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Huang X, Huang C, Zhou L, Hou G, Sun J, Zhang X, Zou X. Allosteric switch for electrochemical aptasensor toward heavy metals pollution of Lentinus edodes sensitized with porphyrinic metal-organic frameworks. Anal Chim Acta 2023; 1278:341752. [PMID: 37709478 DOI: 10.1016/j.aca.2023.341752] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2023] [Revised: 07/28/2023] [Accepted: 08/23/2023] [Indexed: 09/16/2023]
Abstract
BACKGROUND Lentinan medicament from Lentinus edodes has been considered as natural medicinal products with minimal side effects for cancer therapy, but Lentinus edodes are easily polluted by nonbiodegradable heavy metals, especially silver ion (Ag+). Therefore, it is highly desirable to monitor Ag + pollution in Lentinus edodes considering their adverse impact on lentinan medicament. Electrochemical sensor isn't affected from the interference of matrix turbidity and color, and offers a powerful means for determination of variant analytes. As for electrochemical sensing toward Ag+, there is a great need to design efficient signal probes for specific recognition and signal generation. RESULTS We present an appropriate electrochemical aptasensor for Ag + assay based on biomimetic catalysis of porphyrin-encapsulated MOF (PorMOF) and allosteric switch of C-rich DNA. Thanks to the excellent biocompatibility, PorMOFs as nanozyme are used to design signal probes by loading duplex-like DNA scaffold. Owing to the specific recognition of Ag+ toward cytosine (C) base-rich DNA, PorMOF at the distal end was close to the underlying electrode via C-Ag+-C formation, leading to an enhanced current of catalytic hydroxylamine oxidation for signal generation. Using the positive correlation between current response and Ag+ level, the electrochemical system provides a promising means for on-line monitoring of Ag+ in Lentinus edodes with recoveries from 92.8% to 106.4% and relative standard deviation from 3.98% to 8.24%, verifying the applicability of the electrochemical aptasensor toward Ag+ in Lentinus edodes. SIGNIFICANCE AND NOVELTY With merits of portability, simple operation, and rapid response, the electrochemical pattern offers a useful solution for on-line monitoring of Ag+ in Lentinus edodes. By altering the DNA sequence, the proposed aptasensor provides a powerful way for monitoring other heavy metals, capable of protecting medicament production from heavy metal pollution.
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Affiliation(s)
- Xiaowei Huang
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang, 212013, PR China
| | - Chenyong Huang
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang, 212013, PR China
| | - Lili Zhou
- Shandong Institute for Product Quality Inspection, Jinan, 250100, PR China
| | - Guangyue Hou
- Shandong Institute for Product Quality Inspection, Jinan, 250100, PR China
| | - Jinyuan Sun
- School of Light Industry, Beijing Technology and Business University, Beijing, 100048, PR China.
| | - Xinai Zhang
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang, 212013, PR China.
| | - Xiaobo Zou
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang, 212013, PR China
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Pal C, Majumder S. Label-free electrochemical biosensor for ultra-low level detection of Ag(I) using ssDNA functionalized multi-walled carbon nanotube. Colloids Surf A Physicochem Eng Asp 2022. [DOI: 10.1016/j.colsurfa.2022.128927] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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3
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A pH-responsive bioassay for sensitive colorimetric detection of adenosine triphosphate based on switchable DNA aptamer and metal ion-urease interactions. Anal Bioanal Chem 2021; 413:1533-1540. [PMID: 33462658 DOI: 10.1007/s00216-020-03136-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2020] [Revised: 12/08/2020] [Accepted: 12/17/2020] [Indexed: 12/15/2022]
Abstract
A facile and economic colorimetric strategy was designed for ATP detection by rationally using urease, a pH-responsive molecule, and a metal-mediated switchable DNA probe. By utilizing metal ions as a modulator of urease activity, the concentration of ATP is translated into pH change, which can be readily visualized by naked eye. An unmodified single-stranded DNA probe was designed, which consists of a target binding sequence and two flanked cytosine (C)-rich sequences. This C-rich single-stranded DNA can form a hairpin structure triggered by Ag+ ions via C-Ag+-C base mismatch. Upon introduction of ATP, Ag+-coordinated hairpin DNA structure will be broken and release the included Ag+, thus inhibiting the activity of urease. Conversely, urease can hydrolyze urea and raise pH value of the solution, resulting in the color change of the sensing solution. The proposed assay allows determination of ATP as low as 1.6 nM and shows a satisfactory result in human serum. Because of simple operation and low cost of this method, we believe it has a potential in point-of-care (POC) testing in resource-limited areas. Schematic illustration of pH-responsive colorimetric sensor for ATP detection based on switchable DNA aptamer and metal ion-urease interactions.
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A review on nanostructure-based mercury (II) detection and monitoring focusing on aptamer and oligonucleotide biosensors. Talanta 2020; 220:121437. [PMID: 32928439 DOI: 10.1016/j.talanta.2020.121437] [Citation(s) in RCA: 34] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2020] [Revised: 07/11/2020] [Accepted: 07/19/2020] [Indexed: 02/08/2023]
Abstract
Heavy metal ion pollution is a severe problem in environmental protection and especially in human health due to their bioaccumulation in organisms. Mercury (II) (Hg2+), even at low concentrations, can lead to DNA damage and give permanent harm to the central nervous system by easily passing through biological membranes. Therefore, sensitive detection and monitoring of Hg2+ is of particular interest with significant specificity. In this review, aptamer-based strategies in combination with nanostructures as well as several other strategies to solve addressed problems in sensor development for Hg2+ are discussed in detail. In particular, the analytical performance of different aptamer and oligonucleotide-based strategies using different signal improvement approaches based on nanoparticles were compared within each strategy and in between. Although quite a number of the suggested methodologies analyzed in this review fulfills the standard requirements, further development is still needed on real sample analysis and analytical performance parameters.
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Xue Y, Wang Y, Wang S, Yan M, Huang J, Yang X. Label-Free and Regenerable Aptasensor for Real-Time Detection of Cadmium(II) by Dual Polarization Interferometry. Anal Chem 2020; 92:10007-10015. [PMID: 32618180 DOI: 10.1021/acs.analchem.0c01710] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Recently, numerous aptamer-based biosensors have been developed to detect heavy metal ions. Most of aptamer-based biosensors only can be used to get some quantitative information. The mechanism of the interaction between aptamer and metal ions, however, is rarely studied. In this work, a label-free and regenerable aptamer-based biosensor was constructed using dual polarization interferometry (DPI). This aptasensor was used to investigate the real-time interaction process between cadmium(II) and its aptamer. According to the information on mass, thickness, and density obtained by DPI, a Cd2+ concentration-dependent interaction mechanism and conformation of aptamer was proposed. At low Cd2+ concentration, Cd2+ mainly interacted with phosphate groups on aptamer, resulting in the stretched ssDNA and a few vertical hairpin structures. When adding the high concentration of Cd2+, Cd2+ primarily bound with bases of DNA by coordination interaction and the conformation of aptamer transferred to a tight and short hairpin structure. In addition, the association rate constant (ka), dissociation rate constant (kd) and disassociation constant (KD) between Cd2+ and its aptamer were calculated to be 96 M-1 S-1, 2.11 × 10-5 S-1, and 220 nM, respectively. The proposed aptasensor showed high sensitivity for Cd2+ detection with the detection limit of 0.61 μg/L, which was far below the 5.0 μg/L ranked by the U.S. Environmental Protection Agency. The biosensor also exhibited excellent regenerability and could be used for three cycles without obvious change in response signal. Therefore, the developed method could not only provide quantitative information, but also offered the information on conformation and kinetics for molecular interaction. This method can facilely extend to study the interaction of DNA with other ions, small molecules, or biomacromolecules.
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Affiliation(s)
- Yu Xue
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Changchun, Jilin 130022, China.,University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Yu Wang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Changchun, Jilin 130022, China.,University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Shuang Wang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Changchun, Jilin 130022, China.,University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Mengxia Yan
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Changchun, Jilin 130022, China.,University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Jianshe Huang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Changchun, Jilin 130022, China
| | - Xiurong Yang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Changchun, Jilin 130022, China.,University of Science and Technology of China, Hefei, Anhui 230026, China
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Frańska M, Konował E. Unexpected cytosine-AuCl 4- interaction under electrospray ionization mass spectrometry conditions-Formation of cytosine-Au(I) complexes. EUROPEAN JOURNAL OF MASS SPECTROMETRY (CHICHESTER, ENGLAND) 2020; 26:225-229. [PMID: 31801025 DOI: 10.1177/1469066719893233] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
The interaction of cytosine with AuCl4-, under electrospray ionization mass spectrometric conditions, is discussed. On the basis of respective full scan mass spectra and product ion spectra, obtained in positive and negative ion mode, it has been deduced that cytosine is very prone to form Au(I)-containing complexes. The complexes may be formed in the gas phase by decomposition of Au(III)-containing complexes and also in the electrospray ionization source as a result of the occurrence of redox process. It has also been found that the interaction of cytosine with Au+ is stronger than that with Cu+ or Ag+, although taking into account the electrostatic attraction, it is not expected.
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Affiliation(s)
- Magdalena Frańska
- Institute of Chemistry and Technical Electrochemistry, Poznań University of Technology, Berdychowo, Poznań, Poland
| | - Emilia Konował
- Institute of Chemistry and Technical Electrochemistry, Poznań University of Technology, Berdychowo, Poznań, Poland
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7
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Label-free Pb2+ detection on the layer-by-layer platform using real-time dual polarization interferometry. Talanta 2019; 202:336-341. [DOI: 10.1016/j.talanta.2019.05.015] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2019] [Revised: 04/20/2019] [Accepted: 05/02/2019] [Indexed: 11/17/2022]
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8
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Aloisi A, Della Torre A, De Benedetto A, Rinaldi R. Bio-Recognition in Spectroscopy-Based Biosensors for *Heavy Metals-Water and Waterborne Contamination Analysis. BIOSENSORS 2019; 9:E96. [PMID: 31366137 PMCID: PMC6784378 DOI: 10.3390/bios9030096] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/12/2019] [Revised: 07/23/2019] [Accepted: 07/25/2019] [Indexed: 02/07/2023]
Abstract
: Microsystems and biomolecules integration as well multiplexing determinations are key aspects of sensing devices in the field of heavy metal contamination monitoring. The present review collects the most relevant information about optical biosensors development in the last decade. Focus is put on analytical characteristics and applications that are dependent on: (i) Signal transduction method (luminescence, colorimetry, evanescent wave (EW), surface-enhanced Raman spectroscopy (SERS), Förster resonance energy transfer (FRET), surface plasmon resonance (SPR)); (ii) biorecognition molecules employed (proteins, nucleic acids, aptamers, and enzymes). The biosensing systems applied (or applicable) to water and milk samples will be considered for a comparative analysis, with an emphasis on water as the primary source of possible contamination along the food chain.
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Affiliation(s)
- Alessandra Aloisi
- Institute for Microelectronics and Microsystems (IMM), CNR, Via Monteroni, 73100 Lecce, Italy
| | - Antonio Della Torre
- Institute for Microelectronics and Microsystems (IMM), CNR, Via Monteroni, 73100 Lecce, Italy
| | - Angelantonio De Benedetto
- Mathematics and Physics "E. De Giorgi" Department, University of Salento, Via Monteroni, 73100 Lecce, Italy
| | - Rosaria Rinaldi
- Institute for Microelectronics and Microsystems (IMM), CNR, Via Monteroni, 73100 Lecce, Italy.
- Mathematics and Physics "E. De Giorgi" Department, University of Salento, Via Monteroni, 73100 Lecce, Italy.
- ISUFI, University of Salento, Via Monteroni, 73100 Lecce, Italy.
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9
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Li YK, Li WT, Liu X, Yang T, Chen ML, Wang JH. Functionalized magnetic composites based on the aptamer serve as novel bio-adsorbent for the separation and preconcentration of trace lead. Talanta 2019; 203:210-219. [PMID: 31202328 DOI: 10.1016/j.talanta.2019.05.075] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2019] [Revised: 05/11/2019] [Accepted: 05/16/2019] [Indexed: 10/26/2022]
Abstract
A magnetic functionalized bio-sorbent based on aptamer was designed for the selective separation of ultra-trace Pb2+, shortly termed as Fe3O4@Au@DNA. Pb(II) specific aptamer attached to the magnetic solid substrate served as affinity probe to capture and separate trace lead. Oligonucleotides with a polyA block were employed for the immobilization on the surface of AuNPs, with adenine sequences (polyA) as the part of effective anchoring block. The prepared Fe3O4@Au@DNA composites were characterized by FT-IR, SEM and XPS. The binding of lead on Fe3O4@Au@DNA composites surface was pH-dependent, the adsorption follows Langmuir model, and the adsorption dynamic fits the pseudo-second-order kinetics model. Procedure for lead separation and preconcentration was explored and combined with detection of graphite furnace atomic absorption spectrometry (GFAAS). Under the optimum condition, an enrichment factor of 17.73 was obtained with a sample volume of 1.0 mL. The limit of detection (LOD) was 57 ng L-1 along with a relative standard deviation (RSD) of 2.06 (n = 9). The procedure was further validated by a certified reference material GBW08608 and several environmental and blood samples.
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Affiliation(s)
- Yi-Kun Li
- Research Center for Analytical Sciences, Department of Chemistry, College of Sciences, Northeastern University, Box 332, Shenyang, 110819, China
| | - Wei-Tao Li
- Research Center for Analytical Sciences, Department of Chemistry, College of Sciences, Northeastern University, Box 332, Shenyang, 110819, China
| | - Xun Liu
- Research Center for Analytical Sciences, Department of Chemistry, College of Sciences, Northeastern University, Box 332, Shenyang, 110819, China
| | - Ting Yang
- Research Center for Analytical Sciences, Department of Chemistry, College of Sciences, Northeastern University, Box 332, Shenyang, 110819, China
| | - Ming-Li Chen
- Research Center for Analytical Sciences, Department of Chemistry, College of Sciences, Northeastern University, Box 332, Shenyang, 110819, China.
| | - Jian-Hua Wang
- Research Center for Analytical Sciences, Department of Chemistry, College of Sciences, Northeastern University, Box 332, Shenyang, 110819, China.
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10
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Wang S, Zhao J, Lu S, Huang J, Yang X. Establishment of Logic Gates Based on Conformational Changes in a Multiple-Factor Biomolecule Interaction Process by Dual Polarization Interferometry. Anal Chem 2019; 91:6971-6975. [PMID: 31081324 DOI: 10.1021/acs.analchem.9b01319] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
DNA-based logic gates stimulate the development of molecular scale computers and show enormous potential in nanotechnology, biotechnology, and medicine. However, the reported detectors to date usually require one to label appropriate signal probes, resulting in not only a high cost but also potentially tedious manipulation. For the first time, we established a label-free logic gate by regarding the structure-related signal as output. Dual polarization interferometry (DPI) was employed to reveal the detailed conformational transitions occurring in the multiple-factor biomolecule interactions and then was utilized as a detection tool of logic gate. As a vital merit of this system, the dependence of the density output signal on the interaction with multiple-factor input can mimic the function of signal communication in OR, INHIBIT, and IDENTITY logic gates and the INHIBIT-OR cascade circuit. Additionally, the DPI signal with logic stringency can unambiguously distinguish conformational polymorphisms and compare structural stability. This study provides a new way for the construction of a label-free logic gate, supplements information deficiency of reaction details, and extends the application of DPI in logic operation.
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Affiliation(s)
- Shuang Wang
- State Key Laboratory of Electroanalytical Chemistry , Changchun Institute of Applied Chemistry , Changchun , Jilin 130022 , China.,University of Science and Technology of China , Hefei , Anhui 230026 , China
| | - Jiahui Zhao
- State Key Laboratory of Electroanalytical Chemistry , Changchun Institute of Applied Chemistry , Changchun , Jilin 130022 , China.,University of Chinese Academy of Sciences , Beijing 100039 , China
| | - Shasha Lu
- State Key Laboratory of Electroanalytical Chemistry , Changchun Institute of Applied Chemistry , Changchun , Jilin 130022 , China.,University of Science and Technology of China , Hefei , Anhui 230026 , China
| | - Jianshe Huang
- State Key Laboratory of Electroanalytical Chemistry , Changchun Institute of Applied Chemistry , Changchun , Jilin 130022 , China
| | - Xiurong Yang
- State Key Laboratory of Electroanalytical Chemistry , Changchun Institute of Applied Chemistry , Changchun , Jilin 130022 , China.,University of Science and Technology of China , Hefei , Anhui 230026 , China.,University of Chinese Academy of Sciences , Beijing 100039 , China
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11
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Sensitive detection of chloramphenicol based on Ag-DNAzyme-mediated signal amplification modulated by DNA/metal ion interaction. Biosens Bioelectron 2019; 127:45-49. [DOI: 10.1016/j.bios.2018.12.016] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2018] [Revised: 12/05/2018] [Accepted: 12/11/2018] [Indexed: 12/16/2022]
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12
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Xie YF, Cheng YY, Liu ML, Zou HY, Huang CZ. A single gold nanoprobe for colorimetric detection of silver(i) ions with dark-field microscopy. Analyst 2019; 144:2011-2016. [DOI: 10.1039/c8an02397b] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
In this work, the formation of C–Ag+–C bonding between cytosines was utilized to induce interparticle coupling of gold nanoparticles modified with single-strand DNA, resulting in a color change as the signal transduction to quantify Ag+ sensitively under dark-field microscopy imaging, while we achieved the quantification of Ag+ could be directly realized in lake water samples and drug samples.
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Affiliation(s)
- Yi Fen Xie
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University)
- Ministry of Education
- College of Pharmaceutical Science
- Southwest University
- Chongqing 400715
| | - Yun Ying Cheng
- Key Laboratory of Biomedical Analysis (Southwest University)
- Chongqing Science & Technology Commission
- College of Chemistry and Chemical Engineering
- Southwest University
- Chongqing 400716
| | - Meng Li Liu
- Key Laboratory of Biomedical Analysis (Southwest University)
- Chongqing Science & Technology Commission
- College of Chemistry and Chemical Engineering
- Southwest University
- Chongqing 400716
| | - Hong Yan Zou
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University)
- Ministry of Education
- College of Pharmaceutical Science
- Southwest University
- Chongqing 400715
| | - Cheng Zhi Huang
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University)
- Ministry of Education
- College of Pharmaceutical Science
- Southwest University
- Chongqing 400715
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Liu S, Peng P, Wang H, Shi L, Li T. Thioflavin T binds dimeric parallel-stranded GA-containing non-G-quadruplex DNAs: a general approach to lighting up double-stranded scaffolds. Nucleic Acids Res 2017; 45:12080-12089. [PMID: 29059300 PMCID: PMC5716147 DOI: 10.1093/nar/gkx942] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2017] [Accepted: 10/03/2017] [Indexed: 12/27/2022] Open
Abstract
A molecular rotor thioflavin T (ThT) is usually used as a fluorescent ligand specific for G-quadruplexes. Here, we demonstrate that ThT can tightly bind non-G-quadruplex DNAs with several GA motifs and dimerize them in a parallel double-stranded mode, accompanied by over 100-fold enhancement in the fluorescence emission of ThT. The introduction of reverse Watson–Crick T-A base pairs into these dimeric parallel-stranded DNA systems remarkably favors the binding of ThT into the pocket between G•G and A•A base pairs, where ThT is encapsulated thereby restricting its two rotary aromatic rings in the excited state. A similar mechanism is also demonstrated in antiparallel DNA duplexes where several motifs of two consecutive G•G wobble base pairs are incorporated and serve as the active pockets for ThT binding. The insight into the interactions of ThT with non-G-quadruplex DNAs allows us to introduce a new concept for constructing DNA-based sensors and devices. As proof-of-concept experiments, we design a DNA triplex containing GA motifs in its Hoogsteen hydrogen-bonded two parallel strands as a pH-driven nanoswitch and two GA-containing parallel duplexes as novel metal sensing platforms where C–C and T–T mismatches are included. This work may find further applications in biological systems (e.g. disease gene detection) where parallel duplex or triplex stretches are involved.
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Affiliation(s)
- Shuangna Liu
- Department of Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Pai Peng
- Department of Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Huihui Wang
- Department of Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Lili Shi
- Department of Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Tao Li
- Department of Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
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Wang S, Lu S, Zhao J, Huang J, Yang X. Real-Time Study of the Interaction between G-Rich DNA Oligonucleotides and Lead Ion on DNA Tetrahedron-Functionalized Sensing Platform by Dual Polarization Interferometry. ACS APPLIED MATERIALS & INTERFACES 2017; 9:41568-41576. [PMID: 29099169 DOI: 10.1021/acsami.7b13477] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
G-quadruplex plays roles in numerous physiological and pathological processes of organisms. Due to the unique properties of G-quadruplex (e.g., forming G4/hemin complexes with catalytic activity and electron acceptability, binding with metal ions, proteins, fluorescent ligands, and so on), it has been widely applied in biosensing. But the formation process of G-quadruplex is not yet fully understood. Here, a DNA tetrahedron platform with higher reproducibility, regenerative ability, and time-saving building process was coupled with dual polarization interferometry technique for the real-time and label-free investigation of the specific interaction process of guanine-rich singled-stranded DNA (G-rich ssDNA) and Pb2+. The oriented immobilization of probes greatly decreased the spatial hindrance effect and improved the accessibility of the probes to the Pb2+ ions. Through real-time monitoring of the whole formation process of the G-quadruplex, we speculated that the probes on the tetrahedron platform initially stood on the sensing surface with a random coil conformation, then the G-rich ssDNA preliminarily formed unstable G-quartets by H-bonding and cation binding, subsequently forming a completely folded and stable quadruplex structure through relatively slow strand rearrangements. On the basis of these studies, we also developed a novel sensing platform for the specific and sensitive determination of Pb2+ and its chelating agent ethylenediaminetetraacetic acid. This study not only provides a proof-of-concept for conformational dynamics of G-quadruplex-related drugs and pathogenes, but also enriches the biosensor tools by combining nanomaterial with interfaces technique.
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Affiliation(s)
- Shuang Wang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry , Changchun, Jilin 130022, China
- University of Science and Technology of China , Hefei, Anhui 230026, China
| | - Shasha Lu
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry , Changchun, Jilin 130022, China
- University of Science and Technology of China , Hefei, Anhui 230026, China
| | - Jiahui Zhao
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry , Changchun, Jilin 130022, China
- University of Chinese Academy of Sciences , Beijing 100039, China
| | - Jianshe Huang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry , Changchun, Jilin 130022, China
| | - Xiurong Yang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry , Changchun, Jilin 130022, China
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15
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Flow injection amperometric sandwich-type electrochemical aptasensor for the determination of adenocarcinoma gastric cancer cell using aptamer-Au@Ag nanoparticles as labeled aptamer. Electrochim Acta 2017. [DOI: 10.1016/j.electacta.2017.06.115] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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16
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Farzin L, Shamsipur M, Sheibani S. A review: Aptamer-based analytical strategies using the nanomaterials for environmental and human monitoring of toxic heavy metals. Talanta 2017; 174:619-627. [PMID: 28738631 DOI: 10.1016/j.talanta.2017.06.066] [Citation(s) in RCA: 134] [Impact Index Per Article: 19.1] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2017] [Revised: 06/23/2017] [Accepted: 06/24/2017] [Indexed: 12/21/2022]
Abstract
Recent developments in biotechnology offer the new methods for the sensitive detection of heavy metals based on the affinity and specificity of aptamers, as nucleic acid ligands selected from random sequence pools in vitro. Heavy metals have received considerable importance as the most toxic metallic pollutants which may cause serious environmental damages. They are classified as trace elements because of their presence in trace concentrations in various environmental matrices. Thus, the precise and sensitive methods to detect heavy metals are important to ensure human and environment safety. Aptamers as the biological probes, show high binding affinity which can often be directly translated into high detection sensitivity. On the other hand, high selectivity and stability make them possible to detect a wide range of targets, especially metallic ions. This review provides current progress of aptamers for environmental and biological monitoring of heavy metals using the nanomaterials mainly in two groups: (i) aptamer based biosensors (aptasensors) and (ii) aptamer based biosorbents (aptasorbents). The introduction of nanomaterials can efficiently increase the immobilization quantity of aptamers. Furthermore, they play an important role in the orientation and assembly density controlling of aptamers for the optimized recognition ability.
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Affiliation(s)
- Leila Farzin
- Radiation Application Research School, Nuclear Science and Technology Research Institute, P.O. Box 11365-3486, Tehran, Iran.
| | - Mojtaba Shamsipur
- Department of Chemistry, Razi University, P.O. Box 67149-67346, Kermanshah, Iran
| | - Shahab Sheibani
- Radiation Application Research School, Nuclear Science and Technology Research Institute, P.O. Box 11365-3486, Tehran, Iran
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Li W, Zhang Z, Zhou W, Liu J. Kinetic Discrimination of Metal Ions Using DNA for Highly Sensitive and Selective Cr 3+ Detection. ACS Sens 2017; 2:663-669. [PMID: 28723165 DOI: 10.1021/acssensors.7b00115] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Most metal sensors are designed for a strong binding affinity toward target metal ions, and the underlying principle relies on binding thermodynamics. The kinetic aspect of binding, however, was rarely explored for sensing. In this work, the binding kinetics of 19 common or toxic metal ions are compared based on a fluorescence quenching assay using DNA oligonucleotides as ligands. Among these metals, Cr3+ shows uniquely slow fluorescence quenching kinetics, and the quenched fluorescence cannot be recovered by EDTA or sulfide. Most other metals quenched fluorescence instantaneously and can be fully recovered by these metal chelators. Various factors such as DNA sequence and length, chelating agent, pH, and fluorophore type were studied to understand the binding mechanism, leading to a unique two-stage binding model for Cr3+. This system has a wide dynamic range of up to 50 μM Cr3+ and a low limit of detection of 80 nM. It is also useful for measuring Cr3+ in lake water. This work proposes a new metal sensor design by monitoring binding kinetics with Cr3+ being a primary example.
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Affiliation(s)
- Wang Li
- College of Food Science & Engineering, Central South University of Forestry & Technology, Changsha, Hunan 410004, China
- Department
of Chemistry, Water Institute and Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
| | - Zijie Zhang
- Department
of Chemistry, Water Institute and Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
| | - Wenhu Zhou
- Xiangya
School of Pharmaceutical Sciences, Central South University, Changsha, Hunan 410013, China
- Department
of Chemistry, Water Institute and Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
| | - Juewen Liu
- Department
of Chemistry, Water Institute and Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
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18
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Yu B, Huang Y, Zhou J, Guo T, Guan BO. Real-time, in-situ analysis of silver ions using nucleic acid probes modified silica microfiber interferometry. Talanta 2017; 165:245-250. [DOI: 10.1016/j.talanta.2016.12.053] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2016] [Revised: 12/18/2016] [Accepted: 12/20/2016] [Indexed: 10/20/2022]
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19
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Hu T, Wang S, Chen C, Sun J, Yang X. Real-Time Analysis of Binding Events between Different Aβ1–42 Species and Human Lilrb2 by Dual Polarization Interferometry. Anal Chem 2017; 89:2606-2612. [DOI: 10.1021/acs.analchem.6b04950] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Affiliation(s)
- Tao Hu
- State
Key Laboratory of Electroanalytical Chemistry, Changchun Institute
of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, China
- Department
of Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Shuang Wang
- State
Key Laboratory of Electroanalytical Chemistry, Changchun Institute
of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, China
- Department
of Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Chuanxia Chen
- State
Key Laboratory of Electroanalytical Chemistry, Changchun Institute
of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, China
| | - Jian Sun
- State
Key Laboratory of Electroanalytical Chemistry, Changchun Institute
of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, China
| | - Xiurong Yang
- State
Key Laboratory of Electroanalytical Chemistry, Changchun Institute
of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, China
- Department
of Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
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20
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Lai QQ, Liu MD, Gu CC, Nie HG, Xu XJ, Li ZH, Yang Z, Huang SM. A novel label-free fluorescence strategy for methyltransferase activity assay based on dsDNA-templated copper nanoparticles coupled with an endonuclease-assisted signal transduction system. Analyst 2016; 141:1383-9. [DOI: 10.1039/c5an02123e] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
A novel label-free fluorescence method by coupling dsDNA-templated CuNPs with endonuclease-assisted signal transduction has been developed for methyltransferase activity assay.
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Affiliation(s)
- Q. Q. Lai
- Nanomaterials and Chemistry Key Laboratory
- College of Chemistry and Materials Engineering
- Wenzhou University
- Wenzhou
- P. R. China
| | - M. D. Liu
- Nanomaterials and Chemistry Key Laboratory
- College of Chemistry and Materials Engineering
- Wenzhou University
- Wenzhou
- P. R. China
| | - C. C. Gu
- Nanomaterials and Chemistry Key Laboratory
- College of Chemistry and Materials Engineering
- Wenzhou University
- Wenzhou
- P. R. China
| | - H. G. Nie
- Nanomaterials and Chemistry Key Laboratory
- College of Chemistry and Materials Engineering
- Wenzhou University
- Wenzhou
- P. R. China
| | - X. J. Xu
- Nanomaterials and Chemistry Key Laboratory
- College of Chemistry and Materials Engineering
- Wenzhou University
- Wenzhou
- P. R. China
| | - Z. H. Li
- The Institute of Molecular Medicine
- School of Optometry and Ophthalmology and Eye Hospital
- Wenzhou Medical University
- Wenzhou
- P. R. China
| | - Z. Yang
- Nanomaterials and Chemistry Key Laboratory
- College of Chemistry and Materials Engineering
- Wenzhou University
- Wenzhou
- P. R. China
| | - S. M. Huang
- Nanomaterials and Chemistry Key Laboratory
- College of Chemistry and Materials Engineering
- Wenzhou University
- Wenzhou
- P. R. China
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21
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Li QH, Zhang L, Bai JM, Liu ZC, Liang RP, Qiu JD. Preparation of novel fluorescent DNA bio-dots and their application for biothiols and glutathione reductase activity detection. Biosens Bioelectron 2015; 74:886-94. [DOI: 10.1016/j.bios.2015.07.018] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2015] [Revised: 07/08/2015] [Accepted: 07/10/2015] [Indexed: 12/23/2022]
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22
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Zhu G, Zhang CY. Functional nucleic acid-based sensors for heavy metal ion assays. Analyst 2015; 139:6326-42. [PMID: 25356810 DOI: 10.1039/c4an01069h] [Citation(s) in RCA: 68] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Heavy metal contaminants such as lead ions (Pb(2+)), mercury ions (Hg(2+)) and silver ions (Ag(+)) can cause significant harm to humans and generate enduring bioaccumulation in ecological systems. Even though a variety of methods have been developed for Pb(2+), Hg(2+) and Ag(+) assays, most of them are usually laborious and time-consuming with poor sensitivity. Due to their unique advantages of excellent catalytic properties and high affinity for heavy metal ions, functional nucleic acids such as DNAzymes and aptamers show great promise in the development of novel sensors for heavy metal ion assays. In this review, we summarize the development of functional nucleic acid-based sensors for the detection of Pb(2+), Hg(2+) and Ag(+), and especially focus on two categories including the direct assay and the amplification-based assay. We highlight the emerging trends in the development of sensitive and selective sensors for heavy metal ion assays as well.
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Affiliation(s)
- Guichi Zhu
- Single-Molecule Detection and Imaging Laboratory, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Guangdong 518055, China.
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23
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Liu G, Yuan Y, Wei S, Zhang D. Impedimetric DNA-Based Biosensor for Silver Ions Detection with Hemin/G-Quadruplex Nanowire as Enhancer. ELECTROANAL 2014. [DOI: 10.1002/elan.201400439] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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24
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Liu GP, Wu YM, Yuan YL, Chai YQ, Wei SQ, Zhang DJ. Manganese(iii)meso-tetrakis(4-N-methylpyridyl)-porphyrin and mediator thionine co-decorated DNA nanowires for sensitive electrochemical monitoring of mercury(ii). RSC Adv 2014. [DOI: 10.1039/c4ra09162k] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022] Open
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25
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Berdakin M, Féraud G, Dedonder-Lardeux C, Jouvet C, Pino GA. Effect of Ag(+) on the Excited-State Properties of a Gas-Phase (Cytosine)2Ag(+) Complex: Electronic Transition and Estimated Lifetime. J Phys Chem Lett 2014; 5:2295-2301. [PMID: 26279549 DOI: 10.1021/jz5009455] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Recently, DNA molecules have received great attention because of their potential applications in material science. One interesting example is the production of highly fluorescent and tunable DNA-Agn clusters with cytosine (C)-rich DNA strands. Here, we report the UV photofragmentation spectra of gas-phase cytosine···Ag(+)···cytosine (C2Ag(+)) and cytosine···H(+)···cytosine (C2H(+)) complexes together with theoretical calculations. In both cases, the excitation energy does not differ significantly from that of isolated cytosine or protonated cytosine, indicating that the excitation takes place on the DNA base. However, the excited-state lifetime of the C2H(+) (τ = 85 fs), estimated from the bandwidth of the spectrum, is at least 2 orders of magnitude shorter than that of the C2Ag(+) (τ > 5000 fs). The increased excited-state lifetime upon silver complexation is quite unexpected, and it clearly opens the question about what factors are controlling the nonradiative decay in pyrimidine DNA bases. This is an important result for the expanding field of metal-mediated base pairing and may also be important to the photophysical properties of DNA-templated fluorescent silver clusters.
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Affiliation(s)
- Matias Berdakin
- †INFIQC (CONICET - UNC), Departamento de Fisicoquı́mica, Facultad de Ciencias Quı́micas, Centro Láser de Ciencias Moleculares, Universidad Nacional de Córdoba, Ciudad Universitaria, X5000HUA Córdoba, Argentina
| | - Géraldine Féraud
- ‡Physique des Interactions Ioniques et Moléculaires (PIIM), CNRS, Aix Marseille Université: UMR-7345, 13397 Marseille, France
| | - Claude Dedonder-Lardeux
- ‡Physique des Interactions Ioniques et Moléculaires (PIIM), CNRS, Aix Marseille Université: UMR-7345, 13397 Marseille, France
| | - Christophe Jouvet
- ‡Physique des Interactions Ioniques et Moléculaires (PIIM), CNRS, Aix Marseille Université: UMR-7345, 13397 Marseille, France
| | - Gustavo A Pino
- †INFIQC (CONICET - UNC), Departamento de Fisicoquı́mica, Facultad de Ciencias Quı́micas, Centro Láser de Ciencias Moleculares, Universidad Nacional de Córdoba, Ciudad Universitaria, X5000HUA Córdoba, Argentina
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