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Bhartiya PK, Suryansh, Bangruwa N, Srivastava M, Mishra D. Light-Amplified CISS-Based Hybrid QD-DNA Impedimetric Device for DNA Hybridization Detection. Anal Chem 2023; 95:3656-3665. [PMID: 36749750 DOI: 10.1021/acs.analchem.2c04608] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
We design and build a novel light-amplified electrochemical impedimetric device based on the CISS effect to detect DNA hybridization using a hybrid quantum dot (QD)-DNA monolayer on a ferromagnetic (FM) Ni/Au thin film for the first time. Using spin as a detection tool, the current research considers the chiral-induced spin selectivity (CISS) phenomenon. After injecting a spin current into the QD-DNA system with opposite polarities (up and down), the impedimetric device revealed a large differential change in the charge-transfer resistance (ΔRct) of ∼100 ohms for both spins. Nearly, a threefold increase in the ΔRct value to ∼270 ohms is observed when light with a wavelength of 532 nm is illuminated on the sample, owing to the amplified CISS effect. The yield of spin polarization as extracted from the Nyquist plot increases by a factor of more than 2 when exposed to light, going from 6% in the dark to 13% in the light. The impact of light on the CISS effect was further corroborated by the observation of the spin-dependent asymmetric quenching of photoluminescence (PL) in the same hybrid system. These observations are absent in the case of a noncomplementary QD-DNA system due to the absence of a helical structure in DNA. Based on this, we develop a spin-based DNA hybridization sensor and achieve a limit of detection of 10 fM. These findings open a practical path for the development of spin-based next-generation impedimetric DNA sensors and point-of-care devices.
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Affiliation(s)
- Prashant K Bhartiya
- Department of Physics & Astrophysics, University of Delhi, New Delhi 110007, India
| | - Suryansh
- Department of Physics & Astrophysics, University of Delhi, New Delhi 110007, India
| | - Neeraj Bangruwa
- Department of Physics & Astrophysics, University of Delhi, New Delhi 110007, India
| | - Manish Srivastava
- Department of Chemical Engineering and Technology, Indian Institute of Technology, (BHU), Varanasi 221005, India
| | - Debabrata Mishra
- Department of Physics & Astrophysics, University of Delhi, New Delhi 110007, India
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2
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Hashem A, Hossain MAM, Marlinda AR, Mamun MA, Simarani K, Johan MR. Rapid and sensitive detection of box turtles using an electrochemical DNA biosensor based on a gold/graphene nanocomposite. BEILSTEIN JOURNAL OF NANOTECHNOLOGY 2022; 13:1458-1472. [PMID: 36570614 PMCID: PMC9749552 DOI: 10.3762/bjnano.13.120] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/05/2022] [Accepted: 11/16/2022] [Indexed: 06/17/2023]
Abstract
The Southeast Asian box turtle, Cuora amboinensis, is an ecologically important endangered species which needs an onsite monitoring device to protect it from extinction. An electrochemical DNA biosensor was developed to detect the C. amboinensis mitochondrial cytochrome b gene based on an in silico designed probe using bioinformatics tools, and it was also validated in wet-lab experiments. As a detection platform, a screen-printed carbon electrode (SPCE) enhanced with a nanocomposite containing gold nanoparticles and graphene was used. The morphology of the nanoparticles was analysed by field-emission scanning electron microscopy and structural characteristics were analysed by using energy-dispersive X-ray, UV-vis, and Fourier-transform infrared spectroscopy. The electrochemical characteristics of the modified electrodes were studied by cyclic voltammetry, differential pulse voltammetry (DPV), and electrochemical impedance spectroscopy. The thiol-modified synthetic DNA probe was immobilised on modified SPCEs to facilitate hybridisation with the reverse complementary DNA. The turtle DNA was distinguished based on hybridisation-induced electrochemical change in the presence of methylene blue compared to their mismatches, noncomplementary, and nontarget species DNA measured by DPV. The developed biosensor exhibited a selective response towards reverse complementary DNAs and was able to discriminate turtles from other species. The modified electrode displayed good linearity for reverse complementary DNAs in the range of 1 × 10-11-5 × 10-6 M with a limit of detection of 0.85 × 10-12 M. This indicates that the proposed biosensor has the potential to be applied for the detection of real turtle species.
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Affiliation(s)
- Abu Hashem
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
- Microbial Biotechnology Division, National Institute of Biotechnology, Ganakbari, Ashulia, Savar, Dhaka-1349, Bangladesh
| | - M A Motalib Hossain
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
| | - Ab Rahman Marlinda
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
| | - Mohammad Al Mamun
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
- Department of Chemistry, Jagannath University, Dhaka-1100, Bangladesh
| | - Khanom Simarani
- Department of Microbiology, Institute of Biological Sciences, Faculty of Sciences, University of Malaya, 50603, Kuala Lumpur, Malaysia
| | - Mohd Rafie Johan
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, 50603, Kuala Lumpur, Malaysia
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3
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Nasrollahpour H, Khalilzadeh B, Hasanzadeh M, Rahbarghazi R, Estrela P, Naseri A, Tasoglu S, Sillanpää M. Nanotechnology‐based electrochemical biosensors for monitoring breast cancer biomarkers. Med Res Rev 2022; 43:464-569. [PMID: 36464910 DOI: 10.1002/med.21931] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2022] [Revised: 10/01/2022] [Accepted: 11/04/2022] [Indexed: 12/07/2022]
Abstract
Breast cancer is categorized as the most widespread cancer type among women globally. On-time diagnosis can decrease the mortality rate by making the right decision in the therapy procedure. These features lead to a reduction in medication time and socioeconomic burden. The current review article provides a comprehensive assessment for breast cancer diagnosis using nanomaterials and related technologies. Growing use of the nano/biotechnology domain in terms of electrochemical nanobiosensor designing was discussed in detail. In this regard, recent advances in nanomaterial applied for amplified biosensing methodologies were assessed for breast cancer diagnosis by focusing on the advantages and disadvantages of these approaches. We also monitored designing methods, advantages, and the necessity of suitable (nano) materials from a statistical standpoint. The main objective of this review is to classify the applicable biosensors based on breast cancer biomarkers. With numerous nano-sized platforms published for breast cancer diagnosis, this review tried to collect the most suitable methodologies for detecting biomarkers and certain breast cancer cell types.
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Affiliation(s)
- Hassan Nasrollahpour
- Department of Analytical Chemistry, Faculty of Chemistry University of Tabriz Tabriz Iran
| | - Balal Khalilzadeh
- Stem Cell Research Center Tabriz University of Medical Sciences Tabriz Iran
| | - Mohammad Hasanzadeh
- Pharmaceutical Analysis Research Center Tabriz University of Medical Sciences Tabriz Iran
| | - Reza Rahbarghazi
- Stem Cell Research Center Tabriz University of Medical Sciences Tabriz Iran
- Department of Applied Cellular Sciences, Faculty of Advanced Medical Sciences Tabriz University of Medical Sciences Tabriz Iran
| | - Pedro Estrela
- Centre for Biosensors, Bioelectronics and Biodevices (C3Bio) and Department of Electronic and Electrical Engineering University of Bath Bath UK
| | - Abdolhossein Naseri
- Department of Analytical Chemistry, Faculty of Chemistry University of Tabriz Tabriz Iran
| | - Savas Tasoglu
- Koç University Translational Medicine Research Center (KUTTAM) Rumeli Feneri, Sarıyer Istanbul Turkey
| | - Mika Sillanpää
- Environmental Engineering and Management Research Group Ton Duc Thang University Ho Chi Minh City Vietnam
- Faculty of Environment and Labour Safety Ton Duc Thang University Ho Chi Minh City Vietnam
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4
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Roychoudhury A, Dear JW, Bachmann TT. Proximity sensitive detection of microRNAs using electrochemical impedance spectroscopy biosensors. Biosens Bioelectron 2022; 212:114404. [DOI: 10.1016/j.bios.2022.114404] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2021] [Revised: 05/03/2022] [Accepted: 05/17/2022] [Indexed: 12/12/2022]
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Heinsohn NK, Niedl RR, Anielski A, Lisdat F, Beta C. Electrophoretic µPAD for Purification and Analysis of DNA Samples. BIOSENSORS 2022; 12:62. [PMID: 35200323 PMCID: PMC8869226 DOI: 10.3390/bios12020062] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/09/2021] [Revised: 01/13/2022] [Accepted: 01/17/2022] [Indexed: 11/16/2022]
Abstract
In this work, the fabrication and characterization of a simple, inexpensive, and effective microfluidic paper analytic device (µPAD) for monitoring DNA samples is reported. The glass microfiber-based chip has been fabricated by a new wax-based transfer-printing technique and an electrode printing process. It is capable of moving DNA effectively in a time-dependent fashion. The nucleic acid sample is not damaged by this process and is accumulated in front of the anode, but not directly on the electrode. Thus, further DNA processing is feasible. The system allows the DNA to be purified by separating it from other components in sample mixtures such as proteins. Furthermore, it is demonstrated that DNA can be moved through several layers of the glass fiber material. This proof of concept will provide the basis for the development of rapid test systems, e.g., for the detection of pathogens in water samples.
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Affiliation(s)
- Natascha Katharina Heinsohn
- InventicsDx GmbH, Magnusstrasse 11, 12489 Berlin, Germany; (R.R.N.); (A.A.)
- Biological Physics, Institute of Physics and Astronomy, University of Potsdam, Karl-Liebknecht-Strasse 24/25, 14476 Potsdam, Germany
| | | | - Alexander Anielski
- InventicsDx GmbH, Magnusstrasse 11, 12489 Berlin, Germany; (R.R.N.); (A.A.)
| | - Fred Lisdat
- Biosystems Technology, Institute of Life Sciences and Biomedical Technologies, Technical University of Applied Sciences, Hochschulring 1, 15745 Wildau, Germany
| | - Carsten Beta
- Biological Physics, Institute of Physics and Astronomy, University of Potsdam, Karl-Liebknecht-Strasse 24/25, 14476 Potsdam, Germany
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Schulze H, Arnott A, Libori A, Obaje EA, Bachmann TT. Temperature-Enhanced mcr-1 Colistin Resistance Gene Detection with Electrochemical Impedance Spectroscopy Biosensors. Anal Chem 2021; 93:6025-6033. [PMID: 33819015 DOI: 10.1021/acs.analchem.0c00666] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Antibiotic resistance is now one of the biggest threats humankind is facing, as highlighted in a declaration by the General Assembly of the United Nations in 2016. In particular, the growing resistance rates of Gram-negative bacteria cause increasing concerns. The occurrence of the easily transferable, plasmid-encoded mcr-1 colistin resistance gene further worsened the situation, significantly enhancing the risk of the occurrence of pan-resistant bacteria. There is therefore a strong demand for new rapid molecular diagnostic tests for the detection of mcr-1 gene-associated colistin resistance. Electrochemical impedance spectroscopy (EIS) is a well-suited method for rapid antimicrobial resistance detection as it enables rapid, label-free target detection in a cost-efficient manner. Here, we describe the development of an EIS-based mcr-1 gene detection test, including the design of mcr-1-specific peptide nucleic acid probes and assay specificity optimization through temperature-controlled real-time kinetic EIS measurements. A new flow cell measurement setup enabled for the first time detailed real-time, kinetic temperature-controlled hybridization and dehybridization studies of EIS-based nucleic acid biosensors. The temperature-controlled EIS setup allowed single-nucleotide polymorphism discrimination. Target hybridization at 60 °C enhanced the perfect match/mismatch (PM/MM) discrimination ratio from 2.1 at room temperature to 3.4. A hybridization and washing temperature of 55 °C further increased the PM/MM discrimination ratio to 5.7 by diminishing the mismatch signal during the washing step while keeping the perfect match signal. This newly developed mcr-1 gene detection test enabled the direct, specific label, and amplification-free detection of mcr-1 gene harboring plasmids from Escherichia coli.
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Affiliation(s)
- Holger Schulze
- Infection Medicine, Edinburgh Medical School, College of Medicine and Veterinary Medicine, The University of Edinburgh, Chancellor's Building, 49 Little France Crescent, Edinburgh EH16 4SB, U.K
| | - Andrew Arnott
- Infection Medicine, Edinburgh Medical School, College of Medicine and Veterinary Medicine, The University of Edinburgh, Chancellor's Building, 49 Little France Crescent, Edinburgh EH16 4SB, U.K
| | - Adriana Libori
- Infection Medicine, Edinburgh Medical School, College of Medicine and Veterinary Medicine, The University of Edinburgh, Chancellor's Building, 49 Little France Crescent, Edinburgh EH16 4SB, U.K
| | - Eleojo A Obaje
- Infection Medicine, Edinburgh Medical School, College of Medicine and Veterinary Medicine, The University of Edinburgh, Chancellor's Building, 49 Little France Crescent, Edinburgh EH16 4SB, U.K
| | - Till T Bachmann
- Infection Medicine, Edinburgh Medical School, College of Medicine and Veterinary Medicine, The University of Edinburgh, Chancellor's Building, 49 Little France Crescent, Edinburgh EH16 4SB, U.K
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7
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Nakatsuka N, Faillétaz A, Eggemann D, Forró C, Vörös J, Momotenko D. Aptamer Conformational Change Enables Serotonin Biosensing with Nanopipettes. Anal Chem 2021; 93:4033-4041. [PMID: 33596063 DOI: 10.1021/acs.analchem.0c05038] [Citation(s) in RCA: 47] [Impact Index Per Article: 15.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
We report artificial nanopores in the form of quartz nanopipettes with ca. 10 nm orifices functionalized with molecular recognition elements termed aptamers that reversibly recognize serotonin with high specificity and selectivity. Nanoscale confinement of ion fluxes, analyte-specific aptamer conformational changes, and related surface charge variations enable serotonin sensing. We demonstrate detection of physiologically relevant serotonin amounts in complex environments such as neurobasal media, in which neurons are cultured in vitro. In addition to sensing in physiologically relevant matrices with high sensitivity (picomolar detection limits), we interrogate the detection mechanism via complementary techniques such as quartz crystal microbalance with dissipation monitoring and electrochemical impedance spectroscopy. Moreover, we provide a novel theoretical model for structure-switching aptamer-modified nanopipette systems that supports experimental findings. Validation of specific and selective small-molecule detection, in parallel with mechanistic investigations, demonstrates the potential of conformationally changing aptamer-modified nanopipettes as rapid, label-free, and translatable nanotools for diverse biological systems.
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Affiliation(s)
- Nako Nakatsuka
- Laboratory of Biosensors and Bioelectronics, Institute for Biomedical Engineering, ETH Zürich CH-8092, Switzerland
| | - Alix Faillétaz
- Laboratory of Biosensors and Bioelectronics, Institute for Biomedical Engineering, ETH Zürich CH-8092, Switzerland
| | - Dominic Eggemann
- Laboratory of Biosensors and Bioelectronics, Institute for Biomedical Engineering, ETH Zürich CH-8092, Switzerland
| | - Csaba Forró
- Laboratory of Biosensors and Bioelectronics, Institute for Biomedical Engineering, ETH Zürich CH-8092, Switzerland
| | - János Vörös
- Laboratory of Biosensors and Bioelectronics, Institute for Biomedical Engineering, ETH Zürich CH-8092, Switzerland
| | - Dmitry Momotenko
- Laboratory of Biosensors and Bioelectronics, Institute for Biomedical Engineering, ETH Zürich CH-8092, Switzerland
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8
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Yeter EÇ, Şahin S, Caglayan MO, Üstündağ Z. An electrochemical label-free DNA impedimetric sensor with AuNP-modified glass fiber/carbonaceous electrode for the detection of HIV-1 DNA. CHEMICKE ZVESTI 2020; 75:77-87. [PMID: 32836707 PMCID: PMC7354876 DOI: 10.1007/s11696-020-01280-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/23/2020] [Accepted: 07/06/2020] [Indexed: 11/17/2022]
Abstract
In this study, a highly sensitive, electrochemical, and label-free DNA impedimetric sensor was developed using carbonized glass fiber-coal tar pitch (GF-CTP) electrodes supported with gold nanoparticles (AuNPs) for the detection of HIV-1 gene. Thiol-modified GF-CTP electrodes were prepared using amine crosslinking chemistry and AuNPs were self-assembled obtaining highly conductive nanoelectrodes, GF-CTP-ATP-Au. All steps of electrode modifications were characterized using electrochemical, spectroscopic, and microscopic methods. GF-CTP-ATP-Au electrode was then modified with a capture DNA probe (C-ssDNA) and optimized with a target DNA probe in terms of hybridization time and temperature between 30 and 180 min and 20-50 °C, respectively. Finally, the analytic performance of the developed ssDNA biosensor was evaluated using electrochemical impedance spectroscopy. The calibration of the sensor was obtained between 0.1 pM and 10 nM analyte working range. The limit of detection was calculated using signal to noise ratio of 3 (S/N = 3) as 13 fM. Moreover, interference results for two noncomplementary DNA probes were also tested to demonstrate non-specific ssDNA interactions. An electrochemical label-free DNA impedimetric sensor was successfully developed using a novel GF-CTP-ATP-Au electrode. This study suggests that highly sensitive DNA-based biosensors can be developed using relatively low-cost carbonaceous materials.
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Affiliation(s)
- Ece Ç. Yeter
- Department of Chemistry, Kütahya Dumlupınar University, 43100 Kütahya, Turkey
| | - Samet Şahin
- Department of Bioengineering, Bilecik Şeyh Edebali University, 11230 Bilecik, Turkey
| | - M. Oguzhan Caglayan
- Department of Bioengineering, Bilecik Şeyh Edebali University, 11230 Bilecik, Turkey
| | - Zafer Üstündağ
- Department of Chemistry, Kütahya Dumlupınar University, 43100 Kütahya, Turkey
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9
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Wu CC, Yen HY, Lai LT, Perng GC, Lee CR, Wu SJ. A Label-Free Impedimetric Genosensor for the Nucleic Acid Amplification-Free Detection of Extracted RNA of Dengue Virus. SENSORS 2020; 20:s20133728. [PMID: 32635293 PMCID: PMC7374514 DOI: 10.3390/s20133728] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/26/2020] [Revised: 06/30/2020] [Accepted: 07/01/2020] [Indexed: 12/26/2022]
Abstract
Developing rapid and sensitive diagnostic methods for dengue virus (DENV) infection is of prime priority because DENV infection is the most prevalent mosquito-borne viral disease. This work proposes an electrochemical impedance spectroscopy (EIS)-based genosensor for the label-free and nucleic acid amplification-free detection of extracted DENV RNA intended for a sensitive diagnosis of DENV infection. A concentration ratio of 0.04 mM 6-mercaptohexanoic acid (MHA) to 1 mM 6-mercapto-1-hexanol (MCH) was selected to modify thin-film gold electrodes as a link to control the coverage of self-designed probe DNA (pDNA) at a density of 4.5 ± 0.4 × 1011 pDNA/cm2. The pDNA/MHA/MCH-modified genosensors are proven to improve the hybridization efficiency of a synthetic 160-mer target DNA (160mtDNA) with a 140-mer electrode side overhang as compared to other MHA/MCH ratio-modified genosensors. The MHA(0.04 mM)/MCH(1 mM)-modified genosensors also present good hybridization efficiency with the extracted DENV serotype 1 (DENV1) RNA samples, having the same electrode side overhangs with the 160mtDNA, showing a low detection limit of 20 plaque forming units (PFU)/mL, a linear range of 102–105 PFU/mL and good selectivity for DENV1. The pDNA density-controlled method has great promise to construct sensitive genosensors based on the hybridization of extracted DENV nucleic acids.
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Affiliation(s)
- Ching-Chou Wu
- Department of Bio-industrial Mechatronics Engineering, National Chung Hsing University, No. 145, Xingda Rd., South Dist., Taichung City 402, Taiwan; (H.-Y.Y.); (L.-T.L.)
- Innovation and Development Center of Sustainable Agriculture, National Chung Hsing University, No. 145, Xingda Rd., South Dist., Taichung City 402, Taiwan
- Correspondence: ; Tel.: +886-4-2285-1268
| | - Hao-Yu Yen
- Department of Bio-industrial Mechatronics Engineering, National Chung Hsing University, No. 145, Xingda Rd., South Dist., Taichung City 402, Taiwan; (H.-Y.Y.); (L.-T.L.)
| | - Lu-Ting Lai
- Department of Bio-industrial Mechatronics Engineering, National Chung Hsing University, No. 145, Xingda Rd., South Dist., Taichung City 402, Taiwan; (H.-Y.Y.); (L.-T.L.)
| | - Guey-Chuen Perng
- Department of Microbiology and Immunology, College of Medicine, National Cheng Kung University, No.1, University Rd., Tainan City 701, Taiwan;
| | - Cheng-Rei Lee
- Viral & Rickettsial Diseases Department, Naval Medical Research Center, Silver Spring, MD 20910, USA; (C.-R.L.); (S.-J.W.)
| | - Shuenn-Jue Wu
- Viral & Rickettsial Diseases Department, Naval Medical Research Center, Silver Spring, MD 20910, USA; (C.-R.L.); (S.-J.W.)
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Sopoušek J, Věžník J, Skládal P, Lacina K. Blocking the Nanopores in a Layer of Nonconductive Nanoparticles: Dominant Effects Therein and Challenges for Electrochemical Impedimetric Biosensing. ACS APPLIED MATERIALS & INTERFACES 2020; 12:14620-14628. [PMID: 32134623 DOI: 10.1021/acsami.0c02650] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Blockage of a nanopore by an analyte molecule has emerged as a promising concept for electrochemical biosensing. Nanoporous structures can be formed on the electrode surface simply by packing spherical nanoparticles in a dense planar arrangement. Modification of the nanoparticles with human serum albumin (HSA) and its interaction with the corresponding antibody (anti-HSA) can induce nanopore-blockage which significantly hinders permeation of the redox probe ([Fe(CN6)]4-/3-). Interfaces of different parameters were studied using Electrochemical Impedance Spectroscopy (EIS), and counterintuitively, the influence of charge of the nanoparticles and other immobilized entities played a substantial role in the measurement. Our study reveals dominant effects including the presence of mixed output signal and resolves corresponding EIS biosensing-related challenges. Consequently, blocking the nanopores was introduced as an efficient technique which enables the application of EIS-based biosensing to real-world analytical issues.
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Affiliation(s)
- Jakub Sopoušek
- Department of Biochemistry, Faculty of Science, Masaryk University, Kamenice 753/5 625 00, Brno, Czech Republic
- Central European Institute of Technology CEITEC, Masaryk University, Kamenice 753/5 625 00, Brno, Czech Republic
| | - Jakub Věžník
- Central European Institute of Technology CEITEC, Masaryk University, Kamenice 753/5 625 00, Brno, Czech Republic
- Department of Chemistry, Faculty of Science, Masaryk University, Kamenice 753/5 625 00, Brno, Czech Republic
| | - Petr Skládal
- Department of Biochemistry, Faculty of Science, Masaryk University, Kamenice 753/5 625 00, Brno, Czech Republic
- Central European Institute of Technology CEITEC, Masaryk University, Kamenice 753/5 625 00, Brno, Czech Republic
| | - Karel Lacina
- Central European Institute of Technology CEITEC, Masaryk University, Kamenice 753/5 625 00, Brno, Czech Republic
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11
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Welden R, Schöning MJ, Wagner PH, Wagner T. Light-Addressable Electrodes for Dynamic and Flexible Addressing of Biological Systems and Electrochemical Reactions. SENSORS 2020; 20:s20061680. [PMID: 32192226 PMCID: PMC7147159 DOI: 10.3390/s20061680] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/29/2020] [Revised: 03/13/2020] [Accepted: 03/13/2020] [Indexed: 01/25/2023]
Abstract
In this review article, we are going to present an overview on possible applications of light-addressable electrodes (LAE) as actuator/manipulation devices besides classical electrode structures. For LAEs, the electrode material consists of a semiconductor. Illumination with a light source with the appropiate wavelength leads to the generation of electron-hole pairs which can be utilized for further photoelectrochemical reaction. Due to recent progress in light-projection technologies, highly dynamic and flexible illumination patterns can be generated, opening new possibilities for light-addressable electrodes. A short introduction on semiconductor–electrolyte interfaces with light stimulation is given together with electrode-design approaches. Towards applications, the stimulation of cells with different electrode materials and fabrication designs is explained, followed by analyte-manipulation strategies and spatially resolved photoelectrochemical deposition of different material types.
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Affiliation(s)
- Rene Welden
- Institute of Nano- and Biotechnologies (INB), Aachen University of Applied Sciences, Heinrich-Mußmann-Str. 1, 52428 Jülich, Germany; (R.W.); (M.J.S.)
- Laboratory for Soft Matter and Biophysics, KU Leuven, Celestijnenlaan 200D, 3001 Leuven, Belgium
| | - Michael J. Schöning
- Institute of Nano- and Biotechnologies (INB), Aachen University of Applied Sciences, Heinrich-Mußmann-Str. 1, 52428 Jülich, Germany; (R.W.); (M.J.S.)
- Institute of Complex Systems (ICS-8), Research Center Jülich GmbH, 52428 Jülich, Germany
| | - Patrick H. Wagner
- Laboratory for Soft Matter and Biophysics, KU Leuven, Celestijnenlaan 200D, 3001 Leuven, Belgium
| | - Torsten Wagner
- Institute of Nano- and Biotechnologies (INB), Aachen University of Applied Sciences, Heinrich-Mußmann-Str. 1, 52428 Jülich, Germany; (R.W.); (M.J.S.)
- Institute of Complex Systems (ICS-8), Research Center Jülich GmbH, 52428 Jülich, Germany
- Correspondence: ; Tel.: +49-241-6009-53766
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12
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Asefifeyzabadi N, Taki M, Funneman M, Song T, Shamsi MH. Unique sequence-dependent properties of trinucleotide repeat monolayers: electrochemical, electrical, and topographic characterization. J Mater Chem B 2020; 8:5225-5233. [DOI: 10.1039/d0tb00507j] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
The sequence-dependent properties of the surface-assembled trinucleotide repeat interface on a gold surface were explored by electrochemical methods and surface probe microscopy.
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Affiliation(s)
- Narges Asefifeyzabadi
- Department of Chemistry & Biochemistry
- 1245 Lincoln Dr
- Southern Illinois University at Carbondale
- USA
| | - Motahareh Taki
- Department of Chemistry & Biochemistry
- 1245 Lincoln Dr
- Southern Illinois University at Carbondale
- USA
| | - Madison Funneman
- Department of Chemistry & Biochemistry
- 1245 Lincoln Dr
- Southern Illinois University at Carbondale
- USA
| | - Tingjie Song
- Department of Chemistry
- University of Illinois at Urbana-Champaign
- USA
| | - Mohtashim Hassan Shamsi
- Department of Chemistry & Biochemistry
- 1245 Lincoln Dr
- Southern Illinois University at Carbondale
- USA
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13
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Taki M, Rohilla KJ, Barton M, Funneman M, Benzabeh N, Naphade S, Ellerby LM, Gagnon KT, Shamsi MH. Novel probes for label-free detection of neurodegenerative GGGGCC repeats associated with amyotrophic lateral sclerosis. Anal Bioanal Chem 2019; 411:6995-7003. [PMID: 31435686 PMCID: PMC7433021 DOI: 10.1007/s00216-019-02075-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2019] [Revised: 07/18/2019] [Accepted: 08/06/2019] [Indexed: 01/28/2023]
Abstract
DNA repeat expansion sequences cause a myriad of neurological diseases when they expand beyond a critical threshold. Previous electrochemical approaches focused on the detection of trinucleotide repeats (CAG, CGG, and GAA) and relied on labeling of the probe and/or target strands or enzyme-linked assays. However, detection of expanded GC-rich sequences is challenging because they are prone to forming secondary structures such as cruciforms and quadruplexes. Here, we present label-free detection of hexanucleotide GGGGCC repeat sequences, which cause the leading genetic form of frontotemporal dementia (FTD) and amyotrophic lateral sclerosis (ALS). The approach relies on capturing targets by surface-bound oligonucleotide probes with a different number of complementary repeats, which proportionately translates the length of the target strands into charge transfer resistance (RCT) signal measured by electrochemical impedance spectroscopy. The probe carrying three tandem repeats transduces the number of repeats into RCT with a 3× higher calibration sensitivity and detection limit. Chronocoulometric measurements show a decrease in surface density with increasing repeat length, which is opposite of the impedance trend. This implies that the length of the target itself can contribute to amplification of the impedance signal independent of the surface density. Moreover, the probe can distinguish between a control and patient sequences while remaining insensitive to non-specific Huntington's disease (CAG) repeats in the presence of a complementary target. This label-free strategy might be applied to detect the length of other neurodegenerative repeat sequences using short probes with a few complementary repeats. Graphical abstract Short oligomeric probes with multiple complementary repeats detect long neurodegenerative targets with high sensitivity and transduce into higher impedance signal.
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Affiliation(s)
- Motahareh Taki
- Department of Chemistry & Biochemistry, Southern Illinois University, 1245 Lincoln Dr, Carbondale, IL, 62901, USA
| | - Kushal J Rohilla
- Biochemistry and Molecular Biology, Southern Illinois University School of Medicine, Carbondale, IL, 62901, USA
| | - Maria Barton
- Biochemistry and Molecular Biology, Southern Illinois University School of Medicine, Carbondale, IL, 62901, USA
| | - Madison Funneman
- Department of Chemistry & Biochemistry, Southern Illinois University, 1245 Lincoln Dr, Carbondale, IL, 62901, USA
| | - Najiyah Benzabeh
- Department of Chemistry & Biochemistry, Southern Illinois University, 1245 Lincoln Dr, Carbondale, IL, 62901, USA
| | - Swati Naphade
- The Buck Institute for Research on Aging, 8001 Redwood Blvd, Novato, CA, 94945, USA
| | - Lisa M Ellerby
- The Buck Institute for Research on Aging, 8001 Redwood Blvd, Novato, CA, 94945, USA
| | - Keith T Gagnon
- Department of Chemistry & Biochemistry, Southern Illinois University, 1245 Lincoln Dr, Carbondale, IL, 62901, USA
- Biochemistry and Molecular Biology, Southern Illinois University School of Medicine, Carbondale, IL, 62901, USA
| | - Mohtashim H Shamsi
- Department of Chemistry & Biochemistry, Southern Illinois University, 1245 Lincoln Dr, Carbondale, IL, 62901, USA.
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14
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Butterworth A, Blues E, Williamson P, Cardona M, Gray L, Corrigan DK. SAM Composition and Electrode Roughness Affect Performance of a DNA Biosensor for Antibiotic Resistance. BIOSENSORS-BASEL 2019; 9:bios9010022. [PMID: 30736460 PMCID: PMC6468421 DOI: 10.3390/bios9010022] [Citation(s) in RCA: 40] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/11/2018] [Revised: 01/29/2019] [Accepted: 02/04/2019] [Indexed: 11/16/2022]
Abstract
Antibiotic resistance is a growing concern in the treatment of infectious disease worldwide. Point-of-care (PoC) assays which rapidly identify antibiotic resistance in a sample will allow for immediate targeted therapy which improves patient outcomes and helps maintain the effectiveness of current antibiotic stockpiles. Electrochemical assays offer many benefits, but translation from a benchtop measurement system to low-cost portable electrodes can be challenging. Using electrochemical and physical techniques, this study examines how different electrode surfaces and bio-recognition elements, i.e. the self-assembled monolayer (SAM), affect the performance of a biosensor measuring the hybridisation of a probe for antibiotic resistance to a target gene sequence in solution. We evaluate several commercially available electrodes which could be suitable for PoC testing with different SAM layers and show that electrode selection also plays an important role in overall biosensor performance.
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Affiliation(s)
- Adrian Butterworth
- Department of Biomedical Engineering, Wolfson Centre, 106 Rottenrow East, University of Strathclyde, Glasgow G1 1XQ, UK.
| | - Elizabeth Blues
- Department of Biomedical Engineering, Wolfson Centre, 106 Rottenrow East, University of Strathclyde, Glasgow G1 1XQ, UK.
| | - Paul Williamson
- Department of Biomedical Engineering, Wolfson Centre, 106 Rottenrow East, University of Strathclyde, Glasgow G1 1XQ, UK.
| | - Milovan Cardona
- Department of Biomedical Engineering, Wolfson Centre, 106 Rottenrow East, University of Strathclyde, Glasgow G1 1XQ, UK.
| | - Louise Gray
- FlexMedical Solutions, Eliburn Industrial Park, Livingston, EH54 6GQ, Scotland, UK.
| | - Damion K Corrigan
- Department of Biomedical Engineering, Wolfson Centre, 106 Rottenrow East, University of Strathclyde, Glasgow G1 1XQ, UK.
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15
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Pedro GC, Gorza FD, da Silva RJ, do Nascimento KT, Medina-Llamas JC, Chávez-Guajardo AE, Alcaraz-Espinoza JJ, de Melo CP. A novel nucleic acid fluorescent sensing platform based on nanostructured films of intrinsically conducting polymers. Anal Chim Acta 2019; 1047:214-224. [DOI: 10.1016/j.aca.2018.10.010] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2018] [Revised: 10/05/2018] [Accepted: 10/08/2018] [Indexed: 12/18/2022]
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16
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Quan Li P, Piper A, Schmueser I, Mount AR, Corrigan DK. Impedimetric measurement of DNA-DNA hybridisation using microelectrodes with different radii for detection of methicillin resistant Staphylococcus aureus (MRSA). Analyst 2018; 142:1946-1952. [PMID: 28492640 DOI: 10.1039/c7an00436b] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Due to their electroanalytical advantages, microelectrodes are a very attractive technology for sensing and monitoring applications. One highly important application is measurement of DNA hybridisation to detect a wide range of clinically important phenomena, including single nucleotide polymorphisms (SNPs), mutations and drug resistance genes. The use of electrochemical impedance spectroscopy (EIS) for measurement of DNA hybridisation is well established for large electrodes but as yet remains relatively unexplored for microelectrodes due to difficulties associated with electrode functionalisation and impedimetric response interpretation. To shed light on this, microelectrodes were initially fabricated using photolithography and characterised electrochemically to ensure their responses matched established theory. Electrodes with different radii (50, 25, 15 and 5 μm) were then functionalised with a mixed film of 6-mercapto-1-hexanol and a thiolated single stranded DNA capture probe for a specific gene from the antibiotic resistant bacterium MRSA. The complementary oligonucleotide target from the mecA MRSA gene was hybridised with the surface tethered ssDNA probe. The EIS response was evaluated as a function of electrode radius and it was found that charge-transfer (RCT) was more significantly affected by hybridisation of the mecA gene than the non-linear resistance (RNL) which is associated with the steady state current. The discrimination of mecA hybridisation improved as electrode radius reduced with the RCT component of the response becoming increasingly dominant for smaller radii. It was possible to utilise these findings to produce a real time measurement of oligonucleotide binding where changes in RCT were evident one minute after nanomolar target addition. These data provide a systematic account of the effect of microelectrode radius on the measurement of hybridisation, providing insight into critical aspects of sensor design and implementation for the measurement of clinically important DNA sequences. The findings open up the possibility of developing rapid, sensitive DNA based measurements using microelectrodes.
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17
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A Microelectrode Array with Reproducible Performance Shows Loss of Consistency Following Functionalization with a Self-Assembled 6-Mercapto-1-hexanol Layer. SENSORS 2018; 18:s18061891. [PMID: 29890722 PMCID: PMC6022024 DOI: 10.3390/s18061891] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/15/2018] [Revised: 06/05/2018] [Accepted: 06/06/2018] [Indexed: 11/16/2022]
Abstract
For analytical applications involving label-free biosensors and multiple measurements, i.e., across an electrode array, it is essential to develop complete sensor systems capable of functionalization and of producing highly consistent responses. To achieve this, a multi-microelectrode device bearing twenty-four equivalent 50 µm diameter Pt disc microelectrodes was designed in an integrated 3-electrode system configuration and then fabricated. Cyclic voltammetry and electrochemical impedance spectroscopy were used for initial electrochemical characterization of the individual working electrodes. These confirmed the expected consistency of performance with a high degree of measurement reproducibility for each microelectrode across the array. With the aim of assessing the potential for production of an enhanced multi-electrode sensor for biomedical use, the working electrodes were then functionalized with 6-mercapto-1-hexanol (MCH). This is a well-known and commonly employed surface modification process, which involves the same principles of thiol attachment chemistry and self-assembled monolayer (SAM) formation commonly employed in the functionalization of electrodes and the formation of biosensors. Following this SAM formation, the reproducibility of the observed electrochemical signal between electrodes was seen to decrease markedly, compromising the ability to achieve consistent analytical measurements from the sensor array following this relatively simple and well-established surface modification. To successfully and consistently functionalize the sensors, it was necessary to dilute the constituent molecules by a factor of ten thousand to support adequate SAM formation on microelectrodes. The use of this multi-electrode device therefore demonstrates in a high throughput manner irreproducibility in the SAM formation process at the higher concentration, even though these electrodes are apparently functionalized simultaneously in the same film formation environment, confirming that the often seen significant electrode-to-electrode variation in label-free SAM biosensing films formed under such conditions is not likely to be due to variation in film deposition conditions, but rather kinetically controlled variation in the SAM layer formation process at these microelectrodes.
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18
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Heinrich F, Riedel M, Lisdat F. Detection of abasic DNA by means of impedance spectroscopy. Electrochem commun 2018. [DOI: 10.1016/j.elecom.2018.04.005] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
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19
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Zhou Y, Liu Q, Sun X, Kong R. Fe-nitrilotriacetic acid coordination polymer nanowires: an effective sensing platform for fluorescence-enhanced nucleic acid detection. NANOTECHNOLOGY 2017; 28:075101. [PMID: 28081003 DOI: 10.1088/1361-6528/aa537f] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
The determination of specific nucleic acid sequences is key in identifying disease-causing pathogens and genetic diseases. In this paper we report the utilization of Fe-nitrilotriacetic acid coordination polymer nanowires as an effective nanoquencher for fluorescence-enhanced nucleic acid detection. The detection is fast and the whole process can be completed within 15 min. This nanosensor shows a low detection limit of 0.2 nM with selectivity down to single-base mismatch. This work provides us with an attractive sensing platform for applications.
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Affiliation(s)
- Yunchun Zhou
- National Analytical Research Center of Electrochemistry and Spectroscopy, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, Jilin, People's Republic of China
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20
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Corrigan D, Schulze H, Ciani I, Henihan G, Mount A, Bachmann T. Improving performance of a rapid electrochemical MRSA assay: Optimisation of assay conditions to achieve enhanced discrimination of clinically important DNA sequences under ambient conditions. J Electroanal Chem (Lausanne) 2017. [DOI: 10.1016/j.jelechem.2016.12.050] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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21
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Medina-Sánchez M, Ibarlucea B, Pérez N, Karnaushenko DD, Weiz SM, Baraban L, Cuniberti G, Schmidt OG. High-Performance Three-Dimensional Tubular Nanomembrane Sensor for DNA Detection. NANO LETTERS 2016; 16:4288-96. [PMID: 27266478 DOI: 10.1021/acs.nanolett.6b01337] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
Abstract
We report an ultrasensitive label-free DNA biosensor with fully on-chip integrated rolled-up nanomembrane electrodes. The hybridization of complementary DNA strands (avian influenza virus subtype H1N1) is selectively detected down to attomolar concentrations, an unprecedented level for miniaturized sensors without amplification. Impedimetric DNA detection with such a rolled-up biosensor shows 4 orders of magnitude sensitivity improvement over its planar counterpart. Furthermore, it is observed that the impedance response of the proposed device is contrary to the expected behavior due to its particular geometry. To further investigate this difference, a thorough model analysis of the measured signal and the electric field calculation is performed, revealing enhanced electron hopping/tunneling along the DNA chains due to an enriched electric field inside the tube. Likewise, conformational changes of DNA might also contribute to this effect. Accordingly, these highly integrated three-dimensional sensors provide a tool to study electrical properties of DNA under versatile experimental conditions and open a new avenue for novel biosensing applications (i.e., for protein, enzyme detection, or monitoring of cell behavior under in vivo like conditions).
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Affiliation(s)
- Mariana Medina-Sánchez
- Institute for Integrative Nanosciences, IFW Dresden , Helmholtzstraße 20, 01069 Dresden, Germany
| | - Bergoi Ibarlucea
- Institute of Materials Science and Max Bergmann Center for Biomaterials, Center for Advancing Electronics Dresden (CfAED), Dresden University of Technology , 01062 Dresden, Germany
| | - Nicolás Pérez
- Institute for Integrative Nanosciences, IFW Dresden , Helmholtzstraße 20, 01069 Dresden, Germany
| | - Dmitriy D Karnaushenko
- Institute for Integrative Nanosciences, IFW Dresden , Helmholtzstraße 20, 01069 Dresden, Germany
| | - Sonja M Weiz
- Institute for Integrative Nanosciences, IFW Dresden , Helmholtzstraße 20, 01069 Dresden, Germany
| | - Larysa Baraban
- Institute of Materials Science and Max Bergmann Center for Biomaterials, Center for Advancing Electronics Dresden (CfAED), Dresden University of Technology , 01062 Dresden, Germany
| | - Gianaurelio Cuniberti
- Institute of Materials Science and Max Bergmann Center for Biomaterials, Center for Advancing Electronics Dresden (CfAED), Dresden University of Technology , 01062 Dresden, Germany
| | - Oliver G Schmidt
- Institute for Integrative Nanosciences, IFW Dresden , Helmholtzstraße 20, 01069 Dresden, Germany
- Material Systems for Nanoelectronics, Chemnitz University of Technology , Reichenhainer Straße 70, 09107 Chemnitz, Germany
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22
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Vogt S, Su Q, Gutiérrez-Sánchez C, Nöll G. Critical View on Electrochemical Impedance Spectroscopy Using the Ferri/Ferrocyanide Redox Couple at Gold Electrodes. Anal Chem 2016; 88:4383-90. [PMID: 26990929 DOI: 10.1021/acs.analchem.5b04814] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
Electrochemical or faradaic impedance spectroscopy (EIS) using the ferri/ferrocyanide couple as a redox probe at gold working electrodes was evaluated with respect to its ability to monitor consecutive surface modification steps. As a model reaction, the reversible hybridization and dehybridization of DNA was studied. Thiol-modified single stranded DNA (ssDNA, 20 bases, capture probe) was chemisorbed to a gold electrode and treated with a solution of short thiols to release nonspecifically adsorbed DNA before hybridization with complementary ssDNA (20 bases, target) was carried out. Reversible dehybridization was achieved by intense rinsing with pure water. The experimental procedures were optimized by kinetic surface plasmon resonance (SPR) and quartz crystal microbalance with dissipation (QCM-D) measurements to maximize the increase in reflectivity or decrease in frequency upon hybridization before hybridization/dehybridization was also monitored by EIS. In contrast to SPR and QCM-D, repeatable EIS measurements were not possible at first. Combined SPR/EIS and QCM-D/EIS measurements revealed that during EIS the gold surface is seriously damaged due to the presence of CN(-) ions, which are released from the ferri/ferrocyanide redox probe. Even at optimized experimental conditions, etching the gold electrodes could not be completely suppressed and the repeatability of the EIS measurements was limited. In three out of four experimental runs, only two hybridization/dehybridization steps could be monitored reversibly by EIS. Thereafter etching the gold electrode significantly contributed to the EIS spectra whereas the QCM-D response was still repeatable. Hence great care has to be taken when this technique is used to monitor surface modification at gold electrodes.
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Affiliation(s)
- Stephan Vogt
- Nöll Junior Research Group, Organic Chemistry, Chemistry and Biology Department, Faculty IV, Siegen University , Adolf-Reichwein-Strasse 2, 57068 Siegen, Germany
| | - Qiang Su
- Nöll Junior Research Group, Organic Chemistry, Chemistry and Biology Department, Faculty IV, Siegen University , Adolf-Reichwein-Strasse 2, 57068 Siegen, Germany
| | - Cristina Gutiérrez-Sánchez
- Nöll Junior Research Group, Organic Chemistry, Chemistry and Biology Department, Faculty IV, Siegen University , Adolf-Reichwein-Strasse 2, 57068 Siegen, Germany
| | - Gilbert Nöll
- Nöll Junior Research Group, Organic Chemistry, Chemistry and Biology Department, Faculty IV, Siegen University , Adolf-Reichwein-Strasse 2, 57068 Siegen, Germany
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23
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Thipmanee O, Numnuam A, Limbut W, Buranachai C, Kanatharana P, Vilaivan T, Hirankarn N, Thavarungkul P. Enhancing capacitive DNA biosensor performance by target overhang with application on screening test of HLA-B*58:01 and HLA-B*57:01 genes. Biosens Bioelectron 2016; 82:99-104. [PMID: 27054813 DOI: 10.1016/j.bios.2016.03.065] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2015] [Revised: 03/12/2016] [Accepted: 03/24/2016] [Indexed: 10/22/2022]
Abstract
A highly sensitive label-free DNA biosensor based on PNA probes immobilized on a gold electrode was used to detect a hybridization event. The effect of a target DNA overhang on the hybridization efficiency was shown to enhance the detected signal and allowed detection at a very low concentration. The sensors performances were investigated with a complementary target that had the same length as the probe, and the signal was compared to the target DNAs with different lengths and overhangs. A longer target DNA overhang was found to provide a better response. When the overhang was on the electrode side the signal enhancement was greater than when the overhang was on the solution side due to the increased thickness of the sensing surface, hence produced a larger capacitance change. Using conformationally constrained acpcPNA probes, double stranded DNA was detected sensitively and specifically without any denaturing step. When two acpcPNA probes were applied for the screening test for the double stranded HLA-B*58:01 and HLA-B*57:01 genes that are highly similar, the method differentiated the two genes in all samples. Both purified and unpurified PCR products gave comparable results. This method would be potentially useful as a rapid screening test without the need for purification and denaturation of the PCR products.
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Affiliation(s)
- Orawan Thipmanee
- Trace Analysis and Biosensor Research Center, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand; Center of Excellence for Innovation in Chemistry, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand; Department of Chemistry, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand
| | - Apon Numnuam
- Trace Analysis and Biosensor Research Center, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand; Center of Excellence for Innovation in Chemistry, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand; Department of Chemistry, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand
| | - Warakorn Limbut
- Trace Analysis and Biosensor Research Center, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand; Center of Excellence for Innovation in Chemistry, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand; Department of Applied Science, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand
| | - Chittanon Buranachai
- Trace Analysis and Biosensor Research Center, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand; Department of Physics, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand
| | - Proespichaya Kanatharana
- Trace Analysis and Biosensor Research Center, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand; Center of Excellence for Innovation in Chemistry, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand; Department of Chemistry, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand
| | - Tirayut Vilaivan
- Organic Synthesis Research Unit, Department of Chemistry, Faculty of Science, Chulalongkorn University, Bangkok 10330, Thailand
| | - Nattiya Hirankarn
- Department of Microbiology, Faculty of Medicine, Chulalongkorn University, Bangkok 10330, Thailand; Center of Excellence in Immunology and Immune-Mediated Diseases, Chulalongkorn University, Bangkok 10330, Thailand.
| | - Panote Thavarungkul
- Trace Analysis and Biosensor Research Center, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand; Center of Excellence for Innovation in Chemistry, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand; Department of Physics, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla 90112, Thailand.
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24
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Henihan G, Schulze H, Corrigan DK, Giraud G, Terry JG, Hardie A, Campbell CJ, Walton AJ, Crain J, Pethig R, Templeton KE, Mount AR, Bachmann TT. Label- and amplification-free electrochemical detection of bacterial ribosomal RNA. Biosens Bioelectron 2016; 81:487-494. [PMID: 27016627 DOI: 10.1016/j.bios.2016.03.037] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2015] [Revised: 03/09/2016] [Accepted: 03/17/2016] [Indexed: 01/13/2023]
Abstract
Current approaches to molecular diagnostics rely heavily on PCR amplification and optical detection methods which have restrictions when applied to point of care (POC) applications. Herein we describe the development of a label-free and amplification-free method of pathogen detection applied to Escherichia coli which overcomes the bottleneck of complex sample preparation and has the potential to be implemented as a rapid, cost effective test suitable for point of care use. Ribosomal RNA is naturally amplified in bacterial cells, which makes it a promising target for sensitive detection without the necessity for prior in vitro amplification. Using fluorescent microarray methods with rRNA targets from a range of pathogens, an optimal probe was selected from a pool of probe candidates identified in silico. The specificity of probes was investigated on DNA microarray using fluorescently labeled 16S rRNA target. The probe yielding highest specificity performance was evaluated in terms of sensitivity and a LOD of 20 pM was achieved on fluorescent glass microarray. This probe was transferred to an EIS end point format and specificity which correlated to microarray data was demonstrated. Excellent sensitivity was facilitated by the use of uncharged PNA probes and large 16S rRNA target and investigations resulted in an LOD of 50 pM. An alternative kinetic EIS assay format was demonstrated with which rRNA could be detected in a species specific manner within 10-40min at room temperature without wash steps.
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Affiliation(s)
- Grace Henihan
- Division of Infection and Pathway Medicine, College of Medicine and Veterinary Medicine, The University of Edinburgh, Chancellor's Building, 49 Little France Crescent, Edinburgh EH16 4SB, Scotland, UK
| | - Holger Schulze
- Division of Infection and Pathway Medicine, College of Medicine and Veterinary Medicine, The University of Edinburgh, Chancellor's Building, 49 Little France Crescent, Edinburgh EH16 4SB, Scotland, UK
| | - Damion K Corrigan
- Division of Infection and Pathway Medicine, College of Medicine and Veterinary Medicine, The University of Edinburgh, Chancellor's Building, 49 Little France Crescent, Edinburgh EH16 4SB, Scotland, UK; School of Chemistry, The University of Edinburgh, Joseph Black Building, The King's Buildings, West Mains Road, Edinburgh EH9 3JJ, Scotland, UK
| | - Gerard Giraud
- School of Physics and Astronomy, The University of Edinburgh, The King's Buildings, West Mains Road, Edinburgh EH9 3JZ, Scotland, UK
| | - Jonathan G Terry
- Institute for Integrated Micro and Nano Systems, School of Engineering, The University of Edinburgh, Alexander Crum Brown Road, Edinburgh EH9 3FF, Scotland, UK
| | - Alison Hardie
- Department of Laboratory Medicine, Royal Infirmary of Edinburgh, Edinburgh EH16 4SA, Scotland, UK
| | - Colin J Campbell
- School of Chemistry, The University of Edinburgh, Joseph Black Building, The King's Buildings, West Mains Road, Edinburgh EH9 3JJ, Scotland, UK
| | - Anthony J Walton
- Institute for Integrated Micro and Nano Systems, School of Engineering, The University of Edinburgh, Alexander Crum Brown Road, Edinburgh EH9 3FF, Scotland, UK
| | - Jason Crain
- School of Physics and Astronomy, The University of Edinburgh, The King's Buildings, West Mains Road, Edinburgh EH9 3JZ, Scotland, UK; National Physical Laboratory, Hampton Road, Teddington, Middlesex TW11 0LW, UK
| | - Ronald Pethig
- Institute for Integrated Micro and Nano Systems, School of Engineering, The University of Edinburgh, Alexander Crum Brown Road, Edinburgh EH9 3FF, Scotland, UK
| | - Kate E Templeton
- Division of Infection and Pathway Medicine, College of Medicine and Veterinary Medicine, The University of Edinburgh, Chancellor's Building, 49 Little France Crescent, Edinburgh EH16 4SB, Scotland, UK; Department of Laboratory Medicine, Royal Infirmary of Edinburgh, Edinburgh EH16 4SA, Scotland, UK
| | - Andrew R Mount
- School of Chemistry, The University of Edinburgh, Joseph Black Building, The King's Buildings, West Mains Road, Edinburgh EH9 3JJ, Scotland, UK
| | - Till T Bachmann
- Division of Infection and Pathway Medicine, College of Medicine and Veterinary Medicine, The University of Edinburgh, Chancellor's Building, 49 Little France Crescent, Edinburgh EH16 4SB, Scotland, UK.
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25
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Derkus B, Ozkan M, Emregul KC, Emregul E. Single frequency analysis for clinical immunosensor design. RSC Adv 2016. [DOI: 10.1039/c5ra23783a] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023] Open
Abstract
A novel bioelectrochemical approach: Tau protein determination for the diagnosis of neurodiseases via time-dependant phase angle shift.
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Affiliation(s)
- Burak Derkus
- Bioelectrochemistry Lab
- Department of Chemistry
- Science Faculty
- Ankara University
- Ankara 06100
| | - Mustafa Ozkan
- Bioelectrochemistry Lab
- Department of Chemistry
- Science Faculty
- Ankara University
- Ankara 06100
| | - Kaan C. Emregul
- Bioelectrochemistry Lab
- Department of Chemistry
- Science Faculty
- Ankara University
- Ankara 06100
| | - Emel Emregul
- Bioelectrochemistry Lab
- Department of Chemistry
- Science Faculty
- Ankara University
- Ankara 06100
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26
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Jambrec D, Gebala M, La Mantia F, Schuhmann W. Potentialgestützte DNA-Immobilisierung als Voraussetzung für eine schnelle und kontrollierte Bildung von DNA-Monoschichten. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201506672] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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27
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Jambrec D, Gebala M, La Mantia F, Schuhmann W. Potential-Assisted DNA Immobilization as a Prerequisite for Fast and Controlled Formation of DNA Monolayers. Angew Chem Int Ed Engl 2015; 54:15064-8. [PMID: 26487262 DOI: 10.1002/anie.201506672] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2015] [Indexed: 11/11/2022]
Abstract
Highly reproducible and fast potential-assisted immobilization of single-stranded (ss)DNA on gold surfaces is achieved by applying a pulse-type potential modulation. The desired DNA coverage can be obtained in a highly reproducible way within minutes. Understanding the underlying processes occurring during potential-assisted ssDNA immobilization is crucial. We propose a model that considers the role of ions surrounding the DNA strands, the distance dependence of the applied potentials within the electrolyte solution, and most importantly the shift of the potential of zero charge during the immobilization due to the surface modification with DNA. The control of the surface coverage of ssDNA as well as the achieved speed and high reproducibility are seen as prerequisites for improved DNA-based bioassays.
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Affiliation(s)
- Daliborka Jambrec
- Analytical Chemistry-Center for Electrochemical Sciences (CES), Ruhr-Universität Bochum, Universitätsstrasse 150, 44780 Bochum (Germany)
| | | | - Fabio La Mantia
- Semiconductor and Energy Conversion-Center for Electrochemical Sciences (CES); Ruhr-Universität Bochum, Universitätsstrasse 150, 44780 Bochum (Germany)
| | - Wolfgang Schuhmann
- Analytical Chemistry-Center for Electrochemical Sciences (CES), Ruhr-Universität Bochum, Universitätsstrasse 150, 44780 Bochum (Germany).
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Bronder TS, Poghossian A, Scheja S, Wu C, Keusgen M, Mewes D, Schöning MJ. DNA Immobilization and Hybridization Detection by the Intrinsic Molecular Charge Using Capacitive Field-Effect Sensors Modified with a Charged Weak Polyelectrolyte Layer. ACS APPLIED MATERIALS & INTERFACES 2015; 7:20068-75. [PMID: 26327272 DOI: 10.1021/acsami.5b05146] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
Miniaturized setup, compatibility with advanced micro- and nanotechnologies, and ability to detect biomolecules by their intrinsic molecular charge favor the semiconductor field-effect platform as one of the most attractive approaches for the development of label-free DNA chips. In this work, a capacitive field-effect EIS (electrolyte-insulator-semiconductor) sensor covered with a layer-by-layer prepared, positively charged weak polyelectrolyte layer of PAH (poly(allylamine hydrochloride)) was used for the label-free electrical detection of DNA (deoxyribonucleic acid) immobilization and hybridization. The negatively charged probe single-stranded DNA (ssDNA) molecules were electrostatically adsorbed onto the positively charged PAH layer, resulting in a preferentially flat orientation of the ssDNA molecules within the Debye length, thus yielding a reduced charge-screening effect and a higher sensor signal. Each sensor-surface modification step (PAH adsorption, probe ssDNA immobilization, hybridization with complementary target DNA (cDNA), reducing an unspecific adsorption by a blocking agent, incubation with noncomplementary DNA (ncDNA) solution) was monitored by means of capacitance-voltage and constant-capacitance measurements. In addition, the surface morphology of the PAH layer was studied by atomic force microscopy and contact-angle measurements. High hybridization signals of 34 and 43 mV were recorded in low-ionic strength solutions of 10 and 1 mM, respectively. In contrast, a small signal of 4 mV was recorded in the case of unspecific adsorption of fully mismatched ncDNA. The density of probe ssDNA and dsDNA molecules as well as the hybridization efficiency was estimated using the experimentally measured DNA immobilization and hybridization signals and a simplified double-layer capacitor model. The results of field-effect experiments were supported by fluorescence measurements, verifying the DNA-immobilization and hybridization event.
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Affiliation(s)
- Thomas S Bronder
- Institute of Nano- and Biotechnologies, FH Aachen , Campus Jülich, 52428 Jülich, Germany
| | - Arshak Poghossian
- Institute of Nano- and Biotechnologies, FH Aachen , Campus Jülich, 52428 Jülich, Germany
- Peter Grünberg Institute (PGI-8), Research Centre Jülich GmbH , 52425 Jülich, Germany
| | - Sabrina Scheja
- Institute of Nano- and Biotechnologies, FH Aachen , Campus Jülich, 52428 Jülich, Germany
| | - Chunsheng Wu
- Institute of Nano- and Biotechnologies, FH Aachen , Campus Jülich, 52428 Jülich, Germany
- Biosensor National Special Laboratory, Key Laboratory for Biomedical Engineering of Ministry of Education, Department of Biomedical Engineering, Zhejiang University , Hangzhou 310027, China
| | - Michael Keusgen
- Institute of Pharmaceutical Chemistry, Philipps University Marburg , 35032 Marburg, Germany
| | - Dieter Mewes
- Institute of Measurement and Automatic Control, Leibniz University Hannover , 30167 Hannover, Germany
| | - Michael J Schöning
- Institute of Nano- and Biotechnologies, FH Aachen , Campus Jülich, 52428 Jülich, Germany
- Peter Grünberg Institute (PGI-8), Research Centre Jülich GmbH , 52425 Jülich, Germany
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29
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Tian J, Liu Q, Shi J, Hu J, Asiri AM, Sun X, He Y. Rapid, sensitive, and selective fluorescent DNA detection using iron-based metal–organic framework nanorods: Synergies of the metal center and organic linker. Biosens Bioelectron 2015; 71:1-6. [DOI: 10.1016/j.bios.2015.04.009] [Citation(s) in RCA: 63] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2015] [Revised: 03/23/2015] [Accepted: 04/05/2015] [Indexed: 12/11/2022]
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30
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Voitechovič E, Bratov A, Abramova N, Razumienė J, Kirsanov D, Legin A, Lakshmi D, Piletsky S, Whitcombe M, Ivanova-Mitseva P. Development of label-free impedimetric platform based on new conductive polyaniline polymer and three-dimensional interdigitated electrode array for biosensor applications. Electrochim Acta 2015. [DOI: 10.1016/j.electacta.2015.05.011] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
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31
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Aydemir N, McArdle H, Patel S, Whitford W, Evans CW, Travas-Sejdic J, Williams DE. A Label-Free, Sensitive, Real-Time, Semiquantitative Electrochemical Measurement Method for DNA Polymerase Amplification (ePCR). Anal Chem 2015; 87:5189-97. [PMID: 25946200 DOI: 10.1021/acs.analchem.5b00079] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
Oligonucleotide hybridization to a complementary sequence that is covalently attached to an electrochemically active conducting polymer (ECP) coating the working electrode of an electrochemical cell causes an increase in reaction impedance for the ferro-ferricyanide redox couple. We demonstrate the use of this effect to measure, in real time, the progress of DNA polymerase chain reaction (PCR) amplification of a minor component of a DNA extract. The forward primer is attached to the ECP. The solution contains other PCR components and the redox couple. Each cycle of amplification gives an easily measurable impedance increase. Target concentration can be estimated by cycle count to reach a threshold impedance. As proof of principle, we demonstrate an electrochemical real-time quantitative PCR (e-PCR) measurement in the total DNA extracted from chicken blood of an 844 base pair region of the mitochondrial Cytochrome c oxidase gene, present at ∼1 ppm of total DNA. We show that the detection and semiquantitation of as few as 2 copies/μL of target can be achieved within less than 10 PCR cycles.
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Affiliation(s)
| | | | - Selina Patel
- ∇School of Biological Sciences, University of Auckland, Auckland 1022, New Zealand
| | - Whitney Whitford
- ∇School of Biological Sciences, University of Auckland, Auckland 1022, New Zealand
| | - Clive W Evans
- ∇School of Biological Sciences, University of Auckland, Auckland 1022, New Zealand
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32
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Wu C, Bronder T, Poghossian A, Werner CF, Schöning MJ. Label-free detection of DNA using a light-addressable potentiometric sensor modified with a positively charged polyelectrolyte layer. NANOSCALE 2015; 7:6143-50. [PMID: 25771844 DOI: 10.1039/c4nr07225a] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
A multi-spot (16 spots) light-addressable potentiometric sensor (MLAPS) consisting of an Al-p-Si-SiO2 structure modified with a weak polyelectrolyte layer of PAH (poly(allylamine hydrochloride)) was applied for the label-free electrical detection of DNA (deoxyribonucleic acid) immobilization and hybridization by the intrinsic molecular charge for the first time. To achieve a preferentially flat orientation of DNA strands and thus, to reduce the distance between the DNA charge and MLAPS surface, the negatively charged probe single-stranded DNAs (ssDNA) were electrostatically adsorbed onto the positively charged PAH layer using a simple layer-by-layer (LbL) technique. In this way, more DNA charge can be positioned within the Debye length, yielding a higher sensor signal. The surface potential changes in each spot induced due to the surface modification steps (PAH adsorption, probe ssDNA immobilization, hybridization with complementary target DNA (cDNA), non-specific adsorption of mismatched ssDNA) were determined from the shifts of photocurrent-voltage curves along the voltage axis. A high sensor signal of 83 mV was registered after immobilization of probe ssDNA onto the PAH layer. The hybridization signal increases from 5 mV to 32 mV with increasing the concentration of cDNA from 0.1 nM to 5 μM. In contrast, a small signal of 5 mV was recorded in the case of non-specific adsorption of fully mismatched ssDNA (5 μM). The obtained results demonstrate the potential of the MLAPS in combination with the simple and rapid LbL immobilization technique as a promising platform for the future development of multi-spot light-addressable label-free DNA chips with direct electrical readout.
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Affiliation(s)
- Chunsheng Wu
- Institute of Nano- and Biotechnologies, FH Aachen, Campus Jülich, 52428 Jülich, Germany.
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33
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Zhu C, Yang G, Li H, Du D, Lin Y. Electrochemical sensors and biosensors based on nanomaterials and nanostructures. Anal Chem 2015; 87:230-49. [PMID: 25354297 PMCID: PMC4287168 DOI: 10.1021/ac5039863] [Citation(s) in RCA: 807] [Impact Index Per Article: 89.7] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Chengzhou Zhu
- School
of Mechanical and Materials Engineering, Washington State University, Pullman, Washington 99164, United States
| | - Guohai Yang
- School
of Mechanical and Materials Engineering, Washington State University, Pullman, Washington 99164, United States
| | - He Li
- School
of Mechanical and Materials Engineering, Washington State University, Pullman, Washington 99164, United States
| | - Dan Du
- School
of Mechanical and Materials Engineering, Washington State University, Pullman, Washington 99164, United States
| | - Yuehe Lin
- School
of Mechanical and Materials Engineering, Washington State University, Pullman, Washington 99164, United States
- Pacific
Northwest National Laboratory, Richland, Washington 99352, United States
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34
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Improving electrochemical biosensor performance by understanding the influence of target DNA length on assay sensitivity. J Electroanal Chem (Lausanne) 2014. [DOI: 10.1016/j.jelechem.2014.08.026] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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