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Lu X, Lin H, Feng X, Long D, Yang G, Hsing IM. Electroactive Hydrolysis Probe-based Portable PCR Platform for Sequence-Specific Detection of NontyphoidalSalmonella Drug Resistance Gene. J Electroanal Chem (Lausanne) 2023. [DOI: 10.1016/j.jelechem.2023.117223] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
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Nobusawa K, Han HW, Takei F, Chu TC, Hashida N, Yamashita I. Electrochemical Impedimetric Real-Time Polymerase Chain Reactions Using Anomalous Charge Transfer Enhancement. Anal Chem 2022; 94:7747-7751. [PMID: 35609246 DOI: 10.1021/acs.analchem.2c01659] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We developed a new electrochemical impedimetric method for the real-time detection of polymerase chain reactions (PCR) based on our recent discovery that the DNA intercalator, [Ru(bpy)2DPPZ]2+, anomalously enhances charge transfer between redox mediators, K4[Fe(CN)6]/K3[Fe(CN)6], and a carbon electrode. Three mM [Fe(CN)6]3-/4- and 5 μM [Ru(bpy)2DPPZ]2+ were added to the PCR solution, and electrochemical impedance spectroscopy (EIS) measurements were performed at each elongation heat cycle. The charge transfer resistance (Rct) was initially low due to the presence of [Ru(bpy)2DPPZ]2+ in the solution. As PCR progressed, amplicon dsDNA was produced exponentially, and intercalated [Ru(bpy)2DPPZ]2+ ions, which could be detected as a steep Rct, increased at specific heat cycles depending on the amount of template DNA. The Rct increase per heat cycle, ΔRct, showed a peak at the same heat cycle as optical detection, proving that PCR can be accurately monitored in real time by impedance measurement. This simple method will enable a cost-effective and portable PCR device.
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Affiliation(s)
- Kazuyuki Nobusawa
- Graduate School of Engineering, Osaka University 2-8 Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Huan-Wen Han
- Graduate School of Engineering, Osaka University 2-8 Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Fumie Takei
- National Defense Medical College, 3-2 Namiki, Tokorozawa-shi, Saitama 359-8513, Japan
| | - Ting-Chieh Chu
- Graduate School of Engineering, Osaka University 2-8 Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Noriyasu Hashida
- Department of Ophthalmology, Osaka University Graduate School of Medicine, 2-2 E7 Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Ichiro Yamashita
- Graduate School of Engineering, Osaka University 2-8 Yamadaoka, Suita, Osaka 565-0871, Japan
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Han H, Nobusawa K, Yamashita I. Anomalous Enhancement of Electrochemical Charge Transfer by a Ru Complex Ion Intercalator. Anal Chem 2021; 94:571-576. [PMID: 34928123 DOI: 10.1021/acs.analchem.1c03681] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We have found that the DNA intercalator [Ru(bpy)2DPPZ]2+ (bpy = 2,2'-bipyridine; DPPZ = dipyrido[3,2-a:2',3'-c]phenazine) causes an anomalous increase in charge transfer in electrochemical impedance spectroscopy (EIS). With a carbonaceous electrode and a 1 mM hexacyanoferrate (1 mM [Fe(CN)6]3- and 1 mM [Fe(CN)6]4-) mediator, we found that adding only 1 μM [Ru(bpy)2DPPZ]2+ greatly enhanced the charge transfer between the electrode and hexacyanoferrate mediator, independently of other electrolytes or buffer components. The effect started with a one millionth amount of hexacyanoferrate. Since [Ru(bpy)2DPPZ]2+ can intercalate with dsDNA, the effect is highly applicable for dsDNA detection or PCR monitoring. With further developments of this method, EIS sensors not requiring specific electrode modifications should be possible.
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Affiliation(s)
- HuanWen Han
- Graduate School of Engineering, Osaka University, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan
| | - Kazuyuki Nobusawa
- Graduate School of Engineering, Osaka University, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan
| | - Ichiro Yamashita
- Graduate School of Engineering, Osaka University, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan
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A novel photosensitive dual-sensor for simultaneous detection of nucleic acids and small chemical molecules. Biosens Bioelectron 2018; 127:108-117. [PMID: 30594890 DOI: 10.1016/j.bios.2018.12.015] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2018] [Revised: 12/03/2018] [Accepted: 12/07/2018] [Indexed: 02/05/2023]
Abstract
Sensors that can rapidly and specifically detect nucleic acids and chemical molecules can revolutionize the diagnosis and treatment of diseases by allowing molecular-level informations to be used during the routine medicines. In this study, we demonstrated a novel dual-sensor that can be used to simultaneously detect any nucleic acids and chemical molecules whose binding aptamers can be found or synthesized. In the developed dual-sensor, the specifically designed PTG (a photosensitive azobenzene derivative carrying one photoisomerizable azobenzene moiety, one threoninol terminal and one guanidinium terminal) molecules are introduced into the unwinding region of two T7 promoters, and two DNA bubbles are introduced upstream of the two T7 promoters. Without the target, the indicating gene in the dual-tensor would not be expressed since the binding with RNAPs (RNA polymerases) cannot melt the T7 promoter for the indicating gene due to the integration of the DNA double strands via the PTG molecules, manifesting the absence of the target nucleic acid and chemical molecule. While with the presence of the target nucleic acid and/or chemical molecule, the indicating gene would be expressed as the T7 promoter contained in the enlarged DNA bubble can be melted and transcribed by the bound RNAPs as the enlarged DNA bubble can help the separation of the two DNA strands, demonstrating the existence of target nucleic acid and/or chemical molecule.
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High-performance nanogap electrode-based impedimetric sensor for direct DNA assays. Biosens Bioelectron 2018; 118:153-159. [PMID: 30075385 DOI: 10.1016/j.bios.2018.07.050] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2018] [Revised: 07/23/2018] [Accepted: 07/25/2018] [Indexed: 11/22/2022]
Abstract
The rapid and sensitive detection of pathogen DNA (Deoxyribonucleic acid) would be essential for diagnosis and appropriate antibiotic treatment time. Herein, we report a novel direct DNA detectable impedimetric sensor. Direct assay of the amplified target DNA (mecA gene from methicillin-resistant Staphylococcus aureus (MRSA)) was performed using the PCR (polymerase chain reaction) product without any purification. Even though there are lots of PCR reagents and excess salts in sample PCR product, the nanogap electrode-based impedimetric sensor was able to detect DNA amplification fast in 5th PCR cycle which had 260 fM mecA gene in sample originally. The 70 nm gap electrode sensor yielded over 20% signal increase at the 5th PCR cycle and the impedance change grew up to about 60% at 25th in case of sample with 260 fM mecA gene template originally. The increased concentration of target DNA template led to the rise in impedance change such as 60% up at 5th and 120% up at 25th cycle with 260 pM, respectively. It is very outstanding result as compared with the traditional PCR agarose gel. Besides, it is 7-fold superior sensitivity to the microgap electrode. Furthermore, genomic DNA sample extracted from MRSA was detected rapidly. The nanogap electrode-based impedimetric sensor could be a good candidate for a rapid, sensitive, and low-cost electrical biosensor for DNA characterization in diagnostics and disease monitoring.
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Comparison of Sensitivity and Quantitation between Microbead Dielectrophoresis-Based DNA Detection and Real-Time PCR. BIOSENSORS-BASEL 2017; 7:bios7040044. [PMID: 28974001 PMCID: PMC5746767 DOI: 10.3390/bios7040044] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/30/2017] [Revised: 09/21/2017] [Accepted: 09/26/2017] [Indexed: 12/05/2022]
Abstract
In this study, we describe a microbead-based method using dielectrophoresis (DEP) for the fast detection of DNA amplified by polymerase chain reaction (PCR). This electrical method measures the change in impedance caused by DEP-trapped microbeads to which biotinylated target DNA molecules are chemically attached. Using this method, measurements can be obtained within 20 min. Currently, real-time PCR is among the most sensitive methods available for the detection of target DNA, and is often used in the diagnosis of infectious diseases. We therefore compared the quantitation and sensitivity achieved by our method to those achieved with real-time PCR. We found that the microbead DEP-based method exhibited the same detection limit as real-time PCR, although its quantitative detection range was slightly narrower at 10–105 copies/reaction compared with 10–107 copies/reaction for real-time PCR. Whereas real-time PCR requires expensive and complex instruments, as well as expertise in primer design and experimental principles, our novel method is simple to use, inexpensive, and rapid. This method could potentially detect viral and other DNAs efficiently in combination with conventional PCR.
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Zhang FT, Cai LY, Zhou YL, Zhang XX. Immobilization-free DNA-based homogeneous electrochemical biosensors. Trends Analyt Chem 2016. [DOI: 10.1016/j.trac.2016.08.012] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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Lin YJ, Wu YC, Mani V, Huang ST, Huang CH, Hu YC, Peter Shan HC. Designing anthraquinone–pyrrole redox intercalating probes for electrochemical gene detection. Biosens Bioelectron 2016; 79:294-9. [DOI: 10.1016/j.bios.2015.12.042] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2015] [Revised: 11/30/2015] [Accepted: 12/15/2015] [Indexed: 10/22/2022]
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SEICHI A, KOZUKA N, KASHIMA Y, TABATA M, GODA T, MATSUMOTO A, IWASAWA N, CITTERIO D, MIYAHARA Y, SUZUKI K. Real-time Monitoring and Detection of Primer Generation-Rolling Circle Amplification of DNA Using an Ethidium Ion-selective Electrode. ANAL SCI 2016; 32:505-10. [DOI: 10.2116/analsci.32.505] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Affiliation(s)
- Ayaka SEICHI
- Department of Applied Chemistry, Graduate School of Science and Engineering, Keio University
| | - Nanami KOZUKA
- Department of Applied Chemistry, Graduate School of Science and Engineering, Keio University
| | - Yuko KASHIMA
- Department of Applied Chemistry, Graduate School of Science and Engineering, Keio University
| | - Miyuki TABATA
- Institute of Biomaterials and Bioengineering, Tokyo Medical and Dental University
| | - Tatsuro GODA
- Institute of Biomaterials and Bioengineering, Tokyo Medical and Dental University
| | - Akira MATSUMOTO
- Institute of Biomaterials and Bioengineering, Tokyo Medical and Dental University
| | - Naoko IWASAWA
- Department of Applied Chemistry, Graduate School of Science and Engineering, Keio University
| | - Daniel CITTERIO
- Department of Applied Chemistry, Graduate School of Science and Engineering, Keio University
| | - Yuji MIYAHARA
- Institute of Biomaterials and Bioengineering, Tokyo Medical and Dental University
| | - Koji SUZUKI
- Department of Applied Chemistry, Graduate School of Science and Engineering, Keio University
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Kongpeth J, Jampasa S, Chaumpluk P, Chailapakul O, Vilaivan T. Immobilization-free electrochemical DNA detection with anthraquinone-labeled pyrrolidinyl peptide nucleic acid probe. Talanta 2015; 146:318-25. [PMID: 26695270 DOI: 10.1016/j.talanta.2015.08.059] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2015] [Revised: 08/25/2015] [Accepted: 08/26/2015] [Indexed: 01/04/2023]
Abstract
Electrochemical detection provides a simple, rapid, sensitive and inexpensive method for DNA detection. In traditional electrochemical DNA biosensors, the probe is immobilized onto the electrode. Hybridization with the DNA target causes a change in electrochemical signal, either from the intrinsic signal of the probe/target or through a label or a redox indicator. The major drawback of this approach is the requirement for probe immobilization in a controlled fashion. In this research, we take the advantage of different electrostatic properties between PNA and DNA to develop an immobilization-free approach for highly sequence-specific electrochemical DNA sensing on a screen-printed carbon electrode (SPCE) using a square-wave voltammetric (SWV) technique. Anthraquinone-labeled pyrrolidinyl peptide nucleic acid (AQ-PNA) was employed as a probe together with an SPCE that was modified with a positively-charged polymer (poly quaternized-(dimethylamino-ethyl)methacrylate, PQDMAEMA). The electrostatic attraction between the negatively-charged PNA-DNA duplex and the positively-charged modified SPCE attributes to the higher signal of PNA-DNA duplex than that of the electrostatically neutral PNA probe, resulting in a signal change. The calibration curve of this proposed method exhibited a linear range between 0.35 and 50 nM of DNA target with a limit of detection of 0.13 nM (3SD(blank)/Slope). The sub-nanomolar detection limit together with a small sample volume required (20 μL) allowed detection of <10 fmol (<1 ng) of DNA. With the high specificity of the pyrrolidinyl PNA probe used, excellent discrimination between complementary and various single-mismatched DNA targets was obtained. An application of this new platform for a sensitive and specific detection of isothermally-amplified shrimp's white spot syndrome virus (WSSV) DNA was successfully demonstrated.
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Affiliation(s)
- Jutatip Kongpeth
- Organic Synthesis Research Unit, Department of Chemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok 10330, Thailand
| | - Sakda Jampasa
- Program in Petrochemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok 10330, Thailand
| | - Piyasak Chaumpluk
- Laboratory of Plant Transgenic Technology and Biosensor, Department of Botany, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok 10330, Thailand
| | - Orawon Chailapakul
- Electrochemistry and Optical Spectroscopy Research Unit, Department of Chemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok 10330, Thailand
| | - Tirayut Vilaivan
- Organic Synthesis Research Unit, Department of Chemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok 10330, Thailand.
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Patterson AS, Hsieh K, Soh HT, Plaxco KW. Electrochemical real-time nucleic acid amplification: towards point-of-care quantification of pathogens. Trends Biotechnol 2013; 31:704-12. [DOI: 10.1016/j.tibtech.2013.09.005] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2013] [Revised: 09/18/2013] [Accepted: 09/25/2013] [Indexed: 01/03/2023]
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12
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Lee DC, Yip SP, Lee TMH. Simple and Sensitive Electrochemical DNA Detection of Primer Generation-Rolling Circle Amplification. ELECTROANAL 2013. [DOI: 10.1002/elan.201300029] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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