1
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Ye H, Wan T, Li X, Li C, He K, Guo Y. Rapid detection of kanamycin using cooperative recognition split aptamer and graphene oxide nanosheets. JOURNAL OF FOOD MEASUREMENT AND CHARACTERIZATION 2022. [DOI: 10.1007/s11694-022-01781-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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2
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Graphene oxide and fluorescent aptamer based novel biosensor for detection of 25-hydroxyvitamin D 3. Sci Rep 2021; 11:23456. [PMID: 34873222 PMCID: PMC8649066 DOI: 10.1038/s41598-021-02837-4] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2021] [Accepted: 11/08/2021] [Indexed: 02/07/2023] Open
Abstract
For maintaining the healthy metabolic status, vitamin D is a beneficial metabolite stored majorly in its pre-activated form, 25-hydroxyvitamin D3 (25(OH)D3). Due to its important role in bone strengthening, the study was planned to quantify 25(OH)D3 levels in our blood. Quantification techniques for 25(OH)D3 are costly thus requiring a need for a low cost, and sensitive detection methods. In this work, an economic, and sensitive sensor for the detection of 25(OH)D3 was developed using aptamer and graphene oxide (GO). Aptamer is an oligonucleotide, sensitive towards its target, whereas, GO with 2D nanosheets provides excellent quenching surface. Aptamer labeled with fluorescein (5’, 6-FAM) is adsorbed by π–π interaction on the GO sheets leading to quenching of the fluorescence due to Förster resonance energy transfer (FRET). However, in the presence of 25(OH)D3, a major portion of aptamer fluorescence remains unaltered, due to its association with 25(OH)D3. However, in the absence, aptamer fluorescence gets fully quenched. Fluorescence intensity quenching was monitored using fluorescence spectrophotometer and agarose gel based system. The limit of detection of 25(OH)D3 by this method was found to be 0.15 µg/mL whereas when GO-COOH was used, limit of detection was improved to 0.075 µg/mL. Therefore, this method could come up as a new sensing method in the field of vitamin D detection.
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3
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Li M, Yin F, Song L, Mao X, Li F, Fan C, Zuo X, Xia Q. Nucleic Acid Tests for Clinical Translation. Chem Rev 2021; 121:10469-10558. [PMID: 34254782 DOI: 10.1021/acs.chemrev.1c00241] [Citation(s) in RCA: 78] [Impact Index Per Article: 26.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Nucleic acids, including deoxyribonucleic acid (DNA) and ribonucleic acid (RNA), are natural biopolymers composed of nucleotides that store, transmit, and express genetic information. Overexpressed or underexpressed as well as mutated nucleic acids have been implicated in many diseases. Therefore, nucleic acid tests (NATs) are extremely important. Inspired by intracellular DNA replication and RNA transcription, in vitro NATs have been extensively developed to improve the detection specificity, sensitivity, and simplicity. The principles of NATs can be in general classified into three categories: nucleic acid hybridization, thermal-cycle or isothermal amplification, and signal amplification. Driven by pressing needs in clinical diagnosis and prevention of infectious diseases, NATs have evolved to be a rapidly advancing field. During the past ten years, an explosive increase of research interest in both basic research and clinical translation has been witnessed. In this review, we aim to provide comprehensive coverage of the progress to analyze nucleic acids, use nucleic acids as recognition probes, construct detection devices based on nucleic acids, and utilize nucleic acids in clinical diagnosis and other important fields. We also discuss the new frontiers in the field and the challenges to be addressed.
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Affiliation(s)
- Min Li
- Institute of Molecular Medicine, Department of Liver Surgery, Shanghai Key Laboratory for Nucleic Acid Chemistry and Nanomedicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai 200127, China
| | - Fangfei Yin
- Institute of Molecular Medicine, Department of Liver Surgery, Shanghai Key Laboratory for Nucleic Acid Chemistry and Nanomedicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai 200127, China
| | - Lu Song
- Institute of Molecular Medicine, Department of Liver Surgery, Shanghai Key Laboratory for Nucleic Acid Chemistry and Nanomedicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai 200127, China.,Division of Physical Biology, CAS Key Laboratory of Interfacial Physics and Technology, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Xiuhai Mao
- Institute of Molecular Medicine, Department of Liver Surgery, Shanghai Key Laboratory for Nucleic Acid Chemistry and Nanomedicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai 200127, China
| | - Fan Li
- Institute of Molecular Medicine, Department of Liver Surgery, Shanghai Key Laboratory for Nucleic Acid Chemistry and Nanomedicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai 200127, China
| | - Chunhai Fan
- School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules and National Center for Translational Medicine, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Xiaolei Zuo
- Institute of Molecular Medicine, Department of Liver Surgery, Shanghai Key Laboratory for Nucleic Acid Chemistry and Nanomedicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai 200127, China.,School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules and National Center for Translational Medicine, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Qiang Xia
- Institute of Molecular Medicine, Department of Liver Surgery, Shanghai Key Laboratory for Nucleic Acid Chemistry and Nanomedicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai 200127, China
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4
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Lu C, Saint-Pierre C, Gasparutto D, Roupioz Y, Ravelet C, Peyrin E, Buhot A. Melting Curve Analysis of Aptachains: Adenosine Detection with Internal Calibration. BIOSENSORS 2021; 11:112. [PMID: 33917864 PMCID: PMC8068264 DOI: 10.3390/bios11040112] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/01/2021] [Revised: 03/22/2021] [Accepted: 04/06/2021] [Indexed: 12/14/2022]
Abstract
Small molecules are ubiquitous in nature and their detection is relevant in various domains. However, due to their size, sensitive and selective probes are difficult to select and the detection methods are generally indirect. In this study, we introduced the use of melting curve analysis of aptachains based on split-aptamers for the detection of adenosine. Aptamers, short oligonucleotides, are known to be particularly efficient probes compared to antibodies thanks to their advantageous probe/target size ratio. Aptachains are formed from dimers with dangling ends followed by the split-aptamer binding triggered by the presence of the target. The high melting temperature of the dimers served as a calibration for the detection/quantification of the target based on the height and/or temperature shift of the aptachain melting peak.
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Affiliation(s)
- Chenze Lu
- College of Life Sciences, China Jiliang University, Hangzhou 310018, China;
- University Grenoble Alpes, CEA, CNRS, IRIG, SyMMES, F-38000 Grenoble, France; (C.S.-P.); (D.G.); (Y.R.)
- University Grenoble Alpes, CNRS, DPM, F-38000 Grenoble, France; (C.R.); (E.P.)
| | - Christine Saint-Pierre
- University Grenoble Alpes, CEA, CNRS, IRIG, SyMMES, F-38000 Grenoble, France; (C.S.-P.); (D.G.); (Y.R.)
| | - Didier Gasparutto
- University Grenoble Alpes, CEA, CNRS, IRIG, SyMMES, F-38000 Grenoble, France; (C.S.-P.); (D.G.); (Y.R.)
| | - Yoann Roupioz
- University Grenoble Alpes, CEA, CNRS, IRIG, SyMMES, F-38000 Grenoble, France; (C.S.-P.); (D.G.); (Y.R.)
| | - Corinne Ravelet
- University Grenoble Alpes, CNRS, DPM, F-38000 Grenoble, France; (C.R.); (E.P.)
| | - Eric Peyrin
- University Grenoble Alpes, CNRS, DPM, F-38000 Grenoble, France; (C.R.); (E.P.)
| | - Arnaud Buhot
- University Grenoble Alpes, CEA, CNRS, IRIG, SyMMES, F-38000 Grenoble, France; (C.S.-P.); (D.G.); (Y.R.)
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5
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Abstract
Graphene-based FRET aptasensors can be realized only by unique combinations of aptamer that can be freely functionalized by chemical modification, and graphene/graphene oxide that works as an excellent fluorescence acceptor at the same time as aptamer adsorbates. This review describes the principles of the sensor, several applications to microchannel devices, improvement of the sensing performance by molecular design of the aptamer and remarks on future prospects based on an introduction of recent works and achievements, including the author's paper. The sensor employs DNA modified with graphene/graphene oxide at the terminal as the molecular probe. This system is supported by the excellent property of DNA that does not lose the molecular recognition ability even due to a chemical modification at the terminal. I hope that this review will be useful for developing research on higher performance of graphene aptasensors in the future.
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Affiliation(s)
- Yuko Ueno
- Department of Applied Chemistry, Faculty of Science and Engineering, Chuo University
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6
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Zhu Q, Liu L, Wang R, Zhou X. A split aptamer (SPA)-based sandwich-type biosensor for facile and rapid detection of streptomycin. JOURNAL OF HAZARDOUS MATERIALS 2021; 403:123941. [PMID: 33264988 DOI: 10.1016/j.jhazmat.2020.123941] [Citation(s) in RCA: 51] [Impact Index Per Article: 17.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/22/2020] [Revised: 08/31/2020] [Accepted: 09/01/2020] [Indexed: 06/12/2023]
Abstract
As antibiotic pollution is gaining prominence as a global issue, the demand for detection of streptomycin (STR), which is a widely used antibiotic with potential human health and ecological risks, has attracted increasing attention. Aptamer-based biosensors have been developed for the detection of STR in buffers and samples, however, the non-target signals due to the conformational variation of free aptamers possibly affect their sensitivity and stability. In this study, by introducing the STR-specific split aptamer (SPA), a sensitive evanescent wave fluorescent (EWF) biosensor is developed for the sandwich-type based detection of STR. The standard calibration curve obtained for STR has a detection limit of 33 nM with a linear range of 60-526 nM. This biosensor exhibited good selectivity, reliable reusability for at least 100 times measurements, and high recovery rates for spiked water samples; moreover, all detection steps are easy-to-operate and can be completed in 5 min. Therefore, it exhibits great promise for actual on-site environmental monitoring. Additionally, without introducing any other oligonucleotides or auxiliary materials, this SPA-based biosensing method shows potential as a simple, sensitive, and low-cost manner for the detection of other small molecular targets.
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Affiliation(s)
- Qian Zhu
- State Key Joint Laboratory of ESPC, School of Environment, Tsinghua University, Beijing, 100084, China
| | - Lanhua Liu
- State Key Joint Laboratory of ESPC, School of Environment, Tsinghua University, Beijing, 100084, China
| | - Ruoyu Wang
- State Key Joint Laboratory of ESPC, School of Environment, Tsinghua University, Beijing, 100084, China
| | - Xiaohong Zhou
- State Key Joint Laboratory of ESPC, School of Environment, Tsinghua University, Beijing, 100084, China; National Engineering Laboratory for Advanced Technology and Equipment of Water Environment Pollution Monitoring, Changsha, 410205, China.
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7
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Dong Y, Zhang T, Lin X, Feng J, Luo F, Gao H, Wu Y, Deng R, He Q. Graphene/aptamer probes for small molecule detection: from in vitro test to in situ imaging. Mikrochim Acta 2020; 187:179. [PMID: 32076868 DOI: 10.1007/s00604-020-4128-8] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2020] [Accepted: 01/19/2020] [Indexed: 02/08/2023]
Abstract
Small molecules are key targets in molecular biology, environmental issues, medicine and food industry. However, small molecules are challenging to be detected due to the difficulty of their recognition, especially in complex samples, such as in situ in cells or animals. The emergence of graphene/aptamer probes offers an excellent opportunity for small molecule quantification owing to their appealing attributes such as high selectivity, sensitivity, and low cost, as well as the potential for probing small molecules in living cells or animals. This paper (with 130 refs.) will review the application of graphene/aptamer probes for small molecule detection. We present the recent progress in the design and development of graphene/aptamer probes enabling highly specific, sensitive and rapid detection of small molecules. Emphasis is placed on the success in their development and application for monitoring small molecules in living cells and in vivo systems. By discussing the key advances in this field, we wish to inspire more research work of the development of graphene/aptamer probes for both on-site or in situ detection of small molecules and its applications for investigating the functions of small molecules in cells in a dynamic way. Graphical abstract Graphene/aptamer probes can be used to construct different platforms for detecting small molecules with high specificity and sensitivity, both in vitro and in situ in living cells and animals.
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Affiliation(s)
- Yi Dong
- College of Biomass Science and Engineering, Healthy Food Evaluation Research Center and Key Laboratory of Food Science and Technology of Ministry of Education of Sichuan Province, Sichuan University, Chengdu, 610065, China
| | - Ting Zhang
- College of Biomass Science and Engineering, Healthy Food Evaluation Research Center and Key Laboratory of Food Science and Technology of Ministry of Education of Sichuan Province, Sichuan University, Chengdu, 610065, China
| | - Xiaoya Lin
- College of Biomass Science and Engineering, Healthy Food Evaluation Research Center and Key Laboratory of Food Science and Technology of Ministry of Education of Sichuan Province, Sichuan University, Chengdu, 610065, China
| | - Jiangtao Feng
- College of Biomass Science and Engineering, Healthy Food Evaluation Research Center and Key Laboratory of Food Science and Technology of Ministry of Education of Sichuan Province, Sichuan University, Chengdu, 610065, China
| | - Fang Luo
- The Center of Gerontology and Geriatrics, West China Hospital, Sichuan University, Chengdu, 610065, China.
| | - Hong Gao
- College of Biomass Science and Engineering, Healthy Food Evaluation Research Center and Key Laboratory of Food Science and Technology of Ministry of Education of Sichuan Province, Sichuan University, Chengdu, 610065, China
| | - Yangping Wu
- Department of Respiratory and Critical Care Medicine, West China Medical, Sichuan University, Chengdu, China
| | - Ruijie Deng
- College of Biomass Science and Engineering, Healthy Food Evaluation Research Center and Key Laboratory of Food Science and Technology of Ministry of Education of Sichuan Province, Sichuan University, Chengdu, 610065, China.
| | - Qiang He
- College of Biomass Science and Engineering, Healthy Food Evaluation Research Center and Key Laboratory of Food Science and Technology of Ministry of Education of Sichuan Province, Sichuan University, Chengdu, 610065, China
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8
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Xiong J, Li S, Li Y, Chen Y, Liu Y, Gan J, Ju J, Xian Y, Xiong X. Fluorescent Aptamer-Polyethylene Glycol Functionalized Graphene Oxide Biosensor for Profenofos Detection in Food. Chem Res Chin Univ 2019. [DOI: 10.1007/s40242-019-9257-4] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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9
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Wang G, Wang L, Li X, Xu X, Jiang W. T7 exonuclease-assisted and target-triggered cascade dual recycling signal amplification strategy for the sensitive and specific detection of adenosine. Talanta 2019; 197:234-238. [DOI: 10.1016/j.talanta.2019.01.020] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2018] [Revised: 01/02/2019] [Accepted: 01/05/2019] [Indexed: 02/06/2023]
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10
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Fluorometric determination of cardiac myoglobin based on energy transfer from a pyrene-labeled aptamer to graphene oxide. Mikrochim Acta 2019; 186:287. [PMID: 30989406 DOI: 10.1007/s00604-019-3385-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2018] [Accepted: 03/29/2019] [Indexed: 12/30/2022]
Abstract
The authors describe a fluorometric assay for cardiac myoglobin (Mb), a marker for myocardial infarction. An Mb-binding aptamer was labeled with pyrene and adsorbed on the surface of graphene oxide (GO) via noncovalent and reversible binding forces. This causes the fluorescence of pyrene (best measured at excitation/emission wavelengths of 275/376 nm) to be quenched. However, fluorescence is restored on addition of pyrene due to the strong affinity between Mb and aptamer which causes its separation from GO. Fluorescence increases linearly in the 5.6-450 pM Mb concentration range, and the lower detection limit is 3.9 pM (S/N = 3). The assay was applied to the determination of cardiac Mb in spiked serum, and satisfactory results were obtained. Graphical abstract Schematic presentation of the detection of Mb (cardiac myoglobin) by using a fluorometric method based on pyrene-modified anti-Mb aptamer and GO (graphene oxide) through fluorescence quenching and subsequent recovery.
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11
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Wang L, Wu A, Wei G. Graphene-based aptasensors: from molecule-interface interactions to sensor design and biomedical diagnostics. Analyst 2019. [PMID: 29528071 DOI: 10.1039/c8an00081f] [Citation(s) in RCA: 68] [Impact Index Per Article: 13.6] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Graphene-based nanomaterials have been widely utilized to fabricate various biosensors for environmental monitoring, food safety, and biomedical diagnostics. The combination of aptamers with graphene for creating biofunctional nanocomposites improved the sensitivity and selectivity of fabricated biosensors due to the unique molecular recognition and biocompatibility of aptamers. In this review, we highlight recent advances in the design, fabrication, and biomedical sensing application of graphene-based aptasensors within the last five years (2013-current). The typical studies on the biomedical fluorescence, colorimetric, electrochemical, electrochemiluminescence, photoelectrochemical, electronic, and force-based sensing of DNA, proteins, enzymes, small molecules, ions, and others are demonstrated and discussed in detail. More attention is paid to a few key points such as the conjugation of aptamers with graphene materials, the fabrication strategies of sensor architectures, and the importance of aptamers on improving the sensing performances. It is expected that this work will provide preliminary and useful guidance for readers to understand the fabrication of graphene-based biosensors and the corresponding sensing mechanisms in one way, and in another way will be helpful to develop novel high performance aptasensors for biological analysis and detection.
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Affiliation(s)
- Li Wang
- Key Laboratory of Preparation and Application of Environmental Friendly Materials (Jilin Normal University), Ministry of Education, Changchun, 130103, P. R. China.
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12
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Zhu X, Wang R, Xia K, Zhou X, Shi H. Nucleic acid functionalized fiber optic probes for sensing in evanescent wave: optimization and application. RSC Adv 2019; 9:2316-2324. [PMID: 35516110 PMCID: PMC9059834 DOI: 10.1039/c8ra10125f] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2018] [Accepted: 01/10/2019] [Indexed: 01/01/2023] Open
Abstract
Nucleic acid functionalized evanescent wave fiber optic (EWFO) biosensors have attracted much attention due to their remarkable advantages in both device configuration and sensing performance. One critical technique in EWFO biosensor fabrication is its surface modification, which requires (1) minimal nonspecific adsorption and (2) high-quality DNA immobilization to guarantee satisfactory sensing performances. Focusing on these two requirements, a series of optimizations have been conducted in this work to develop reliable DNA-functionalized EWFO probes. Firstly, the surface planeness of EWFO probes were found to be greatly improved by a novel HF/HNO3 mixture etching solution. Both atomic force microscopy (AFM) and X-ray photoelectron spectroscopy (XPS) were conducted to investigate the morphological structures and surface chemical compositions. Besides, EWFO sensing performances adopting moderate immobilization of irrelevant DNA were investigated for optimization purposes. Furthermore, a split aptamer based sandwich-type EWFO sensor was developed using adenosine (Ade) as the model target (LOD = 25 μM). To the best of our knowledge, this study is the first case to focus on the optimization of etching solution compositions in the fabrication of combination tapered fibers, which provides experimental basis for the understanding of the silica-etching mechanism using HF/HNO3 mixture solution and may further inspire related researches. Reliable DNA-functionalized optic probes for sensing in evanescent wave have been developed based a series of optimizations on the etching solution and immobilization chemistry.![]()
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Affiliation(s)
- Xiyu Zhu
- State Key Joint Laboratory of ESPC
- Research Centre of Environmental and Health Sensing Technology
- Center for Sensor Technology of Environment and Health
- School of Environment
- Tsinghua University
| | - Ruoyu Wang
- State Key Joint Laboratory of ESPC
- Research Centre of Environmental and Health Sensing Technology
- Center for Sensor Technology of Environment and Health
- School of Environment
- Tsinghua University
| | - Kaidong Xia
- State Key Joint Laboratory of ESPC
- Research Centre of Environmental and Health Sensing Technology
- Center for Sensor Technology of Environment and Health
- School of Environment
- Tsinghua University
| | - Xiaohong Zhou
- State Key Joint Laboratory of ESPC
- Research Centre of Environmental and Health Sensing Technology
- Center for Sensor Technology of Environment and Health
- School of Environment
- Tsinghua University
| | - Hanchang Shi
- State Key Joint Laboratory of ESPC
- Research Centre of Environmental and Health Sensing Technology
- Center for Sensor Technology of Environment and Health
- School of Environment
- Tsinghua University
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13
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Liu X, Chen H, Lin J, Li Y, Guo L. Exfoliation of transition-metal dichalcogenides using ATP in aqueous solution. Chem Commun (Camb) 2019; 55:2972-2975. [DOI: 10.1039/c8cc10259g] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
A facile, green, liquid ultrasonic exfoliation of transition metal dichalcogenides was proposed using ATP as the exfoliating reagent.
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Affiliation(s)
- Xinyi Liu
- Ministry of Education Key Laboratory of Analytical Science of Food Safety and Biology
- Fujian Provincial Key Laboratory of Analysis and Detection Technology for Food Safety
- College of Chemistry
- Fuzhou University
- Fuzhou 350116
| | - Huan Chen
- Ministry of Education Key Laboratory of Analytical Science of Food Safety and Biology
- Fujian Provincial Key Laboratory of Analysis and Detection Technology for Food Safety
- College of Chemistry
- Fuzhou University
- Fuzhou 350116
| | - Jing Lin
- College of Chemistry
- Fuzhou University
- Fuzhou 350116
- China
| | - Yi Li
- College of Chemistry
- Fuzhou University
- Fuzhou 350116
- China
| | - Liangqia Guo
- Ministry of Education Key Laboratory of Analytical Science of Food Safety and Biology
- Fujian Provincial Key Laboratory of Analysis and Detection Technology for Food Safety
- College of Chemistry
- Fuzhou University
- Fuzhou 350116
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14
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Kanamori T, Masaki Y, Oda Y, Ohzeki H, Ohkubo A, Sekine M, Seio K. DNA triplex-based fluorescence turn-on sensors for adenosine using a fluorescent molecular rotor 5-(3-methylbenzofuran-2-yl) deoxyuridine. Org Biomol Chem 2019; 17:2077-2080. [DOI: 10.1039/c8ob02747a] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Fluorescence turn-on detection of adenosine based on microenvironmental and conformational changes of a fluorescent molecular rotor in the DNA triplex is reported.
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Affiliation(s)
- Takashi Kanamori
- Department of Life Science
- Tokyo Institute of Technology
- Yokohama 226-8501
- Japan
| | - Yoshiaki Masaki
- Department of Life Science
- Tokyo Institute of Technology
- Yokohama 226-8501
- Japan
| | - Yuki Oda
- Department of Life Science
- Tokyo Institute of Technology
- Yokohama 226-8501
- Japan
| | - Hiroki Ohzeki
- Department of Life Science
- Tokyo Institute of Technology
- Yokohama 226-8501
- Japan
| | - Akihiro Ohkubo
- Department of Life Science
- Tokyo Institute of Technology
- Yokohama 226-8501
- Japan
| | - Mitsuo Sekine
- Department of Life Science
- Tokyo Institute of Technology
- Yokohama 226-8501
- Japan
| | - Kohji Seio
- Department of Life Science
- Tokyo Institute of Technology
- Yokohama 226-8501
- Japan
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15
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A split aptamer-labeled ratiometric fluorescent biosensor for specific detection of adenosine in human urine. Mikrochim Acta 2018; 186:43. [PMID: 30569231 DOI: 10.1007/s00604-018-3162-2] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2018] [Accepted: 12/09/2018] [Indexed: 10/27/2022]
Abstract
A dual-emission ratiometric fluorometric aptasensor is presented for highly specific detection of adenosine. An adenosine binding aptamer (ABA) was split into two halves (termed as ABA1 and ABA2). ABA1 was covalently bound to blue-emitting carbon dots (with excitation/emission maxima at 365/440 nm) as responsive fluorophore (referred to as ABA1-CDs). ABA2 was linked to red-emitting silica-coated CdTe quantum dots (with excitation/emission maxima at 365/613 nm) acting as internal reference and referred to as ABA2-QDs@SiO2. Upon addition of graphene oxide, the fluorescence of ABA1-CDs is quenched. After subsequent addition of ABA2-QDs@SiO2 and different amounts of adenosine, the blue fluorescence is recovered and causes a color change from red to royal blue. The method represents a ratiometric turn-on assay for visual, colorimetric and fluorometric determination of adenosine. The limit of detection is as low as 2.4 nM in case of ratiometric fluorometry. The method was successfully applied to the determination of adenosine in (spiked) human urine. Recoveries range from 98.8% to 102%. Graphical abstract Adenosine binding aptamer1-carbon dots (ABA1-CDs) can absorb on graphene oxide (GO) via π stacking. This causes fluorescence to be quenched by fluorescence resonance energy transfer (FRET). After addition of ABA2-silica-coated quantum dots (ABA2-QDs@SiO2) and adenosine, binding of adenosine to two pieces of aptamers forms a complex (ABA1-CD/adenosine/ABA2-QD@SiO2) which dissociates from GO. As a result, fluorescence is recovered.
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16
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Lee ST, Beaumont D, Su XD, Muthoosamy K, New SY. Formulation of DNA chimera templates: Effects on emission behavior of silver nanoclusters and sensing. Anal Chim Acta 2018; 1010:62-68. [PMID: 29447672 DOI: 10.1016/j.aca.2018.01.012] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2017] [Revised: 12/09/2017] [Accepted: 01/03/2018] [Indexed: 12/15/2022]
Abstract
Single strand DNA (ssDNA) chimeras consisting of a silver nanoclusters-nucleating sequence (NC) and an aptamer are widely employed to synthesize functional silver nanoclusters (AgNCs) for sensing purpose. Despite its simplicity, this chimeric-templated AgNCs often leads to undesirable turn-off effect, which may suffer from false positive signals caused by interference. In our effort to elucidate how the relative position of NC and aptamer affects the fluorescence behavior and sensing performance, we systematically formulated these NC and aptamer regions at different position in a DNA chimera. Using adenosine aptamer as a model, we tested the adenosine-induced optical response of each design. We also investigated the effect of linker region connecting NC and aptamer, as well as different NC sequence on the sensing performance. We concluded that locating NC sequence at 5'-end exhibited the best response, with immediate fluorescence enhancement observed over a wide linear range (1-2500 μM). Our experimental findings help to explain the emission behavior and sensing performance of chimeric conjugates of AgNCs, providing an important means to formulate a better aptasensor.
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Affiliation(s)
- Shi Ting Lee
- School of Pharmacy, Faculty of Science, University of Nottingham Malaysia Campus, Jalan Broga, 43500, Semenyih, Selangor, Malaysia
| | - David Beaumont
- School of Pharmacy, University of Nottingham, University Park, Nottingham, NG72RD, United Kingdom
| | - Xiao Di Su
- School of Engineering and Science, University of the Sunshine Coast, 90 Sippy Downs Dr, Sippy Downs QLD 4556, Australia
| | - Kasturi Muthoosamy
- Nanotechnology and Advanced Materials (NATAM), Faculty of Engineering, University of Nottingham Malaysia Campus, Jalan Broga, 43500, Semenyih, Selangor, Malaysia
| | - Siu Yee New
- School of Pharmacy, Faculty of Science, University of Nottingham Malaysia Campus, Jalan Broga, 43500, Semenyih, Selangor, Malaysia.
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Zhou W, Ding J, Liu J. Splitting a DNAzyme enables a Na +-dependent FRET signal from the embedded aptamer. Org Biomol Chem 2018; 15:6959-6966. [PMID: 28792040 DOI: 10.1039/c7ob01709j] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
Recently, a few Na+-specific RNA-cleaving DNAzymes have been reported, and a Na+ aptamer was identified from the NaA43 and Ce13d DNAzymes. These DNAzymes and the embedded aptamer have been used for Na+ detection. In this work, we studied the Na+-dependent folding of the Ce13d DNAzyme using fluorescence resonance energy transfer (FRET). When a FRET donor and an acceptor were respectively labeled at the ends of the DNAzyme, Na+ failed to induce an obvious end-to-end distance change, suggesting a rigid global structure. To relax this rigidity, the Ce13d DNAzyme was systematically split at various sites on both the enzyme and the substrate strands. The Na+ binding activity of the split structures was characterized by 2-aminopurine fluorescence, enzymatic activity, Tb3+-sensitized luminescence, and DMS footprinting. Among the various constructs, the only one that retained Na+ binding was the split at the cleavage site, and this construct was further labeled with two dyes near the split site. This FRET result showed Na+-dependent folding with a Kd of 26 mM Na+. This study provides important structural information related to Na+ binding to this new aptamer, which might also be useful for future work in biosensor design.
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Affiliation(s)
- Wenhu Zhou
- Xiangya School of Pharmaceutical Sciences, Central South University, Changsha, Hunan 410013, China
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18
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Ansari N, Ghazvini K, Ramezani M, Shahdordizadeh M, Yazdian-Robati R, Abnous K, Taghdisi SM. Selection of DNA aptamers against Mycobacterium tuberculosis Ag85A, and its application in a graphene oxide-based fluorometric assay. Mikrochim Acta 2017; 185:21. [PMID: 29594592 DOI: 10.1007/s00604-017-2550-3] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2017] [Accepted: 11/09/2017] [Indexed: 01/08/2023]
Abstract
The Mycobacterium Ag85 complex is the major secretory protein of M. tuberculosis. It is a potential marker for early diagnosis of tuberculosis (TB). The authors have identified specific aptamers for Ag85A (FbpA) via protein SELEX using magnetic beads. After twelve rounds of selection, two aptamers (Apt8 and Apt22) were chosen from different groups, and their binding constants were determined by flow cytometry. Apt22 (labeled with Atto 647N) binds to FbpA with high affinity (Kd = 63 nM) and specificity. A rapid, sensitive, and low-cost fluorescent assay was designed based on the use of Apt22 and graphene oxide, with a limit of detection of 1.5 nM and an analytical range from 5 to 200 nM of FbpA. Graphical abstract Schematic illustration of graphene oxide-based aptasensor for fluorometric determination of FbpA.
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Affiliation(s)
- Najmeh Ansari
- Department of Microbiology and Virology, Faculty of Medicine, Mashhad University of Medical Sciences, Mashhad, 91778-99191, Iran
| | - Kiarash Ghazvini
- Antimicrobial Resistance Research Center, Buali Research Institute, Department of Microbiology and Virology, Faculty of Medicine, Mashhad University of Medical Sciences, Mashhad, 91778-99191, Iran
| | - Mohammad Ramezani
- Nanotechnology Research Center, Mashhad University of Medical Sciences, Mashhad, 91778-99191, Iran
| | - Mahin Shahdordizadeh
- Department of Pharmaceutical Biotechnology, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, 91778-99191, Iran
| | - Rezvan Yazdian-Robati
- Department of Pharmaceutical Biotechnology, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, 91778-99191, Iran
| | - Khalil Abnous
- Pharmaceutical Research Center, Mashhad University of Medical Sciences, Mashhad, 91778-99191, Iran.
| | - Seyed Mohammad Taghdisi
- Targeted Drug Delivery Research Center, Mashhad University of Medical Sciences, Mashhad, 91778-99191, Iran.
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19
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Aptamer-based zearalenone assay based on the use of a fluorescein label and a functional graphene oxide as a quencher. Mikrochim Acta 2017. [DOI: 10.1007/s00604-017-2487-6] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
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20
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Xu L, Shen X, Li B, Zhu C, Zhou X. G-quadruplex based Exo III-assisted signal amplification aptasensor for the colorimetric detection of adenosine. Anal Chim Acta 2017. [PMID: 28622804 DOI: 10.1016/j.aca.2017.05.015] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Adenosine is an endogenous nucleotide pivotally involved in nucleic acid and energy metabolism. Its excessive existence may indicate tumorigenesis, typically lung cancer. Encouraged by its significance as the clinical biomarker, sensitive assay methods towards adenosine have been popularized, with high cost and tedious procedures as the inevitable defects. Herein, we report a label-free aptamer-based exonuclease III (Exo III) amplification colorimetric aptasensor for the highly sensitive and cost-effective detection of adenosine. The strategy employed two unlabeled hairpin DNA oligonucleotides (HP1 and HP2), where HP1 contained the aptamer towards adenosine and HP2 embedded the guanine-rich sequence (GRS). In the presence of adenosine, hairpin HP1 could form specific binding with adenosine and trigger the unfolding of HP1's hairpin structure. The resulting adenosine-HP1 complex could hybridize with HP2, generating the Exo III recognition site. After Exo III-assisted degradation, the GRS was released from HP2, and the adenosine-HP1 was released back to the solution to combine another HP2, inducing the cycling amplification. After multiple circulations, the released ample GRSs were induced to form G-quadruplex, further catalyzing the oxidation of TMB, yielding a color change which was finally mirrored in the absorbance change. On the contrary, the absence of adenosine failed to unfold HP1, remaining color unchanged eventually. Thanks to the amplification strategy, the limit of detection was lowered to 17 nM with a broad linear range from 50 nM to 6 μM. The proposed method was successfully applied to the detection of adenosine in biological samples and satisfying recoveries were acquired.
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Affiliation(s)
- Lei Xu
- School of Pharmacy, Nanjing Medical University, Nanjing 211166, PR China
| | - Xin Shen
- School of Pharmacy, Nanjing Medical University, Nanjing 211166, PR China
| | - Bingzhi Li
- School of Pharmacy, Nanjing Medical University, Nanjing 211166, PR China
| | - Chunhong Zhu
- School of Pharmacy, Nanjing Medical University, Nanjing 211166, PR China
| | - Xuemin Zhou
- School of Pharmacy, Nanjing Medical University, Nanjing 211166, PR China.
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21
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Xu X, Wei H, Jiang W. A target triggered proximity combination-based fluorescence sensing strategy for adenosine detection. Analyst 2017; 142:2247-2252. [PMID: 28536711 DOI: 10.1039/c7an00654c] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Adenosine is a potent physiological and pharmacological regulator, and its abnormal level is closely related to disease development. The sensitive and specific detection of adenosine is crucial for health evaluation and disease diagnosis. In this work, a target triggered proximity combination-based fluorescence sensing strategy is developed for the sensitive and specific detection of adenosine. A difunctional probe showing target recognition and signal amplification is designed, by integration of DNA linker-connected split aptamer fragments with a fragment-elongated polymerase/nicking template. The presence of adenosine would glue the split aptamers, which triggers the two distal aptamer fragments to combine with each other into proximity. The approaching aptamer fragment ends then initiate the strand displacement amplification (SDA) reaction, generating numerous DNA primers. The DNA primers further hybridize with a padlock probe and initiate the rolling circle amplification (RCA) reaction, producing numerous G-quadruplex sequences. The G-quadruplex sequences finally bind with Thioflavin T to obtain enhanced fluorescence signals. The method exhibits a linear correlation within the adenosine concentration range from 5.0 × 10-7 M to 2.0 × 10-5 M (R = 0.999) with a detection limit of 8.4 × 10-8 M, and a good selectivity to distinguish adenosine from its analogues. The recoveries of adenosine in human serum are from 91% to 94%, demonstrating that the system works well in biological fluids. The proposed sensing strategy is anticipated to hold promise in biochemical research, clinical diagnosis and disease treatment.
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Affiliation(s)
- Xiaowen Xu
- Key Laboratory for Colloid and Interface Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Shandong University, 250100 Jinan, P.R. China.
| | - Haiping Wei
- Key Laboratory for Colloid and Interface Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Shandong University, 250100 Jinan, P.R. China.
| | - Wei Jiang
- Key Laboratory for Colloid and Interface Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Shandong University, 250100 Jinan, P.R. China.
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Chen Z, Li H, Jia W, Liu X, Li Z, Wen F, Zheng N, Jiang J, Xu D. Bivalent Aptasensor Based on Silver-Enhanced Fluorescence Polarization for Rapid Detection of Lactoferrin in Milk. Anal Chem 2017; 89:5900-5908. [PMID: 28467701 DOI: 10.1021/acs.analchem.7b00261] [Citation(s) in RCA: 44] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
Here we report a novel type of bivalent aptasensor based on silver-enhanced fluorescence polarization (FP) for detection of lactoferrin (Lac) in milk powder with high sensitivity and specificity. The novel two split aptamers were obtained from the aptamer reported in our previous SELEX (systematic evolution of ligands by exponential enrichment) selection, and their minimal structural units were optimized on the basis of their affinity and specificity. Also, dual binding sites of split aptamers were verified. The bivalent aptamers were modified to be linked with signal-molecule fluorescein isothiocyanate (FITC) and enhancer silver decahedral nanoparticles (Ag10NPs). The split aptamers could bind to different sites of Lac and assemble into a split-aptamers-target complex, narrowing the distance between Ag10NPs and FITC dye. As a result, Ag10NPs could produce a mass-augmented and metal-enhanced fluorescence (MEF) effect. In general, ternary amplification based on Ag10NPs, split aptamers, and the MEF effect all contributed to the significant increase of FP values. It was proved that the sensitivity of this assay was about 3 orders of magnitude over traditional aptamer-based homogeneous assays with a detection limit of 1.25 pM. Furthermore, this design was examined by actual milk powder with rapid and high-throughout detection.
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Affiliation(s)
- Zhu Chen
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University , Nanjing, Jiangsu 210046, China
| | - Hui Li
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University , Nanjing, Jiangsu 210046, China
| | - Wenchao Jia
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University , Nanjing, Jiangsu 210046, China
| | - Xiaohui Liu
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University , Nanjing, Jiangsu 210046, China
| | - Zhoumin Li
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University , Nanjing, Jiangsu 210046, China
| | - Fang Wen
- Ministry of Agriculture-Key Laboratory of Quality and Safety Control for Milk and Dairy Products, Institute of Animal Science, Chinese Academy of Agricultural Sciences , Beijing 100193, P.R. China
| | - Nan Zheng
- Ministry of Agriculture-Key Laboratory of Quality and Safety Control for Milk and Dairy Products, Institute of Animal Science, Chinese Academy of Agricultural Sciences , Beijing 100193, P.R. China
| | - Jindou Jiang
- Dairy Quality Supervision and Testing Center, Ministry of Agriculture, Harbin 150090, China
| | - Danke Xu
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University , Nanjing, Jiangsu 210046, China
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Arvand M, Mirroshandel AA. Highly-sensitive aptasensor based on fluorescence resonance energy transfer between l-cysteine capped ZnS quantum dots and graphene oxide sheets for the determination of edifenphos fungicide. Biosens Bioelectron 2017; 96:324-331. [PMID: 28525850 DOI: 10.1016/j.bios.2017.05.028] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2017] [Revised: 05/11/2017] [Accepted: 05/12/2017] [Indexed: 12/19/2022]
Abstract
With the advantages of excellent optical properties and biocompatibility, single-strand DNA-functionalized quantum dots have been widely applied in biosensing and bioimaging. A new aptasensor with easy operation, high sensitivity, and high selectivity was developed by immobilizing the aptamer on water soluble l-cysteine capped ZnS quantum dots (QDs). Graphene oxide (GO) sheets are mixed with the aptamer-QDs. Consequently, the aptamer-conjugated QDs bind to the GO sheets to form a GO/aptamer-QDs ensemble. This aptasensor enables the energy transfer based on a fluorescence resonance energy transfer (FRET) from the QDs to the GO sheets, quenching the fluorescence of QDs. The GO/aptamer-QDs ensemble assay acts as a "turn-on'' fluorescent sensor for edifenphos (EDI) detection. When GO was replaced by EDI, the fluorescence of QDs was restored and its intensity was proportional to the EDI concentration. This GO-based aptasensor under the optimum conditions exhibited excellent analytical performance for EDI determination, ranging from 5×10-4 to 6×10-3mg L-1 with the detection limit of 1.3×10-4mgL-1. Furthermore, the designed aptasensor exhibited excellent selectivity toward EDI compared to other pesticides and herbicides with similar structures such as diazinon, heptachlor, endrin, dieldrin, butachlor and chlordane. Good reproducibility and precision (RSD =3.9%, n =10) of the assay indicates the high potential of the aptasensor for quantitative trace analysis of EDI. Moreover, the results demonstrate the applicability of the aptasensor for monitoring EDI fungicide in spiked real samples.
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Affiliation(s)
- Majid Arvand
- Analytical Chemistry Laboratory, Faculty of Chemistry, University of Guilan, Namjoo Street, P.O. Box 1914, Rasht, Iran.
| | - Aazam A Mirroshandel
- Analytical Chemistry Laboratory, Faculty of Chemistry, University of Guilan, Namjoo Street, P.O. Box 1914, Rasht, Iran
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24
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Bai Y, Zhao R, Feng F, He X. Determination of Lysozyme by Thiol-Terminated Aptamer-Based Surface Plasmon Resonance. ANAL LETT 2017. [DOI: 10.1080/00032719.2016.1190737] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Affiliation(s)
- Yunfeng Bai
- College of Chemistry and Environmental Engineering, Shanxi Datong University, Datong, China
- State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha, China
| | - Ruifang Zhao
- College of Chemistry and Chemical Engineering, Shanxi University, Taiyuan, China
| | - Feng Feng
- College of Chemistry and Environmental Engineering, Shanxi Datong University, Datong, China
- College of Chemistry and Chemical Engineering, Shanxi University, Taiyuan, China
| | - Xiaoxiao He
- State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha, China
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25
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Fluorescent sensor assay for β-lactamase in milk based on a combination of aptamer and graphene oxide. Food Control 2017. [DOI: 10.1016/j.foodcont.2016.09.023] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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26
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Melaine F, Coilhac C, Roupioz Y, Buhot A. A nanoparticle-based thermo-dynamic aptasensor for small molecule detection. NANOSCALE 2016; 8:16947-16954. [PMID: 27714066 DOI: 10.1039/c6nr04868d] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Small molecules (MW < 1000 Da) represent a large class of biomarkers of interest. Recently, a new class of biosensors has been emerging thanks to the recognition properties of aptamers, short DNA or RNA single strands, selected against such small molecular targets. Among them, an adenosine-specific aptamer has been largely described and used due to its remarkable affinity to this small target (KD = 6 μM). In this paper, we achieved the proof-of-principle of an aptasensor based on the thermodynamic follow-up of adenosine binding with engineered split-aptamer sequences. The detection is carried out by surface plasmon resonance imaging of split-aptamer micro-arrays, while signal amplification is ensured by gold nanoparticles (AuNPs). This original approach based on DNA sequence engineering and AuNP conjugation enabled us to reach limits of detection (LOD) 200 times lower than the KD measured in solution with the native aptamer (LOD = 30 nM).
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Affiliation(s)
- Feriel Melaine
- Université Grenoble Alpes, INAC, SPrAM, F-38000 Grenoble, France. and CEA, INAC, SPrAM, F-38000 Grenoble, France and CNRS, SPrAM, F-38000 Grenoble, France
| | - Clothilde Coilhac
- Université Grenoble Alpes, INAC, SPrAM, F-38000 Grenoble, France. and CEA, INAC, SPrAM, F-38000 Grenoble, France and CNRS, SPrAM, F-38000 Grenoble, France
| | - Yoann Roupioz
- Université Grenoble Alpes, INAC, SPrAM, F-38000 Grenoble, France. and CEA, INAC, SPrAM, F-38000 Grenoble, France and CNRS, SPrAM, F-38000 Grenoble, France
| | - Arnaud Buhot
- Université Grenoble Alpes, INAC, SPrAM, F-38000 Grenoble, France. and CEA, INAC, SPrAM, F-38000 Grenoble, France and CNRS, SPrAM, F-38000 Grenoble, France
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28
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Split aptamer-based sandwich fluorescence resonance energy transfer assay for 19-nortestosterone. Mikrochim Acta 2016. [DOI: 10.1007/s00604-016-1905-5] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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29
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A self-assembling RNA aptamer-based graphene oxide sensor for the turn-on detection of theophylline in serum. Biosens Bioelectron 2016; 86:8-13. [PMID: 27318104 DOI: 10.1016/j.bios.2016.06.024] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2016] [Revised: 05/29/2016] [Accepted: 06/09/2016] [Indexed: 11/24/2022]
Abstract
To date, few effective fluorescent biosensors based on RNA aptamers have been developed because the intrinsic instability of RNA in the presence of nucleases precludes the application of RNA aptamers for the analysis of biological fluids. In this study, we developed a simple, sensitive, selective turn-on fluorescent aptasensor for theophylline detection in serum, utilizing ligand-induced self-assembling RNA aptamers and two different interaction stages of the aptamer fragments with graphene oxide (GO). A single strand of the theophylline RNA aptamer (33-mer) was split at the end loop region into two shorter fragments, one of which was labeled with a fluorophore (FAM). In the absence of theophylline, the adsorption of the two individual fragments on GO brought the fluorophore in close proximity to the GO surface, resulting in highly efficient quenching of fluorescence. The system showed very low background fluorescence. Conversely, the fragments self-assembled into an RNA aptamer/theophylline complex and were dissociated from GO. The quenched fluorescence was significantly recovered, and theophylline could be detected at a wide range of concentrations from 1 to 100μM, with a detection limit of 0.155μM and good selectivity in serum. Moreover, because of the shorter RNA fragments and the effective protection ability of GO from nuclease cleavage, the RNA sequences remained stable during the experiments. This design may serve as an example for the application of RNA aptasensors in the clinical setting.
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31
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Lu L, Zhong HJ, He B, Leung CH, Ma DL. Development of a luminescent G-quadruplex-selective iridium(III) complex for the label-free detection of adenosine. Sci Rep 2016; 6:19368. [PMID: 26778273 PMCID: PMC4726048 DOI: 10.1038/srep19368] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2015] [Accepted: 10/14/2015] [Indexed: 01/25/2023] Open
Abstract
A panel of six luminescent iridium(III) complexes were synthesized and evaluated for their ability to act as G-quadruplex-selective probes. The novel iridium(III) complex 1 was found to be highly selective for G-quadruplex DNA, and was employed for the construction of a label-free G-quadruplex-based adenosine detection assay in aqueous solution. Two different detection strategies were investigated for adenosine detection, and the results showed that initial addition of adenosine to the adenosine aptamer gave superior results. The assay exhibited a linear response for adenosine in the concentration range of 5 to 120 μM (R(2) = 0.992), and the limit of detection for adenosine was 5 μM. Moreover, this assay was highly selective for adenosine over other nucleosides, and exhibited potential use for biological sample analysis.
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Affiliation(s)
- Lihua Lu
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
| | - Hai-Jing Zhong
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macao, China
| | - Bingyong He
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
| | - Chung-Hang Leung
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macao, China
| | - Dik-Lung Ma
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
- Partner State Key Laboratory of Environmental and Biological Analysis, Hong Kong Baptist University, Hong Kong, China
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32
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Li X, Ding X, Fan J. Nicking endonuclease-assisted signal amplification of a split molecular aptamer beacon for biomolecule detection using graphene oxide as a sensing platform. Analyst 2015; 140:7918-25. [PMID: 26502364 DOI: 10.1039/c5an01759a] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Sensitive and selective detection of ultralow concentrations of specific biomolecules is important in early clinical diagnoses and biomedical applications. Many types of aptasensors have been developed for the detection of various biomolecules, but usually suffer from false positive signals and high background signals. In this work, we have developed an amplified fluorescence aptasensor platform for ultrasensitive biomolecule detection based on enzyme-assisted target-recycling signal amplification and graphene oxide. By using a split molecular aptamer beacon and a nicking enzyme, the typical problem of false positive signals can be effectively resolved. Only in the presence of a target biomolecule, the sensor system is able to generate a positive signal, which significantly improves the selectivity of the aptasensor. Moreover, using graphene oxide as a super-quencher can effectively reduce the high background signal of a sensing platform. We select vascular endothelial growth factor (VEGF) and adenosine triphosphate (ATP) as model analytes in the current proof-of-concept experiments. It is shown that under optimized conditions, our strategy exhibits high sensitivity and selectivity for the quantification of VEGF and ATP with a low detection limit (1 pM and 4 nM, respectively). In addition, this biosensor has been successfully utilized in the analysis of real biological samples.
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Affiliation(s)
- Xiang Li
- School of Environment, Henan Key Laboratory for Environmental Pollution Control, Key Laboratory for Yellow River and Huai River Water Environment and Pollution Control, Ministry of Education, Henan Normal University, Xinxiang, Henan 453007, P. R. China.
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Fiore E, Dausse E, Dubouchaud H, Peyrin E, Ravelet C. Ultrafast capillary electrophoresis isolation of DNA aptamer for the PCR amplification-based small analyte sensing. Front Chem 2015; 3:49. [PMID: 26322305 PMCID: PMC4533002 DOI: 10.3389/fchem.2015.00049] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2015] [Accepted: 07/27/2015] [Indexed: 01/14/2023] Open
Abstract
Here, we report a new homogeneous DNA amplification-based aptamer assay for small analyte sensing. The aptamer of adenosine chosen as the model analyte was split into two fragments able to assemble in the presence of target. Primers were introduced at extremities of one fragment in order to generate the amplifiable DNA component. The amount of amplifiable fragment was quantifiable by Real-Time Polymerase Chain Reaction (RT-PCR) amplification and directly reliable on adenosine concentration. This approach combines the very high separation efficiency and the homogeneous format (without immobilization) of capillary electrophoresis (CE) and the sensitivity of real time PCR amplification. An ultrafast isolation of target-bound split aptamer (60 s) was developed by designing a CE input/ouput scheme. Such method was successfully applied to the determination of adenosine with a LOD of 1 μM.
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Affiliation(s)
- Emmanuelle Fiore
- Département de Pharmacochimie Moléculaire UMR 5063, Centre National de la Recherche Scientifique, University Grenoble Alpes Grenoble, France
| | - Eric Dausse
- Laboratoire ARNA, Institut National de la Santé et de la Recherche Médicale U869, Université Bordeaux Bordeaux, France
| | - Hervé Dubouchaud
- Laboratoire de Bioénergétique Fondamentale et Appliquée, Institut National de la Santé et de la Recherche Médicale U1055, University Grenoble Alpes Grenoble, France
| | - Eric Peyrin
- Département de Pharmacochimie Moléculaire UMR 5063, Centre National de la Recherche Scientifique, University Grenoble Alpes Grenoble, France
| | - Corinne Ravelet
- Département de Pharmacochimie Moléculaire UMR 5063, Centre National de la Recherche Scientifique, University Grenoble Alpes Grenoble, France
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Liu X, Yang Y, Hua X, Feng X, Su S, Huang Y, Fan Q, Wang L, Huang W. An Improved Turn-On Aptasensor for Thrombin Detection Using Split Aptamer Fragments and Graphene Oxide. CHINESE J CHEM 2015. [DOI: 10.1002/cjoc.201500123] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
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35
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Chen A, Yang S. Replacing antibodies with aptamers in lateral flow immunoassay. Biosens Bioelectron 2015; 71:230-242. [PMID: 25912679 DOI: 10.1016/j.bios.2015.04.041] [Citation(s) in RCA: 326] [Impact Index Per Article: 36.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2015] [Revised: 04/12/2015] [Accepted: 04/13/2015] [Indexed: 12/30/2022]
Abstract
Aptamers have been identified against various targets as a type of chemical or nucleic acid ligand by systematic evolution of ligands by exponential enrichment (SELEX) with high sensitivity and specificity. Aptamers show remarkable advantages over antibodies due to the nucleic acid nature and target-induced structure-switching properties and are widely used to design various fluorescent, electrochemical, or colorimetric biosensors. However, the practical applications of aptamer-based sensing and diagnostics are still lagging behind those of antibody-based tests. Lateral flow immunoassay (LFIA) represents a well established and appropriate technology among rapid assays because of its low cost and user-friendliness. The antibody-based platform is utilized to detect numerous targets, but it is always hampered by the antibody preparation time, antibody stability, and effect of modification on the antibody. Seeking alternatives to antibodies is an area of active research and is of tremendous importance. Aptamers are receiving increasing attention in lateral flow applications because of a number of important potential performance advantages. We speculate that aptamer-based LFIA may be one of the first platforms for commercial use of aptamer-based diagnosis. This review first gives an introduction to aptamer including the selection process SELEX with its focus on aptamer advantages over antibodies, and then depicts LFIA with its focus on aptamer opportunities in LFIA over antibodies. Furthermore, we summarize the recent advances in the development of aptamer-based lateral flow biosensing assays with the aim to provide a general guide for the design of aptamer-based lateral flow biosensing assays.
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Affiliation(s)
- Ailiang Chen
- Institute of Quality Standards and Testing Technology for Agro-products, Key Laboratory of Agro-product Quality and Safety, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Key Laboratory of Agri-food Quality and Safety, Ministry of Agriculture, Beijing 100081, China.
| | - Shuming Yang
- Institute of Quality Standards and Testing Technology for Agro-products, Key Laboratory of Agro-product Quality and Safety, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Key Laboratory of Agri-food Quality and Safety, Ministry of Agriculture, Beijing 100081, China
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Design and fabrication of an aptasensor for chloramphenicol based on energy transfer of CdTe quantum dots to graphene oxide sheet. MATERIALS SCIENCE & ENGINEERING. C, MATERIALS FOR BIOLOGICAL APPLICATIONS 2015; 48:611-9. [DOI: 10.1016/j.msec.2014.12.052] [Citation(s) in RCA: 55] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/03/2014] [Revised: 10/08/2014] [Accepted: 12/17/2014] [Indexed: 11/21/2022]
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37
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Abdelhamid HN, Wu HF. Synthesis of a highly dispersive sinapinic acid@graphene oxide (SA@GO) and its applications as a novel surface assisted laser desorption/ionization mass spectrometry for proteomics and pathogenic bacteria biosensing. Analyst 2015; 140:1555-65. [DOI: 10.1039/c4an02158d] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
GO-modified sinapinic acid was synthesized and characterized; it was then investigated for use in SALDI-MS for proteomics and pathogenic bacterial biosensing.
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Affiliation(s)
- Hani Nasser Abdelhamid
- Department of Chemistry
- National Sun Yat-Sen University
- Kaohsiung
- Taiwan
- Department of Chemistry
| | - Hui-Fen Wu
- Department of Chemistry
- National Sun Yat-Sen University
- Kaohsiung
- Taiwan
- School of Pharmacy
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38
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Hizir MS, Balcioglu M, Rana M, Robertson NM, Yigit MV. Simultaneous detection of circulating oncomiRs from body fluids for prostate cancer staging using nanographene oxide. ACS APPLIED MATERIALS & INTERFACES 2014; 6:14772-8. [PMID: 25158299 DOI: 10.1021/am504190a] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
Circulating oncomiRs are highly stable diagnostic, prognostic, and therapeutic tumor biomarkers, which can reflect the status of the disease and response to cancer therapy. miR-141 is an oncomiR, which is overexpressed in advanced prostate cancer patients, whereas its expression is at the normal levels in the early stages of the disease. On the other hand, miR-21 is significantly elevated in the early stage, but not in the advanced prostate cancer. Here, we have demonstrated simultaneous detection of exogenous miR-21 and miR-141 from human body fluids including blood, urine and saliva using nanographene oxide. Our system enables us to specifically and reliably detect each oncomiR at different fluorescence emission channels from a large population of RNAs extracted from body fluids. We were also able to determine the content and the ratio of the miR-21 and miR-141 in 10 different miRNA cocktails composed of various, but unknown, concentrations of both oncomiRs. A strong agreement (around 90%) between the experimental results and the actual miRNA compositions was observed. Moreover, we have demonstrated that overexpressed miR-21 or miR-141 increases the fluorescence only at their signature wavelengths of 520 and 670 nm, respectively. The approach in this study combines two emerging fields of nanographene in biomedicine and the role of circulating miRNAs in cancer. Our strategy has the potential to address the current challenges in diagnosis, prognosis and staging of prostate cancer with a non- or minimally invasive approach.
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Affiliation(s)
- Mustafa Salih Hizir
- Department of Chemistry and ‡RNA Institute, University at Albany, SUNY , 1400 Washington Avenue, Albany, New York 12222, United States
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39
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Deng X, Tang H, Jiang J. Recent progress in graphene-material-based optical sensors. Anal Bioanal Chem 2014; 406:6903-16. [DOI: 10.1007/s00216-014-7895-4] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2014] [Revised: 05/07/2014] [Accepted: 05/13/2014] [Indexed: 12/11/2022]
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