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Kumar D, Gauri, Kaur N. Multispectroscopic and computational techniques to study the interaction of anthraquinone appended sensor with calf thymus DNA. J Biomol Struct Dyn 2024; 42:4370-4378. [PMID: 37227792 DOI: 10.1080/07391102.2023.2216302] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2023] [Accepted: 05/16/2023] [Indexed: 05/27/2023]
Abstract
An anthraquinone based derivative (AQ) has been designed and synthesized to find its applications for the interactions with calf thymus DNA (ctDNA) involving various spectroscopic techniques, thermodynamic and computational approaches. The UV-vis studies pointed to interaction of AQ with ctDNA via groove binding mode, which has been further supported well by the ionic strength studies, viscosity measurement, circular dichroism and melting temperature (Tm) curves. These findings have been further validated by dye-displacement assay and molecular docking studies. The analysis of thermodynamic parameters supports that the AQ-ctDNA binding is entropy favoured and enthalpy disfavoured and main acting binding interaction is hydrophobic interaction. The outcomes of the molecular modelling suggested that AQ might have entered the A-T abundant area of the ctDNA.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Deepak Kumar
- Department of Chemistry, Panjab University, Chandigarh, India
| | - Gauri
- Department of Chemistry, Panjab University, Chandigarh, India
| | - Navneet Kaur
- Department of Chemistry, Panjab University, Chandigarh, India
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2
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Shumyantseva VV, Bulko TV, Chistov AA, Kolesanova EF, Agafonova LE. Pharmacogenomic Studies of Antiviral Drug Favipiravir. Pharmaceutics 2024; 16:503. [PMID: 38675164 PMCID: PMC11053860 DOI: 10.3390/pharmaceutics16040503] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2024] [Revised: 03/22/2024] [Accepted: 04/01/2024] [Indexed: 04/28/2024] Open
Abstract
In this work, we conducted a study of the interaction between DNA and favipiravir (FAV). This chemotherapeutic compound is an antiviral drug for the treatment of COVID-19 and other infections caused by RNA viruses. This paper examines the electroanalytical characteristics of FAV. The determined concentrations correspond to therapeutically significant ones in the range of 50-500 µM (R2 = 0.943). We have shown that FAV can be electro-oxidized around the potential of +0.96 V ÷ +0.98 V (vs. Ag/AgCl). A mechanism for electrochemical oxidation of FAV was proposed. The effect of the drug on DNA was recorded as changes in the intensity of electrochemical oxidation of heterocyclic nucleobases (guanine, adenine and thymine) using screen-printed graphite electrodes modified with single-walled carbon nanotubes and titanium oxide nanoparticles. In this work, the binding constants (Kb) of FAV/dsDNA complexes for guanine, adenine and thymine were calculated. The values of the DNA-mediated electrochemical decline coefficient were calculated as the ratio of the intensity of signals for the electrochemical oxidation of guanine, adenine and thymine in the presence of FAV to the intensity of signals for the electro-oxidation of these bases without drug (S, %). Based on the analysis of electrochemical parameters, values of binding constants and spectral data, intercalation was proposed as the principal mechanism of the antiviral drug FAV interaction with DNA. The interaction with calf thymus DNA also confirmed the intercalation mechanism. However, an additional mode of interaction, such as a damage effect together with electrostatic interactions, was revealed in a prolonged exposure of DNA to FAV.
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Affiliation(s)
- Victoria V. Shumyantseva
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, Build 8, Moscow 119121, Russia; (T.V.B.); (A.A.C.); (E.F.K.); (L.E.A.)
- Department of Biochemistry, Pirogov Russian National Research Medical University, Ostrovitianov Street, 1, Moscow 117997, Russia
| | - Tatiana V. Bulko
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, Build 8, Moscow 119121, Russia; (T.V.B.); (A.A.C.); (E.F.K.); (L.E.A.)
| | - Alexey A. Chistov
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, Build 8, Moscow 119121, Russia; (T.V.B.); (A.A.C.); (E.F.K.); (L.E.A.)
| | - Ekaterina F. Kolesanova
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, Build 8, Moscow 119121, Russia; (T.V.B.); (A.A.C.); (E.F.K.); (L.E.A.)
| | - Lyubov E. Agafonova
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, Build 8, Moscow 119121, Russia; (T.V.B.); (A.A.C.); (E.F.K.); (L.E.A.)
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Şenel P, Agar S, Yurtsever M, Gölcü A. Voltammetric quantification, spectroscopic, and DFT studies on the binding of the antineoplastic drug Azacitidine with DNA. J Pharm Biomed Anal 2024; 237:115746. [PMID: 37862849 DOI: 10.1016/j.jpba.2023.115746] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2023] [Revised: 09/22/2023] [Accepted: 09/22/2023] [Indexed: 10/22/2023]
Abstract
In this study, experimental studies were carried out to explore the action mechanism of the anti-cancer drug Azacitidine on the double-stranded DNA (dsDNA). The drug binding constant (Kb) was found to be 4.13 ± 0.23 × 105 M-1 using voltammetric measurements and 1.67 ± 0.24 × 105 M-1 using the fluorescence spectroscopy. Both values are close to the values of 2.04 ± 0.30 × 105 M-1 for deoxyguanosine (dGuO) and 1.23 ± 0.30 × 105 M-1 for deoxyadenosine (dAdo). In the displacement studies, the ethidium bromide, strong DNA intercalator, was replaced by the Azacitidine, hence caused a decrease on the fluorescence emission intensity. In thermal denaturation studies, the increase of 8.60 °C in the melting temperature upon introduction of the Azacitidine into the dsDNA solution cleary indicated intercalation binding mode of the drug. The experimental and theoretical IR spectra of Azacitidine, dsDNA and their H-bonded complex were confirmed the Azacitidine's intercalation ability to induce cytotoxicity. We also developed a method for the detection of Azacitidine at low concentrations using the differential pulse voltammetry (DPV). The peak current decreases in the oxidation signals of the deoxyguanosine obtained voltammetrically upon the interaction of Azacitidine and dsDNA allowed a sensitive determination of Azacitidine in pH 4.80 acetate buffer. A linear dependence of the deoxyguanosine oxidation signals was observed within the range of 2-20 µM Azacitidine, with a limit of detection (LOD) 0.62 µM.
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Affiliation(s)
- Pelin Şenel
- Department of Chemistry, Faculty of Science and Letters, Istanbul Technical University, Maslak, Istanbul 34469, Turkey
| | - Soykan Agar
- Department of Chemistry, Faculty of Science and Letters, Istanbul Technical University, Maslak, Istanbul 34469, Turkey
| | - Mine Yurtsever
- Department of Chemistry, Faculty of Science and Letters, Istanbul Technical University, Maslak, Istanbul 34469, Turkey.
| | - Ayşegül Gölcü
- Department of Chemistry, Faculty of Science and Letters, Istanbul Technical University, Maslak, Istanbul 34469, Turkey.
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Kilic NM, Singh S, Keles G, Cinti S, Kurbanoglu S, Odaci D. Novel Approaches to Enzyme-Based Electrochemical Nanobiosensors. BIOSENSORS 2023; 13:622. [PMID: 37366987 DOI: 10.3390/bios13060622] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/02/2023] [Revised: 05/29/2023] [Accepted: 06/01/2023] [Indexed: 06/28/2023]
Abstract
Electrochemistry is a genuinely interdisciplinary science that may be used in various physical, chemical, and biological domains. Moreover, using biosensors to quantify biological or biochemical processes is critical in medical, biological, and biotechnological applications. Nowadays, there are several electrochemical biosensors for various healthcare applications, such as for the determination of glucose, lactate, catecholamines, nucleic acid, uric acid, and so on. Enzyme-based analytical techniques rely on detecting the co-substrate or, more precisely, the products of a catalyzed reaction. The glucose oxidase enzyme is generally used in enzyme-based biosensors to measure glucose in tears, blood, etc. Moreover, among all nanomaterials, carbon-based nanomaterials have generally been utilized thanks to the unique properties of carbon. The sensitivity can be up to pM levels using enzyme-based nanobiosensor, and these sensors are very selective, as all enzymes are specific for their substrates. Furthermore, enzyme-based biosensors frequently have fast reaction times, allowing for real-time monitoring and analyses. These biosensors, however, have several drawbacks. Changes in temperature, pH, and other environmental factors can influence the stability and activity of the enzymes, affecting the reliability and repeatability of the readings. Additionally, the cost of the enzymes and their immobilization onto appropriate transducer surfaces might be prohibitively expensive, impeding the large-scale commercialization and widespread use of biosensors. This review discusses the design, detection, and immobilization techniques for enzyme-based electrochemical nanobiosensors, and recent applications in enzyme-based electrochemical studies are evaluated and tabulated.
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Affiliation(s)
- Nur Melis Kilic
- Faculty of Science Biochemistry Department, Ege University, 35100 Bornova, Turkey
| | - Sima Singh
- Department of Pharmacy, University of Naples Federico II, 80138 Naples, Italy
| | - Gulsu Keles
- Department of Analytical Chemistry, Faculty of Pharmacy, Ankara University, 06560 Ankara, Turkey
| | - Stefano Cinti
- Department of Pharmacy, University of Naples Federico II, 80138 Naples, Italy
| | - Sevinc Kurbanoglu
- Department of Analytical Chemistry, Faculty of Pharmacy, Ankara University, 06560 Ankara, Turkey
| | - Dilek Odaci
- Faculty of Science Biochemistry Department, Ege University, 35100 Bornova, Turkey
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Tripathi P, Gulli C, Broomfield J, Alexandrou G, Kalofonou M, Bevan C, Moser N, Georgiou P. Classification of nucleic acid amplification on ISFET arrays using spectrogram-based neural networks. Comput Biol Med 2023; 161:107027. [PMID: 37211003 DOI: 10.1016/j.compbiomed.2023.107027] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2022] [Revised: 04/20/2023] [Accepted: 05/09/2023] [Indexed: 05/23/2023]
Abstract
The COVID-19 pandemic has highlighted a significant research gap in the field of molecular diagnostics. This has brought forth the need for AI-based edge solutions that can provide quick diagnostic results whilst maintaining data privacy, security and high standards of sensitivity and specificity. This paper presents a novel proof-of-concept method to detect nucleic acid amplification using ISFET sensors and deep learning. This enables the detection of DNA and RNA on a low-cost and portable lab-on-chip platform for identifying infectious diseases and cancer biomarkers. We show that by using spectrograms to transform the signal to the time-frequency domain, image processing techniques can be applied to achieve the reliable classification of the detected chemical signals. Transformation to spectrograms is beneficial as it makes the data compatible with 2D convolutional neural networks and helps gain significant performance improvement over neural networks trained on the time domain data. The trained network achieves an accuracy of 84% with a size of 30kB making it suitable for deployment on edge devices. This facilitates a new wave of intelligent lab-on-chip platforms that combine microfluidics, CMOS-based chemical sensing arrays and AI-based edge solutions for more intelligent and rapid molecular diagnostics.
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Affiliation(s)
- Prateek Tripathi
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, SW7 2AZ, London, UK.
| | - Costanza Gulli
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, SW7 2AZ, London, UK
| | - Joseph Broomfield
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, SW7 2AZ, London, UK; Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, SW7 2AZ, London, UK
| | - George Alexandrou
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, SW7 2AZ, London, UK
| | - Melpomeni Kalofonou
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, SW7 2AZ, London, UK
| | - Charlotte Bevan
- Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, SW7 2AZ, London, UK
| | - Nicolas Moser
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, SW7 2AZ, London, UK
| | - Pantelis Georgiou
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, SW7 2AZ, London, UK
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Nimal R, Nur Unal D, Erkmen C, Kurbanoglu S, Siddiq M, Eren G, Shah A, Uslu B. Elucidating the interaction of antidepressant drug paroxetine with ct-dsDNA: A comparative study by electrochemical, spectroscopic, and molecular docking approaches. Bioelectrochemistry 2023; 149:108285. [PMID: 36240548 DOI: 10.1016/j.bioelechem.2022.108285] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2022] [Revised: 09/28/2022] [Accepted: 10/02/2022] [Indexed: 11/05/2022]
Abstract
This study is designed to investigate the interaction of phenylpiperidine derivative drug paroxetine, which is an effective serotonin reuptake inhibitor and biomolecules through electrochemical, fluorescence spectroscopy, and molecular docking methods. The interaction between paroxetine and biomolecules was investigated by differential pulse voltammetry according to the decrease in deoxyguanosine anodic oxidation signal of double-stranded calf thymus DNA. Fluorescence spectroscopy studies were performed by titrating paroxetine against double-stranded calf thymus DNA solution at four different temperatures. The fluorescent results showed that paroxetine had a great affinity to bind with double-stranded calf thymus DNA. Interaction studies demonstrate that paroxetine binds to double-stranded calf thymus DNA via intercalation binding mode, and the binding constant values were calculated as 7.24 × 104 M-1 and 1.52 × 104 M-1 at 25 °C, based on voltammetric and spectroscopic results, respectively. Moreover, with the aim of elucidating the interaction mechanism between paroxetine and double-stranded calf thymus DNA, electrochemical and fluorescence spectroscopy studies along with molecular docking analysis were made.
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Affiliation(s)
- Rafia Nimal
- Quaid-i-Azam University, Department of Chemistry, Islamabad 45320, Pakistan; Ankara University, Faculty of Pharmacy, Department of Analytical Chemistry, 06560 Ankara, Turkey
| | - Didem Nur Unal
- Ankara University, Faculty of Pharmacy, Department of Analytical Chemistry, 06560 Ankara, Turkey; Ankara University, The Graduate School of Health Sciences, Ankara 06110, Turkey
| | - Cem Erkmen
- Ankara University, Faculty of Pharmacy, Department of Analytical Chemistry, 06560 Ankara, Turkey; Ankara University, The Graduate School of Health Sciences, Ankara 06110, Turkey
| | - Sevinc Kurbanoglu
- Ankara University, Faculty of Pharmacy, Department of Analytical Chemistry, 06560 Ankara, Turkey
| | - Muhammad Siddiq
- Quaid-i-Azam University, Department of Chemistry, Islamabad 45320, Pakistan
| | - Gokcen Eren
- Gazi University, Faculty of Pharmacy, Department of Pharmaceutical Chemistry, 06330 Ankara, Turkey
| | - Afzal Shah
- Quaid-i-Azam University, Department of Chemistry, Islamabad 45320, Pakistan
| | - Bengi Uslu
- Ankara University, Faculty of Pharmacy, Department of Analytical Chemistry, 06560 Ankara, Turkey.
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Moser N, Yu LS, Rodriguez Manzano J, Malpartida-Cardenas K, Au A, Arkell P, Cicatiello C, Moniri A, Miglietta L, Wang WH, Wang SF, Holmes A, Chen YH, Georgiou P. Quantitative detection of dengue serotypes using a smartphone-connected handheld lab-on-chip platform. Front Bioeng Biotechnol 2022; 10:892853. [PMID: 36185458 PMCID: PMC9521504 DOI: 10.3389/fbioe.2022.892853] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2022] [Accepted: 07/19/2022] [Indexed: 11/13/2022] Open
Abstract
Dengue is one of the most prevalent infectious diseases in the world. Rapid, accurate and scalable diagnostics are key to patient management and epidemiological surveillance of the dengue virus (DENV), however current technologies do not match required clinical sensitivity and specificity or rely on large laboratory equipment. In this work, we report the translation of our smartphone-connected handheld Lab-on-Chip (LoC) platform for the quantitative detection of two dengue serotypes. At its core, the approach relies on the combination of Complementary Metal-Oxide-Semiconductor (CMOS) microchip technology to integrate an array of 78 × 56 potentiometric sensors, and a label-free reverse-transcriptase loop mediated isothermal amplification (RT-LAMP) assay. The platform communicates to a smartphone app which synchronises results in real time with a secure cloud server hosted by Amazon Web Services (AWS) for epidemiological surveillance. The assay on our LoC platform (RT-eLAMP) was shown to match performance on a gold-standard fluorescence-based real-time instrument (RT-qLAMP) with synthetic DENV-1 and DENV-2 RNA and extracted RNA from 9 DENV-2 clinical isolates, achieving quantitative detection in under 15 min. To validate the portability of the platform and the geo-tagging capabilities, we led our study in the laboratories at Imperial College London, UK, and Kaohsiung Medical Hospital, Taiwan. This approach carries high potential for application in low resource settings at the point of care (PoC).
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Affiliation(s)
- Nicolas Moser
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, London, United Kingdom
- *Correspondence: Nicolas Moser,
| | - Ling-Shan Yu
- Institute of Biopharmaceutical Sciences, College of Medicine, National Sun Yat-Sen University, Kaohsiung, Taiwan
| | - Jesus Rodriguez Manzano
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, London, United Kingdom
- Department of Infectious Disease, Faculty of Medicine, Imperial College London, London, United Kingdom
| | - Kenny Malpartida-Cardenas
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, London, United Kingdom
| | - Anselm Au
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, London, United Kingdom
| | - Paul Arkell
- Department of Infectious Disease, Faculty of Medicine, Imperial College London, London, United Kingdom
| | - Chiara Cicatiello
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, London, United Kingdom
| | - Ahmad Moniri
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, London, United Kingdom
| | - Luca Miglietta
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, London, United Kingdom
- Department of Infectious Disease, Faculty of Medicine, Imperial College London, London, United Kingdom
| | - Wen-Hung Wang
- School of Medicine, College of Medicine, National Sun Yat-sen University, Kaohsiung, Taiwan
- Center for Tropical Medicine and Infectious Disease, Kaohsiung Medical University, Kaohsiung, Taiwan
- Department of Medical Laboratory Science and Biotechnology, Kaohsiung Medical University, Kaohsiung, Taiwan
| | - Sheng Fan Wang
- Center for Tropical Medicine and Infectious Disease, Kaohsiung Medical University, Kaohsiung, Taiwan
- Department of Medical Laboratory Science and Biotechnology, Kaohsiung Medical University, Kaohsiung, Taiwan
| | - Alison Holmes
- Department of Infectious Disease, Faculty of Medicine, Imperial College London, London, United Kingdom
- Institute of Systems, Molecular and Integrative Biology, University of Liverpool, Liverpool, United Kingdom
| | - Yen-Hsu Chen
- School of Medicine, College of Medicine, National Sun Yat-sen University, Kaohsiung, Taiwan
- Center for Tropical Medicine and Infectious Disease, Kaohsiung Medical University, Kaohsiung, Taiwan
- Department of Medical Laboratory Science and Biotechnology, Kaohsiung Medical University, Kaohsiung, Taiwan
| | - Pantelis Georgiou
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Faculty of Engineering, Imperial College London, London, United Kingdom
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Bilge S, Dogan-Topal B, Taskin Tok T, Atici EB, Sınağ A, Ozkan SA. Investigation of the interaction between anticancer drug ibrutinib and double-stranded DNA by electrochemical and molecular docking techniques. Microchem J 2022. [DOI: 10.1016/j.microc.2022.107622] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Erkmen C, Unal DN, Kurbanoglu S, Eren G, Uslu B. Evaluation of the Interaction of Cinacalcet with Calf Thymus dsDNA: Use of Electrochemical, Spectrofluorimetric, and Molecular Docking Methods. BIOSENSORS 2022; 12:bios12050278. [PMID: 35624577 PMCID: PMC9138790 DOI: 10.3390/bios12050278] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/25/2022] [Revised: 04/22/2022] [Accepted: 04/26/2022] [Indexed: 11/16/2022]
Abstract
The binding of drugs to DNA plays a critical role in new drug discovery and is important for designing better drugs. In this study, the interaction and binding mode of calf-thymus double-stranded deoxyribonucleic acid (ct-dsDNA) with cinacalcet (CIN) from the calcimimetic drug that mimics the action of calcium on tissues group were investigated. The interaction of CIN with ct-dsDNA was observed by the differential pulse voltammetry (DPV) technique by following the decrease in electrochemical oxidation signals to deoxyguanosine and adenosine. A competitive study was performed on an indicator, methylene blue, to investigate the interaction of the drug with ct-dsDNA by fluorescence spectroscopy. Interaction studies have shown that the binding mode for the interaction of CIN with ct-dsDNA could be groove-binding. According to the results obtained, the binding constant values were found to be 6.30 × 104 M−1 and 3.16 × 105 M−1, respectively, at 25 °C as obtained from the cyclic voltammetry (CV) and spectroscopic techniques. Possible molecular interactions of CIN with dsDNA were explored via molecular docking experiments. The docked structure indicated that CIN could fit well into the minor groove of the DNA through H-bonding and π-π stacking contact with CIN.
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Affiliation(s)
- Cem Erkmen
- Department of Analytical Chemistry, Faculty of Pharmacy, Ankara University, Ankara 06560, Turkey; (C.E.); (D.N.U.); (S.K.)
- The Graduate School of Health Sciences, Ankara University, Ankara 06110, Turkey
| | - Didem Nur Unal
- Department of Analytical Chemistry, Faculty of Pharmacy, Ankara University, Ankara 06560, Turkey; (C.E.); (D.N.U.); (S.K.)
- The Graduate School of Health Sciences, Ankara University, Ankara 06110, Turkey
| | - Sevinc Kurbanoglu
- Department of Analytical Chemistry, Faculty of Pharmacy, Ankara University, Ankara 06560, Turkey; (C.E.); (D.N.U.); (S.K.)
| | - Gokcen Eren
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Gazi University, Etiler, Ankara 06330, Turkey;
| | - Bengi Uslu
- Department of Analytical Chemistry, Faculty of Pharmacy, Ankara University, Ankara 06560, Turkey; (C.E.); (D.N.U.); (S.K.)
- Correspondence:
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Electrochemical DNA Sensor Based on Acridine Yellow Adsorbed on Glassy Carbon Electrode. SENSORS 2021; 21:s21227763. [PMID: 34833839 PMCID: PMC8621912 DOI: 10.3390/s21227763] [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: 11/05/2021] [Revised: 11/18/2021] [Accepted: 11/19/2021] [Indexed: 12/19/2022]
Abstract
Electrochemical DNA sensors offer unique opportunities for the sensitive detection of specific DNA interactions. In this work, a voltametric DNA sensor is proposed on the base of glassy carbon electrode modified with carbon black, adsorbed acridine yellow and DNA for highly sensitive determination of doxorubicin antitumor drug. The signal recorded by cyclic voltammetry was attributed to irreversible oxidation of the dye. Its value was altered by aggregation of the hydrophobic dye molecules on the carbon black particles. DNA molecules promote disaggregation of the dye and increased the signal. This effect was partially suppressed by doxorubicin compensate for the charge of DNA in the intercalation. Sensitivity of the signal toward DNA and doxorubicin was additionally increased by treatment of the layer with dimethylformamide. In optimal conditions, the linear range of doxorubicin concentrations determined was 0.1 pM–1.0 nM, and the detection limit was 0.07 pM. No influence of sulfonamide medicines and plasma electrolytes on the doxorubicin determination was shown. The DNA sensor was tested on two medications (doxorubicin-TEVA and doxorubicin-LANS) and showed recoveries of 102–105%. The DNA sensor developed can find applications in the determination of drug residues in blood and for the pharmacokinetics studies.
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Hussain I, Fatima S, Siddiqui S, Ahmed S, Tabish M. Exploring the binding mechanism of β-resorcylic acid with calf thymus DNA: Insights from multi-spectroscopic, thermodynamic and bioinformatics approaches. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 260:119952. [PMID: 34052761 DOI: 10.1016/j.saa.2021.119952] [Citation(s) in RCA: 37] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2020] [Revised: 05/06/2021] [Accepted: 05/09/2021] [Indexed: 06/12/2023]
Abstract
β-resorcylic acid (BR) is a phytochemical which is widely used in the food industry as a flavouring agent and preservative. It has also been found to exhibit antibacterial action against several types of food-borne bacteria. DNA is the main molecular target for many small molecules of therapeutic importance. Hence, the interest is rapidly growing among the researchers to elucidate the interaction between small molecules and DNA. Thus, paving the way to design novel DNA-specific drugs. In this study, an attempt was made to examine the mechanism of binding of BR with calf thymus DNA (ctDNA) with the help of various experiments based on spectroscopy and in silico studies. The spectroscopic studies like UV absorption and fluorescence affirmed the complex formation between BR and ctDNA. The observed binding constant was in the order of 103 M-1 which is indicative of the groove binding mechanism. These findings were further verified by dye-displacement assay, potassium iodide quenching, urea denaturation assay, the study of the effect of ssDNA, circular dichroism and DNA thermal denaturing studies. Different temperature-based fluorescence and isothermal titration calorimetry (ITC) experiments were employed to evaluate thermodynamic parameters. The analysis of thermodynamic parameters supports the enthalpically driven, exothermic and spontaneous nature of the reaction between BR and ctDNA. The forces involved in the binding process were mainly found to be hydrogen bonding, van der Waals and hydrophobic interactions. The results obtained from the molecular docking and molecular dynamics (MD) simulation were consistent with the in vitro experiments, which support the groove binding mode of BR with ctDNA.
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Affiliation(s)
- Irfan Hussain
- Department of Biochemistry, Faculty of Life Sciences, A.M.U, Aligarh, U.P. 202002, India
| | - Sana Fatima
- Department of Biochemistry, Faculty of Life Sciences, A.M.U, Aligarh, U.P. 202002, India
| | - Sharmin Siddiqui
- Department of Biochemistry, Faculty of Life Sciences, A.M.U, Aligarh, U.P. 202002, India
| | - Shahbaz Ahmed
- Department of Biochemistry, Faculty of Life Sciences, A.M.U, Aligarh, U.P. 202002, India
| | - Mohammad Tabish
- Department of Biochemistry, Faculty of Life Sciences, A.M.U, Aligarh, U.P. 202002, India.
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Physicochemical and electrochemical characteristics of pyrazine-2-thiocarboxamide and its interaction ability against biomolecules. Electrochim Acta 2021. [DOI: 10.1016/j.electacta.2021.139150] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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Bunea MC, Diculescu VC, Enculescu M, Iovu H, Enache TA. Redox Mechanism of Azathioprine and Its Interaction with DNA. Int J Mol Sci 2021; 22:ijms22136805. [PMID: 34202734 PMCID: PMC8268956 DOI: 10.3390/ijms22136805] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2021] [Revised: 06/16/2021] [Accepted: 06/16/2021] [Indexed: 01/24/2023] Open
Abstract
The electrochemical behavior and the interaction of the immunosuppressive drug azathioprine (AZA) with deoxyribonucleic acid (DNA) were investigated using voltammetric techniques, mass spectrometry (MS), and scanning electron microscopy (SEM). The redox mechanism of AZA on glassy carbon (GC) was investigated using cyclic and differential pulse (DP) voltammetry. It was proven that the electroactive center of AZA is the nitro group and its reduction mechanism is a diffusion-controlled process, which occurs in consecutive steps with formation of electroactive products and involves the transfer of electrons and protons. A redox mechanism was proposed and the interaction of AZA with DNA was also investigated. Morphological characterization of the DNA film on the electrode surface before and after interaction with AZA was performed using scanning electron microscopy. An electrochemical DNA biosensor was employed to study the interactions between AZA and DNA with different concentrations, incubation times, and applied potential values. It was shown that the reduction of AZA molecules bound to the DNA layer induces structural changes of the DNA double strands and oxidative damage, which were recognized through the occurrence of the 8-oxo-deoxyguanosine oxidation peak. Mass spectrometry investigation of the DNA film before and after interaction with AZA also demonstrated the formation of AZA adducts with purine bases.
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Affiliation(s)
- Mihaela-Cristina Bunea
- Laboratory of Multifunctional Materials and Structures, National Institute of Materials Physics, Atomistilor 405A, 077125 Magurele, Romania; (M.-C.B.); (V.-C.D.); (M.E.)
- Advanced Polymer Materials Group, University Politehnica of Bucharest, 1-7 Gh. Polizu, 011061 Bucharest, Romania;
| | - Victor-Constantin Diculescu
- Laboratory of Multifunctional Materials and Structures, National Institute of Materials Physics, Atomistilor 405A, 077125 Magurele, Romania; (M.-C.B.); (V.-C.D.); (M.E.)
| | - Monica Enculescu
- Laboratory of Multifunctional Materials and Structures, National Institute of Materials Physics, Atomistilor 405A, 077125 Magurele, Romania; (M.-C.B.); (V.-C.D.); (M.E.)
| | - Horia Iovu
- Advanced Polymer Materials Group, University Politehnica of Bucharest, 1-7 Gh. Polizu, 011061 Bucharest, Romania;
| | - Teodor Adrian Enache
- Laboratory of Multifunctional Materials and Structures, National Institute of Materials Physics, Atomistilor 405A, 077125 Magurele, Romania; (M.-C.B.); (V.-C.D.); (M.E.)
- Correspondence:
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14
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Moretta R, De Stefano L, Terracciano M, Rea I. Porous Silicon Optical Devices: Recent Advances in Biosensing Applications. SENSORS (BASEL, SWITZERLAND) 2021; 21:1336. [PMID: 33668616 PMCID: PMC7917735 DOI: 10.3390/s21041336] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/30/2020] [Revised: 01/25/2021] [Accepted: 02/05/2021] [Indexed: 02/07/2023]
Abstract
This review summarizes the leading advancements in porous silicon (PSi) optical-biosensors, achieved over the past five years. The cost-effective fabrication process, the high internal surface area, the tunable pore size, and the photonic properties made the PSi an appealing transducing substrate for biosensing purposes, with applications in different research fields. Different optical PSi biosensors are reviewed and classified into four classes, based on the different biorecognition elements immobilized on the surface of the transducing material. The PL signal modulation and the effective refractive index changes of the porous matrix are the main optical transduction mechanisms discussed herein. The approaches that are commonly employed to chemically stabilize and functionalize the PSi surface are described.
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Affiliation(s)
- Rosalba Moretta
- National Research Council, Institute of Applied Sciences and Intelligent Systems, Unit of Naples, 80131 Naples, Italy; (R.M.); (L.D.S.); (I.R.)
| | - Luca De Stefano
- National Research Council, Institute of Applied Sciences and Intelligent Systems, Unit of Naples, 80131 Naples, Italy; (R.M.); (L.D.S.); (I.R.)
| | - Monica Terracciano
- Department of Pharmacy, University of Naples Federico II, 80131 Naples, Italy
| | - Ilaria Rea
- National Research Council, Institute of Applied Sciences and Intelligent Systems, Unit of Naples, 80131 Naples, Italy; (R.M.); (L.D.S.); (I.R.)
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15
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Shumyantseva VV, Bulko TV, Tikhonova EG, Sanzhakov MA, Kuzikov AV, Masamrekh RA, Pergushov DV, Schacher FH, Sigolaeva LV. Electrochemical studies of the interaction of rifampicin and nanosome/rifampicin with dsDNA. Bioelectrochemistry 2020; 140:107736. [PMID: 33494014 DOI: 10.1016/j.bioelechem.2020.107736] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2020] [Revised: 12/21/2020] [Accepted: 12/23/2020] [Indexed: 12/31/2022]
Abstract
The interactions of dsDNA with rifampicin (RF) or with rifampicin after encapsulation in phospholipid micelles (nanosome/rifampicin) (NRF) were studied electrochemically. Screen-printed electrodes (SPEs) modified by stable dispersions of multi-wolled carbon nanotubes (MWCNTs) in aqueous solution of poly(1,2-butadiene)-block-poly(2-(dimethylamino)ethyl methacrylate) (PB290-b-PDMAEMA240) diblock copolymer were used for quantitative electrochemical investigation of direct electrochemical oxidation of guanine at E = 0.591 V (vs. Ag/AgCl) and adenine at E = 0.874 V (vs. Ag/AgCl) of dsDNA and its change in the presence of RF or NRF. Due to RF or NRF interaction with dsDNA, the differential pulse voltammetry (DPV) peak currents of guanine and adenine decreased and the peak potentials shifted to more positive values with increasing drug concentration (RF or NRF). Binding constants (Kb) of complexes RF-dsDNA and NRF-dsDNA were calculated based on adenine and guanine oxidation signals. The Kb values for RF-dsDNA were 1.48 × 104 M-1/8.56 × 104 M-1, while for NRF-dsDNA were 2.51 × 104 M-1/1.78 × 103 M-1 (based on adenine or guanine oxidation signals, respectively). The values of Kb revealed intercalation mode of interaction with dsDNA for RF and mixed type of interaction (intercalation and electrostatic mode) for NRF. The estimated values of ΔG (Gibbs free energy) of the complex formation confirmed that drug-dsDNA interactions are spontaneous and favourable reactions.
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Affiliation(s)
- Victoria V Shumyantseva
- Institute of Biomedical Chemistry, Pogodinskaya Street 10, 119121 Moscow, Russia; Pirogov Russian National Research Medical University, Ostrovitianov Street 1, 117997 Moscow, Russia; Department of Chemistry, M.V. Lomonosov Moscow State University, Leninskie Gory 1/3, 119991 Moscow, Russia.
| | - Tatiana V Bulko
- Institute of Biomedical Chemistry, Pogodinskaya Street 10, 119121 Moscow, Russia; Department of Chemistry, M.V. Lomonosov Moscow State University, Leninskie Gory 1/3, 119991 Moscow, Russia
| | - Elena G Tikhonova
- Institute of Biomedical Chemistry, Pogodinskaya Street 10, 119121 Moscow, Russia
| | - Maxim A Sanzhakov
- Institute of Biomedical Chemistry, Pogodinskaya Street 10, 119121 Moscow, Russia
| | - Alexey V Kuzikov
- Institute of Biomedical Chemistry, Pogodinskaya Street 10, 119121 Moscow, Russia; Pirogov Russian National Research Medical University, Ostrovitianov Street 1, 117997 Moscow, Russia; Department of Chemistry, M.V. Lomonosov Moscow State University, Leninskie Gory 1/3, 119991 Moscow, Russia
| | - Rami A Masamrekh
- Institute of Biomedical Chemistry, Pogodinskaya Street 10, 119121 Moscow, Russia; Pirogov Russian National Research Medical University, Ostrovitianov Street 1, 117997 Moscow, Russia; Department of Chemistry, M.V. Lomonosov Moscow State University, Leninskie Gory 1/3, 119991 Moscow, Russia
| | - Dmitry V Pergushov
- Department of Chemistry, M.V. Lomonosov Moscow State University, Leninskie Gory 1/3, 119991 Moscow, Russia
| | - Felix H Schacher
- Institute of Organic Chemistry and Macromolecular Chemistry (IOMC), Friedrich-Schiller-University Jena, D-07743 Jena, Germany; Jena Center for Soft Matter (JCSM), Friedrich-Schiller-University Jena, D-07743 Jena, Germany; Center for Energy and Environmental Chemistry (CEEC), Friedrich-Schiller-University Jena, D-07743 Jena, Germany
| | - Larisa V Sigolaeva
- Institute of Biomedical Chemistry, Pogodinskaya Street 10, 119121 Moscow, Russia; Department of Chemistry, M.V. Lomonosov Moscow State University, Leninskie Gory 1/3, 119991 Moscow, Russia
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16
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Janiszek D, Karpińska MM, Niewiadomy A, Kośmider A, Girstun A, Elzanowska H, Kulesza PJ. Differences in electrochemical response of prospective anticancer drugs IPBD and Cl-IPBD, doxorubicin and Vitamin C at plasmid modified glassy carbon. Bioelectrochemistry 2020; 137:107682. [PMID: 33160181 DOI: 10.1016/j.bioelechem.2020.107682] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2020] [Revised: 09/23/2020] [Accepted: 09/26/2020] [Indexed: 12/13/2022]
Abstract
For the comparison of the DNA interactions with drugs, two newly synthesized prospective anticancer drugs, 6-(1H-imidazo[4,5-b]phenasine-2-yl)benzene-1,3-diol (IPBD) and, its -Cl derivative (Cl-IPBD) have been compared with doxorubicin, a drug widely used in medicine, and with Vitamin C. These compounds were accumulated at a supercoiled scpUC19 plasmid layer formed on a glassy carbon electrode (GCE). Stability of the drug-plasmid/GCE layer was achieved by initial plasmid accumulation using prolonged potential cycling for ca. 200 min. from highly diluted scpUC19 solutions (8 pg/mL), followed by accumulation of the drugs from 1 µM - 50 µM. Electrochemical properties in terms of the redox potentials of the compounds and capacitative/resistive characteristics of the layers have been tested using, in sequence, four voltammetric methods: Square Wave (SWV), Differential Pulse (DPV) and Alternating Current (ACV) with phase detection 0° and 90°. Importantly, with progressive drug accumulation in the plasmid, for Cl-IPBD, but not for IPBD, an increase in peak (I) at -0.42 V vs. SCE was observed, while biological tests revealed a higher cytotoxic activity for Cl-IPBD vs. IPBD. Moreover, an additional redox signal of Cl-IPBD was observed with the compound reductive accumulation at the plasmid layer in the presence of Vitamin C.
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Affiliation(s)
- Dominika Janiszek
- University of Warsaw, Faculty of Chemistry, Pasteura 1, 02-093 Warsaw, Poland
| | - Monika M Karpińska
- Łukasiewicz Research Network - Institute of Industrial Organic Chemistry, Annopol 6, 03-236 Warsaw, Poland
| | - Andrzej Niewiadomy
- Łukasiewicz Research Network - Institute of Industrial Organic Chemistry, Annopol 6, 03-236 Warsaw, Poland
| | - Anita Kośmider
- Maria Skłodowska-Curie Institute-Oncology Centre, Department of Genetics, Roentgena 5, 02-781 Warsaw, Poland
| | - Agnieszka Girstun
- University of Warsaw, Faculty of Biology, Miecznikowa 1, 02-096 Warsaw, Poland
| | - Hanna Elzanowska
- University of Warsaw, Faculty of Chemistry, Pasteura 1, 02-093 Warsaw, Poland.
| | - Pawel J Kulesza
- University of Warsaw, Faculty of Chemistry, Pasteura 1, 02-093 Warsaw, Poland.
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17
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Bakirhan NK, Topal BD, Ozcelikay G, Karadurmus L, Ozkan SA. Current Advances in Electrochemical Biosensors and Nanobiosensors. Crit Rev Anal Chem 2020; 52:519-534. [DOI: 10.1080/10408347.2020.1809339] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Nurgul K. Bakirhan
- Department of Analytical Chemistry, Gulhane Faculty of Pharmacy, University of Health Sciences, Ankara, Turkey
| | - Burcu D. Topal
- Department of Analytical Chemistry, Faculty of Pharmacy, Ankara University, Ankara, Turkey
| | - Goksu Ozcelikay
- Department of Analytical Chemistry, Faculty of Pharmacy, Ankara University, Ankara, Turkey
| | - Leyla Karadurmus
- Department of Analytical Chemistry, Faculty of Pharmacy, Ankara University, Ankara, Turkey
- Department of Analytical Chemistry, Faculty of Pharmacy, Adıyaman University, Adıyaman, Turkey
| | - Sibel A. Ozkan
- Department of Analytical Chemistry, Faculty of Pharmacy, Ankara University, Ankara, Turkey
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18
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Kurbanoglu S, Erkmen C, Uslu B. Frontiers in electrochemical enzyme based biosensors for food and drug analysis. Trends Analyt Chem 2020. [DOI: 10.1016/j.trac.2020.115809] [Citation(s) in RCA: 28] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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19
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Şenel P, Agar S, Sayin VO, Altay F, Yurtsever M, Gölcü A. Elucidation of binding interactions and mechanism of Fludarabine with dsDNA via multispectroscopic and molecular docking studies. J Pharm Biomed Anal 2020; 179:112994. [DOI: 10.1016/j.jpba.2019.112994] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2019] [Revised: 11/14/2019] [Accepted: 11/15/2019] [Indexed: 02/03/2023]
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20
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Malpartida-Cardenas K, Miscourides N, Rodriguez-Manzano J, Yu LS, Moser N, Baum J, Georgiou P. Quantitative and rapid Plasmodium falciparum malaria diagnosis and artemisinin-resistance detection using a CMOS Lab-on-Chip platform. Biosens Bioelectron 2019; 145:111678. [PMID: 31541787 PMCID: PMC7224984 DOI: 10.1016/j.bios.2019.111678] [Citation(s) in RCA: 49] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2019] [Revised: 08/01/2019] [Accepted: 09/04/2019] [Indexed: 12/16/2022]
Abstract
Early and accurate diagnosis of malaria and drug-resistance is essential to effective disease management. Available rapid malaria diagnostic tests present limitations in analytical sensitivity, drug-resistance testing and/or quantification. Conversely, diagnostic methods based on nucleic acid amplification stepped forwards owing to their high sensitivity, specificity and robustness. Nevertheless, these methods commonly rely on optical measurements and complex instrumentation which limit their applicability in resource-poor, point-of-care settings. This paper reports the specific, quantitative and fully-electronic detection of Plasmodium falciparum, the predominant malaria-causing parasite worldwide, using a Lab-on-Chip platform developed in-house. Furthermore, we demonstrate on-chip detection of C580Y, the most prevalent single-nucleotide polymorphism associated to artemisinin-resistant malaria. Real-time non-optical DNA sensing is facilitated using Ion-Sensitive Field-Effect Transistors, fabricated in unmodified complementary metal-oxide-semiconductor (CMOS) technology, coupled with loop-mediated isothermal amplification. This work holds significant potential for the development of a fully portable and quantitative malaria diagnostic that can be used as a rapid point-of-care test.
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Affiliation(s)
- Kenny Malpartida-Cardenas
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Imperial College London, UK
| | - Nicholas Miscourides
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Imperial College London, UK
| | - Jesus Rodriguez-Manzano
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Imperial College London, UK.
| | - Ling-Shan Yu
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Imperial College London, UK
| | - Nicolas Moser
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Imperial College London, UK
| | - Jake Baum
- Department of Life Sciences, Imperial College London, UK
| | - Pantelis Georgiou
- Centre for Bio-Inspired Technology, Department of Electrical and Electronic Engineering, Imperial College London, UK
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21
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Electrochemical behaviour of anticancer drug lomustine and in situ evaluation of its interaction with DNA. J Pharm Biomed Anal 2019; 176:112786. [DOI: 10.1016/j.jpba.2019.112786] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2019] [Revised: 07/17/2019] [Accepted: 07/23/2019] [Indexed: 11/18/2022]
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22
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De la Cruz Morales K, Alarcón‐Angeles G, Merkoçi A. Nanomaterial‐based Sensors for the Study of DNA Interaction with Drugs. ELECTROANAL 2019. [DOI: 10.1002/elan.201900286] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- K. De la Cruz Morales
- Universidad Autónoma Metropolitana-XochimilcoDepartamento de Sistemas Biológicos C.P. 04960 México City
| | - G. Alarcón‐Angeles
- Universidad Autónoma Metropolitana-XochimilcoDepartamento de Sistemas Biológicos C.P. 04960 México City
| | - A. Merkoçi
- Catalan Institute of Nanoscience and Nanotechnology (ICN2), CSIC and BIST Campus UAB, Bellaterra 08193 Barcelona Spain
- ICREA – Catalan Institution for Research and Advanced Studies Barcelona 08010 Spain
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23
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Svitková V, Labuda J, Vyskočil V. Batch Injection Analysis with Amperometric Detection for DNA Biosensing Applications. ELECTROANAL 2019. [DOI: 10.1002/elan.201900279] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Veronika Svitková
- Institute of Analytical Chemistry, Faculty of Chemical and Food TechnologySlovak University of Technology in Bratislava Radlinského 9 81237 Bratislava Slovakia
| | - Ján Labuda
- Institute of Analytical Chemistry, Faculty of Chemical and Food TechnologySlovak University of Technology in Bratislava Radlinského 9 81237 Bratislava Slovakia
| | - Vlastimil Vyskočil
- UNESCO Laboratory of Environmental Electrochemistry, Department of Analytical Chemistry, Faculty of ScienceCharles University Hlavova 8 12843 Prague 2 Czech Republic
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24
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Cesme M, Polat D, Senel P, Golcu A. Anodic Voltammetric Determination of an Atypical Antipsychotic Drug Amisulphide in Pharmaceutical Dosage Forms Using Electrochemical fsDNA Biosensor. RUSS J ELECTROCHEM+ 2019. [DOI: 10.1134/s1023193519030042] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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25
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Shahzad S, Dogan-Topal B, Karadurmus L, Caglayan MG, Taskin Tok T, Uslu B, Shah A, Ozkan SA. Electrochemical, spectroscopic and molecular docking studies on the interaction of calcium channel blockers with dsDNA. Bioelectrochemistry 2019; 127:12-20. [DOI: 10.1016/j.bioelechem.2018.12.007] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2018] [Revised: 12/17/2018] [Accepted: 12/18/2018] [Indexed: 12/19/2022]
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26
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Wang X, Yang M, Liu Q, Yang S, Geng X, Yang Y, Fa H, Wang Y, Hou C. An Ultrasensitive Electrochemical DNA Biosensor Based on Carboxylated Multi-walled Carbon Nanotube/Molybdenum Disulfide Composites for KRAS Gene Detection. ANAL SCI 2018; 35:441-448. [PMID: 30606912 DOI: 10.2116/analsci.18p518] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
In this paper, an ultrasensitive electrochemical biosensor based on carboxylated multi-walled carbon nanotube/molybdenum disulfide composites (MWCNTs-COOH/MoS2) for the detection of KRAS gene is described. An easy, low-cost method, named one-step hydrothermal, was used for the synthesize of MWCNTs-COOH/MoS2 nanocomposites, and scanning electronic microscopy (SEM), high resolution transmission electron microscopy (HRTEM), Fourier transform infrared spectroscopy (FT-IR), X-ray photoelectron spectroscopy (XPS) and X-ray diffraction (XRD) were used for characterizing the prepared composites. Furthermore, cyclic voltammetry (CV) and differential pulse voltammetry (DPV) were employed for an electrochemical performance study of this biosensor. Under optimal conditions, the detection limit of target DNA achieved down to 3 fM (S/N = 3) with high sensitivity; the linear range with the logarithm of the concentrations of target DNA varied from 1.0 × 10-14 to 1.0 × 10-7 M. Finally, the practicality of our proposed sensor was verified by a determination of the KRAS gene in human serum samples with good accuracy and high precision due to the excellent conductivity and large active surface area of the MWCNTs-COOH/MoS2 nanocomposites. This proposed biosensor thus provides a practical method for the rapid and sensitive analysis of gene detection.
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Affiliation(s)
- Xiaojing Wang
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University
| | - Mei Yang
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University
| | - Qingyan Liu
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University
| | - Siyi Yang
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University
| | - Xintong Geng
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University
| | - Yixia Yang
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University
| | - Huanbao Fa
- College of Chemistry and Chemical Engineering, Chongqing University
| | - Yongzhong Wang
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University
| | - Changjun Hou
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University
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27
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Nemčeková K, Labuda J, Milata V, Blaškovičová J, Sochr J. Interaction of DNA and mononucleotides with theophylline investigated using electrochemical biosensors and biosensing. Bioelectrochemistry 2018; 123:182-189. [DOI: 10.1016/j.bioelechem.2018.05.004] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2018] [Revised: 05/02/2018] [Accepted: 05/02/2018] [Indexed: 11/26/2022]
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28
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Kulikova TN, Porfireva AV, Shamagsumova RV, Evtugyn GA. Voltammetric Sensor with Replaceable Polyaniline-DNA Layer for Doxorubicin Determination. ELECTROANAL 2018. [DOI: 10.1002/elan.201800331] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Affiliation(s)
- T. N. Kulikova
- Analytical Chemistry Department of Kazan Federal University; Kremlevskaya, 18 420008 Kazan Russian Federation
| | - A. V. Porfireva
- Analytical Chemistry Department of Kazan Federal University; Kremlevskaya, 18 420008 Kazan Russian Federation
| | - R. V. Shamagsumova
- Analytical Chemistry Department of Kazan Federal University; Kremlevskaya, 18 420008 Kazan Russian Federation
| | - G. A. Evtugyn
- Analytical Chemistry Department of Kazan Federal University; Kremlevskaya, 18 420008 Kazan Russian Federation
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29
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Svitková V, Hanzelyová M, Macková H, Blaškovičová J, Vyskočil V, Farkašová D, Labuda J. Behaviour and detection of acridine-type DNA intercalators in urine using an electrochemical DNA-based biosensor with the protective polyvinyl alcohol membrane. J Electroanal Chem (Lausanne) 2018. [DOI: 10.1016/j.jelechem.2017.11.028] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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30
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Seifati SM, Nasirizadeh N, Azimzadeh M. Nano-biosensor based on reduced graphene oxide and gold nanoparticles, for detection of phenylketonuria-associated DNA mutation. IET Nanobiotechnol 2018; 12:417-422. [PMID: 29768223 PMCID: PMC8676255 DOI: 10.1049/iet-nbt.2017.0128] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2017] [Revised: 11/28/2017] [Accepted: 12/05/2017] [Indexed: 11/09/2023] Open
Abstract
Phenylketonuria (PKU)-associated DNA mutation in newborn children can be harmful to his health and early detection is the best way to inhibit consequences. A novel electrochemical nano-biosensor was developed for PKU detection, based on signal amplification using nanomaterials, e.g. gold nanoparticles (AuNPs) decorated on the reduced graphene oxide sheet on the screen-printed carbon electrode. The fabrication steps were checked by field emission scanning electron microscope imaging as well as cyclic voltammetry analysis. The specific alkanethiol single-stranded DNA probes were attached by self-assembly methodology on the AuNPs surface and Oracet blue was used as an intercalating electrochemical label. The results showed the detection limit of 21.3 fM and the dynamic range of 80-1200 fM. Moreover, the selectivity results represented a great specificity of the nano-biosensor for its specific target DNA oligo versus other non-specific sequences. The real sample simulation was performed successfully with almost no difference than a synthetic buffer solution environment.
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Affiliation(s)
- Seyed Morteza Seifati
- Medical Biotechnology Research Center, Ashkezar Branch, Islamic Azad University, 8941673155 Ashkezar, Yazd, Iran.
| | - Navid Nasirizadeh
- Department of Textile and Polymer Engineering, Yazd Branch, Islamic Azad University, 8916871967 Yazd, Iran
| | - Mostafa Azimzadeh
- Department of Advanced Medical Sciences and Technologies, School of Paramedicine, Shahid Sadoughi University of Medical Sciences, 8916188635 Yazd, Iran
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31
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Niu X, Zheng W, Yin C, Weng W, Li G, Sun W, Men Y. Electrochemical DNA biosensor based on gold nanoparticles and partially reduced graphene oxide modified electrode for the detection of Listeria monocytogenes hly gene sequence. J Electroanal Chem (Lausanne) 2017. [DOI: 10.1016/j.jelechem.2017.10.049] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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32
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Construction of electrochemical DNA biosensors for investigation of potential risk chemical and physical agents. MONATSHEFTE FUR CHEMIE 2017. [DOI: 10.1007/s00706-017-2012-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Efficient Fluorescence Resonance Energy Transfer between Quantum Dots and Gold Nanoparticles Based on Porous Silicon Photonic Crystal for DNA Detection. SENSORS 2017; 17:s17051078. [PMID: 28489033 PMCID: PMC5470468 DOI: 10.3390/s17051078] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/04/2017] [Revised: 04/27/2017] [Accepted: 05/06/2017] [Indexed: 11/16/2022]
Abstract
A novel assembled biosensor was prepared for detecting 16S rRNA, a small-size persistent specific for Actinobacteria. The mechanism of the porous silicon (PS) photonic crystal biosensor is based on the fluorescence resonance energy transfer (FRET) between quantum dots (QDs) and gold nanoparticles (AuNPs) through DNA hybridization, where QDs act as an emission donor and AuNPs serve as a fluorescence quencher. Results showed that the photoluminescence (PL) intensity of PS photonic crystal was drastically increased when the QDs-conjugated probe DNA was adhered to the PS layer by surface modification using a standard cross-link chemistry method. The PL intensity of QDs was decreased when the addition of AuNPs-conjugated complementary 16S rRNA was dropped onto QDs-conjugated PS. Based on the analysis of different target DNA concentration, it was found that the decrease of the PL intensity showed a good linear relationship with complementary DNA concentration in a range from 0.25 to 10 μM, and the detection limit was 328.7 nM. Such an optical FRET biosensor functions on PS-based photonic crystal for DNA detection that differs from the traditional FRET, which is used only in liquid. This method will benefit the development of a new optical FRET label-free biosensor on Si substrate and has great potential in biochips based on integrated optical devices.
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Characterization of paraben substituted cyclotriphosphazenes, and a DNA interaction study with a real-time electrochemical profiling based biosensor. Mikrochim Acta 2017. [DOI: 10.1007/s00604-017-2162-y] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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