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Ibrahim N, Gan KB, Mohd Yusof NY, Goh CT, Krupa B N, Tan LL. Electrochemical genosensor based on RNA-responsive human telomeric G-quadruplex DNA: A proof-of-concept with SARS-CoV-2 RNA. Talanta 2024; 274:125916. [PMID: 38547835 DOI: 10.1016/j.talanta.2024.125916] [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: 09/10/2023] [Revised: 01/07/2024] [Accepted: 03/11/2024] [Indexed: 05/04/2024]
Abstract
In this report, a facile and label-free electrochemical RNA biosensor is developed by exploiting methylene blue (MB) as an electroactive positive ligand of G-quadruplex. The electrochemical response mechanism of the nucleic acid assay was based on the change in differential pulse voltammetry (DPV) signal of adsorbed MB on the immobilized human telomeric G-quadruplex DNA with a loop that is complementary to the target RNA. Hybridization between synthetic positive control RNA and G-quadruplex DNA probe on the transducer platform rendered a conformational change of G-quadruplex to double-stranded DNA (dsDNA), and increased the redox current of cationic MB π planar ligand at the sensing interface, thereby the electrochemical signal of the MB-adsorbed duplex is proportional to the concentration of target RNA, with SARS-CoV-2 (COVID-19) RNA as the model. Under optimal conditions, the target RNA can be detected in a linear range from 1 zM to 1 μM with a limit of detection (LOD) obtained at 0.59 zM for synthetic target RNA and as low as 1.4 copy number for positive control plasmid. This genosensor exhibited high selectivity towards SARS-CoV-2 RNA over other RNA nucleotides, such as SARS-CoV and MERS-CoV. The electrochemical RNA biosensor showed DPV signal, which was proportional to the 2019-nCoV_N_positive control plasmid from 2 to 200000 copies (R2 = 0.978). A good correlation between the genosensor and qRT-PCR gold standard was attained for the detection of SARS-CoV-2 RNA in terms of viral copy number in clinical samples from upper respiratory specimens.
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Affiliation(s)
- Nadiah Ibrahim
- Southeast Asia Disaster Prevention Research Initiative (SEADPRI), Institute for Environment and Development (LESTARI), Universiti Kebangsaan Malaysia, 43600, UKM Bangi, Selangor Darul Ehsan, Malaysia.
| | - Kok Beng Gan
- Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, UKM Bangi, Selangor Darul Ehsan, Malaysia.
| | - Nurul Yuziana Mohd Yusof
- Department of Earth Sciences and Environment, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600, UKM Bangi, Selangor Darul Ehsan, Malaysia.
| | - Choo Ta Goh
- Southeast Asia Disaster Prevention Research Initiative (SEADPRI), Institute for Environment and Development (LESTARI), Universiti Kebangsaan Malaysia, 43600, UKM Bangi, Selangor Darul Ehsan, Malaysia.
| | - Niranjana Krupa B
- Department of Electronics and Communication Engineering, PES University, Bengaluru-85, Karnataka, India.
| | - Ling Ling Tan
- Southeast Asia Disaster Prevention Research Initiative (SEADPRI), Institute for Environment and Development (LESTARI), Universiti Kebangsaan Malaysia, 43600, UKM Bangi, Selangor Darul Ehsan, Malaysia.
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Huynh TMT, Tahara K, De Feyter S, Phan TH. On the role of functional groups in the formation of diazonium based covalent attachments: dendritic vs. layer-by-layer growth. RSC Adv 2023; 13:24576-24582. [PMID: 37593664 PMCID: PMC10427895 DOI: 10.1039/d3ra02661b] [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: 04/21/2023] [Accepted: 08/04/2023] [Indexed: 08/19/2023] Open
Abstract
Multilayered growth is often observed upon electrografting aryl diazonium derivatives on graphitic substrates due to the reactive nature of aryl radicals. The mechanism of the multilayer formation has been investigated either by measuring the thickness of the grafted layer, the charge transfer, or via simulations. Spectroscopy and in particular microscopy approaches are underrepresented. Herein, we demonstrate a comparative characterization of the multilayer growth of two diazonium derivatives on highly oriented pyrolytic graphite using a combination of cyclic voltammetry, atomic force microscopy, and scanning tunneling microscopy. While dendritic growth is observed for 4-nitro phenyl diazonium (4-NBD), 4-carboxy phenyl diazonium (4-CBD) shows layer-by-layer growth upon increasing the molecular concentration, revealing the impact of the functional groups on the growth mechanism.
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Affiliation(s)
- Thi Mien Trung Huynh
- Department of Chemistry, Faculty of Natural Sciences, Quy Nhon University 170 An Duong Vuong Quy Nhon Vietnam
| | - Kazukuni Tahara
- Department of Applied Chemistry, School of Science and Technology, Meiji University 1-1-1 Higashimita, Tamaku Kawasaki Kanagawa 214-8571 Japan
| | - Steven De Feyter
- Division of Molecular Imaging and Photonics, Department of Chemistry, KU Leuven Celestijnenlaan 200F Leuven B-3001 Belgium
| | - Thanh Hai Phan
- Department of Physics and Materials Science, Faculty of Natural Sciences, Quy Nhon University 170 An Duong Vuong Quy Nhon Vietnam
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Zakaria ND, Hamzah HH, Salih IL, Balakrishnan V, Abdul Razak K. A Review of Detection Methods for Vancomycin-Resistant Enterococci (VRE) Genes: From Conventional Approaches to Potentially Electrochemical DNA Biosensors. BIOSENSORS 2023; 13:294. [PMID: 36832060 PMCID: PMC9954664 DOI: 10.3390/bios13020294] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/11/2022] [Revised: 01/24/2023] [Accepted: 01/29/2023] [Indexed: 06/18/2023]
Abstract
Vancomycin-resistant Enterococci (VRE) genes are bacteria strains generated from Gram-positive bacteria and resistant to one of the glycopeptides antibiotics, commonly, vancomycin. VRE genes have been identified worldwide and exhibit considerable phenotypic and genotypic variations. There are six identified phenotypes of vancomycin-resistant genes: VanA, VanB, VanC, VanD, VanE, and VanG. The VanA and VanB strains are often found in the clinical laboratory because they are very resistant to vancomycin. VanA bacteria can pose significant issues for hospitalized patients due to their ability to spread to other Gram-positive infections, which changes their genetic material to increase their resistance to the antibiotics used during treatment. This review summarizes the established methods for detecting VRE strains utilizing traditional, immunoassay, and molecular approaches and then focuses on potential electrochemical DNA biosensors to be developed. However, from the literature search, no information was reported on developing electrochemical biosensors for detecting VRE genes; only the electrochemical detection of vancomycin-susceptible bacteria was reported. Thus, strategies to create robust, selective, and miniaturized electrochemical DNA biosensor platforms to detect VRE genes are also discussed.
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Affiliation(s)
- Nor Dyana Zakaria
- Nanobiotechnology Research and Innovation (NanoBRI), Institute for Research in Molecular Medicine, Universiti Sains Malaysia, Gelugor 11800, Penang, Malaysia
| | - Hairul Hisham Hamzah
- School of Chemical Sciences, Universiti Sains Malaysia, Gelugor 11800, Penang, Malaysia
| | - Ibrahim Luqman Salih
- School of Chemical Sciences, Universiti Sains Malaysia, Gelugor 11800, Penang, Malaysia
| | - Venugopal Balakrishnan
- Nanobiotechnology Research and Innovation (NanoBRI), Institute for Research in Molecular Medicine, Universiti Sains Malaysia, Gelugor 11800, Penang, Malaysia
| | - Khairunisak Abdul Razak
- Nanobiotechnology Research and Innovation (NanoBRI), Institute for Research in Molecular Medicine, Universiti Sains Malaysia, Gelugor 11800, Penang, Malaysia
- School of Materials and Mineral Resources Engineering, Universiti Sains Malaysia, Nibong Tebal 14300, Penang, Malaysia
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Yunus MH, Yusof NA, Abdullah J, Sulaiman Y, Ahmad Raston NH, Md Noor SS. Simultaneous Amperometric Aptasensor Based on Diazonium Grafted Screen-Printed Carbon Electrode for Detection of CFP10 and MPT64 Biomarkers for Early Tuberculosis Diagnosis. BIOSENSORS 2022; 12:bios12110996. [PMID: 36354505 PMCID: PMC9688523 DOI: 10.3390/bios12110996] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2022] [Revised: 11/03/2022] [Accepted: 11/08/2022] [Indexed: 06/02/2023]
Abstract
Early diagnosis is highly crucial for life-saving and transmission management of tuberculosis (TB). Despite the low sensitivity and time-consuming issues, TB antigen detection still relies on conventional smear microscopy and culture techniques. To address this limitation, we report the development of the first amperometric dual aptasensor for the simultaneous detection of Mycobacterium tuberculosis secreted antigens CFP10 and MPT64 for better diagnosis and control of TB. The developed sensor was based on the aptamers-antibodies sandwich assay and detected by chronoamperometry through the electrocatalytic reaction between peroxidase-conjugated antibodies, H2O2, and hydroquinone. The CFP10 and MPT64 aptamers were immobilized via carbodiimide covalent chemistry over the disposable dual screen-printed carbon electrodes modified with a 4-carboxyphenyl diazonium salt. Under optimized conditions, the aptasensor achieved a detection limit of 1.68 ng mL-1 and 1.82 ng mL-1 for CFP10 and MPT64 antigens, respectively. The developed assay requires a small sample amount (5 µL) and can be easily performed within 2.5 h. Finally, the dual aptasensor was successfully applied to clinical sputum samples with the obtained diagnostic sensitivity (n = 24) and specificity (n = 13) of 100%, respectively, suggesting the readiness of the developed assay to be used for TB clinical application.
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Affiliation(s)
- Muhammad Hafiznur Yunus
- Institute for Research in Molecular Medicine (INFORMM), Universiti Sains Malaysia, Gelugor 11800, Pulau Pinang, Malaysia
- Institute of Nanoscience and Nanotechnology (ION2), Universiti Putra Malaysia, Serdang 43400, Selangor, Malaysia
| | - Nor Azah Yusof
- Institute of Nanoscience and Nanotechnology (ION2), Universiti Putra Malaysia, Serdang 43400, Selangor, Malaysia
- Department of Chemistry, Faculty of Science, Universiti Putra Malaysia, Serdang 43400, Selangor, Malaysia
| | - Jaafar Abdullah
- Institute of Nanoscience and Nanotechnology (ION2), Universiti Putra Malaysia, Serdang 43400, Selangor, Malaysia
- Department of Chemistry, Faculty of Science, Universiti Putra Malaysia, Serdang 43400, Selangor, Malaysia
| | - Yusran Sulaiman
- Institute of Nanoscience and Nanotechnology (ION2), Universiti Putra Malaysia, Serdang 43400, Selangor, Malaysia
- Department of Chemistry, Faculty of Science, Universiti Putra Malaysia, Serdang 43400, Selangor, Malaysia
| | - Nurul Hanun Ahmad Raston
- School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, Bangi 43600, Selangor, Malaysia
| | - Siti Suraiya Md Noor
- School of Medical Sciences, Universiti Sains Malaysia, Kubang Kerian 16150, Kelantan, Malaysia
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Chiticaru EA, Pilan L, Ioniţă M. Electrochemical Detection Platform Based on RGO Functionalized with Diazonium Salt for DNA Hybridization. BIOSENSORS 2022; 12:39. [PMID: 35049667 PMCID: PMC8773470 DOI: 10.3390/bios12010039] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/07/2021] [Revised: 12/31/2021] [Accepted: 01/10/2022] [Indexed: 06/14/2023]
Abstract
In this paper, we propose an improved electrochemical platform based on graphene for the detection of DNA hybridization. Commercial screen-printed carbon electrodes (SPCEs) were used for this purpose due to their ease of functionalization and miniaturization opportunities. SPCEs were modified with reduced graphene oxide (RGO), offering a suitable surface for further functionalization. Therefore, aryl-carboxyl groups were integrated onto RGO-modified electrodes by electrochemical reduction of the corresponding diazonium salt to provide enough reaction sites for the covalent immobilization of amino-modified DNA probes. Our final goal was to determine the optimum conditions needed to fabricate a simple, label-free RGO-based electrochemical platform to detect the hybridization between two complementary single-stranded DNA molecules. Each modification step in the fabrication process was monitored by cyclic voltammetry (CV) and electrochemical impedance spectroscopy (EIS) using [Fe(CN)6]3-/4- as a redox reporter. Although, the diazonium electrografted layer displayed the expected blocking effect of the charge transfer, the next steps in the modification procedure resulted in enhanced electron transfer properties of the electrode interface. We suggest that the improvement in the charge transfer after the DNA hybridization process could be exploited as a prospective sensing feature. The morphological and structural characterization of the modified electrodes performed by scanning electron microscopy (SEM) and Raman spectroscopy, respectively, were used to validate different modification steps in the platform fabrication process.
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Affiliation(s)
- Elena A. Chiticaru
- Faculty of Medical Engineering, University Politehnica of Bucharest, Gh Polizu 1-7, 011061 Bucharest, Romania;
| | - Luisa Pilan
- Department of Inorganic Chemistry, Physical Chemistry and Electrochemistry, University Politehnica of Bucharest, Gh Polizu 1-7, 011061 Bucharest, Romania
| | - Mariana Ioniţă
- Faculty of Medical Engineering, University Politehnica of Bucharest, Gh Polizu 1-7, 011061 Bucharest, Romania;
- Advanced Polymer Materials Group, University Politehnica of Bucharest, Gh Polizu 1-7, 011061 Bucharest, Romania
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