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Zhang Z, Yuan H, Ni R, Yin J, Li M, Yang P, Cao X, Zhou J, Su X, Chen Y, Gao W, Jin Q. Minute level ultra-rapid and thousand copies level high-sensitive pathogen nucleic acid identification based on contactless impedance detection microsensor. Talanta 2024; 278:126487. [PMID: 39002258 DOI: 10.1016/j.talanta.2024.126487] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2024] [Revised: 04/21/2024] [Accepted: 06/28/2024] [Indexed: 07/15/2024]
Abstract
Early screening for pathogens is crucial during pandemic outbreaks. Nucleic acid testing (NAT) is a valuable method for keeping pathogens from spreading. However, the long detection time and large size of the instruments involved significantly limited the efficiency of detection. This work described an integrated NAT microsensor that facilitated rapid and extremely sensitive detection based on nucleic acid amplification (NAA) on a chip. The biochip consisted of two layers incorporating a heater, a thermometer, an interdigital electrode (IDE) and a reaction chamber. The Pt electrode based heater and thermometer were utilized to maintain a specific temperature for the sample in the chamber. The thermometer exhibited a good linear correlation with a sensitivity of 9.36 Ω/°C and the heater achieved a heating efficiency of approximately 6.5 °C/s. Multiple ions were released during NAA, resulting in a decrease in the impedance of the amplification system solution. A large signal of impedance was generated by the released ions due to its linear correlation with the logarithm of the ion concentration. With this detection principle, IDE was employed for real-time monitoring of the in-chip reaction system impedance and NAA process. Specific nucleic acids from two pathogens (SARS-CoV-2, Vibrio vulnificus) were detected with this microsensor. The samples were qualitatively analyzed on microchip within 3 min, with a limit of detection (LOD) of 103 copies/μL. The proposed sensor presented several advantages, including reduced NAT time and increased sensitivity. Consequently, it has shown significant potential in rapid and high-quality nucleic acid testing for the field of epidemic prevention.
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Affiliation(s)
- Zhikang Zhang
- The Faculty of Electrical Engineering and Computer Science, Ningbo University, Ningbo, 315211, Zhejiang, China; State Key Laboratory of Transducer Technology, Shanghai Institute of Microsystem and Information Technology, Chinese Academy of Sciences, Shanghai, 200050, China
| | - Haojun Yuan
- The Faculty of Electrical Engineering and Computer Science, Ningbo University, Ningbo, 315211, Zhejiang, China; State Key Laboratory of Transducer Technology, Shanghai Institute of Microsystem and Information Technology, Chinese Academy of Sciences, Shanghai, 200050, China
| | - Renhao Ni
- Health Science Center, Ningbo University, Ningbo, 315211, Zhejiang, China
| | - Jiawen Yin
- The Faculty of Electrical Engineering and Computer Science, Ningbo University, Ningbo, 315211, Zhejiang, China
| | - Min Li
- The Faculty of Electrical Engineering and Computer Science, Ningbo University, Ningbo, 315211, Zhejiang, China
| | - Panhui Yang
- The Faculty of Electrical Engineering and Computer Science, Ningbo University, Ningbo, 315211, Zhejiang, China
| | - Xinyi Cao
- The Faculty of Electrical Engineering and Computer Science, Ningbo University, Ningbo, 315211, Zhejiang, China
| | - Jun Zhou
- School of Marine Science, Ningbo University, Ningbo, 315211, Zhejiang, China
| | - Xiurong Su
- School of Marine Science, Ningbo University, Ningbo, 315211, Zhejiang, China
| | - Yongbin Chen
- Beilun People's Hospital, Beilun Branch of the First Affiliated Hospital, School of Medicine, Zhejiang University, 315800, Ningbo, Zhejiang, China
| | - Wanlei Gao
- The Faculty of Electrical Engineering and Computer Science, Ningbo University, Ningbo, 315211, Zhejiang, China; State Key Laboratory of Transducer Technology, Shanghai Institute of Microsystem and Information Technology, Chinese Academy of Sciences, Shanghai, 200050, China.
| | - Qinghui Jin
- The Faculty of Electrical Engineering and Computer Science, Ningbo University, Ningbo, 315211, Zhejiang, China; State Key Laboratory of Transducer Technology, Shanghai Institute of Microsystem and Information Technology, Chinese Academy of Sciences, Shanghai, 200050, China.
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Nunez-Bajo E, Silva Pinto Collins A, Kasimatis M, Cotur Y, Asfour T, Tanriverdi U, Grell M, Kaisti M, Senesi G, Stevenson K, Güder F. Disposable silicon-based all-in-one micro-qPCR for rapid on-site detection of pathogens. Nat Commun 2020; 11:6176. [PMID: 33268779 PMCID: PMC7710731 DOI: 10.1038/s41467-020-19911-6] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2020] [Accepted: 10/29/2020] [Indexed: 12/15/2022] Open
Abstract
Rapid screening and low-cost diagnosis play a crucial role in choosing the correct course of intervention when dealing with highly infectious pathogens. This is especially important if the disease-causing agent has no effective treatment, such as the novel coronavirus SARS-CoV-2, and shows no or similar symptoms to other common infections. Here, we report a disposable silicon-based integrated Point-of-Need transducer (TriSilix) for real-time quantitative detection of pathogen-specific sequences of nucleic acids. TriSilix can be produced at wafer-scale in a standard laboratory (37 chips of 10 × 10 × 0.65 mm in size can be produced in 7 h, costing ~0.35 USD per device). We are able to quantitatively detect a 563 bp fragment of genomic DNA of Mycobacterium avium subspecies paratuberculosis through real-time PCR with a limit-of-detection of 20 fg, equivalent to a single bacterium, at the 35th cycle. Using TriSilix, we also detect the cDNA from SARS-CoV-2 (1 pg) with high specificity against SARS-CoV (2003).
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Affiliation(s)
| | | | - Michael Kasimatis
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK
| | - Yasin Cotur
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK
| | - Tarek Asfour
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK
| | - Ugur Tanriverdi
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK
| | - Max Grell
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK
| | - Matti Kaisti
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK
- Department of Future Technologies, University of Turku, 20500, Turku, Finland
| | - Guglielmo Senesi
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK
| | - Karen Stevenson
- Moredun Research Institute, Pentlands Science Park, Bush Loan, Edinburgh, Scotland, EH26 0PZ, UK
| | - Firat Güder
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK.
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Nakamura S, Hashimoto H, Kobayashi S, Fujimoto K. Photochemical Acceleration of DNA Strand Displacement by Using Ultrafast DNA Photo-crosslinking. Chembiochem 2017; 18:1984-1989. [DOI: 10.1002/cbic.201700430] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2017] [Indexed: 01/11/2023]
Affiliation(s)
- Shigetaka Nakamura
- School of Materials Science; Japan Advanced Institute Science and Technology; 1-1 Asahidai Nomi Ishikawa 923-1292 Japan
| | - Hirokazu Hashimoto
- School of Materials Science; Japan Advanced Institute Science and Technology; 1-1 Asahidai Nomi Ishikawa 923-1292 Japan
| | - Satoshi Kobayashi
- Department of Computer Science; University of Electro-Communications; 1-1-1 Chofugaoka Chofu Tokyo 182-8585 Japan
| | - Kenzo Fujimoto
- School of Materials Science; Japan Advanced Institute Science and Technology; 1-1 Asahidai Nomi Ishikawa 923-1292 Japan
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Fang X, Jin Q, Jing F, Zhang H, Zhang F, Mao H, Xu B, Zhao J. Integrated biochip for label-free and real-time detection of DNA amplification by contactless impedance measurements based on interdigitated electrodes. Biosens Bioelectron 2013; 44:241-7. [PMID: 23485631 DOI: 10.1016/j.bios.2013.01.013] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2012] [Revised: 01/05/2013] [Accepted: 01/07/2013] [Indexed: 11/30/2022]
Abstract
Here, we introduce an integrated biochip which offers accurate thermal control and sensitive electrochemical detection of DNA amplification in real-time. The biochip includes a 10-μl microchamber, a temperature sensor, a heater, and a contactless impedance biosensor. A pair of interdigitated electrodes is employed as the impedance biosensor and the products of the amplification are determined directly through tracing the impedance change, without using any labels, redox indicators, or probes. Real-time monitoring of strand-displacement amplification and rolling circle amplification was successfully performed on the biochip and a detection limit of 1 nM was achieved. Amplification starting at an initial concentration of 10 nM could be discriminated from that starting at 1 nM started concentration as well as from the negative control. Since an insulation layer covers the electrodes, the electrodes are spared from erosion, hydrolysis and bubble formation on the surface, thus, ensuring a long lifetime and a high reusability of the sensor. In comparison to bench-top apparatus, our chip shows good efficiency, sensitivity, accuracy, and versatility. Our system requires only simple equipments and simple skills, and can easily be miniaturized into a micro-scale system. The system will then be suitable for a handheld portable device, which can be applied in remote areas. It covers merits such as low cost, low-power consumption, rapid response, real-time monitoring, label-free detection, and high-throughput detection.
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Affiliation(s)
- Xinxin Fang
- State Key Laboratory of Transducer Technology, Shanghai Institute of Microsystem and Information Technology, Chinese Academy of Science, Shanghai, China
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Jiang YS, Li B, Milligan JN, Bhadra S, Ellington AD. Real-time detection of isothermal amplification reactions with thermostable catalytic hairpin assembly. J Am Chem Soc 2013; 135:7430-3. [PMID: 23647466 DOI: 10.1021/ja4023978] [Citation(s) in RCA: 208] [Impact Index Per Article: 18.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Catalytic hairpin assembly (CHA) is an enzyme-free amplification method that has previously proven useful in amplifying and transducing signals at the terminus of nucleic acid amplification reactions. Here, for the first time, we engineered CHA to be thermostable from 37 to 60 °C and in consequence have generalized its application to the real-time detection of isothermal amplification reactions. CHA circuits were designed and optimized for both high- and low-temperature rolling circle amplification (RCA) and strand displacement amplification (SDA). The resulting circuits not only increased the specificity of detection but also improved the sensitivity by as much as 25- to 10000-fold over comparable real-time detection methods. These methods have been condensed into a set of general rules for the design of thermostable CHA circuits with high signals and low noise.
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Affiliation(s)
- Yu Sherry Jiang
- Institute for Cellular and Molecular Biology, Center for Systems and Synthetic Biology, and Department of Chemistry and Biochemistry, University of Texas at Austin, Austin, Texas 78712, USA
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