAZARDOUS MATERIALS 2012; 203-204:257-263. [PMID: 22209587 DOI: 10.1016/j.jhazmat.2011.12.018] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/02/2011] [Revised: 11/29/2011] [Accepted: 12/05/2011] [Indexed: 05/31/2023]
Abstract
Aim of the present paper was to study the electrochemical behavior of copper(II) induced complexes in extracts obtained from mycorrhizal and non-mycorrhizal maize (Zea mays L.) plants grown at two concentrations of copper(II): physiological (31.7 ng/mL) and toxic (317 μg/mL). Protein content was determined in the plant extracts and, after dilution to proper concentration, various concentrations of copper(II) ions (0, 100, 200 and 400 μg/mL) were added and incubated for 1h at 37°C. Further, the extracts were analyzed using flow injection analysis with electrochemical detection. The hydrodynamic voltammogram (HDV), which was obtained for each sample, indicated the complex creation. Steepness of measured dependencies was as follows: control 317 μg/mL of copper<control 31.7 ng/mL of copper<mycorrhizal 31.7 ng/mL of copper<mycorrhizal 317 μg/mL of copper. Based on these results it can be concluded that mycorrhizal fungus actively blocks transport copper(II) ions to upper parts of a plant by means of adsorbing of copper(II) in roots. Rapid complex formation was determined under applied potentials 300, 500 and 600 mV during the measuring HDVs. It was also verified that mycorrhizal colonization reduced root to shoot translocation of Cu(II) ions.
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Affiliation(s)
- Ondrej Zitka
- Department of Chemistry and Biochemistry, Zemedelska 1, CZ-613 00 Brno, Czech Republic
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28
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Paleček E, Bartošík M, Ostatná V, Trefulka M. Electrocatalysis in proteins, nucleic acids and carbohydrates. CHEM REC 2012; 12:27-45. [DOI: 10.1002/tcr.201100029] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2011] [Indexed: 11/06/2022]
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29
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Masarik M, Gumulec J, Sztalmachova M, Hlavna M, Babula P, Krizkova S, Ryvolova M, Jurajda M, Sochor J, Adam V, Kizek R. Isolation of metallothionein from cells derived from aggressive form of high-grade prostate carcinoma using paramagnetic antibody-modified microbeads off-line coupled with electrochemical and electrophoretic analysis. Electrophoresis 2011; 32:3576-88. [DOI: 10.1002/elps.201100301] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2011] [Revised: 06/30/2011] [Accepted: 07/02/2011] [Indexed: 12/18/2022]
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30
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On the mechanism of hydrogen evolution catalysis by proteins: A case study with bovine serum albumin. Electrochim Acta 2011. [DOI: 10.1016/j.electacta.2011.08.017] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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31
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Hocek M, Fojta M. Nucleobase modification as redox DNA labelling for electrochemical detection. Chem Soc Rev 2011; 40:5802-14. [PMID: 21625726 DOI: 10.1039/c1cs15049a] [Citation(s) in RCA: 110] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
Basic aspects of DNA electrochemistry with a strong focus on the use of modified nucleobases as redox probes for electrochemical bioanalysis are reviewed. Intrinsic electrochemical properties of nucleobases in combination with artificial redox-active nucleobase modifications are frequently applied in this field. Synthetic approaches (both chemical and enzymatic) to base-modified nucleic acids are briefly summarized and their applications in redox labelling are discussed. Finally, analytical applications including DNA hybridization, primer extension, PCR, SNP typing, DNA damage and DNA-protein interaction analysis are presented (critical review, 91 references).
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Affiliation(s)
- Michal Hocek
- Institute of Organic Chemistry and Biochemistry, v.v.i., Academy of Sciences of the Czech Republic, Gilead Sciences & IOCB Research Center, Prague, Czech Republic.
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32
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Shin S, Won BY, Jung C, Shin SC, Cho DY, Lee SS, Park HG. Electrochemical detection of DNA mutations on a PNA-modified electrode utilizing a single-stranded DNA specific endonuclease. Chem Commun (Camb) 2011; 47:6611-3. [PMID: 21573274 DOI: 10.1039/c1cc11476j] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Utilizing a peptide nucleic acid (PNA)-modified electrode and a single-stranded DNA specific endonuclease, a novel electrochemical method to identify DNA mutations has been developed and represents a totally new strategy for the electrochemical diagnosis of human genetic mutations.
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Affiliation(s)
- Sujeong Shin
- Department of Chemical and Biomolecular Engineering (BK21 Program), KAIST, 291 Daehak-ro, Yuseong-gu, Daejeon 305-701, Republic of Korea
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33
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Kostečka P, Havran L, Bittová M, Pivoňková H, Fojta M. Sensing mispaired thymines in DNA heteroduplexes using an electroactive osmium marker: towards electrochemical SNP probing. Anal Bioanal Chem 2011; 400:197-204. [DOI: 10.1007/s00216-011-4794-9] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2010] [Revised: 02/08/2011] [Accepted: 02/08/2011] [Indexed: 11/28/2022]
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34
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Huska D, Adam V, Babula P, Trnkova L, Hubalek J, Zehnalek J, Havel L, Kizek R. Microfluidic robotic device coupled with electrochemical sensor field for handling of paramagnetic micro-particles as a tool for determination of plant mRNA. Mikrochim Acta 2011. [DOI: 10.1007/s00604-011-0545-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
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35
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Feng K, Zhao J, Wu ZS, Jiang J, Shen G, Yu R. High-sensitive electrochemical detection of point mutation based on polymerization-induced enzymatic amplification. Biosens Bioelectron 2010; 26:3187-91. [PMID: 21239161 DOI: 10.1016/j.bios.2010.12.024] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2010] [Revised: 12/11/2010] [Accepted: 12/13/2010] [Indexed: 11/27/2022]
Abstract
Here a highly sensitive electrochemical method is described for the detection of point mutation in DNA. Polymerization extension reaction is applied to specifically initiate enzymatic electrochemical amplification to improve the sensitivity and enhance the performance of point mutation detection. In this work, 5'-thiolated DNA probe sequences complementary to the wild target DNA are assembled on the gold electrode. In the presence of wild target DNA, the probe is extended by DNA polymerase over the free segment of target as the template. After washing with NaOH solution, the target DNA is removed while the elongated probe sequence remains on the sensing surface. Via hybridizing to the designed biotin-labeled detection probe, the extended sequence is capable of capturing detection probe. After introducing streptavidin-conjugated alkaline phosphatase (SA-ALP), the specific binding between streptavidin and biotin mediates a catalytic reaction of ascorbic acid 2-phosphate (AA-P) substrate to produce a reducing agent ascorbic acid (AA). Then the silver ions in solution are reduced by AA, leading to the deposition of silver metal onto the electrode surface. The amount of deposited silver which is determined by the amount of wild target can be quantified by the linear sweep voltammetry (LSV). The present approach proved to be capable of detecting the wild target DNA down to a detection limit of 1.0×10(-14) M in a wide target concentration range and identifying -28 site (A to G) of the β-thalassemia gene, demonstrating that this scheme offers a highly sensitive and specific approach for point mutation detection.
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Affiliation(s)
- Kejun Feng
- State Key Laboratory for Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha, China.
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36
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Patterson A, Caprio F, Vallée-Bélisle A, Moscone D, Plaxco KW, Palleschi G, Ricci F. Using triplex-forming oligonucleotide probes for the reagentless, electrochemical detection of double-stranded DNA. Anal Chem 2010; 82:9109-15. [PMID: 20936782 PMCID: PMC3134121 DOI: 10.1021/ac1024528] [Citation(s) in RCA: 83] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We report a reagentless, electrochemical sensor for the detection of double-stranded DNA targets that employs triplex-forming oligonucleotides (TFOs) as its recognition element. These sensors are based on redox-tagged TFO probes strongly chemisorbed onto an interrogating gold electrode. Upon the addition of the relevant double-stranded DNA target, the probe forms a rigid triplex structure via reverse Hoogsteen base pairing in the major groove. The formation of the triplex impedes contact between the probe's redox moiety and the interrogating electrode, thus signaling the presence of the target. We first demonstrated the proof of principle of this approach by using a well-characterized 22-base polypurine TFO sequence that readily detects a synthetic, double-stranded DNA target. We then confirmed the generalizability of our platform with a second probe, a 19-base polypyrimidine TFO sequence that targets a polypurine tract (PPT) sequence conserved in all HIV-1 strains. Both sensors rapidly and specifically detect their double-stranded DNA targets at concentrations as low as ~10 nM and are selective enough to be employed directly in complex sample matrices such as blood serum. Moreover, to demonstrate real-world applicability of this new sensor platform, we have successfully detected unpurified, double-stranded PCR amplicons containing the relevant conserved HIV-1 sequence.
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37
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Doneux T, Dorcák V, Palecek E. Influence of the interfacial peptide organization on the catalysis of hydrogen evolution. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2010; 26:1347-1353. [PMID: 19743826 DOI: 10.1021/la9024603] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
The hydrogen evolution reaction is catalyzed by peptides and proteins adsorbed on electrode materials with high overpotentials for this reaction, such as mercury. The catalytic response characteristics are known to be very sensitive to the composition and structure of the investigated biomolecule, opening the way to the implementation of a label-free, reagentless electroanalytical method in protein analysis. Herein, it is shown using the model peptide Cys-Ala-Ala-Ala-Ala-Ala that the interfacial organization significantly influences the catalytic behavior. This peptide forms at the electrode two distinct films, depending on the concentration and accumulation time. The low-coverage film, composed of flat-lying molecules (area per molecule of approximately 250-290 A(2)), yields a well-defined catalytic peak at potentials around -1.75 V. The high-coverage film, made of upright-oriented peptides (area per molecule of approximately 43 A(2)), is catalytically more active and the peak is observed at potentials less negative by approximately 0.4 V. The higher activity, evidenced by constant-current chronopotentiometry and cyclic voltammetry, is attributed to an increase in the acid dissociation constant of the amino acid residues as a result of the low permittivity of the interfacial region, as inferred from impedance measurements. An analogy is made to the known differences in acidic-basic behaviors of solvent-exposed and hydrophobic domains of proteins.
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Affiliation(s)
- Th Doneux
- Institute of Biophysics ASCR, v.v.i., 612 65 Brno, Czech Republic
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38
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Gong H, Zhong T, Gao L, Li X, Bi L, Kraatz HB. Unlabeled hairpin DNA probe for electrochemical detection of single-nucleotide mismatches based on MutS-DNA interactions. Anal Chem 2010; 81:8639-43. [PMID: 19769379 DOI: 10.1021/ac901371n] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The paper described a label-free assay for the detection of single-nucleotide mismatches in which an unlabeled hairpin DNA probe and a MutS protein conjugate (His6-MutS-linker peptide-streptavidin binding peptide (HMLS)) are exploited for the detection of mismatches by electrochemical impedance spectroscopy (EIS). We demonstrate this method for eight single-nucleotide mismatches. Upon hybridization of the target strand with the hairpin DNA probe, the stem-loop structure is opened forming a duplex DNA. In duplexes containing a single nucleotide mismatch, the mismatch is present at the solvent exposed side, enabling more effective HMLS recognition and binding. The binding event is evaluated by EIS and analyzed with the help of Randles' equivalent circuits. The differences in the charge transfer resistance DeltaR(CT) before and after protein binding to the duplex DNA allows the unequivocal detection of all eight single-nucleotide mismatches. DeltaR(CT) allows the discrimination of a C-A mismatch with the concentration of the target strand as low as 100 pM.
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Affiliation(s)
- He Gong
- Department of Chemistry, Beijing Normal University, Beijing, China 100875
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39
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Electrochemical scanning of DNA point mutations via MutS protein-mediated mismatch recognition. Biosens Bioelectron 2009; 24:1955-61. [DOI: 10.1016/j.bios.2008.09.029] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2008] [Revised: 09/11/2008] [Accepted: 09/30/2008] [Indexed: 11/21/2022]
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40
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Dorčák V, Bartošík M, Ostatná V, Paleček E, Heyrovský M. Interaction of Biomacromolecules with Surfaces Viewed by Electrochemical Methods. ELECTROANAL 2009. [DOI: 10.1002/elan.200804433] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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41
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Huska D, Adam V, Zitka O, Kukacka J, Prusa R, Kizek R. Chronopotentiometric Stripping Analysis of Gelatinase B, Collagen and Their Interaction. ELECTROANAL 2009. [DOI: 10.1002/elan.200804440] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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42
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43
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Dorčák V, Paleček E. Electrochemical Determination of Thioredoxin Redox States. Anal Chem 2009; 81:1543-8. [DOI: 10.1021/ac802274p] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Affiliation(s)
- Vlastimil Dorčák
- Institute of Biophysics, Academy of Sciences of the Czech Republic, v.v.i, Královopolská 135, CZ-612 65 Brno, Czech Republic
| | - Emil Paleček
- Institute of Biophysics, Academy of Sciences of the Czech Republic, v.v.i, Královopolská 135, CZ-612 65 Brno, Czech Republic
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44
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Paleček E, Ostatná V. Ionic strength-dependent structural transition of proteins at electrode surfaces. Chem Commun (Camb) 2009:1685-7. [DOI: 10.1039/b822274f] [Citation(s) in RCA: 52] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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45
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Mahajan S, Richardson J, Brown T, Bartlett PN. SERS-Melting: A New Method for Discriminating Mutations in DNA Sequences. J Am Chem Soc 2008; 130:15589-601. [DOI: 10.1021/ja805517q] [Citation(s) in RCA: 150] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Sumeet Mahajan
- School of Chemistry, University of Southampton, Southampton SO17 1BJ, United Kingdom
| | - James Richardson
- School of Chemistry, University of Southampton, Southampton SO17 1BJ, United Kingdom
| | - Tom Brown
- School of Chemistry, University of Southampton, Southampton SO17 1BJ, United Kingdom
| | - Philip N. Bartlett
- School of Chemistry, University of Southampton, Southampton SO17 1BJ, United Kingdom
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46
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Ostatná V, Kuralay F, Trnková L, Paleček E. Constant Current Chronopotentiometry and Voltammetry of Native and Denatured Serum Albumin at Mercury and Carbon Electrodes. ELECTROANAL 2008. [DOI: 10.1002/elan.200804206] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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47
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Fabrik I, Krizkova S, Huska D, Adam V, Hubalek J, Trnkova L, Eckschlager T, Kukacka J, Prusa R, Kizek R. Employment of Electrochemical Techniques for Metallothionein Determination in Tumor Cell Lines and Patients with a Tumor Disease. ELECTROANAL 2008. [DOI: 10.1002/elan.200704215] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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48
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Fojta M, Billová S, Havran L, Pivoňková H, Černocká H, Horáková P, Paleček E. Osmium Tetroxide, 2,2′-Bipyridine: Electroactive Marker for Probing Accessibility of Tryptophan Residues in Proteins. Anal Chem 2008; 80:4598-605. [DOI: 10.1021/ac800527u] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Miroslav Fojta
- Institute of Biophysics, Academy of Sciences of the Czech Republic, Kralovopolska 135, 612 65 Brno, Czech Republic, and Department of Functional Genomics and Proteomics, Institute of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Sabina Billová
- Institute of Biophysics, Academy of Sciences of the Czech Republic, Kralovopolska 135, 612 65 Brno, Czech Republic, and Department of Functional Genomics and Proteomics, Institute of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Luděk Havran
- Institute of Biophysics, Academy of Sciences of the Czech Republic, Kralovopolska 135, 612 65 Brno, Czech Republic, and Department of Functional Genomics and Proteomics, Institute of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Hana Pivoňková
- Institute of Biophysics, Academy of Sciences of the Czech Republic, Kralovopolska 135, 612 65 Brno, Czech Republic, and Department of Functional Genomics and Proteomics, Institute of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Hana Černocká
- Institute of Biophysics, Academy of Sciences of the Czech Republic, Kralovopolska 135, 612 65 Brno, Czech Republic, and Department of Functional Genomics and Proteomics, Institute of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Petra Horáková
- Institute of Biophysics, Academy of Sciences of the Czech Republic, Kralovopolska 135, 612 65 Brno, Czech Republic, and Department of Functional Genomics and Proteomics, Institute of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
| | - Emil Paleček
- Institute of Biophysics, Academy of Sciences of the Czech Republic, Kralovopolska 135, 612 65 Brno, Czech Republic, and Department of Functional Genomics and Proteomics, Institute of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic
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Adam V, Baloun J, Fabrik I, Trnkova L, Kizek R. An Electrochemical Detection of Metallothioneins at the Zeptomole Level in Nanolitre Volumes. SENSORS 2008; 8:2293-2305. [PMID: 27879822 PMCID: PMC3673418 DOI: 10.3390/s8042293] [Citation(s) in RCA: 45] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/15/2008] [Accepted: 03/26/2008] [Indexed: 11/16/2022]
Abstract
An Electrochemical Detection of Metallothioneins at the Zeptomole Level in Nanolitre VolumesWe report on improvement of the adsorptive transfer stripping technique (AdTS) coupled with the differential pulse voltammetry Brdicka reaction to determine a thiol-protein. The current technique has been unable to generate reproducible results when analyzing very low sample volumes (nanolitres). This obstacle can be overcome technically by modifying the current transfer technique including cooling step of the adsorbed analyte. We tested the technique on determination of a promising tumour disease marker protein called metallothionein (MT). The detection limit (3 S/N) of MT was evaluated as 500 zeptomoles per 500 nL (1 pM) and the quantification limit (10 S/N) as 1,500 zeptomoles per 500 nL (3 pM). Further, the improved AdTS technique was utilized to analyze blood serum samples from patients with breast cancer. Based on the results obtained it can be concluded that the improved technique can be used to detect a thiolprotein in very low sample volumes and can also prevent interferences during the washing and transferring step.
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Affiliation(s)
- Vojtech Adam
- Department of Chemistry and Biochemistry, Mendel University of Agriculture and Forestry, Zemedelska 1, CZ-613 00 Brno, Czech Republic; E-mail:
- Department of Animal Nutrition and Forage Production, Faculty of Agronomy, Mendel University of Agriculture and Forestry, Zemedelska 1, CZ-613 00 Brno, Czech Republic
| | - Jiri Baloun
- Department of Chemistry and Biochemistry, Mendel University of Agriculture and Forestry, Zemedelska 1, CZ-613 00 Brno, Czech Republic; E-mail:
| | - Ivo Fabrik
- Department of Chemistry and Biochemistry, Mendel University of Agriculture and Forestry, Zemedelska 1, CZ-613 00 Brno, Czech Republic; E-mail:
- Department of Biochemistry, Masaryk University, Kotlarska 2, CZ-611 37 Brno, Czech Republic
| | - Libuse Trnkova
- Department of Chemistry, Faculty of Science, Masaryk University, Kotlarska 2, CZ-611 37 Brno, Czech Republic
| | - Rene Kizek
- Department of Chemistry and Biochemistry, Mendel University of Agriculture and Forestry, Zemedelska 1, CZ-613 00 Brno, Czech Republic; E-mail:
- Author to whom correspondence should be addressed; E-mail:
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