1
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Cheng Y, Liu M, Wang F. Label-free and ultrasensitive electrochemical detection of nucleic acids based on an exonuclease III-assisted target recycling amplification strategy using a heated gold disk electrode. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2024. [PMID: 39397660 DOI: 10.1039/d4ay01619j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/15/2024]
Abstract
The present work demonstrates a label-free, rapid and ultrasensitive electrochemical sensor for specific DNA detection with an exonuclease III (Exo III)-assisted target recycling amplification strategy and elevated electrode temperature at a heated gold disk electrode (HAuDE). The proposed electrochemical DNA (E-DNA) sensor was designed such that in the presence of the target DNA, the electrode self-assembled capture probe hybridizes with the target DNA to form a duplex structure, which triggers Exo III to specifically recognize this structure and selectively digest the capture probe, while the released target DNA underwent recycling to hybridize with a new capture probe, leading to the gradual digestion of a large amount of capture probes. It was found that during the digestion period, the activity of Exo III could be significantly improved by elevating electrode temperature, thus promoting the digestion reaction and improving the sensitivity for target DNA detection. Furthermore, an electrochemical indicator ([Ru(NH3)6]3+) was electrostatically bound to the capture probe, leading to a significant square wave voltammetry (SWV) response, which directly related to the amount and length of the capture probes remaining in the electrode and provided a quantitative measure for target DNA detection. The proposed strategy realized the highly sensitive detection of the target DNA with a detection limit of 26 aM (S/N = 3) at an electrode temperature of 40 °C during the digestion period, which was about two magnitudes lower than that at 24 °C.
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Affiliation(s)
- Yanggang Cheng
- School of Materials Science and Engineering, Jiangxi Provincial Key Laboratory of Power Batteries & Energy Storage Materials, Jiangxi University of Science and Technology, Ganzhou 341000, China.
| | - Minglu Liu
- School of Materials Science and Engineering, Jiangxi Provincial Key Laboratory of Power Batteries & Energy Storage Materials, Jiangxi University of Science and Technology, Ganzhou 341000, China.
| | - Fangfang Wang
- School of Materials Science and Engineering, Jiangxi Provincial Key Laboratory of Power Batteries & Energy Storage Materials, Jiangxi University of Science and Technology, Ganzhou 341000, China.
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2
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Khera HK, Mishra R. Nucleic Acid Based Testing (NABing): A Game Changer Technology for Public Health. Mol Biotechnol 2024; 66:2168-2200. [PMID: 37695473 DOI: 10.1007/s12033-023-00870-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2023] [Accepted: 08/21/2023] [Indexed: 09/12/2023]
Abstract
Timely and accurate detection of the causal agent of a disease is crucial to restrict suffering and save lives. Mere symptoms are often not enough to detect the root cause of the disease. Better diagnostics applied for screening at a population level and sensitive detection assays remain the crucial component of disease surveillance which may include clinical, plant, and environmental samples, including wastewater. The recent advances in genome sequencing, nucleic acid amplification, and detection methods have revolutionized nucleic acid-based testing (NABing) and screening assays. A typical NABing assay consists of three modules: isolation of the nucleic acid from the collected sample, identification of the target sequence, and final reading the target with the help of a signal, which may be in the form of color, fluorescence, etc. Here, we review current NABing assays covering the different aspects of all three modules. We also describe the frequently used target amplification or signal amplification procedures along with the variety of applications of this fast-evolving technology and challenges in implementation of NABing in the context of disease management especially in low-resource settings.
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Affiliation(s)
- Harvinder Kour Khera
- Tata Institute for Genetics and Society, New inStem Building NCBS Campus, GKVK Post, Bellary Road, Bengaluru, 560065, India.
| | - Rakesh Mishra
- Tata Institute for Genetics and Society, New inStem Building NCBS Campus, GKVK Post, Bellary Road, Bengaluru, 560065, India.
- CSIR-Centre for Cellular and Molecular Biology, Uppal Rd, IICT Colony, Habsiguda, Hyderabad, Telangana, 500007, India.
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3
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Tang Z, Zhao W, Sun Y, Deng Y, Bao J, Qiu C, Xiao X, Xu Y, Xie Z, Cai J, Chen X, Lin M, Xu G, Chen Z, Yu L. Spectrophotometric Detection of the BRCA1 Gene via Exponential Isothermal Amplification and Hybridization Chain Reaction of Surface-Bound Probes. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2022; 38:12050-12057. [PMID: 36153844 DOI: 10.1021/acs.langmuir.2c01903] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
In this work, we demonstrated an ultrasensitive approach with a dual-amplification strategy for DNA assay based on isothermal exponential amplification (EXPAR) and the hybridization chain reaction (HCR). In the presence of target DNA, the hairpin probe DNA (HP1) recognized and partially hybridized with the target DNA to form double-stranded structures containing the full recognition sequences for nicking endonuclease and then initiated EXPAR. Under the reaction of EXPAR, a large number of single-stranded DNA (ssDNA) was produced in the circle of nicking, polymerization, and strand displacement. The resulting ssDNA can bind to the surface-bound probe on the well of the microplate and trigger the hybridization chain reaction, resulting in the production of numerous double-stranded DNA concatamers with biotin labeling. In the presence of streptavidin-conjugated horseradish peroxidase (HRP), the amplified signal can be detected by a spectrophotometer via HRP-catalyzed substrate 3,3'5,5'-tetramethylbenzidine (TMB). This proposed dual-amplification method provides a detection limit of 74.48 aM, which also exhibits good linearity ranging from 0.1 fM to 100 pM.
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Affiliation(s)
- Zibin Tang
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, The First Dongguan Affiliated Hospital, Guangdong Medical University, Dongguan 523808, China
- School of Medical Technology, Guangdong Medical University, Dongguan 523808, China
| | - Wenyong Zhao
- Faculty of Forensic Medicine, School of Basic Medicine, Guangdong Medical University, Dongguan 523808, China
| | - Yuanzhong Sun
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, The First Dongguan Affiliated Hospital, Guangdong Medical University, Dongguan 523808, China
- School of Medical Technology, Guangdong Medical University, Dongguan 523808, China
| | - Yuling Deng
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, The First Dongguan Affiliated Hospital, Guangdong Medical University, Dongguan 523808, China
- School of Medical Technology, Guangdong Medical University, Dongguan 523808, China
| | - Juan Bao
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, The First Dongguan Affiliated Hospital, Guangdong Medical University, Dongguan 523808, China
- School of Medical Technology, Guangdong Medical University, Dongguan 523808, China
| | - Cailing Qiu
- Department of Medical Laboratory, Dalang Hospital of Dongguan, Dongguan 523770, China
| | - Xiang Xiao
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, The First Dongguan Affiliated Hospital, Guangdong Medical University, Dongguan 523808, China
| | - Yao Xu
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, The First Dongguan Affiliated Hospital, Guangdong Medical University, Dongguan 523808, China
| | - Zhaoyang Xie
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, The First Dongguan Affiliated Hospital, Guangdong Medical University, Dongguan 523808, China
- School of Medical Technology, Guangdong Medical University, Dongguan 523808, China
| | - Jingyi Cai
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, The First Dongguan Affiliated Hospital, Guangdong Medical University, Dongguan 523808, China
- School of Medical Technology, Guangdong Medical University, Dongguan 523808, China
| | - Xiaofang Chen
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, The First Dongguan Affiliated Hospital, Guangdong Medical University, Dongguan 523808, China
- School of Medical Technology, Guangdong Medical University, Dongguan 523808, China
| | - Manhua Lin
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, The First Dongguan Affiliated Hospital, Guangdong Medical University, Dongguan 523808, China
- School of Medical Technology, Guangdong Medical University, Dongguan 523808, China
| | - Guangxian Xu
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, The First Dongguan Affiliated Hospital, Guangdong Medical University, Dongguan 523808, China
- School of Medical Technology, Guangdong Medical University, Dongguan 523808, China
| | - Zhangquan Chen
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, The First Dongguan Affiliated Hospital, Guangdong Medical University, Dongguan 523808, China
- School of Medical Technology, Guangdong Medical University, Dongguan 523808, China
| | - Luxin Yu
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, The First Dongguan Affiliated Hospital, Guangdong Medical University, Dongguan 523808, China
- School of Medical Technology, Guangdong Medical University, Dongguan 523808, China
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4
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Liu H, You Y, Zhu Y, Zheng H. Recent advances in the exonuclease III-assisted target signal amplification strategy for nucleic acid detection. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2021; 13:5103-5119. [PMID: 34664562 DOI: 10.1039/d1ay01275d] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
The detection of nucleic acids has become significantly important in molecular diagnostics, gene therapy, mutation analysis, forensic investigations and biomedical development, and so on. In recent years, exonuclease III (Exo III) as an enzyme in the 3'-5' exonuclease family has evolved as a frequently used technique for signal amplification of low level DNA target detection. Different from the traditional target amplification strategies, the Exo III-assisted amplification strategy has been used for target DNA detection through directly amplifying the amounts of signal reagents. The Exo III-assisted amplification strategy has its unique advantages and characters, because the character of non-specific recognition of Exo III can overcome the limitation of a target-to-probe ratio of 1 : 1 in the traditional nucleic acid hybridization assay and acquire higher sensitivity. In this review, we selectively discuss the recent advances in the Exo III-assisted amplification strategy, including the amplification strategy integrated with nanomaterials, biosensors, hairpin probes and other nucleic acid detection methods. We also discuss the strengths and limitations of each strategy and methods to overcome the limitations.
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Affiliation(s)
- Hongyu Liu
- School of Life Science and Technology, China Pharmaceutical University, Nanjing 210009, P. R. China.
| | - Yuhao You
- School of Life Science and Technology, China Pharmaceutical University, Nanjing 210009, P. R. China.
| | - Youzhuo Zhu
- School of Life Science and Technology, China Pharmaceutical University, Nanjing 210009, P. R. China.
| | - Heng Zheng
- School of Life Science and Technology, China Pharmaceutical University, Nanjing 210009, P. R. China.
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5
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A subfemtomolar electrochemical DNA biosensor realized by in-situ grafting of gold nanoparticle/neutral red on the terminal of hairpin probe as the signal tag. Microchem J 2021. [DOI: 10.1016/j.microc.2021.106079] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
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6
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Weng X, Xu X, Huang P, Liu Z, Liu A, Chen W, Lin X. Detection of Epidermal Growth Factor Receptor Gene Status via a DNA Electrochemical Biosensor Based on Lambda Exonuclease-assisted Signal Amplification. ANAL SCI 2020; 36:697-702. [PMID: 31866610 DOI: 10.2116/analsci.19p422] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Based on our previous work, we have constructed a new electrochemical biosensor to detect epidermal growth factor receptor (EGFR) gene mutation, which was a significant therapeutic effect predictor of target drugs for non-small cell lung cancer. In order to lower the detection limit to detect the small amount of EGFR gene status, we have employed lambda exonuclease (λ-Exo) to form a hybridization-digestion cycle. The reaction stages are depicted as follows: the target DNA hybridized with auxiliary DNA which had been modified with the λ-Exo recognition site; then, the double strands were cleaved by λ-Exo. The target DNA was released completely, and continued to hybridize with remaining auxiliary DNA, which formed a recycle for target reutilization. Finally, we detected the remaining auxiliary DNA to evaluate the amount or status of the EGFR gene. The reutilization of target DNA will help to achieve an enlarged signal with a small amount of target DNA, and the detection limit of the biosensor decreased down to 10 pM. Meanwhile, our assay can differentiate wild genes from the mutational gene of EGFR with excellent specificity. Our signal amplification method provides a research foundation for the detection system of the electrochemical biosensor by employing exonuclease, and impels the biosensor to be developed as a suitable method for EGFR detection in clinical applications.
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Affiliation(s)
- XiuHua Weng
- Department of Pharmacy, First Affiliated Hospital of Fujian Medical University
| | - XiongWei Xu
- Department of Pharmacy, First Affiliated Hospital of Fujian Medical University
| | - PinFang Huang
- Department of Pharmacy, First Affiliated Hospital of Fujian Medical University
| | - ZhouJie Liu
- Department of Pharmacy, First Affiliated Hospital of Fujian Medical University
| | - AiLin Liu
- Department of Pharmaceutical Analysis, Fujian Medical University
| | - Wei Chen
- Department of Pharmaceutical Analysis, Fujian Medical University
| | - XinHua Lin
- Department of Pharmaceutical Analysis, Fujian Medical University
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7
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Nucleic acid amplification free biosensors for pathogen detection. Biosens Bioelectron 2020; 153:112049. [DOI: 10.1016/j.bios.2020.112049] [Citation(s) in RCA: 55] [Impact Index Per Article: 13.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2019] [Revised: 01/21/2020] [Accepted: 01/23/2020] [Indexed: 12/11/2022]
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8
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Sun H, Qiu Y, Lu Y, Kong J, Zhang X. Ultrasensitive DNA electrochemical biosensor based on MnTBAP biomimetic catalyzed AGET ATRP signal amplification reaction. Chem Commun (Camb) 2020; 56:6636-6639. [DOI: 10.1039/d0cc02176h] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
In this paper, an ultrasensitive, highly selective and green electrochemical biosensor for quantifying DNA sequences (aM DNA) based on a MnTBAP catalyst for AGET ATRP reaction is proposed.
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Affiliation(s)
- Haobo Sun
- Research Center for Biomedical and Health Science
- Anhui Science and Technology University
- Fengyang 233100
- P. R. China
- School of Environmental and Biological Engineering
| | - Yunliang Qiu
- Department of Criminal Science and Technology
- Nanjing Forest Police College
- Nanjing 210023
- P. R. China
| | - Yajie Lu
- Research Center for Biomedical and Health Science
- Anhui Science and Technology University
- Fengyang 233100
- P. R. China
| | - Jinming Kong
- School of Environmental and Biological Engineering
- Nanjing University of Science and Technology
- Nanjing 210094
- P. R. China
| | - Xueji Zhang
- School of Biomedical Engineering
- Shenzhen University Health Science Center
- Shenzhen
- P. R. China
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9
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A multiple signal amplification electrochemical biosensors based on target DNA recycling for detection of the EGFR mutation status in lung cancer patients. J Electroanal Chem (Lausanne) 2019. [DOI: 10.1016/j.jelechem.2019.113555] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
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10
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Baek S, Ahn JK, Won BY, Park KS, Park HG. A one-step and label-free, electrochemical DNA detection using metal ion-mediated molecular beacon probe. Electrochem commun 2019. [DOI: 10.1016/j.elecom.2019.01.023] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023] Open
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11
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Zhou Z, Luo G, Wulf V, Willner I. Application of DNA Machineries for the Barcode Patterned Detection of Genes or Proteins. Anal Chem 2018; 90:6468-6476. [PMID: 29737162 DOI: 10.1021/acs.analchem.7b04916] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
The study introduces an analytical platform for the detection of genes or aptamer-ligand complexes by nucleic acid barcode patterns generated by DNA machineries. The DNA machineries consist of nucleic acid scaffolds that include specific recognition sites for the different genes or aptamer-ligand analytes. The binding of the analytes to the scaffolds initiate, in the presence of the nucleotide mixture, a cyclic polymerization/nicking machinery that yields displaced strands of variable lengths. The electrophoretic separation of the resulting strands provides barcode patterns for the specific detection of the different analytes. Mixtures of DNA machineries that yield, upon sensing of different genes (or aptamer ligands), one-, two-, or three-band barcode patterns are described. The combination of nucleic acid scaffolds acting, in the presence of polymerase/nicking enzyme and nucleotide mixture, as DNA machineries, that generate multiband barcode patterns provide an analytical platform for the detection of an individual gene out of many possible genes. The diversity of genes (or other analytes) that can be analyzed by the DNA machineries and the barcode patterned imaging is given by the Pascal's triangle. As a proof-of-concept, the detection of one of six genes, that is, TP53, Werner syndrome, Tay-Sachs normal gene, BRCA1, Tay-Sachs mutant gene, and cystic fibrosis disorder gene by six two-band barcode patterns is demonstrated. The advantages and limitations of the detection of analytes by polymerase/nicking DNA machineries that yield barcode patterns as imaging readout signals are discussed.
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Affiliation(s)
- Zhixin Zhou
- Institute of Chemistry, The Minerva Center for Biohybrid Complex Systems , The Hebrew University of Jerusalem , Jerusalem 91904 , Israel
| | - Guofeng Luo
- Institute of Chemistry, The Minerva Center for Biohybrid Complex Systems , The Hebrew University of Jerusalem , Jerusalem 91904 , Israel
| | - Verena Wulf
- Institute of Chemistry, The Minerva Center for Biohybrid Complex Systems , The Hebrew University of Jerusalem , Jerusalem 91904 , Israel
| | - Itamar Willner
- Institute of Chemistry, The Minerva Center for Biohybrid Complex Systems , The Hebrew University of Jerusalem , Jerusalem 91904 , Israel
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12
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Liu S, Wang Y, Zhang S, Wang L. Exonuclease-Catalyzed Methylene Blue Releasing and Enriching onto a Dodecanethiol Monolayer for an Immobilization-Free and Highly Sensitive Electrochemical Nucleic Acid Biosensor. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2017; 33:5099-5107. [PMID: 28478675 DOI: 10.1021/acs.langmuir.6b04671] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Herein, a unique and versatile immobilization-free electrochemical nucleic acid biosensor architecture is proposed for the first time based on the catalyzed release of a methylene blue (MB)-tagged mononucleotide by exonuclease III (Exo III) and the successive enrichment onto a dodecanethiol monolayer, which can be attributed to the hydrophobic force between the alkyl chain of the dodecanethiol monolayer and the hydrophobic part of the MB-tagged mononucleotide. The fabricated biosensor demonstrates considerable advantages including assay simplicity, rapidness, and high sensitivity owing to its immobilization-free and homogenous operation for the biorecognition and amplification process. A low detection limit of approximately 1 pM toward the target DNA could be achieved with an excellent selectivity. The proposed immobilization-free electrochemical biosensing strategy was also extended for the assay of Exo I and III activity. Furthermore, it might be easily extended for the detection of a wide spectrum of targets and thus provide a promising avenue for the development of immobilization-free and sensitive electrochemical biosensors.
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Affiliation(s)
- Shufeng Liu
- Key Laboratory of Sensor Analysis of Tumor Marker, Ministry of Education, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology , No. 53, Rd. Zhengzhou, Qingdao, Shandong 266042, China
| | - Yanqun Wang
- Key Laboratory of Sensor Analysis of Tumor Marker, Ministry of Education, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology , No. 53, Rd. Zhengzhou, Qingdao, Shandong 266042, China
| | - Shanshan Zhang
- Key Laboratory of Sensor Analysis of Tumor Marker, Ministry of Education, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology , No. 53, Rd. Zhengzhou, Qingdao, Shandong 266042, China
| | - Li Wang
- Key Laboratory of Sensor Analysis of Tumor Marker, Ministry of Education, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology , No. 53, Rd. Zhengzhou, Qingdao, Shandong 266042, China
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13
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Wang S, Yang F, Jin D, Dai Q, Tu J, Liu Y, Ning Y, Zhang GJ. Toehold Mediated One-Step Conformation-Switchable “Signal-On” Electrochemical DNA Sensing Enhanced with Homogeneous Enzymatic Amplification. Anal Chem 2017; 89:5349-5356. [PMID: 28452219 DOI: 10.1021/acs.analchem.6b05171] [Citation(s) in RCA: 44] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Affiliation(s)
- Siqi Wang
- School
of Laboratory Medicine, Hubei University of Chinese Medicine, 1 Huangjia Lake West Road, Wuhan, Hubei 430065, China
| | - Fan Yang
- School
of Laboratory Medicine, Hubei University of Chinese Medicine, 1 Huangjia Lake West Road, Wuhan, Hubei 430065, China
| | - Dan Jin
- School
of Laboratory Medicine, Hubei University of Chinese Medicine, 1 Huangjia Lake West Road, Wuhan, Hubei 430065, China
| | - Qi Dai
- Huangjia
Lake Hospital, Hubei University of Chinese Medicine, 1 Huangjia
Lake West Road, Wuhan, Hubei 430065, China
| | - Jiyuan Tu
- School
of Pharmacy, Hubei University of Chinese Medicine, 1 Huangjia
Lake West Road, Wuhan, Hubei 430065, China
| | - Yanju Liu
- School
of Pharmacy, Hubei University of Chinese Medicine, 1 Huangjia
Lake West Road, Wuhan, Hubei 430065, China
| | - Yong Ning
- School
of Laboratory Medicine, Hubei University of Chinese Medicine, 1 Huangjia Lake West Road, Wuhan, Hubei 430065, China
| | - Guo-Jun Zhang
- School
of Laboratory Medicine, Hubei University of Chinese Medicine, 1 Huangjia Lake West Road, Wuhan, Hubei 430065, China
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14
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Song J, Hoa VM, Yoo J, Oh S, Im H, Park D, Lee G. A graphene oxide-based tool-kit capable of characterizing and classifying exonuclease activities. RSC Adv 2017. [DOI: 10.1039/c7ra00388a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Exonuclease kinetics and classification assay by graphene oxide-based fluorometric quenching.
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Affiliation(s)
- Jayeon Song
- Department of Biomedical Science and Engineering
- Gwangju Institute of Science and Technology
- Gwangju
- Korea
| | - Vo Minh Hoa
- School of Life Sciences
- Gwangju Institute of Science and Technology
- Gwangju
- Korea
| | - Jungmin Yoo
- School of Life Sciences
- Gwangju Institute of Science and Technology
- Gwangju
- Korea
| | - Sanghoon Oh
- Department of Biomedical Science and Engineering
- Gwangju Institute of Science and Technology
- Gwangju
- Korea
| | - Hyeryeon Im
- School of Life Sciences
- Gwangju Institute of Science and Technology
- Gwangju
- Korea
| | - Daeho Park
- School of Life Sciences
- Gwangju Institute of Science and Technology
- Gwangju
- Korea
| | - Gwangrog Lee
- Department of Biomedical Science and Engineering
- Gwangju Institute of Science and Technology
- Gwangju
- Korea
- School of Life Sciences
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15
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Li C, Wu D, Hu X, Xiang Y, Shu Y, Li G. One-Step Modification of Electrode Surface for Ultrasensitive and Highly Selective Detection of Nucleic Acids with Practical Applications. Anal Chem 2016; 88:7583-90. [DOI: 10.1021/acs.analchem.6b01250] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Chao Li
- State Key Laboratory
of Pharmaceutical Biotechnology and Collaborative Innovation Center
of Chemistry for Life Sciences, Department of Biochemistry, Nanjing University, Nanjing 210093, P. R. China
| | - Dan Wu
- State Key Laboratory
of Pharmaceutical Biotechnology and Collaborative Innovation Center
of Chemistry for Life Sciences, Department of Biochemistry, Nanjing University, Nanjing 210093, P. R. China
| | - Xiaolu Hu
- State Key Laboratory
of Pharmaceutical Biotechnology and Collaborative Innovation Center
of Chemistry for Life Sciences, Department of Biochemistry, Nanjing University, Nanjing 210093, P. R. China
| | - Yang Xiang
- State Key Laboratory
of Pharmaceutical Biotechnology and Collaborative Innovation Center
of Chemistry for Life Sciences, Department of Biochemistry, Nanjing University, Nanjing 210093, P. R. China
| | - Yongqian Shu
- Department of Oncology, The First Affiliated Hospital of Nanjing Medical University, Nanjing 210029, P. R. China
| | - Genxi Li
- State Key Laboratory
of Pharmaceutical Biotechnology and Collaborative Innovation Center
of Chemistry for Life Sciences, Department of Biochemistry, Nanjing University, Nanjing 210093, P. R. China
- Laboratory of Biosensing Technology, School
of Life Sciences, Shanghai University, Shanghai, 200444, China
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16
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Lv X, Zhang P, Li M, Guo Z, Zheng X. Synthesis of Polymethylene Blue Nanoparticles and their Application to Label-Free DNA Detection. ANAL LETT 2016. [DOI: 10.1080/00032719.2016.1158832] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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17
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Liu S, Gong H, Wang Y, Wang L. Label-free electrochemical nucleic acid biosensing by tandem polymerization and cleavage-mediated cascade target recycling and DNAzyme amplification. Biosens Bioelectron 2016; 77:818-23. [DOI: 10.1016/j.bios.2015.10.056] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2015] [Revised: 10/18/2015] [Accepted: 10/19/2015] [Indexed: 12/12/2022]
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18
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Wang H, Wang Y, Liu S, Yu J, Guo Y, Xu Y, Huang J. Signal-on electrochemical detection of antibiotics based on exonuclease III-assisted autocatalytic DNA biosensing platform. RSC Adv 2016. [DOI: 10.1039/c6ra06061g] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
In this work, a novel electrochemical DNA sensor based on exonuclease III (Exo III)-assisted autocatalytic DNA biosensing platform for ultrasensitive detection of antibiotics has been reported.
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Affiliation(s)
- Hongzhi Wang
- Key Laboratory of Chemical Sensing & Analysis in Universities of Shandong
- School of Chemistry and Chemical Engineering
- University of Jinan
- Jinan 250022
- P. R. China
| | - Yu Wang
- College of Biological Sciences and Technology
- University of Jinan
- Jinan 250022
- P. R. China
| | - Su Liu
- College of Resources and Environment
- University of Jinan
- Jinan 250022
- P. R. China
| | - Jinghua Yu
- Key Laboratory of Chemical Sensing & Analysis in Universities of Shandong
- School of Chemistry and Chemical Engineering
- University of Jinan
- Jinan 250022
- P. R. China
| | - Yuna Guo
- Key Laboratory of Chemical Sensing & Analysis in Universities of Shandong
- School of Chemistry and Chemical Engineering
- University of Jinan
- Jinan 250022
- P. R. China
| | - Ying Xu
- College of Biological Sciences and Technology
- University of Jinan
- Jinan 250022
- P. R. China
| | - Jiadong Huang
- Key Laboratory of Chemical Sensing & Analysis in Universities of Shandong
- School of Chemistry and Chemical Engineering
- University of Jinan
- Jinan 250022
- P. R. China
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19
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Dual-probe electrochemical DNA biosensor based on the “Y” junction structure and restriction endonuclease assisted cyclic enzymatic amplification for detection of double-strand DNA of PML/RARα related fusion gene. Biosens Bioelectron 2015; 71:463-469. [DOI: 10.1016/j.bios.2015.04.071] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2015] [Revised: 04/01/2015] [Accepted: 04/14/2015] [Indexed: 01/31/2023]
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20
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Gerasimova YV, Kolpashchikov DM. Enzyme-assisted target recycling (EATR) for nucleic acid detection. Chem Soc Rev 2015; 43:6405-38. [PMID: 24901032 DOI: 10.1039/c4cs00083h] [Citation(s) in RCA: 160] [Impact Index Per Article: 17.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Fast, reliable and sensitive methods for nucleic acid detection are of growing practical interest with respect to molecular diagnostics of cancer, infectious and genetic diseases. Currently, PCR-based and other target amplification strategies are most extensively used in practice. At the same time, such assays have limitations that can be overcome by alternative approaches. There is a recent explosion in the design of methods that amplify the signal produced by a nucleic acid target, without changing its copy number. This review aims at systematization and critical analysis of the enzyme-assisted target recycling (EATR) signal amplification technique. The approach uses nucleases to recognize and cleave the probe-target complex. Cleavage reactions produce a detectable signal. The advantages of such techniques are potentially low sensitivity to contamination and lack of the requirement of a thermal cycler. Nucleases used for EATR include sequence-dependent restriction or nicking endonucleases or sequence independent exonuclease III, lambda exonuclease, RNase H, RNase HII, AP endonuclease, duplex-specific nuclease, DNase I, or T7 exonuclease. EATR-based assays are potentially useful for point-of-care diagnostics, single nucleotide polymorphisms genotyping and microRNA analysis. Specificity, limit of detection and the potential impact of EATR strategies on molecular diagnostics are discussed.
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Affiliation(s)
- Yulia V Gerasimova
- Chemistry Department, University of Central Florida, 4000 Central Florida Blvd., Orlando, FL 32816, USA.
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21
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Feng L, Lyu Z, Offenhäusser A, Mayer D. Multi-level logic gate operation based on amplified aptasensor performance. Angew Chem Int Ed Engl 2015; 54:7693-7. [PMID: 25959438 DOI: 10.1002/anie.201502315] [Citation(s) in RCA: 84] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2015] [Indexed: 11/09/2022]
Abstract
Conventional electronic circuits can perform multi-level logic operations; however, this capability is rarely realized by biological logic gates. In addition, the question of how to close the gap between biomolecular computation and silicon-based electrical circuitry is still a key issue in the bioelectronics field. Here we explore a novel split aptamer-based multi-level logic gate built from INHIBIT and AND gates that performs a net XOR analysis, with electrochemical signal as output. Based on the aptamer-target interaction and a novel concept of electrochemical rectification, a relayed charge transfer occurs upon target binding between aptamer-linked redox probes and solution-phase probes, which amplifies the sensor signal and facilitates a straightforward and reliable diagnosis. This work reveals a new route for the design of bioelectronic logic circuits that can realize multi-level logic operation, which has the potential to simplify an otherwise complex diagnosis to a "yes" or "no" decision.
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Affiliation(s)
- Lingyan Feng
- Peter Grünberg Institute, PGI-8, Research Center Jülich, JARA - Fundamentals of Future Information Technology, Jülich 52425 (Germany)
| | - Zhaozi Lyu
- Peter Grünberg Institute, PGI-8, Research Center Jülich, JARA - Fundamentals of Future Information Technology, Jülich 52425 (Germany)
| | - Andreas Offenhäusser
- Peter Grünberg Institute, PGI-8, Research Center Jülich, JARA - Fundamentals of Future Information Technology, Jülich 52425 (Germany)
| | - Dirk Mayer
- Peter Grünberg Institute, PGI-8, Research Center Jülich, JARA - Fundamentals of Future Information Technology, Jülich 52425 (Germany).
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22
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Logisches Mehrschrittgatter auf Basis eines Aptamersensors mit verstärktem Sensorsignal. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201502315] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
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23
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Golub E, Lu CH, Willner I. Metalloporphyrin/G-quadruplexes: From basic properties to practical applications. J PORPHYR PHTHALOCYA 2015. [DOI: 10.1142/s1088424615300025] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
Guanine-rich single-stranded nucleic acids self-assemble into G-quadruplex nanostructures (predominately in the presence of K +-ions). Metalloporphyrins bind to the G-quadruplex nanostructures to form supramolecular assemblies exhibiting unique catalytic, electrocatalytic and photophysical properties. This paper addresses the advances in the characterization and the implementation of the metalloporphyrin/G-quadruplexes complexes for various applications. Out of the different complexes, the most extensively studied complexes are the hemin/G-quadruplex horseradish peroxidase-mimicking DNAzyme and the Zn(II) -protoporphyrin IX-functionalized G-quadruplex. Specifically, the hemin/G-quadruplex was found to act as a catalyst for driving different chemical transformations that mimic the native horseradish peroxidase enzyme, and, also, to function as an electrocatalyst for the reduction of H 2 O 2. Also, the hemin/G-quadruplex stimulates interesting photophysical and photocatalytic processes such as the electron-transfer quenching of semiconductor quantum dots or the chemiluminescence resonance energy transfer to semiconductor quantum dots. Alternatively, Zn(II) -protoporphyrin IX associated with G-quadruplexes exhibit intensified fluorescence properties. Beyond the straight forward application of the metalloporphyrin/G-quadruplexes as catalysts that stimulate different chemical transformations, the specific catalytic, electrocatalytic and photocatalytic functions of hemin/G-quadruplexes are heavily implemented to develop sophisticated colorimetric, electrochemical, and optical sensing platforms. Also, the unique fluorescence properties of Zn(II) -protoporphyrin IX-functionalized G-quadruplexes are applied to develop fluorescence sensing platforms. The article exemplifies different sensing assays for analyzing DNA, ligand-aptamer complexes and telomerase activity using the metalloporphyrins/G-quadruplexes as transducing labels. Also, the use of the hemin/G-quadruplex as a probe to follow the operations of DNA machines is discussed.
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Affiliation(s)
- Eyal Golub
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Givat Ram, Jerusalem 91904, Israel
| | - Chun-Hua Lu
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Givat Ram, Jerusalem 91904, Israel
| | - Itamar Willner
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Givat Ram, Jerusalem 91904, Israel
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24
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Label-free and ultrasensitive colorimetric detection of DNA based on target-triggered quadratic amplification strategy. Biosens Bioelectron 2015; 66:277-82. [DOI: 10.1016/j.bios.2014.11.031] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2014] [Revised: 11/18/2014] [Accepted: 11/18/2014] [Indexed: 11/20/2022]
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25
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Yao GH, Liang RP, Huang CF, Zhang L, Qiu JD. Enzyme-free surface plasmon resonance aptasensor for amplified detection of adenosine via target-triggering strand displacement cycle and Au nanoparticles. Anal Chim Acta 2015; 871:28-34. [PMID: 25847158 DOI: 10.1016/j.aca.2015.02.028] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2014] [Revised: 02/03/2015] [Accepted: 02/10/2015] [Indexed: 12/31/2022]
Abstract
Herein, we combine the advantage of aptamer technique with the amplifying effect of an enzyme-free signal-amplification and Au nanoparticles (NPs) to design a sensitive surface plasmon resonance (SPR) aptasensor for detecting small molecules. This detection system consists of aptamer, detection probe (c-DNA1) partially hybridizing to the aptamer strand, Au NPs-linked hairpin DNA (Au-H-DNA1), and thiolated hairpin DNA (H-DNA2) previously immobilized on SPR gold chip. In the absence of target, the H-DNA1 possessing hairpin structure cannot hybridize with H-DNA2 and thereby Au NPs will not be captured on the SPR gold chip surface. Upon addition of target, the detection probe c-DNA1 is forced to dissociate from the c-DNA1/aptamer duplex by the specific recognition of the target to its aptamer. The released c-DNA1 hybridizes with Au-H-DNA1 and opens the hairpin structure, which accelerate the hybridization between Au-H-DNA1 and H-DNA2, leading to the displacement of the c-DNA1 through a branch migration process. The released c-DNA1 then hybridizes with another Au-H-DNA1 probe, and the cycle starts anew, resulting in the continuous immobilization of Au-H-DNA1 probes on the SPR chip, generating a significant change of SPR signal due to the electronic coupling interaction between the localized surface plasma of the Au NPs and the surface plasma wave. With the use of adenosine as a proof-of-principle analyte, this sensing platform can detect adenosine specifically with a detection limit as low as 0.21 pM, providing a simple, sensitive and selective protocol for small target molecules detection.
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Affiliation(s)
- Gui-Hong Yao
- Department of Chemistry, Nanchang University, Nanchang 330031, PR China
| | - Ru-Ping Liang
- Department of Chemistry, Nanchang University, Nanchang 330031, PR China.
| | - Chun-Fang Huang
- Department of Chemistry, Nanchang University, Nanchang 330031, PR China
| | - Li Zhang
- Department of Chemistry, Nanchang University, Nanchang 330031, PR China
| | - Jian-Ding Qiu
- Department of Chemistry, Nanchang University, Nanchang 330031, PR China; Department of Chemical Engineering, Pingxiang College, Pingxiang 337055, PR China.
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26
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Rahman MM, Li XB, Lopa NS, Ahn SJ, Lee JJ. Electrochemical DNA hybridization sensors based on conducting polymers. SENSORS (BASEL, SWITZERLAND) 2015; 15:3801-29. [PMID: 25664436 PMCID: PMC4367386 DOI: 10.3390/s150203801] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/29/2014] [Accepted: 01/27/2015] [Indexed: 02/07/2023]
Abstract
Conducting polymers (CPs) are a group of polymeric materials that have attracted considerable attention because of their unique electronic, chemical, and biochemical properties. This is reflected in their use in a wide range of potential applications, including light-emitting diodes, anti-static coating, electrochromic materials, solar cells, chemical sensors, biosensors, and drug-release systems. Electrochemical DNA sensors based on CPs can be used in numerous areas related to human health. This review summarizes the recent progress made in the development and use of CP-based electrochemical DNA hybridization sensors. We discuss the distinct properties of CPs with respect to their use in the immobilization of probe DNA on electrode surfaces, and we describe the immobilization techniques used for developing DNA hybridization sensors together with the various transduction methods employed. In the concluding part of this review, we present some of the challenges faced in the use of CP-based DNA hybridization sensors, as well as a future perspective.
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Affiliation(s)
- Md Mahbubur Rahman
- Nanotechnology Research Center and Department of Applied Life Science, College of Biomedical and Health Science, Konkuk University, Chungju 380-701, Korea.
| | - Xiao-Bo Li
- Nanotechnology Research Center and Department of Applied Life Science, College of Biomedical and Health Science, Konkuk University, Chungju 380-701, Korea.
| | - Nasrin Siraj Lopa
- Nanotechnology Research Center and Department of Applied Life Science, College of Biomedical and Health Science, Konkuk University, Chungju 380-701, Korea.
| | - Sang Jung Ahn
- Center for Advanced Instrumentation, Korea Research Institute of Standards and Science (KRISS), Daejeon 305-340, Korea.
| | - Jae-Joon Lee
- Nanotechnology Research Center and Department of Applied Life Science, College of Biomedical and Health Science, Konkuk University, Chungju 380-701, Korea.
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27
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Liu S, Liu T, Wang L. Label-free, isothermal and ultrasensitive electrochemical detection of DNA and DNA 3′-phosphatase using a cascade enzymatic cleavage strategy. Chem Commun (Camb) 2015; 51:176-9. [DOI: 10.1039/c4cc08140d] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A label-free, isothermal and cascade enzymatic cleavage strategy was developed for the ultrasensitive electrochemical detection of DNA and DNA 3′-phosphatase.
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Affiliation(s)
- Shufeng Liu
- Key Laboratory of Sensor Analysis of Tumor Marker
- Ministry of Education
- College of Chemistry and Molecular Engineering
- Qingdao University of Science and Technology
- Qingdao 266042
| | - Tao Liu
- Key Laboratory of Sensor Analysis of Tumor Marker
- Ministry of Education
- College of Chemistry and Molecular Engineering
- Qingdao University of Science and Technology
- Qingdao 266042
| | - Li Wang
- Key Laboratory of Sensor Analysis of Tumor Marker
- Ministry of Education
- College of Chemistry and Molecular Engineering
- Qingdao University of Science and Technology
- Qingdao 266042
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28
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Bao T, Wen W, Zhang X, Wang S. An exonuclease-assisted amplification electrochemical aptasensor of thrombin coupling "signal on/off" strategy. Anal Chim Acta 2014; 860:70-6. [PMID: 25682249 DOI: 10.1016/j.aca.2014.12.027] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2014] [Revised: 12/07/2014] [Accepted: 12/12/2014] [Indexed: 01/30/2023]
Abstract
In this work, a dual-signaling electrochemical aptasensor based on exonuclease-catalyzed target recycling was developed for thrombin detection. The proposed aptasensor coupled "signal-on" and "signal-off" strategies. As to the construction of the aptasensor, ferrocene (Fc) labeled thrombin binding aptamer (TBA) could perfectly hybridize with the methylene blue (MB) modified thiolated capture DNA to form double-stranded structure, hence emerged two different electrochemical signals. In the presence of thrombin, TBA could form a G-quadruplex structure with thrombin, leading to the dissociation of TBA from the duplex DNA and capture DNA formed hairpin structure. Exonuclease could selectively digest single-stranded TBA in G-quadruplex structure and released thrombin to realize target recycling. As a consequence, the electrochemical signal of MB enhanced significantly, which realized "signal on" strategy, meanwhile, the deoxidization peak current of Fc decreased distinctly, which realized "signal off" strategy. The employment of exonuclease and superposition of two signals significantly improved the sensitivity of the aptasensor. In this way, an aptasensor with high sensitivity, good stability and selectivity for quantitative detection of thrombin was constructed, which exhibited a good linear range from 5 pM to 50 nM with a detection limit of 0.9 pM (defined as S/N=3). In addition, this design strategy could be applied to the detection of other proteins and small molecules.
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Affiliation(s)
- Ting Bao
- Hubei Collaborative Innovation Center for Advanced Organic Chemical Materials, Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules & College of Chemistry and Chemical Engineering, Hubei University, Wuhan 430062, PR China
| | - Wei Wen
- Hubei Collaborative Innovation Center for Advanced Organic Chemical Materials, Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules & College of Chemistry and Chemical Engineering, Hubei University, Wuhan 430062, PR China
| | - Xiuhua Zhang
- Hubei Collaborative Innovation Center for Advanced Organic Chemical Materials, Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules & College of Chemistry and Chemical Engineering, Hubei University, Wuhan 430062, PR China
| | - Shengfu Wang
- Hubei Collaborative Innovation Center for Advanced Organic Chemical Materials, Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules & College of Chemistry and Chemical Engineering, Hubei University, Wuhan 430062, PR China.
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29
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Xue Q, Lv Y, Cui H, Gu X, Zhang S, Liu J. A DNA nanomachine based on rolling circle amplification-bridged two-stage exonuclease III-assisted recycling strategy for label-free multi-amplified biosensing of nucleic acid. Anal Chim Acta 2014; 856:103-9. [PMID: 25542364 DOI: 10.1016/j.aca.2014.11.035] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2014] [Revised: 11/24/2014] [Accepted: 11/29/2014] [Indexed: 01/08/2023]
Abstract
An autonomous DNA nanomachine based on rolling circle amplification (RCA)-bridged two-stage exonuclease III (Exo III)-induced recycling amplification (Exo III-RCA-Exo III) was developed for label-free and highly sensitive homogeneous multi-amplified detection of DNA combined with sensitive fluorescence detection technique. According to the configuration, the analysis of DNA is accomplished by recognizing the target to a unlabeled molecular beacon (UMB) that integrates target-binding and signal transducer within one multifunctional design, followed by the target-binding of UMB in duplex DNA removed stepwise by Exo III accompanied by the releasing of target DNA for the successive hybridization and cleavage process and autonomous generation of the primer that initiate RCA process with a rational designed padlock DNA. The RCA products containing thousands of repeated catalytic sequences catalytically hybridize with a hairpin reporter probe that includes a "caged" inactive G-quadruplex sequence (HGP) and were then detected by Exo III-assisted recycling amplification, liberating the active G-quadruplex and generating remarkable ZnPPIX/G-quadruplex fluorescence signals with the help of zinc(II)-protoporphyrin IX (ZnPPIX). The proposed strategy showed a wide dynamic range over 7 orders of magnitude with a low limit of detection of 0.51 aM. In addition, this designed protocol can discriminate mismatched DNA from perfectly matched target DNA, and holds a great potential for early diagnosis in gene-related diseases.
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Affiliation(s)
- Qingwang Xue
- Department of Chemistry, Liaocheng University, Liaocheng 252059, Shandong, China.
| | - Yanqin Lv
- Department of Chemistry, Liaocheng University, Liaocheng 252059, Shandong, China
| | - Hui Cui
- Department of Chemistry, Liaocheng University, Liaocheng 252059, Shandong, China
| | - Xiaohong Gu
- Shandong Provincial Key Lab of Test Technology on Food Quality and Safety, Shandong Academy of Agricultural Sciences, Jinan 250100, China
| | - Shuqiu Zhang
- Shandong Provincial Key Lab of Test Technology on Food Quality and Safety, Shandong Academy of Agricultural Sciences, Jinan 250100, China
| | - Jifeng Liu
- Department of Chemistry, Liaocheng University, Liaocheng 252059, Shandong, China; Key Laboratory of Food Nutrition and Safety, Ministry of Education of China, Tianjin University of Science and Technology, Tianjin 300457, China.
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30
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A dual-signal amplification method for the DNA detection based on exonuclease III. Biosens Bioelectron 2014; 61:370-3. [DOI: 10.1016/j.bios.2014.05.046] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2014] [Revised: 05/17/2014] [Accepted: 05/21/2014] [Indexed: 11/20/2022]
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31
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Feng L, Sivanesan A, Lyu Z, Offenhäusser A, Mayer D. Electrochemical current rectification-a novel signal amplification strategy for highly sensitive and selective aptamer-based biosensor. Biosens Bioelectron 2014; 66:62-8. [PMID: 25460883 DOI: 10.1016/j.bios.2014.10.057] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2014] [Revised: 10/23/2014] [Accepted: 10/26/2014] [Indexed: 10/24/2022]
Abstract
Electrochemical aptamer-based (E-AB) sensors represent an emerging class of recently developed sensors. However, numerous of these sensors are limited by a low surface density of electrode-bound redox-oligonucleotides which are used as probe. Here we propose to use the concept of electrochemical current rectification (ECR) for the enhancement of the redox signal of E-AB sensors. Commonly, the probe-DNA performs a change in conformation during target binding and enables a nonrecurring charge transfer between redox-tag and electrode. In our system, the redox-tag of the probe-DNA is continuously replenished by solution-phase redox molecules. A unidirectional electron transfer from electrode via surface-linked redox-tag to the solution-phase redox molecules arises that efficiently amplifies the current response. Using this robust and straight-forward strategy, the developed sensor showed a substantial signal amplification and consequently improved sensitivity with a calculated detection limit of 114nM for ATP, which was improved by one order of magnitude compared with the amplification-free detection and superior to other previous detection results using enzymes or nanomaterials-based signal amplification. To the best of our knowledge, this is the first demonstration of an aptamer-based electrochemical biosensor involving electrochemical rectification, which can be presumably transferred to other biomedical sensor systems.
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Affiliation(s)
- Lingyan Feng
- Peter-Grünberg-Institute, PGI-8, Research Center Jülich, JARA-Fundamentals of Future Information Technology, Jülich 52425, Germany
| | - Arumugam Sivanesan
- Peter-Grünberg-Institute, PGI-8, Research Center Jülich, JARA-Fundamentals of Future Information Technology, Jülich 52425, Germany
| | - Zhaozi Lyu
- Peter-Grünberg-Institute, PGI-8, Research Center Jülich, JARA-Fundamentals of Future Information Technology, Jülich 52425, Germany
| | - Andreas Offenhäusser
- Peter-Grünberg-Institute, PGI-8, Research Center Jülich, JARA-Fundamentals of Future Information Technology, Jülich 52425, Germany
| | - Dirk Mayer
- Peter-Grünberg-Institute, PGI-8, Research Center Jülich, JARA-Fundamentals of Future Information Technology, Jülich 52425, Germany.
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32
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Gao Y, Li B. Exonuclease III-Assisted Cascade Signal Amplification Strategy for Label-Free and Ultrasensitive Chemiluminescence Detection of DNA. Anal Chem 2014; 86:8881-7. [DOI: 10.1021/ac5024952] [Citation(s) in RCA: 113] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Yuan Gao
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University, Xi’an 710062, China
| | - Baoxin Li
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University, Xi’an 710062, China
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33
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Zhuang J, Tang D, Lai W, Chen G, Yang H. Immobilization-Free Programmable Hairpin Probe for Ultrasensitive Electronic Monitoring of Nucleic Acid Based on a Biphasic Reaction Mode. Anal Chem 2014; 86:8400-7. [DOI: 10.1021/ac501986k] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Affiliation(s)
- Junyang Zhuang
- Institute of Nanomedicine
and Nanobiosensing, MOE Key Laboratory of Analysis and Detection for
Food Safety, Department of Chemistry, Fuzhou University, Fuzhou 350108, P.R. China
| | - Dianping Tang
- Institute of Nanomedicine
and Nanobiosensing, MOE Key Laboratory of Analysis and Detection for
Food Safety, Department of Chemistry, Fuzhou University, Fuzhou 350108, P.R. China
| | - Wenqiang Lai
- Institute of Nanomedicine
and Nanobiosensing, MOE Key Laboratory of Analysis and Detection for
Food Safety, Department of Chemistry, Fuzhou University, Fuzhou 350108, P.R. China
| | - Guonan Chen
- Institute of Nanomedicine
and Nanobiosensing, MOE Key Laboratory of Analysis and Detection for
Food Safety, Department of Chemistry, Fuzhou University, Fuzhou 350108, P.R. China
| | - Huanghao Yang
- Institute of Nanomedicine
and Nanobiosensing, MOE Key Laboratory of Analysis and Detection for
Food Safety, Department of Chemistry, Fuzhou University, Fuzhou 350108, P.R. China
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34
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Ren W, Gao ZF, Li NB, Luo HQ. Ultrasensitive and selective signal-on electrochemical DNA detection via exonuclease III catalysis and hybridization chain reaction amplification. Biosens Bioelectron 2014; 63:153-158. [PMID: 25083923 DOI: 10.1016/j.bios.2014.07.028] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2014] [Revised: 07/09/2014] [Accepted: 07/14/2014] [Indexed: 11/15/2022]
Abstract
This work reported a novel, ultrasensitive, and selective platform for electrochemical detection of DNA, employing an integration of exonuclease III (Exo-III) assisted target recycling and hybridization chain reaction (HCR) for the dual signal amplification strategy. The hairpin capture probe DNA (C-DNA) with an Exo-III 3' overhang end was self-assembled on a gold electrode. In the presence of target DNA (T-DNA), C-DNA hybridized with the T-DNA to form a duplex region, exposing its 5' complementary sequence (initiator). Exo-III was applied to selectively digest duplex region from its 3-hydroxyl termini until the duplex was fully consumed, leaving the remnant initiator. The intact T-DNA spontaneously dissociated from the structure and then initiated the next hybridization process as a result of catalysis of the Exo-III. HCR event was triggered by the initiator and two hairpin helper signal probes labeled with methylene blue, facilitating the polymerization of oligonucleotides into a long nicked dsDNA molecule. The numerous exposed remnant initiators can trigger more HCR events. Because of integration of dual signal amplification and the specific HCR process reaction, the resultant sensor showed a high sensitivity for the detection of the target DNA in a linear range from 1.0 fM to 1.0 nM, and a detection limit as low as 0.2 fM. The proposed dual signal amplification strategy provides a powerful tool for detecting different sequences of target DNA by changing the sequence of capture probe and signal probes, holding a great potential for early diagnosis in gene-related diseases.
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Affiliation(s)
- Wang Ren
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China; College of Chemistry and Pharmaceutical Engineering, Sichuan University of Science and Engineering, Zigong 643000, PR China
| | - Zhong Feng Gao
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Nian Bing Li
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China.
| | - Hong Qun Luo
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China.
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35
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Wan Y, wang P, Su Y, Zhu X, Yang S, Lu J, Gao J, Fan C, Huang Q. Ultrasensitive electrochemical DNA sensor based on the target induced structural switching and surface-initiated enzymatic polymerization. Biosens Bioelectron 2014; 55:231-6. [DOI: 10.1016/j.bios.2013.11.077] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2013] [Revised: 11/17/2013] [Accepted: 11/28/2013] [Indexed: 10/25/2022]
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36
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Highly sensitive detection of T4 polynucleotide kinase activity by coupling split DNAzyme and ligation-triggered DNAzyme cascade amplification. Biosens Bioelectron 2014; 55:225-30. [DOI: 10.1016/j.bios.2013.12.018] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2013] [Revised: 11/23/2013] [Accepted: 12/06/2013] [Indexed: 11/23/2022]
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37
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Wang F, Lu CH, Willner I. From cascaded catalytic nucleic acids to enzyme-DNA nanostructures: controlling reactivity, sensing, logic operations, and assembly of complex structures. Chem Rev 2014; 114:2881-941. [PMID: 24576227 DOI: 10.1021/cr400354z] [Citation(s) in RCA: 494] [Impact Index Per Article: 49.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Fuan Wang
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem , Jerusalem 91904, Israel
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38
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Zhang J, Tao M, Jin Y. An enzyme-aided amplification strategy for sensitive detection of DNA utilizing graphene oxide (GO) as a fluorescence quencher. Analyst 2014; 139:3455-9. [DOI: 10.1039/c4an00151f] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
A facile, sensitive and rapid method has been developed for detection of disease-related DNA based on lambda exonuclease-aided signal amplification by utilizing graphene oxide (GO) as a fluorescence quencher.
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Affiliation(s)
- Jing Zhang
- Key Laboratory of Applied Surface and Colloid Chemistry
- Ministry of Education
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province
- School of Chemistry and Chemical Engineering Shaanxi Normal University
- Xi'an 710062, China
| | - Mangjuan Tao
- Key Laboratory of Applied Surface and Colloid Chemistry
- Ministry of Education
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province
- School of Chemistry and Chemical Engineering Shaanxi Normal University
- Xi'an 710062, China
| | - Yan Jin
- Key Laboratory of Applied Surface and Colloid Chemistry
- Ministry of Education
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province
- School of Chemistry and Chemical Engineering Shaanxi Normal University
- Xi'an 710062, China
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39
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A label-free electrochemical biosensor for highly sensitive and selective detection of DNA via a dual-amplified strategy. Biosens Bioelectron 2013; 54:442-7. [PMID: 24315876 DOI: 10.1016/j.bios.2013.11.041] [Citation(s) in RCA: 60] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2013] [Revised: 11/01/2013] [Accepted: 11/11/2013] [Indexed: 11/21/2022]
Abstract
In this work, by combining the enzymatic recycling reaction with the DNA functionalized gold nanoparticles (AuNPs)-based signal amplification, we have developed an electrochemical biosensor for label-free detection of DNA with high sensitivity and selectivity. In the new designed biosensor, a hairpin-structured probe HP was designed to hybridize with target DNA first, and an exonuclease ExoIII was chosen for the homogeneous enzymatic cleaving amplification. The hybridization of target DNA with the probe HP induced the partial cleavage of the probe HP by ExoIII to release the enzymatic products. The enzymatic products could then hybridize with the hairpin-structured capture probe CP modified on the electrode surface. Finally, DNA functionalized AuNPs was further employed to amplify the detection signal. Due to the capture of abundant methylene blue (MB) molecules by both the multiple DNAs modified on AuNPs surface and the hybridization product of capture DNA and enzymatic products, the designed biosensor achieved a high sensitivity for target DNA, and a detection limit of 0.6 pM was obtained. Due to the employment of two hairpin-structured probes, HP and CP, the proposed biosensor also exhibited high selectivity to target DNA. Moreover, since ExoIII does not require specific recognition sequences, the proposed biosensor might provide a universal design strategy to construct DNA biosensor which can be applied in various biological and medical samples.
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40
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A sensitive electrochemical DNA biosensor for specific detection of Enterobacteriaceae bacteria by Exonuclease III-assisted signal amplification. Biosens Bioelectron 2013; 48:132-7. [DOI: 10.1016/j.bios.2013.03.084] [Citation(s) in RCA: 114] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2013] [Revised: 03/26/2013] [Accepted: 03/26/2013] [Indexed: 01/06/2023]
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41
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A DNA machine for sensitive and homogeneous DNA detection via lambda exonuclease assisted amplification. Talanta 2013; 115:819-22. [DOI: 10.1016/j.talanta.2013.06.062] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2013] [Revised: 06/25/2013] [Accepted: 06/28/2013] [Indexed: 12/31/2022]
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42
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Sosnowska M, Pieta P, Sharma PS, Chitta R, Chandra BKC, Bandi V, D'Souza F, Kutner W. Piezomicrogravimetric and impedimetric oligonucleotide biosensors using conducting polymers of biotinylated bis(2,2'-bithien-5-yl)methane as recognition units. Anal Chem 2013; 85:7454-61. [PMID: 23829162 DOI: 10.1021/ac401404d] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
A new conducting polymer of biotinylated bis(2,2'-bithien-5-yl)methane was prepared and applied as the recognition unit of two different biosensors for selective oligonucleotide determination using either electrochemical impedance spectroscopy (EIS) or piezoelectric microgravimetry (PM) for label-free analytical signal transduction. For preparation of this unit, first, a biotinylated bis(2,2'-bithien-5-yl)methane functional monomer was designed and synthesized. Then, this monomer was potentiodynamically polymerized to form films on the surface of a glassy carbon electrode (GCE) and a Au electrode of a quartz crystal resonator (QCR) for the EIS and PM transduction, respectively. On top of these films, neutravidin was irreversibly immobilized by complexing the biotin moieties of the polymer. Finally, recognizing biotinylated oligonucleotide was attached by complexing the surface-immobilized neutravidin. This layer-by-layer assembling of the poly(thiophene-biotin)-neutravidin-(biotin-oligonucleotide) recognition film served to determine the target oligonucleotide via complementary nucleobase pairing. Under optimized determination conditions, the target oligonucleotide limit of detection (LOD) was 0.5 pM and 50 nM for the EIS and PM transduction, respectively. The sensor response to the target oligonucleotide was linear with respect to logarithm of the target oligonucleotide concentration in a wide range of 0.5 pM to 30 μM and with respect to its concentration in the range of 50 to 600 nM for the EIS and PM transduction, respectively. The biosensors were appreciably selective with respect to the nucleobase mismatched oligonucleotides.
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Affiliation(s)
- Marta Sosnowska
- Department of Physical Chemistry of Supramolecular Complexes, Institute of Physical Chemistry, Polish Academy of Sciences, Warsaw, Poland
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43
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Yi H, Xu W, Yuan Y, Wu Y, Chai Y, Yuan R. A sensitive electrochemical aptasensor for thrombin detection based on exonuclease-catalyzed target recycling and enzyme-catalysis. Biosens Bioelectron 2013; 47:368-72. [PMID: 23603135 DOI: 10.1016/j.bios.2013.03.045] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2012] [Revised: 03/12/2013] [Accepted: 03/20/2013] [Indexed: 01/19/2023]
Abstract
In the present study, a sensitive electrochemical aptasensor based on exonuclease-catalyzed target recycling and enzyme-catalysis was developed for thrombin (TB) detection. Firstly, the alcohol dehydrogenase (ADH) was abundantly embedded in the 3-(mercaptopropyl)trimethoxysilane (MPTS) sol with a 3-D network that exhibited tunable porosity and high thermal stability. ADH, as an alcohol oxidase, catalyzed the conversation of alcohol into acetaldehyde coupling with the production of NADH in the presence of NAD(+). Then the immobilized gold nanoparticles (AuNPs) could electrocatalyze the oxidation of NADH, finally promoting the redox reaction of the electroactive material methylene blue (MB) labeled on the hybrid double strand DNA (dsDNA). Furthermore, when the mixture of TB and RecJf exonuclease was introduced, TB combined with the thrombin aptamer II (TBA II) and the aptamer-TB complex was formed. And then, the RecJf exonuclease selectively degraded the TBA II from 5'→3', releasing the target TB into the solution. The free TB was reused to combine with other TBA II to accomplish the target recycling and realize the electrochemical signal amplification. In this way, excellent sensitivity of the aptasensor was obtained. The thrombin aptasensor achieved a detection limit of 1.7pM (defined as S/N=3) with a linear range from 5pM to 100nM. In addition, the proposed aptasensor had good stability and sensitivity, and would become a promising choice for the protein diagnostics in clinical analysis.
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Affiliation(s)
- Huayu Yi
- Key Laboratory on Luminescence and Real-Time Analysis, School of Chemistry and Chemical Engineering, Southwest University, The Key Laboratory of Eco-environments in Three Gorges Reservoir Region, Chongqing 400715, PR China
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44
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Liu S, Wang C, Zhang C, Wang Y, Tang B. Label-Free and Ultrasensitive Electrochemical Detection of Nucleic Acids Based on Autocatalytic and Exonuclease III-Assisted Target Recycling Strategy. Anal Chem 2013; 85:2282-8. [DOI: 10.1021/ac303225p] [Citation(s) in RCA: 155] [Impact Index Per Article: 14.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Shufeng Liu
- College of Chemistry, Chemical Engineering
and Materials Science, Engineering Research Center of Pesticide and
Medicine Intermediate Clean Production, Ministry of Education, Key
Laboratory of Molecular and Nano Probes, Ministry of Education, Shandong Normal University, Jinan 250014, China
- College of Chemistry and Molecular
Engineering, Qingdao University of Science and Technology, Qingdao 266042, China
| | - Chunfeng Wang
- College of Chemistry and Molecular
Engineering, Qingdao University of Science and Technology, Qingdao 266042, China
| | - Chengxin Zhang
- College of Chemistry and Molecular
Engineering, Qingdao University of Science and Technology, Qingdao 266042, China
| | - Ying Wang
- College of Chemistry and Molecular
Engineering, Qingdao University of Science and Technology, Qingdao 266042, China
| | - Bo Tang
- College of Chemistry, Chemical Engineering
and Materials Science, Engineering Research Center of Pesticide and
Medicine Intermediate Clean Production, Ministry of Education, Key
Laboratory of Molecular and Nano Probes, Ministry of Education, Shandong Normal University, Jinan 250014, China
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45
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Zhou H, Zhang YY, Liu J, Xu JJ, Chen HY. Efficient quenching of electrochemiluminescence from K-doped graphene–CdS:Eu NCs by G-quadruplex–hemin and target recycling-assisted amplification for ultrasensitive DNA biosensing. Chem Commun (Camb) 2013; 49:2246-8. [DOI: 10.1039/c3cc38990a] [Citation(s) in RCA: 65] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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46
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Xu Q, Cao A, Zhang LF, Zhang CY. Rapid and Label-Free Monitoring of Exonuclease III-Assisted Target Recycling Amplification. Anal Chem 2012; 84:10845-51. [DOI: 10.1021/ac303095z] [Citation(s) in RCA: 93] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Affiliation(s)
- Qinfeng Xu
- Single-molecule Detection and
Imaging Laboratory, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
| | - Anping Cao
- Single-molecule Detection and
Imaging Laboratory, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
| | - Ling-fei Zhang
- Single-molecule Detection and
Imaging Laboratory, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
- Weihai Municipal Center for Disease Control and Prevention, Shandong
264200, China
| | - Chun-yang Zhang
- Single-molecule Detection and
Imaging Laboratory, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
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47
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Shen Z, Nakayama S, Semancik S, Sintim HO. Signal-on electrochemical Y or junction probe detection of nucleic acid. Chem Commun (Camb) 2012; 48:7580-2. [PMID: 22735181 DOI: 10.1039/c2cc33280a] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A methylene-blue (MB)-labeled molecular beacon junction probe allows for a signal-on electrochemical detection of nucleic acids via target recycling using endonucleases. Electron transfer is reduced when the MB is intercalated in the stem of the molecular beacon, but then electron transfer from MB to a gold electrode is enhanced upon cleavage of the junction probe due to increased probability of MB approaching the electrode when attached to the more flexible ssDNA.
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Affiliation(s)
- Zuliang Shen
- Department of Chemistry and Biochemistry, University of Maryland, College Park, MD 20742, USA
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48
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Xu H, Wang L, Ye H, Yu L, Zhu X, Lin Z, Wu G, Li X, Liu X, Chen G. An ultrasensitive electrochemical impedance sensor for a special BRCA1 breast cancer gene sequence based on lambda exonuclease assisted target recycling amplification. Chem Commun (Camb) 2012; 48:6390. [PMID: 22617257 DOI: 10.1039/c2cc31588b] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
A label-free, target recycling electrochemical impedance spectroscopy (EIS) DNA sensor has been developed for detection of a model related to the BRCA1 breast cancer gene with a detection limit of 0.05 nM.
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Affiliation(s)
- Huifeng Xu
- Academy of Integrative Medicine, Fujian University of Traditional Chinese Medicine, Fuzhou, Fujian, P. R. China.
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49
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Yin BC, Guan YM, Ye BC. An ultrasensitive electrochemical DNA sensor based on the ssDNA-assisted cascade of hybridization reaction. Chem Commun (Camb) 2012; 48:4208-10. [PMID: 22441694 DOI: 10.1039/c2cc30997a] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We have developed a simple and ultrasensitive E-DNA sensor based on the ssDNA-assisted cascade of a hybridization reaction mechanism to form a long concatamers structure to improve its sensitivity, significantly. The proposed sensor was applied to sequence-specific DNA and ATP detection. Experimental results showed a quantitative measurement with the detection limit as low as 1 aM for specific DNA and 10 fM for ATP.
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Affiliation(s)
- Bin-Cheng Yin
- Lab of Biosystem and Microanalysis, East China University of Science & Technology, Shanghai 200237, P.R. China
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50
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Exonuclease III-based and gold nanoparticle-assisted DNA detection with dual signal amplification. Biosens Bioelectron 2012; 33:211-5. [DOI: 10.1016/j.bios.2012.01.003] [Citation(s) in RCA: 66] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2011] [Revised: 12/16/2011] [Accepted: 01/06/2012] [Indexed: 01/15/2023]
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