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Guo Z, Tian J, Cui C, Wang Y, Yang H, Yuan M, Yu H. A label-free aptasensor for turn-on fluorescent detection of ochratoxin a based on SYBR gold and single walled carbon nanohorns. Food Control 2021. [DOI: 10.1016/j.foodcont.2020.107741] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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2
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A Non-Enzyme and Non-Label Sensitive Fluorescent Aptasensor Based on Simulation-Assisted and Target-Triggered Hairpin Probe Self-Assembly for Ochratoxin a Detection. Toxins (Basel) 2020; 12:toxins12060376. [PMID: 32517279 PMCID: PMC7354513 DOI: 10.3390/toxins12060376] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2020] [Revised: 06/02/2020] [Accepted: 06/04/2020] [Indexed: 01/23/2023] Open
Abstract
The monitoring and control of mycotoxins has caused widespread concern due to their adverse effects on human health. In this research, a simple, sensitive and non-label fluorescent aptasensor has been reported for mycotoxin ochratoxin A (OTA) detection based on high selectivity of aptamers and amplification of non-enzyme hybridization chain reaction (HCR). After the introduction of OTA, the aptamer portion of hairpin probe H1 will combine with OTA to form OTA-aptamer complexes. Subsequently, the remainder of the opened H1 will act as an initiator for the HCR between the two hairpin probes, causing H1 and H2 to be sequentially opened and assembled into continuous DNA duplexes embedded with numerous G-quadruplexes, leading to a significant enhancement in fluorescence signal after binding with N-methyl-mesoporphyrin IX (NMM). The proposed sensing strategy can detect OTA with concentration as low as 4.9 pM. Besides, satisfactory results have also been obtained in the tests of actual samples. More importantly, the thermodynamic properties of nucleic acid chains in the monitoring platform were analyzed and the reaction processes and conditions were simulated before carrying out biological experiments, which theoretically proved the feasibility and simplified subsequent experimental operations. Therefore, the proposed method possess a certain application value in terms of monitoring mycotoxins in food samples and improving the quality control of food security.
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3
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Wei Y, Wang L, Zhang Y, Dong Y. An Enzyme- and Label-Free Fluorescence Aptasensor for Detection of Thrombin Based on Graphene Oxide and G-Quadruplex. SENSORS (BASEL, SWITZERLAND) 2019; 19:E4424. [PMID: 31614837 PMCID: PMC6832557 DOI: 10.3390/s19204424] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/09/2019] [Revised: 10/01/2019] [Accepted: 10/10/2019] [Indexed: 12/30/2022]
Abstract
An enzyme- and label-free aptamer-based assay is described for the determination of thrombin. A DNA strand (S) consisting of two parts was designed, where the first (Sa) is the thrombin-binding aptamer and the second (Se) is a G-quadruplex. In the absence of thrombin, Sa is readily adsorbed by graphene oxide (GO), which has a preference for ss-DNA rather than for ds-DNA. Upon the addition of the N-methyl-mesoporphyrin IX (NMM), its fluorescence (with excitation/emission at 399/610 nm) is quenched by GO. In contrast, in the presence of thrombin, the aptamer will bind thrombin, and thus, be separated from GO. As a result, fluorescence will be enhanced. The increase is linear in the 0.37 µM to 50 µM thrombin concentration range, and the detection limit is 0.37 nM. The method is highly selective over other proteins, cost-effective, and simple. In our perception, it represents a universal detection scheme that may be applied to other targets according to the proper choice of the aptamer sequence and formation of a suitable aptamer-target pair.
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Affiliation(s)
- Yani Wei
- College of Life Sciences, Shaanxi Normal University, Xi´an 710119, China.
| | - Luhui Wang
- College of Life Sciences, Shaanxi Normal University, Xi´an 710119, China.
| | - Yingying Zhang
- School of Computer Science, Shaanxi Normal University, Xi´an 710119, China.
| | - Yafei Dong
- College of Life Sciences, Shaanxi Normal University, Xi´an 710119, China.
- School of Computer Science, Shaanxi Normal University, Xi´an 710119, China.
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4
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Li Y, Tang D, Zhu L, Cai J, Chu C, Wang J, Xia M, Cao Z, Zhu H. Label-free detection of miRNA cancer markers based on terminal deoxynucleotidyl transferase-induced copper nanoclusters. Anal Biochem 2019; 585:113346. [PMID: 31401004 DOI: 10.1016/j.ab.2019.113346] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2019] [Revised: 06/22/2019] [Accepted: 06/22/2019] [Indexed: 11/25/2022]
Abstract
The variations in microRNA (miRNA) expression levels can be useful biomarkers for the diagnosis of different cancers. In this work, a label-free and sensitive fluorescent method for detection of miRNA-21 is described based on duplex-specific nuclease (DSN) assist target recycling and terminal deoxynucleotidyl transferase (TdT) induced copper nanoclusters (CuNCs). In the absence of target, the 3'-phosphorylated probe DNA cannot be hydrolyzed by DSN and extended by TdT, and failed to synthesizing fluorescent CuNCs. However, the target miRNA-21 can caused the digestion of probe DNA with DSN, releasing primer DNA with 3'-OH. After that, the primer DNA can forms long poly T with the assistance of TdT, leading to synthesize high fluorescent CuNCs. The fluorescence change of CuNCs can be used to identify the concentration of target miRNA-21. Under optimal experimental conditions, this strategy could quantitatively detect miRNA-21 down to 18.7 pM. We have also demonstrated the practical application of our proposed method for monitoring miRNA-21 expression levels in cancer cells. Moreover, this method show good specificity for miRNA-21 detection due to the strong preference of DSN for cutting perfectly matched DNA/RNA duplex, which holds great potential for highly specific quantification of biomarkers in bioanalysis and clinical diagnosis.
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Affiliation(s)
- Yiting Li
- Department of Oncology, Xiangya Hospital, Central South University, Changsha, 410008, Hunan, China
| | - Dihong Tang
- Department of Gynecologic Oncology, Hunan Cancer Hospital and Affiliated Cancer Hospital of Xiangya School of Medcine, Central South University, 410013, Changsha, Hunan, China.
| | - Li Zhu
- Department of Gynecologic Oncology, The Peopie's Hospital of Taojiang County, China
| | - Jingting Cai
- Department of Gynecologic Oncology, Hunan Cancer Hospital and Affiliated Cancer Hospital of Xiangya School of Medcine, Central South University, 410013, Changsha, Hunan, China
| | - Chaonan Chu
- Department of Gynecologic Oncology, Hunan Cancer Hospital and Affiliated Cancer Hospital of Xiangya School of Medcine, Central South University, 410013, Changsha, Hunan, China
| | - Jing Wang
- Department of Gynecologic Oncology, Hunan Cancer Hospital and Affiliated Cancer Hospital of Xiangya School of Medcine, Central South University, 410013, Changsha, Hunan, China
| | - Man Xia
- Department of Gynecologic Oncology, Hunan Cancer Hospital and Affiliated Cancer Hospital of Xiangya School of Medcine, Central South University, 410013, Changsha, Hunan, China
| | - Zhenzhen Cao
- Department of Gynecologic Oncology, Hunan Cancer Hospital and Affiliated Cancer Hospital of Xiangya School of Medcine, Central South University, 410013, Changsha, Hunan, China
| | - Hong Zhu
- Department of Oncology, Xiangya Hospital, Central South University, Changsha, 410008, Hunan, China.
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5
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Lan Y, Qin G, Wei Y, Dong C, Wang L. Highly sensitive analysis of tetrodotoxin based on free-label fluorescence aptamer sensing system. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2019; 219:411-418. [PMID: 31059893 DOI: 10.1016/j.saa.2019.04.068] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2019] [Revised: 04/23/2019] [Accepted: 04/24/2019] [Indexed: 06/09/2023]
Abstract
Tetrodotoxin (TTX) specifically can bind to its nucleic acid aptamer (TTX-aptamer) and cause the conformation of TTX-aptamer to be switched from the single-strand random coiling form to the compact neck ring structure. Based on the microenvironment difference of the fluorescence reporter, berberine in between the single-stranded coil oligonucleotides and the structure of the neck ring, a simple, rapid and sensitive label-free fluorescence aptamer sensing system for detection of TTX was developed. Various factors affecting the analysis of TTX were optimized, including the concentration of berberine, ion strength, pH, reaction time, the concentration of TTX-aptamer. Under the optimal experimental conditions, the fluorescence intensity of the sensing system and the concentration of TTX showed a good linear relationship in the range of 0.1 nM to 500 nM, with the detection limit of 0.074 nM. The standard recovery test result exhibited that the recoveries of TTX in serum samples were 96.54%-106.40%. The established method has the advantages of high specificity, good sensitivity, quickness and convenience, low cost, and can be used for the detection of TTX in serum samples.
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Affiliation(s)
- Yifeng Lan
- Institute of Environmental Science, Shanxi University, Taiyuan 030006, PR China
| | - Guojie Qin
- Institute of Horticulture, Shanxi Academy of Agriculture Science, Taiyuan 030031, PR China
| | - Yanli Wei
- Institute of Environmental Science, Shanxi University, Taiyuan 030006, PR China.
| | - Chuan Dong
- Institute of Environmental Science, Shanxi University, Taiyuan 030006, PR China
| | - Li Wang
- Institute of Environmental Science, Shanxi University, Taiyuan 030006, PR China
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6
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Xu Q, Dong J, Ma X, Zhao Y, Li CC, Zhang CY. Structurally Defined Ru(II) Metallointercalators for Real-Time Monitoring of DNA Amplification Reactions. Anal Chem 2019; 91:8777-8782. [DOI: 10.1021/acs.analchem.9b02244] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Affiliation(s)
- Qinfeng Xu
- School of Food and Biological Engineering, National R&D Center for Goat Dairy Products Processing Technology, Shaanxi University of Science and Technology, Xi’an 710021, P. R. China
| | - Jing Dong
- School of Food and Biological Engineering, National R&D Center for Goat Dairy Products Processing Technology, Shaanxi University of Science and Technology, Xi’an 710021, P. R. China
| | - Xiya Ma
- School of Food and Biological Engineering, National R&D Center for Goat Dairy Products Processing Technology, Shaanxi University of Science and Technology, Xi’an 710021, P. R. China
| | - Yanni Zhao
- School of Food and Biological Engineering, National R&D Center for Goat Dairy Products Processing Technology, Shaanxi University of Science and Technology, Xi’an 710021, P. R. China
| | - Chen-chen Li
- College of Chemistry, Chemical Engineering and Materials Science, Collaborative Innovation Center of Functionalized Probes for Chemical Imaging in Universities of Shandong, Key Laboratory of Molecular and Nano Probes, Ministry of Education, Shandong Provincial Key Laboratory of Clean Production of Fine Chemicals, Shandong Normal University, Jinan 250014, P. R. China
| | - Chun-yang Zhang
- College of Chemistry, Chemical Engineering and Materials Science, Collaborative Innovation Center of Functionalized Probes for Chemical Imaging in Universities of Shandong, Key Laboratory of Molecular and Nano Probes, Ministry of Education, Shandong Provincial Key Laboratory of Clean Production of Fine Chemicals, Shandong Normal University, Jinan 250014, P. R. China
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7
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Emissions of terbium metal-organic frameworks modulated by dispersive/agglomerated gold nanoparticles for the construction of prostate-specific antigen biosensor. Anal Bioanal Chem 2019; 411:3979-3988. [PMID: 31089787 DOI: 10.1007/s00216-019-01883-2] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2019] [Revised: 04/04/2019] [Accepted: 04/29/2019] [Indexed: 10/26/2022]
Abstract
Herein, a universal and multifunctional fluorescence sensor platform is designed by the interaction of aggregation/dispersion gold nanoparticles (AuNPs) with Tb-metal-organic frameworks (Tb-MOFs). It is found that the dispersed AuNPs rather than the aggregated ones can quench effectively the fluorescence of Tb-MOFs, and the quenching process presumably involves the mechanism of inner filter effect (IFE), dynamic quenching effect (DQE), and fluorescence resonance energy transfer (FRET). The different affinities of aptamer and aptamer-target complex toward AuNPs are employed to modulate the fluorescence signal change of Tb-MOFs. As the proof of concept, prostate-specific antigen (PSA), an efficient tumor indicator for prostate cancer, is selected as the target. At first, the PSA aptamer can protect AuNPs against salt-induced aggregation, leading to the fluorescence of Tb-MOFs quenching. Subsequently, upon PSA introduction, the rigid aptamer-PSA complex is formed and cannot stabilize AuNPs in high salt conditions, so the AuNPs aggregate significantly and the fluorescence of Tb-MOFs is restored. The linear range of PSA is achieved from 1 to 100 ng/mL with a detection limit of 0.36 ng/mL. Finally, this method has been validated to be sensitive and specific for PSA in human urine samples. Graphical abstract.
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8
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Jia F, Wang S, Man Y, Kumar P, Liu B. Recent Developments in the Interactions of Classic Intercalated Ruthenium Compounds: [Ru(bpy)₂dppz] 2+ and [Ru(phen)₂dppz] 2+ with a DNA Molecule. Molecules 2019; 24:molecules24040769. [PMID: 30791625 PMCID: PMC6412511 DOI: 10.3390/molecules24040769] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2019] [Revised: 02/12/2019] [Accepted: 02/12/2019] [Indexed: 12/19/2022] Open
Abstract
[Ru(bpy)2dppz]2+ and [Ru(phen)2dppz]2+ as the light switches of the deoxyribose nucleic acid (DNA) molecule have attracted much attention and have become a powerful tool for exploring the structure of the DNA helix. Their interactions have been intensively studied because of the excellent photophysical and photochemical properties of ruthenium compounds. In this perspective, this review describes the recent developments in the interactions of these two classic intercalated compounds with a DNA helix. The mechanism of the molecular light switch effect and the selectivity of these two compounds to different forms of a DNA helix has been discussed. In addition, the specific binding modes between them have been discussed in detail, for a better understanding the mechanism of the light switch and the luminescence difference. Finally, recent studies of single molecule force spectroscopy have also been included so as to precisely interpret the kinetics, equilibrium constants, and the energy landscape during the process of the dynamic assembly of ligands into a single DNA helix.
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Affiliation(s)
- Fuchao Jia
- Laboratory of Functional Molecules and Materials, School of Physics and Optoelectronic Engineering, Shandong University of Technology, Zibo 255000, China.
| | - Shuo Wang
- Laboratory of Functional Molecules and Materials, School of Physics and Optoelectronic Engineering, Shandong University of Technology, Zibo 255000, China.
| | - Yan Man
- Beijing Research Center for Agricultural Standards and Testing, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China.
| | - Parveen Kumar
- Laboratory of Functional Molecules and Materials, School of Physics and Optoelectronic Engineering, Shandong University of Technology, Zibo 255000, China.
| | - Bo Liu
- Laboratory of Functional Molecules and Materials, School of Physics and Optoelectronic Engineering, Shandong University of Technology, Zibo 255000, China.
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Tikum A, Ko JW, Kim S, Kim J. Reduced Graphene Oxide-Oligonucleotide Interfaces: Understanding Based on Electrochemical Oxidation of Guanines. ACS OMEGA 2018; 3:15464-15470. [PMID: 31458202 PMCID: PMC6643540 DOI: 10.1021/acsomega.8b02063] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/16/2018] [Accepted: 10/23/2018] [Indexed: 06/10/2023]
Abstract
Investigation into the interactions between biomolecules DNA/RNA and carbon nanomaterials is very important for applications in bioassays and bioanalysis. Graphene and graphene oxide (GO) have been successfully adopted by exploiting the binding affinity difference between single-stranded oligonucleotides (ssDNA) and double-stranded oligonucleotides (dsDNA) to graphene sheets. In this work, we describe the electrochemical DNA oxidation with [Ru(bpy)3]2+ to understand the interaction between dsDNA (and corresponding ssDNA) and reduced graphene oxide (rGO). The electrochemical oxidation rate of guanine bases of ssDNA bound to rGO by electrochemically generated [Ru(bpy)3]3+ was much slower than those unbound to rGO. Our study revealed that ssDNA constrained on rGO was significantly protected from the electron transfer to [Ru(bpy)3]3+ because of π,π-stacking interaction between nucleobases and rGO. On the other hand, the oxidation rates of 11-, 20-, and 27-mer dsDNA bound to rGO increased relative to those of dsDNA alone, demonstrating that the guanine bases of dsDNA on the interaction with rGO became more accessible to [Ru(bpy)3]3+. Our electrochemical data illustrated that dsDNA could be totally or partially dehybridized and bind to rGO to form ssDNA/rGO. Furthermore, absorption, circular dichroism spectra, and fluorescence measurements of ethidium bromide using ssDNA and dsDNA with rGO supported the dehybridization of dsDNA in the presence of rGO.
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Affiliation(s)
| | | | | | - Jinheung Kim
- E-mail: . Tel: +82-2-3277-4453. Fax: +82-2-3277-3419
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10
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Zhang Y, Wang L, Wang Y, Dong Y. A Non-Label and Enzyme-Free Sensitive Detection Method for Thrombin Based on Simulation-Assisted DNA Assembly. SENSORS (BASEL, SWITZERLAND) 2018; 18:E2179. [PMID: 29986462 PMCID: PMC6069356 DOI: 10.3390/s18072179] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/20/2018] [Revised: 06/30/2018] [Accepted: 07/03/2018] [Indexed: 12/11/2022]
Abstract
Taking advantage of the high selectivity of aptamers and enzyme-free catalyzed hairpin assembly (CHA) amplification strategy, we herein describe a label-free and enzyme-free sensitive fluorescent and colorimetric strategy for thrombin detection in this paper. In the presence of target, the corresponding aptamer of the partial dsDNA probes will bind to the target and liberate the initiation strand, which is artfully designed as the “on” switch for hairpin assembly. Moreover, the displaced initiation strand partakes in a multi-cycle process and produces numerous G-quadruplexes, which have a remarkable enhancement in fluorescent/colorimetric signal from NMM (N-methyl-mesoporphyrin IX) and TMB (3,3′,5,5′-tetramethylbenzidine), respectively. The proposed amplification strategy for thrombin detection is of high sensitivity, down to 2.4 pM, and also achieves colorimetric signals that are able to be distinguished by naked eye. More importantly, the thermodynamics of interacting DNA strands used in our work, and the process of toehold strand displacement-driven assembly are simulated before biological testing, verifying the feasibility theoretically, and simplifying the subsequent actual experiments. Therefore, our approach and simulation have a certain potential application in biomarker detection and quantitatively monitor for disease diagnosis.
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Affiliation(s)
- Yingying Zhang
- School of Computer Science, Shaanxi Normal University, Xi'an 710119, China.
| | - Luhui Wang
- College of Life Sciences, Shaanxi Normal University, Xi'an 710119, China.
| | - Yanan Wang
- School of Computer Science, Shaanxi Normal University, Xi'an 710119, China.
| | - Yafei Dong
- College of Life Sciences, Shaanxi Normal University, Xi'an 710119, China.
- National Engineering Laboratory for Resource Developing of Endangered Chinese Crude Drugs in Northwest of china, Shaanxi Normal University, Xi'an 710119, China.
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11
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Lv L, Jin Y, Kang X, Zhao Y, Cui C, Guo Z. PVP-coated gold nanoparticles for the selective determination of ochratoxin A via quenching fluorescence of the free aptamer. Food Chem 2018; 249:45-50. [PMID: 29407930 DOI: 10.1016/j.foodchem.2017.12.087] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2017] [Revised: 12/14/2017] [Accepted: 12/27/2017] [Indexed: 01/19/2023]
Abstract
This paper describes an aptamer/gold nanoparticle-based assay for ochratoxin A (OTA) detection. This assay is based on the use of an aptamer labeled with carboxyfluorescein (FAM) at its 5'-end and gold nanoparticles (AuNPs) that act as quenchers of fluorescence. When OTA is absent in the system, the fluorescently labeled aptamers are adsorbed on the surface of AuNPs. The fluorescence signal of the fluorescein-labeled OTA aptamer generated is quenched by the fluorescence resonance energy transfer effect of AuNPs. When OTA is present in the system, the fluorescently labeled aptamer binds to OTA and forms a folded structure, which can resist the adsorption of AuNPs. Thus, the fluorescent signal can be retained. The detection limit of this sensing platform is 5 nM, and the linear detection range is 10-1000 nM (R2 = 0.994). The procedure was validated by the quantitation of OTA in spiked ginger powder samples and were found to be free of interference by the sample matrix. The recoveries and the relative standard deviation varied from 89.0% to 117.8% and from 1.9% to 6.3%, respectively.
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Affiliation(s)
- Lei Lv
- Key Laboratory of Natural Resources of Changbai Mountain and Functional Molecules, Yanbian University, Ministry of Education, Yanji 133002, China
| | - Yongdong Jin
- Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, China
| | - Xiaojiao Kang
- School of Electrical Engineering and Intelligentization, Dongguan University of Technology, Dongguan 523808, China
| | - Yangyang Zhao
- Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, China
| | - Chengbi Cui
- Key Laboratory of Natural Resources of Changbai Mountain and Functional Molecules, Yanbian University, Ministry of Education, Yanji 133002, China
| | - Zhijun Guo
- Key Laboratory of Natural Resources of Changbai Mountain and Functional Molecules, Yanbian University, Ministry of Education, Yanji 133002, China.
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Florence Tikum A, Jeon YJ, Lee JH, Park MH, Bae IY, Kim SH, Lee HJ, Kim J. Cytotoxic and anticancer properties of new ruthenium polypyridyl complexes with different lipophilicities. J Inorg Biochem 2018; 180:204-210. [DOI: 10.1016/j.jinorgbio.2018.01.003] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2017] [Revised: 12/30/2017] [Accepted: 01/07/2018] [Indexed: 12/16/2022]
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13
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Qing T, Sun H, He X, Huang X, He D, Bu H, Qiao Z, Wang K. An ion quencher operated lamp for multiplexed fluorescent bioassays. Anal Bioanal Chem 2017; 410:1427-1434. [PMID: 29279984 DOI: 10.1007/s00216-017-0782-z] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2017] [Revised: 11/13/2017] [Accepted: 11/22/2017] [Indexed: 12/24/2022]
Abstract
A novel and adjustable lamp based on competitive interaction among dsDNA-SYBR Green I (SGI), ion quencher, and analyte was designed for bioanalysis. The "filament" and switch of the lamp could be customized by employing different dsDNA and ion quencher. The poly(AT/TA) dsDNA was successfully screened as the most effective filament of the lamp. Two common ions, Hg2+ and Fe3+, were selected as the model switch, and the corresponding ligand molecules cysteine (Cys) and pyrophosphate ions (PPi) were selected as the targets. When the fluorescence-quenched dsDNA/SGI-ion complex was introduced into a target-containing system, ions could be bound by competitive molecules and separate from the complex, thereby lighting the lamp. However, no light was observed if the biomolecule could not snatch the metal ions from the complex. Under the optimal conditions, sensitive and selective detection of Cys and PPi was achieved by the lamp, with practical applications in fetal bovine serum and human urine. This ion quencher regulated lamp for fluorescent bioassays is simple in design, fast in operation, and is more convenient than other methods. Significantly, as many molecules could form stable complexes with metal ions selectively, this ion quencher operated lamp has potential for the detection of a wide spectrum of analytes. Graphical abstract A novel and adjustable lamp on the basis of competitive interaction among dsDNA-SYBR Green I, ions quencher and analyte was designed for bioanalysis. The filament and switch of lamp could be customized by employing different dsDNA and ions quencher.
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Affiliation(s)
- Taiping Qing
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha, Hunan, 410082, China
| | - Huanhuan Sun
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha, Hunan, 410082, China
| | - Xiaoxiao He
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha, Hunan, 410082, China.
| | - Xiaoqin Huang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha, Hunan, 410082, China
| | - Dinggeng He
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha, Hunan, 410082, China
| | - Hongchang Bu
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha, Hunan, 410082, China
| | - Zhenzhen Qiao
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha, Hunan, 410082, China
| | - Kemin Wang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecule Engineering of Hunan Province, Hunan University, Changsha, Hunan, 410082, China.
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14
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Triggered hairpin switch and in situ nonlinear hybridization chain reaction enabling label-free electrochemiluminescent detection of BCR/ABL fusion gene. J Electroanal Chem (Lausanne) 2017. [DOI: 10.1016/j.jelechem.2017.07.050] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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15
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A DNAzyme sensor based on target-catalyzed hairpin assembly for enzyme-free and non-label single nucleotide polymorphism genotyping. Talanta 2017; 167:630-637. [DOI: 10.1016/j.talanta.2017.03.001] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2016] [Revised: 02/24/2017] [Accepted: 03/02/2017] [Indexed: 11/19/2022]
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16
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Song Q, Wang R, Sun F, Chen H, Wang Z, Na N, Ouyang J. A nuclease-assisted label-free aptasensor for fluorescence turn-on detection of ATP based on the in situ formation of copper nanoparticles. Biosens Bioelectron 2016; 87:760-763. [PMID: 27649332 DOI: 10.1016/j.bios.2016.09.029] [Citation(s) in RCA: 63] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2016] [Revised: 08/21/2016] [Accepted: 09/08/2016] [Indexed: 10/21/2022]
Abstract
Owing to their promising advantages in biochemical analysis, aptamer-based sensing systems for the fluorescence detection of important biomolecules are being extensively investigated. Herein, we propose a turn-on fluorescent aptasensor for label-free detection of adenosine triphosphate (ATP) by utilizing the in situ formation of copper nanoparticles (CuNPs) and the specific digestion capability of exonuclease I (Exo I). In this assay, the addition of ATP can effectively hinder the digestion of aptamer-derived oligonucleotides due to the G-quadruplex structure. Accordingly, the remaining poly thymine at 5'-terminus of substrate DNA can serve as an efficient template for red-emitting fluorescent CuNPs with a Mega-Stokes shifting in buffered solution, which can be used to evaluate the concentration of ATP. This method is cost-effective and facile, because it avoids the use of traditional dye-labeled DNA strands and complex operation steps. Under optimized conditions, this method achieves a selective response for ATP with a detection limit of 93nM, and exhibits a good detection performance in biological samples.
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Affiliation(s)
- Quanwei Song
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China; State Key Laboratory of Petroleum Pollution Control, Beijing 102206, China; CNPC Research Institute of Safety and Environment Technology, Beijing 102206, China
| | - Ruihua Wang
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Feifei Sun
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Hongkun Chen
- State Key Laboratory of Petroleum Pollution Control, Beijing 102206, China; CNPC Research Institute of Safety and Environment Technology, Beijing 102206, China
| | - Zoumengke Wang
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Na Na
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Jin Ouyang
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China.
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17
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Wang J, Song J, Wang X, Wu S, Zhao Y, Luo P, Meng C. An ATMND/SGI based label-free and fluorescence ratiometric aptasensor for rapid and highly sensitive detection of cocaine in biofluids. Talanta 2016; 161:437-442. [PMID: 27769429 DOI: 10.1016/j.talanta.2016.08.039] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2016] [Revised: 07/30/2016] [Accepted: 08/16/2016] [Indexed: 12/27/2022]
Abstract
A label-free ratiometric fluorescence aptasensor has been developed for the rapid and sensitive detection of cocaine in complex biofluids. The fluorescent aptasensor is composed of a non-labeled GC-38 cocaine aptamer which serves as a basic sensing unit and two fluorophores, 2-amino-5,6,7-trimethyl-1,8-naphthyridine (ATMND) and SYBR Green I (SGI) which serves as a signal reporter and a build-in reference, respectively. The detection principle is based on a specific cocaine mediated ATMND displacement reaction and the corresponding change in the fluorescence ratio of ATMND to SGI. Due to the high affinity of the non-labeled aptamer, the good precision originated from the ratiometric method, and the good fluorescence quantum yield of the fluorophore, the aptasensor shows good analytical performance with respect to cocaine detection. Under optimal conditions, the aptasensor shows a linear range of 0.10-10μM and a low limit of detection of 56nM, with a fast response of 20s. The low limit of detection is comparable to most of the fluorescent aptasensors with signal amplification strategies and much lower than all of the unamplified cocaine aptasensors. Practical sample analysis in a series of complex biofluids, including urine, saliva and serum, also indicates the good precision, stability, and high sensitivity of the aptasensor, which may have great potential for the point-of-care screening of cocaine in complex biofluids.
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Affiliation(s)
- Jiamian Wang
- School of Chemistry, Dalian University of Technology, Dalian 116023, PR China
| | - Jie Song
- School of Chemistry, Dalian University of Technology, Dalian 116023, PR China
| | - Xiuyun Wang
- School of Chemistry, Dalian University of Technology, Dalian 116023, PR China
| | - Shuo Wu
- School of Chemistry, Dalian University of Technology, Dalian 116023, PR China.
| | - Yanqiu Zhao
- School of Chemistry, Dalian University of Technology, Dalian 116023, PR China
| | - Pinchen Luo
- School of Chemistry, Dalian University of Technology, Dalian 116023, PR China
| | - Changgong Meng
- School of Chemistry, Dalian University of Technology, Dalian 116023, PR China
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18
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Tian Y, Zhang L, Shen J, Wu L, He H, Ma DL, Leung CH, Wu W, Fan Q, Huang W, Wang L. An Individual Nanocube-Based Plasmonic Biosensor for Real-Time Monitoring the Structural Switch of the Telomeric G-Quadruplex. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2016; 12:2913-2920. [PMID: 27106517 DOI: 10.1002/smll.201600041] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2016] [Revised: 03/08/2016] [Indexed: 06/05/2023]
Abstract
Promoted by the localized surface plasmon resonance nanotechnology, a simple and sensitive plasmonic aptamer nanosensor (nanoaptasensor) on an individual Au@Ag core-shell nanocube (Au@Ag NC) has been proposed for real-time monitoring of the formation process of G-quadruplex structures and label-free analysis of potassium ions (K(+) ). In particular, the analysis of the thermodynamic parameters indicates that there are two types of binding states accompanied with a remarkable change of free energy (ΔG) in the sequential folding process of telomere DNA sequence. This nanoaptasensor has raised promising applications in monitoring the dynamic process of the structural switch of the G-quadruplex.
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Affiliation(s)
- Yuanyuan Tian
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Jiangsu Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing, 210023, China
| | - Lei Zhang
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Jiangsu Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing, 210023, China
| | - Jingjing Shen
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Jiangsu Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing, 210023, China
| | - Lingzhi Wu
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Jiangsu Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing, 210023, China
| | - Hongzhang He
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
| | - Dik-Lung Ma
- 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
| | - Weibing Wu
- Jiangsu Provincial Key Lab of Pulp and Paper Science and Technology, Nanjing Forestry University, Nanjing, 210037, China
| | - Quli Fan
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Jiangsu Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing, 210023, China
| | - Wei Huang
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Jiangsu Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing, 210023, China
- Key Laboratory of Flexible Electronics (KLOFE) & Institute of Advanced Materials (IAM), National Jiangsu Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing Tech University, 30 South Puzhu Road, Nanjing, 211816, China
| | - Lianhui Wang
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Jiangsu Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing, 210023, China
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19
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Zhang H, Zhou L, Zhu Z, Yang C. Recent Progress in Aptamer-Based Functional Probes for Bioanalysis and Biomedicine. Chemistry 2016; 22:9886-900. [PMID: 27243551 DOI: 10.1002/chem.201503543] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2015] [Revised: 02/16/2016] [Indexed: 01/01/2023]
Abstract
Nucleic acid aptamers are short synthetic DNA or RNA sequences that can bind to a wide range of targets with high affinity and specificity. In recent years, aptamers have attracted increasing research interest due to their unique features of high binding affinity and specificity, small size, excellent chemical stability, easy chemical synthesis, facile modification, and minimal immunogenicity. These properties make aptamers ideal recognition ligands for bioanalysis, disease diagnosis, and cancer therapy. This review highlights the recent progress in aptamer selection and the latest applications of aptamer-based functional probes in the fields of bioanalysis and biomedicine.
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Affiliation(s)
- Huimin Zhang
- College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, China
| | - Leiji Zhou
- College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, China
| | - Zhi Zhu
- College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, China
| | - Chaoyong Yang
- College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, 361005, China.
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20
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Li G, Sun L, Ji L, Chao H. Ruthenium(ii) complexes with dppz: from molecular photoswitch to biological applications. Dalton Trans 2016; 45:13261-76. [DOI: 10.1039/c6dt01624c] [Citation(s) in RCA: 99] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The present article describes the recent advances in biological applications of the Ru-dppz systems in DNA binding, cellular imaging, anticancer drugs, phototherapy, protein aggregation detecting and chemosensors.
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Affiliation(s)
- Guanying Li
- MOE Key Laboratory of Bioinorganic and Synthetic Chemistry
- School of Chemistry and Chemical Engineering
- Sun Yat-sen University
- Guangzhou
- P. R. China
| | - Lingli Sun
- MOE Key Laboratory of Bioinorganic and Synthetic Chemistry
- School of Chemistry and Chemical Engineering
- Sun Yat-sen University
- Guangzhou
- P. R. China
| | - Liangnian Ji
- MOE Key Laboratory of Bioinorganic and Synthetic Chemistry
- School of Chemistry and Chemical Engineering
- Sun Yat-sen University
- Guangzhou
- P. R. China
| | - Hui Chao
- MOE Key Laboratory of Bioinorganic and Synthetic Chemistry
- School of Chemistry and Chemical Engineering
- Sun Yat-sen University
- Guangzhou
- P. R. China
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21
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Shrivastava S, Sohn IY, Son YM, Lee WI, Lee NE. Real-time label-free quantitative fluorescence microscopy-based detection of ATP using a tunable fluorescent nano-aptasensor platform. NANOSCALE 2015; 7:19663-19672. [PMID: 26553481 DOI: 10.1039/c5nr05839b] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Although real-time label-free fluorescent aptasensors based on nanomaterials are increasingly recognized as a useful strategy for the detection of target biomolecules with high fidelity, the lack of an imaging-based quantitative measurement platform limits their implementation with biological samples. Here we introduce an ensemble strategy for a real-time label-free fluorescent graphene (Gr) aptasensor platform. This platform employs aptamer length-dependent tunability, thus enabling the reagentless quantitative detection of biomolecules through computational processing coupled with real-time fluorescence imaging data. We demonstrate that this strategy effectively delivers dose-dependent quantitative readouts of adenosine triphosphate (ATP) concentration on chemical vapor deposited (CVD) Gr and reduced graphene oxide (rGO) surfaces, thereby providing cytotoxicity assessment. Compared with conventional fluorescence spectrometry methods, our highly efficient, universally applicable, and rational approach will facilitate broader implementation of imaging-based biosensing platforms for the quantitative evaluation of a range of target molecules.
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Affiliation(s)
- Sajal Shrivastava
- School of Advanced Materials Science & Engineering, Sungkyunkwan University, 2066 Seobu-ro, Jangan-gu, Suwon, Gyeonggi-do 16419, Korea.
| | - Il-Yung Sohn
- School of Advanced Materials Science & Engineering, Sungkyunkwan University, 2066 Seobu-ro, Jangan-gu, Suwon, Gyeonggi-do 16419, Korea.
| | - Young-Min Son
- School of Advanced Materials Science & Engineering, Sungkyunkwan University, 2066 Seobu-ro, Jangan-gu, Suwon, Gyeonggi-do 16419, Korea.
| | - Won-Il Lee
- School of Advanced Materials Science & Engineering, Sungkyunkwan University, 2066 Seobu-ro, Jangan-gu, Suwon, Gyeonggi-do 16419, Korea.
| | - Nae-Eung Lee
- School of Advanced Materials Science & Engineering, Sungkyunkwan University, 2066 Seobu-ro, Jangan-gu, Suwon, Gyeonggi-do 16419, Korea. and SKKU Advanced Institute of Nanotechnology (SAINT), Sungkyunkwan University, 2066 Seobu-ro, Jangan-gu, Suwon, Gyeonggi-do 16419, Korea
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22
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Song Q, Peng M, Wang L, He D, Ouyang J. A fluorescent aptasensor for amplified label-free detection of adenosine triphosphate based on core-shell Ag@SiO2 nanoparticles. Biosens Bioelectron 2015; 77:237-41. [PMID: 26409024 DOI: 10.1016/j.bios.2015.09.008] [Citation(s) in RCA: 66] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2015] [Revised: 08/25/2015] [Accepted: 09/04/2015] [Indexed: 12/21/2022]
Abstract
The novel, facile and universal aptamer-based methods for the highly sensitive and selective fluorescence detection of important biomolecules have attracted considerable interest. Here, we present a label-free aptasensor for adenosine triphosphate (ATP) detection in aqueous solutions by using an ultra-sensitive nucleic acid stain PicoGreen (PG) as a fluorescent indicator and core-shell Ag@SiO2 nanoparticles (NPs) as a metal-enhanced fluorescence (MEF) platform. In the presence of ATP, the complementary DNA (cDNA)/aptamer duplexes confined onto the Ag@SiO2 NPs surface can release their aptamers into the buffered solution, causing a significant reduction in fluorescence intensity. By virtue of the amplified fluorescence signal, this aptasensor toward ATP can achieve a detection limit of 14.2 nM with a wide linear range and exhibit a good assay performance in complex biological samples. This sensing approach is cost-effective and efficient because it avoids the fluorescence labeling process and the use of any enzymes. Hence, this method may offer an alternative tool for determining the concentrations of ATP in biochemical and biomedical research.
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Affiliation(s)
- Quanwei Song
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Manshu Peng
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Le Wang
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China
| | - Dacheng He
- Key laboratory for Cell Proliferation and Regulation Biology, Ministry of Education, Beijing Normal University, Beijing 100875, China
| | - Jin Ouyang
- Key Laboratory of Theoretical and Computational Photochemistry, Ministry of Education, College of Chemistry, Beijing Normal University, Beijing 100875, China.
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23
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Chen Z, Tan L, Hu L, Luan Y. Superior fluorescent probe for detection of potassium ion. Talanta 2015; 144:247-51. [PMID: 26452817 DOI: 10.1016/j.talanta.2015.06.015] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2015] [Revised: 05/31/2015] [Accepted: 06/05/2015] [Indexed: 12/27/2022]
Abstract
Here, a simple, and highly sensitive fluorescent assay is designed to monitor K(+). The versatile, robust biosensing strategy is based on the specific recognition utility of label-free aptamers with their targets and PicoGreen dye as the signal probe. The aptamers undergo a conformational change to a secondary structure such as G-quadruplex in the presence of targets. In addition to a conformational change with its targets, the remaining single-stranded DNA (ssDNA) aptamer form a duplex structure with its complete complementary sequence. Conformational changes of aptamers as well as fluorescence amplification produce clear signal-off in the presence of targets. Fluorescent assay employing this mechanism for the detection of K(+) is highly sensitive, and selective. The detection limit of the K(+) assay is determined to be 2.37 pM. The sensing strategy is low-cost and simple in its operation without requirement for complex labeling of probe DNA or sophisticated synthesis of the fluorescent compound. Also, the method has less structural requirement of complexes of aptamers with their targets, thus rending its wilder applications for various targets.
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Affiliation(s)
- Zhengbo Chen
- Department of Chemistry, Capital Normal University, Beijing 100048, China.
| | - Lulu Tan
- Department of Chemistry, Capital Normal University, Beijing 100048, China
| | - Liangyu Hu
- Department of Chemistry, Capital Normal University, Beijing 100048, China
| | - Yunxia Luan
- Beijing Research Center for Agricultural Standards and Testing, Beijing 100097, China
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24
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Guo Y, Chen Y, Wei Y, Li H, Dong C. Label-free fluorescent aptasensor for potassium ion using structure-switching aptamers and berberine. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2015; 136 Pt C:1635-1641. [PMID: 25459726 DOI: 10.1016/j.saa.2014.10.058] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/12/2014] [Revised: 10/09/2014] [Accepted: 10/12/2014] [Indexed: 06/04/2023]
Abstract
A simple, rapid and label-free fluorescent aptasensor was fabricated for the detection of potassium ion (K(+) ion) in aqueous solution using K(+) ion-stabilized single stranded DNA (ssDNA) with G-rich sequence as the recognition element and a fluorescent dye, berberine, as the fluorescence probe. In the presence of K(+) ion, the G-rich ssDNA is promoted to form the aptamer-target complex with a G-quadruplex conformation, and berberine binding to the G-quadruplex structure results in the enhancement of its fluorescence. The fluorescence intensity of the sensing system displayed a calibration response for K(+) ion in the range of 0-1600μM with a detection limit of 31nM (S/N=3) and a relative standard deviation (RSD) of 0.45%. This label-free fluorescence aptasensor is conveniently and effectively applicable for analysis of K(+) ion in blood serum samples with the recovery range of 81.7-105.3%. The assay for detection of potassium ion is easy, economical, robust, and stable in rough conditions.
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Affiliation(s)
- Yanqing Guo
- Department of Chemistry, Jinzhong University, Jinzhong, Shanxi 030600, PR China; Institute of Environmental Science, School of Chemistry and Chemical Engineering, Shanxi University, Taiyuan, PR China
| | - Yanxia Chen
- Institute of Environmental Science, School of Chemistry and Chemical Engineering, Shanxi University, Taiyuan, PR China
| | - Yanli Wei
- Institute of Environmental Science, School of Chemistry and Chemical Engineering, Shanxi University, Taiyuan, PR China.
| | - Huanhuan Li
- Institute of Environmental Science, School of Chemistry and Chemical Engineering, Shanxi University, Taiyuan, PR China
| | - Chuan Dong
- Institute of Environmental Science, School of Chemistry and Chemical Engineering, Shanxi University, Taiyuan, PR China.
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25
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Xu L, Sun N, Zhou L, Chen X, Wang J, Wang Q, Wang K, Zhang J, Pei R. A label-free fluorescence assay for potassium ions using riboflavin as a G-quadruplex ligand. Analyst 2015; 140:3352-5. [DOI: 10.1039/c5an00242g] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A label-free fluorescence K+assay was developed using riboflavin, a new G-quadruplex ligand, and a G-quadruplex sequence (PW17).
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Affiliation(s)
- Lijun Xu
- Key Laboratory of Nano-Bio Interface
- Division of Nanobiomedicine
- Collaborative Innovation Center of Suzhou Nano Science and Technology
- Suzhou Institute of Nano-Tech and Nano-Bionics
- Chinese Academy of Sciences
| | - Na Sun
- Key Laboratory of Nano-Bio Interface
- Division of Nanobiomedicine
- Collaborative Innovation Center of Suzhou Nano Science and Technology
- Suzhou Institute of Nano-Tech and Nano-Bionics
- Chinese Academy of Sciences
| | - Lu Zhou
- Key Laboratory of Nano-Bio Interface
- Division of Nanobiomedicine
- Collaborative Innovation Center of Suzhou Nano Science and Technology
- Suzhou Institute of Nano-Tech and Nano-Bionics
- Chinese Academy of Sciences
| | - Xing Chen
- Key Laboratory of Nano-Bio Interface
- Division of Nanobiomedicine
- Collaborative Innovation Center of Suzhou Nano Science and Technology
- Suzhou Institute of Nano-Tech and Nano-Bionics
- Chinese Academy of Sciences
| | - Jine Wang
- Key Laboratory of Nano-Bio Interface
- Division of Nanobiomedicine
- Collaborative Innovation Center of Suzhou Nano Science and Technology
- Suzhou Institute of Nano-Tech and Nano-Bionics
- Chinese Academy of Sciences
| | - Qinglin Wang
- Key Laboratory of Nano-Bio Interface
- Division of Nanobiomedicine
- Collaborative Innovation Center of Suzhou Nano Science and Technology
- Suzhou Institute of Nano-Tech and Nano-Bionics
- Chinese Academy of Sciences
| | - Kewei Wang
- Key Laboratory of Nano-Bio Interface
- Division of Nanobiomedicine
- Collaborative Innovation Center of Suzhou Nano Science and Technology
- Suzhou Institute of Nano-Tech and Nano-Bionics
- Chinese Academy of Sciences
| | - Jianye Zhang
- School of Chemistry and Molecular Engineering
- Zhengzhou University
- Zhengzhou 450001
- P. R. China
| | - Renjun Pei
- Key Laboratory of Nano-Bio Interface
- Division of Nanobiomedicine
- Collaborative Innovation Center of Suzhou Nano Science and Technology
- Suzhou Institute of Nano-Tech and Nano-Bionics
- Chinese Academy of Sciences
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26
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Ren J, Wang T, Wang E, Wang J. Versatile G-quadruplex-mediated strategies in label-free biosensors and logic systems. Analyst 2015; 140:2556-72. [DOI: 10.1039/c4an02282c] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
This review addresses how G-quadruplex (G4)-mediated biosensors convert the events of target recognition into a measurable physical signal. The application of label-free G4-strategies in the construction of logic systems is also discussed.
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Affiliation(s)
- Jiangtao Ren
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Tianshu Wang
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Erkang Wang
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Jin Wang
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
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27
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Alfaro K, Bustos P, O Sullivan C, Conejeros P. Facile and Cost-Effective Detection of Saxitoxin Exploiting Aptamer Structural Switching. Food Technol Biotechnol 2015; 53:337-341. [PMID: 27904366 DOI: 10.17113/ftb.53.03.15.3911] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023] Open
Abstract
A simple method to detect saxitoxin (STX), one of the main components of the paralytic shellfish poison from red tide, has been developed. By using a next generation dye for double-stranded DNA we were able to differentiate fluorescence from STX-binding aptamers when exposed to different concentrations of STX, suggesting a change in aptamer folding upon target binding. The developed method is extremely rapid, only requiring small sample volumes, with quantitative results in the concentration range of 15 ng/mL to 3 µg/mL of STX, with a detection limit of 7.5 ng/mL.
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Affiliation(s)
- Karol Alfaro
- Centro de Investigación y Gestión de Recursos Naturales, Facultad de Ciencias,
Universidad de Valparaíso, Gran Bretańa 1111, Valparaíso, Chile
| | - Paulina Bustos
- Centro de Investigación y Gestión de Recursos Naturales, Facultad de Ciencias,
Universidad de Valparaíso, Gran Bretańa 1111, Valparaíso, Chile
| | - Ciara O Sullivan
- Nanobiotechnology and Bioanalysis Group, Department of Chemical Engineering,
Universitat Rovira i Virgili, 43007 ES-Tarragona, Spain
| | - Pablo Conejeros
- Centro de Investigación y Gestión de Recursos Naturales, Facultad de Ciencias,
Universidad de Valparaíso, Gran Bretańa 1111, Valparaíso, Chile
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28
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Su C, Liu Y, Ye T, Xiang X, Ji X, He Z. Rolling cycle amplification based single-color quantum dots–ruthenium complex assembling dyads for homogeneous and highly selective detection of DNA. Anal Chim Acta 2015; 853:495-500. [DOI: 10.1016/j.aca.2014.10.027] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2014] [Revised: 10/11/2014] [Accepted: 10/15/2014] [Indexed: 12/11/2022]
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29
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Wickramaratne TM, Pierre VC. Turning an aptamer into a light-switch probe with a single bioconjugation. Bioconjug Chem 2014; 26:63-70. [PMID: 25427946 PMCID: PMC4306522 DOI: 10.1021/bc5003899] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
![]()
We
describe a method for transforming a structure-switching aptamer
into a luminescent light-switch probe via a single conjugation. The
methodology is demonstrated using a known aptamer for Hg2+ as a case study. This approach utilizes a lanthanide-based metallointercalator,
Eu-DOTA-Phen, whose luminescence is quenched almost entirely and selectively
by purines, but not at all by pyrimidines. This complex, therefore,
does not luminesce while intercalated in dsDNA, but it is bright red
when conjugated to a ssDNA that is terminated by several pyrimidines.
In its design, the light-switch probe incorporates a structure-switching
aptamer partially hybridized to its complementary strand. The lanthanide
complex is conjugated to either strand via a stable amide bond. Binding
of the analyte by the structure-switching aptamer releases the complementary
strand. This release precludes intercalation of the intercalator in
dsDNA, which switches on its luminescence. The resulting probe turns
on 21-fold upon binding to its analyte. Moreover, the structure switching
aptamer is highly selective, and the long luminescence lifetime of
the probe readily enables time-gating experiments for removal of the
background autofluorescence of the sample.
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Lv Z, Liu J, Bai W, Yang S, Chen A. A simple and sensitive label-free fluorescent approach for protein detection based on a Perylene probe and aptamer. Biosens Bioelectron 2014; 64:530-4. [PMID: 25310484 DOI: 10.1016/j.bios.2014.09.095] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2014] [Revised: 09/30/2014] [Accepted: 09/30/2014] [Indexed: 01/11/2023]
Abstract
Highly sensitive detection of proteins is of great importance for effective clinical diagnosis and biomedical research. However, so far most detection methods rely on antibody-based immunoassays and are usually laborious and time-consuming with poor sensitivity. Here, we developed a simple and ultra-sensitive method to detect a biomarker protein-thrombin by taking advantage of the fluorescent probe Perylene tetracarboxylic acid diimide (PTCDI) derivatives and thrombin aptamer. The water-soluble dye PTCDI shows strong fluorescence in buffer solution for the existence of free dye monomer, but becomes weak after aggregation through self-assembly on nucleic acid aptamer. In the presence of thrombin, it specifically binds to thrombin aptamer which causes the conformational transition between aptamer and PTCDI and results in a significant fluorescence recovery. The results showed that as low as 40 pM of thrombin could be detected by this method. The high sensitivity of the developed sensing system mainly attributes to the ultra-sensitivity of the fluorescence intensity changes of PTCDI. With the specificity of aptamer, the assay exhibited high selectivity for thrombin against three other proteins (bovine serum albumin, lysozyme, mouse IgG) and 1% diluted fetal bovine serum. The detection method might be extended to sensitive detection of a variety of proteins for its advantages of isothermal conditions required, simple and rapid without multiple separation and washing steps.
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Affiliation(s)
- Zhenzhen Lv
- 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; College of Food Science, Sichuan Agricultural University, Ya'an 625014, China
| | - Jinchuan Liu
- 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
| | - Wenhui Bai
- 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
| | - 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.
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31
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Chen Z, Zhou T, Zhang C, Ma H, Lin Y, Li K. Aptasensor for label-free square-wave voltammetry detection of potassium ions based on gold nanoparticle amplification. RSC Adv 2014. [DOI: 10.1039/c4ra05058d] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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32
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Xu Y, Zhou W, Zhou M, Xiang Y, Yuan R, Chai Y. Toehold strand displacement-driven assembly of G-quadruplex DNA for enzyme-free and non-label sensitive fluorescent detection of thrombin. Biosens Bioelectron 2014; 64:306-10. [PMID: 25240130 DOI: 10.1016/j.bios.2014.09.018] [Citation(s) in RCA: 54] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2014] [Revised: 09/03/2014] [Accepted: 09/04/2014] [Indexed: 01/08/2023]
Abstract
Based on a new signal amplification strategy by the toehold strand displacement-driven cyclic assembly of G-quadruplex DNA, the development of an enzyme-free and non-label aptamer sensing approach for sensitive fluorescent detection of thrombin is described. The target thrombin associates with the corresponding aptamer of the partial dsDNA probes and liberates single stranded initiation sequences, which trigger the toehold strand displacement assembly of two G-quadruplex containing hairpin DNAs. This toehold strand displacement reaction leads to the cyclic reuse of the initiation sequences and the production of DNA assemblies with numerous G-quadruplex structures. The fluorescent dye, N-Methyl mesoporphyrin IX, binds to these G-quadruplex structures and generates significantly amplified fluorescent signals to achieve highly sensitive detection of thrombin down to 5 pM. Besides, this method shows high selectivity towards the target thrombin against other control proteins. The developed thrombin sensing method herein avoids the modification of the probes and the involvement of any enzyme or nanomaterial labels for signal amplification. With the successful demonstration for thrombin detection, our approach can be easily adopted to monitor other target molecules in a simple, low-cost, sensitive and selective way by choosing appropriate aptamer/ligand pairs.
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Affiliation(s)
- Yunying Xu
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Wenjiao Zhou
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Ming Zhou
- (b)Department of Chemistry, University of Washington, Seattle, WA 98195, USA
| | - Yun Xiang
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China.
| | - Ruo Yuan
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Yaqin Chai
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
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Zhang S, Ding Y, Wei H. Ruthenium polypyridine complexes combined with oligonucleotides for bioanalysis: a review. Molecules 2014; 19:11933-87. [PMID: 25116805 PMCID: PMC6271144 DOI: 10.3390/molecules190811933] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2014] [Revised: 07/17/2014] [Accepted: 07/28/2014] [Indexed: 02/01/2023] Open
Abstract
Ruthenium complexes are among the most interesting coordination complexes and they have attracted great attention over the past decades due to their appealing biological, catalytic, electronic and optical properties. Ruthenium complexes have found a unique niche in bioanalysis, as demonstrated by the substantial progress made in the field. In this review, the applications of ruthenium complexes coordinated with polypyridine ligands (and analogues) in bioanalysis are discussed. Three main detection methods based on electrochemistry, electrochemiluminescence, and photoluminscence are covered. The important targets, including DNA and other biologically important targets, are detected by specific biorecognition with the corresponding oligonucleotides as the biorecognition elements (i.e., DNA is probed by its complementary strand and other targets are detected by functional nucleic acids, respectively). Selected examples are provided and thoroughly discussed to highlight the substantial progress made so far. Finally, a brief summary with perspectives is included.
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Affiliation(s)
- Shuyu Zhang
- Department of Biomedical Engineering, College of Engineering and Applied Sciences, Nanjing University, Nanjing 210093, China.
| | - Yubin Ding
- Department of Biomedical Engineering, College of Engineering and Applied Sciences, Nanjing University, Nanjing 210093, China.
| | - Hui Wei
- Department of Biomedical Engineering, College of Engineering and Applied Sciences, Nanjing University, Nanjing 210093, China.
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34
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Chen C, Xiang X, Liu Y, Zhou G, Ji X, He Z. Dual-color determination of protein via terminal protection of small-molecule-linked DNA and the enzymolysis of exonuclease III. Biosens Bioelectron 2014; 58:205-8. [PMID: 24637170 DOI: 10.1016/j.bios.2014.02.060] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2013] [Revised: 02/19/2014] [Accepted: 02/21/2014] [Indexed: 12/18/2022]
Abstract
We have developed a new dual-color fluorescent biosensor for protein detection based on terminal protection of small-molecule-linked DNA and the enzymolysis of exonuclease III (Exo III). The determination of streptavidin (SA) was realized via fluorescence signals of the green color from quantum dots (QDs) and the red from [Ru(phen)2(dppx)](2+). In the absence of SA, biotin-DNA was degradated by the Exo III, thus making the [Ru(phen)2(dppx)](2+) employed as a fluorescence quencher to the QDs. With the addition of SA, dual-color response appeared because of the specific binding between SA and biotin so that the biotin-dsDNA was protected and combined with [Ru(phen)2(dppx)](2+), leading to the QDs recovery and the generating of [Ru(phen)2(dppx)](2+) fluorescence. This sensor exhibited high sensitivity with a low detection limit (2.11ng/mL) and firstly introduced dual-color QDs-ruthenium complex dyads to protein assay.
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Affiliation(s)
- Chaohui Chen
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education, College of Chemistry and Molecular Sciences, Wuhan University, Wuhan 430072, PR China
| | - Xia Xiang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education, College of Chemistry and Molecular Sciences, Wuhan University, Wuhan 430072, PR China
| | - Yufei Liu
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education, College of Chemistry and Molecular Sciences, Wuhan University, Wuhan 430072, PR China
| | - Guohua Zhou
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education, College of Chemistry and Molecular Sciences, Wuhan University, Wuhan 430072, PR China
| | - Xinghu Ji
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education, College of Chemistry and Molecular Sciences, Wuhan University, Wuhan 430072, PR China
| | - Zhike He
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education, College of Chemistry and Molecular Sciences, Wuhan University, Wuhan 430072, PR China.
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35
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MacKay S, Wishart D, Xing JZ, Chen J. Developing trends in aptamer-based biosensor devices and their applications. IEEE TRANSACTIONS ON BIOMEDICAL CIRCUITS AND SYSTEMS 2014; 8:4-14. [PMID: 24681915 DOI: 10.1109/tbcas.2014.2304718] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Aptamers are, in general, easier to produce, easier to store and are able to bind to a wider variety of targets than antibodies. For these reasons, aptamers are gaining increasing popularity in environmental monitoring as well as disease detection and disease management applications. This review article examines the research and design of RNA and DNA aptamer based biosensor systems and applications as well as their potential for integration in effective biosensor devices. As single stranded DNA or RNA molecules that can bind to specific targets, aptamers are well suited for biomolecular recognition and sensing applications. Beyond being able to be designed for a near endless number of specific targets, aptamers can also be made which change their conformation in a predictable and consistent way upon binding. This can lead to many unique and effective detection methods using a variety of optical and electrochemical means.
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36
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Ma DL, He HZ, Leung KH, Zhong HJ, Chan DSH, Leung CH. Label-free luminescent oligonucleotide-based probes. Chem Soc Rev 2013; 42:3427-40. [PMID: 23348604 DOI: 10.1039/c2cs35472a] [Citation(s) in RCA: 180] [Impact Index Per Article: 16.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Breakthrough advances in chemistry and biology over the last two decades have vastly expanded the repertoire of nucleic acid structure and function with potential application in multiple areas of science and technology, including sensing and analytical applications. DNA oligonucleotides represent popular tools for the development of sensing platforms due to their low cost, rich structural polymorphism, and their ability to bind to cognate ligands with sensitivity and specificity rivaling those for protein enzymes and antibodies. In this review, we give an overview of the "label-free" approach that has been a particular focus of our group and others for the construction of luminescent DNA-based sensing platforms. The label-free strategy aims to overcome some of the drawbacks associated with the use of covalently-labeled oligonucleotides prevalent in electrochemical and optical platforms. Label-free DNA-based probes harness the selective interaction between luminescent dyes and functional oligonucleotides that exhibit a "structure-switching" response upon binding to analytes. Based on the numerous examples of label-free luminescent DNA-based probes reported recently, we envisage that this field would continue to thrive and mature in the years to come.
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Affiliation(s)
- Dik-Lung Ma
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China.
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37
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Lv Z, Liu J, Zhou Y, Guan Z, Yang S, Li C, Chen A. Highly sensitive fluorescent detection of small molecules, ions, and proteins using a universal label-free aptasensor. Chem Commun (Camb) 2013; 49:5465-7. [PMID: 23666035 DOI: 10.1039/c3cc42801j] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
A facile and universal aptamer-based label-free approach for highly selective and sensitive fluorescence detection of a broad range of targets including small molecules, inorganic ions and proteins was developed by using PicoGreen to transduce the fluorescent signal of the double stranded DNA duplex formed between a free aptamer and its complementary strand.
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Affiliation(s)
- Zhenzhen Lv
- 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, P.R. China
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38
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Sun H, Xiang J, Gai W, Liu Y, Guan A, Yang Q, Li Q, Shang Q, Su H, Tang Y, Xu G. Quantification of the Na+/K+ ratio based on the different response of a newly identified G-quadruplex to Na+ and K+. Chem Commun (Camb) 2013; 49:4510-2. [PMID: 23577345 DOI: 10.1039/c3cc39020a] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
A G-quadruplex is identified which can exhibit two different motifs, respectively, corresponding to Na(+) and K(+). The relative amount of each motif is related to the Na(+)/K(+) ratio. Based on selective recognition of the G-quadruplex motifs by a cyanine dye aggregate, a method for both colorimetric and quantitative measurements of Na(+)/K(+) ratios is constructed.
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Affiliation(s)
- Hongxia Sun
- National Laboratory for Molecular Sciences, Center for Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences, Zhongguancun North 1st street 2, Beijing 100190, PR China
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39
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Ma DL, Ma VPY, Chan DSH, Leung KH, He HZ, Leung CH. Recent advances in luminescent heavy metal complexes for sensing. Coord Chem Rev 2012. [DOI: 10.1016/j.ccr.2012.07.005] [Citation(s) in RCA: 241] [Impact Index Per Article: 20.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
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40
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A universal and label-free aptasensor for fluorescent detection of ATP and thrombin based on SYBR Green I dye. Biosens Bioelectron 2012. [PMID: 23202351 DOI: 10.1016/j.bios.2012.10.064] [Citation(s) in RCA: 84] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
A facile and universal aptamer-based label-free approach for selective and sensitive fluorescence detection of proteins and small biomolecules by using the SYBR Green I (SGI) dye is developed. This robust versatile biosensing strategy relies on fluorescence turn-off changes of SGI, resulting from target-induced structure switching of aptamers. Upon binding with the targets, the aptamers dissociate from the respective cDNA/aptamer duplexes, leading to the release of the dsDNA-intercalated SGI into solution and the quenching of the corresponding fluorescence intensities. Such target-induced conformational changes and release of aptamers from the DNA duplexes essentially lead to the change in the fluorescence signal of the SGI and thus constitute the mechanism of our aptamer-based label-free fluorescence biosensor for specific target analyses. Under optimized conditions, our method exhibits high sensitivity and selectivity for the quantification of ATP and thrombin with low detection limits (23.4 nM and 1.1 nM, respectively). Compared with previous reported methods for aptamer-based detection of ATP and thrombin, this label-free approach is selective, simple, convenient and cost-efficient without any chemical labeling of the probe or the target. Therefore, the present strategy could be easily applicable to biosensors that target a wide range of biomolecules.
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41
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Babu E, Mareeswaran PM, Rajagopal S. Highly sensitive optical biosensor for thrombin based on structure switching aptamer-luminescent silica nanoparticles. J Fluoresc 2012; 23:137-46. [PMID: 22965479 DOI: 10.1007/s10895-012-1127-0] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2012] [Accepted: 09/02/2012] [Indexed: 12/17/2022]
Abstract
We describe here the construction of a sensitive and selective optical sensor system for the detection of human α-thrombin. The surface functionalized luminescent [Ru(dpsphen)(3)](4-) (dpsphen-4,7-diphenyl-1,10-phenanthroline disulfonate) ion doped silica nanoparticles (SiNPs) with a size ~70 nm have been prepared. The DABCYL (2-(4-dimethylaminophenyl)diazenyl-benzoic acid) quencher labeled thrombin binding aptamer is conjugated to the surface of SiNPs using BS(3) (bis(sulfosuccinimidyl) suberate) as a cross-linker, resulting in the conformational change of aptamer to form G-quadruplex structure upon the addition of thrombin. The binding event is translated into a change in the luminescence intensity of Ru(II) complex via FRET mechanism, due to the close proximity of DABCYL quencher with SiNPs. The selective detection of thrombin using the SiNPs-aptamer system up to 4 nM is confirmed by comparing its sensitivity towards other proteins. This work demonstrates the application of simple aptamer-SiNPs conjugate as a highly sensitive system for the detection of thrombin and also it is highly sensitive towards thrombin in the presence of other proteins and complex medium such as BSA.
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Affiliation(s)
- Ethiraju Babu
- School of Chemistry, Madurai Kamaraj University, Madurai 625 021, India
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42
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Zheng D, Zou R, Lou X. Label-free fluorescent detection of ions, proteins, and small molecules using structure-switching aptamers, SYBR Gold, and exonuclease I. Anal Chem 2012; 84:3554-60. [PMID: 22424113 DOI: 10.1021/ac300690r] [Citation(s) in RCA: 110] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
We have demonstrated a label-free sensing strategy employing structure-switching aptamers (SSAs), SYBR Gold, and exonuclease I to detect a broad range of targets including inorganic ions, proteins, and small molecules. This nearly universal biosensor approach is based on the observation that SSAs at binding state with their targets, which fold into secondary structures such as quadruplex structure or Y shape structure, show more resistance to nuclease digestion than SSAs at unfolded states. The amount of aptamer left after nuclease reaction is proportional to the concentrations of the targets and in turn is proportional to the fluorescence intensities from SYBR Gold that can only stain nucleic acids but not their digestion products, nucleoside monophosphates (dNMPs). Fluorescent assays employing this mechanism for the detection of potassium ion (K(+)) are sensitive, selective, and convenient. Twenty μM K(+) is readily detected even at the presence of a 500-fold excess of Na(+). Likewise, we have generalized the approach to the specific and convenient detection of proteins (thrombin) and small molecules (cocaine). The assays were then validated by detecting K(+), cocaine, and thrombin in urine and serum or cutting and masking adulterants with good agreements with the true values. Compared to other reported approaches, most limited to G-quadruplex structures, the demonstrated method has less structure requirements of both the SSAs and their complexes with targets, therefore rending its wilder applications for various targets. The detection scheme could be easily modified and extended to detection platforms to further improve the detection sensitivity or for other applications as well as being useful in high-throughput and paralleled analysis of multiple targets.
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Affiliation(s)
- Dongmei Zheng
- Department of Chemistry, Capital Normal University, Beijing, China
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43
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Sun H, Xiang J, Gai W, Shang Q, Li Q, Guan A, Yang Q, Liu Y, Tang Y, Xu G. Visual detection of potassium by a cyanine dye supramolecular aggregate responsive to G-quadruplex motif transition. Analyst 2012; 137:5713-5. [DOI: 10.1039/c2an35944h] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
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44
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Xu W, Xiang Y, Ihms H, Lu Y. Label-Free Fluorescent Sensors Based on Functional Nucleic Acids. REVIEWS IN FLUORESCENCE 2010 2012. [DOI: 10.1007/978-1-4419-9828-6_11] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
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45
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Hu K, Huang Y, Zhao S, Tian J, Wu Q, Zhang G, Jiang J. Ultrasensitive detection of potassium ions based on target induced DNA conformational switch enhanced fluorescence polarization. Analyst 2012; 137:2770-3. [DOI: 10.1039/c2an35416k] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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46
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Liu J, Zhou H, Xu JJ, Chen HY. Switchable ‘on–off–on’ electrochemical technique for direct detection of survivin mRNA in living cells. Analyst 2012; 137:3940-5. [DOI: 10.1039/c2an35463b] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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47
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Fan X, Li H, Zhao J, Lin F, Zhang L, Zhang Y, Yao S. A novel label-free fluorescent sensor for the detection of potassium ion based on DNAzyme. Talanta 2011; 89:57-62. [PMID: 22284459 DOI: 10.1016/j.talanta.2011.11.056] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2011] [Revised: 11/16/2011] [Accepted: 11/20/2011] [Indexed: 12/13/2022]
Abstract
A novel label-free and sensitive fluorescent aptasensor for the detection of potassium ion (K(+)) was developed based on the horseradish peroxidase-mimicking DNAzyme (HRP-DNAzyme). In this work, we selected a K(+)-stabilized single stranded DNA (ssDNA) with G-rich sequence as the recognition element. In the presence of K(+), the G-rich DNA folded into the G-quadruplex structure, and then hemin can bind to the G-quadruplex structure as a co-factor and form HRP-DNAzyme. 3-(p-Hydroxyphenyl)-propanoic acid (HPPA) can be oxidized by H(2)O(2) into a fluorescent product in the presence of DNAzyme. The fluorescence intensity of the HPPA oxidative product increased with the K(+) concentration. Under the optimal conditions, the fluorescence intensity was linearly related to the logarithm of K(+) concentration in the range of 2.5 μM to 5mM. Other metal ions, such as Na(+), Li(+), NH(4)(+), Mg(2+) and Ca(2+) caused no notable interference on the detection of K(+).
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Affiliation(s)
- Xiaoyu Fan
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha 410081, PR China
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48
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Xiang X, Chen L, Zhuang Q, Ji X, He Z. Real-time luminescence-based colorimetric determination of double-strand DNA in droplet on demand. Biosens Bioelectron 2011; 32:43-9. [PMID: 22196878 DOI: 10.1016/j.bios.2011.11.013] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2011] [Revised: 10/17/2011] [Accepted: 11/08/2011] [Indexed: 12/16/2022]
Abstract
We have developed a new luminescence-based colorimetric droplet platform for the determination of double-stranded DNAs (dsDNA). This colorimetric sensor was realized via choosing a fluorescent ensemble probe comprising water-soluble N-acetylcysteine-capped CdTe quantum dots (QDs) and Ru(bpy)(2)(dppx)(2+) (Ru). To provide a convenient and low cost droplet platform for colorimetry, the microvalve technique was adapted to adjust droplet size precisely, achieve the desired fusion of multiple droplets and trap droplets on demand, as well as implement concentration gradients of DNA on a single chip. In the colorimetric sensor, Ru served as both an effective quencher for QDs and a reporter for dsDNA. With increasing concentration of dsDNA, a gradually enhanced color response was observed because of the competition of dsDNA with QDs for Ru. Under the optimum conditions, this biosensing system exhibited not only good sensitivity and specificity for calf thymus DNA with the detection limit of 1.0 pg, but also coincident performances in diluted human serum with the detection limit of 0.9 pg. The droplet biosensor provides a highly efficient, rapid and visual method for dsDNA analysis. The colorimetric droplet platform could be useful as a simple research tool for the study of limited and precious regents such as protein and virus samples, etc.
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Affiliation(s)
- Xia Xiang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences, Wuhan University, Wuhan 430072, PR China
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49
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Oh BN, Park S, Ren J, Jang YJ, Kim SK, Kim J. Label-free emission assay of mercuric ions using DNA duplexes of poly(dT). Dalton Trans 2011; 40:6494-9. [PMID: 21562667 DOI: 10.1039/c1dt10083a] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this study, an assay to quantify the presence of mercuric ions and methyl mercury by double-stranded DNA containing a poly(dT) sequence was developed using a light switch compound, Ru(phen)(2)(dppz)(2+) (1), which is known to intercalate into double-stranded DNA. Upon treatment with mercuric ions, the metal-to-ligand charge transfer (MLCT) emission derived from the intercalation of 1 was reduced due to the formation of DNA duplexes containing T-Hg(2+)-T base pairs by the dehybridization of poly(dT)-poly(dA) duplexes at room temperature. As the concentration of Hg(2+) was increased, the emission of 1 gradually decreased. This label-free method had a detection limit of 5 nM. Other metal ions, such as K(+), Ag(+), Ca(2+), Mg(2+), Zn(2+), Mn(2+), Co(2+), Ni(2+), Cu(2+), Cd(2+), Cr(3+), Fe(3+), had no significant effect on reducing emission. This emission method can differentiate matched and mismatched poly(dT) sequences based on the dehybridization rate of dsDNA and the rate decreased in the order of T(10)C·A(11)∼ T(10)A·A(11) > T(10)G·A(11) > T(11)·A(11).
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Affiliation(s)
- Byul Nim Oh
- Department of Chemistry and Nano Science, Ewha Womans University, Seoul, 120-750, Korea
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50
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Ma DL, Chan DSH, Man BYW, Leung CH. Oligonucleotide-based luminescent detection of metal ions. Chem Asian J 2011; 6:986-1003. [PMID: 21337527 DOI: 10.1002/asia.201000870] [Citation(s) in RCA: 78] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2010] [Indexed: 01/20/2023]
Abstract
Metal ions are prevalent in biological systems and are critically involved in essential life processes. However, excess concentrations of metals can pose a serious danger to living organisms. Oligonucleotides represent a versatile sensing platform for the detection of various molecular entities including metal ions. This review summarizes the recent advances in the development of oligonucleotide-based luminescent detection methods for metal ions.
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Affiliation(s)
- Dik-Lung Ma
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, China.
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