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Toma L, Mattarozzi M, Ronda L, Marassi V, Zattoni A, Fortunati S, Giannetto M, Careri M. Are Aptamers Really Promising as Receptors for Analytical Purposes? Insights into Anti-Lysozyme DNA Aptamers through a Multitechnique Study. Anal Chem 2024; 96:2719-2726. [PMID: 38294352 DOI: 10.1021/acs.analchem.3c05883] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2024]
Abstract
Aptamers are recognition elements increasingly used for the development of biosensing strategies, especially in the detection of proteins or small molecule targets. Lysozyme, which is recognized as an important biomarker for various diseases and a major allergenic protein found in egg whites, is one of the main analytical targets of aptamer-based biosensors. However, since aptamer-based strategies can be prone to artifacts and data misinterpretation, rigorous strategies for multifaceted characterization of the aptamer-target interaction are needed. In this work, a multitechnique approach has been devised to get further insights into the binding performance of the anti-lysozyme DNA aptamers commonly used in the literature. To study molecular interactions between lysozyme and different anti-lysozyme DNA aptamers, measurements based on a magneto-electrochemical apta-assay, circular dichroism spectroscopy, fluorescence spectroscopy, and asymmetrical flow field-flow fractionation were performed. The reliability and versatility of the approach were proved by investigating a SELEX-selected RNA aptamer reported in the literature, that acts as a positive control. The results confirmed that an interaction in the low micromolar range is present in the investigated binding buffers, and the binding is not associated with a conformational change of either the protein or the DNA aptamer. The similar behavior of the anti-lysozyme DNA aptamers compared to that of randomized sequences and polythymine, used as negative controls, showed nonsequence-specific interactions. This study demonstrates that severe testing of aptamers resulting from SELEX selection is the unique way to push these biorecognition elements toward reliable and reproducible results in the analytical field.
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Affiliation(s)
- Lorenzo Toma
- Department of Chemistry, Life Sciences and Environmental Sustainability, University of Parma, Parma 43124, Italy
| | - Monica Mattarozzi
- Department of Chemistry, Life Sciences and Environmental Sustainability, University of Parma, Parma 43124, Italy
- Interdepartmental Center SITEIA.PARMA, University of Parma, Parma 43124, Italy
| | - Luca Ronda
- Department of Medicine and Surgery, University of Parma, Parma 43124, Italy
- CNR, Institute of Biophysics, Pisa 56124, Italy
| | - Valentina Marassi
- Department of Chemistry, University of Bologna, Via Selmi 2, Bologna 40126, Italy
- byFlow srl, Bologna 40126, Italy
- INBB, National Institute for Biostructures and Biosystems, Rome 00136 , Italy
| | - Andrea Zattoni
- Department of Chemistry, University of Bologna, Via Selmi 2, Bologna 40126, Italy
- byFlow srl, Bologna 40126, Italy
- INBB, National Institute for Biostructures and Biosystems, Rome 00136 , Italy
| | - Simone Fortunati
- Department of Chemistry, Life Sciences and Environmental Sustainability, University of Parma, Parma 43124, Italy
- INBB, National Institute for Biostructures and Biosystems, Rome 00136 , Italy
| | - Marco Giannetto
- Department of Chemistry, Life Sciences and Environmental Sustainability, University of Parma, Parma 43124, Italy
- Interdepartmental Center SITEIA.PARMA, University of Parma, Parma 43124, Italy
- INBB, National Institute for Biostructures and Biosystems, Rome 00136 , Italy
| | - Maria Careri
- Department of Chemistry, Life Sciences and Environmental Sustainability, University of Parma, Parma 43124, Italy
- Interdepartmental Center SITEIA.PARMA, University of Parma, Parma 43124, Italy
- INBB, National Institute for Biostructures and Biosystems, Rome 00136 , Italy
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Gignac F, Delaunay N, Pichon V. Novel oligonucleotide-based sorbent for the selective extraction of cadmium from serum samples. J Pharm Biomed Anal 2024; 237:115771. [PMID: 37832475 DOI: 10.1016/j.jpba.2023.115771] [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: 08/22/2023] [Revised: 10/03/2023] [Accepted: 10/04/2023] [Indexed: 10/15/2023]
Abstract
The objective was to develop a sorbent functionalized with aptamers for the selective extraction of cadmium from biological samples. Two oligonucleotide sequences reported in literature as specific to cadmium were covalently grafted on activated Sepharose, with grafting yields of 45%. Once the supports packed in cartridges, a thorough study of the percolation conditions favoring Cd(II) retention was performed, demonstrating the importance of the nature of this medium. A high selectivity was reached when applying the optimal conditions as a recovery of 85% was obtained using the sorbent functionalized with one of the specific aptamers and only 1% on the control sorbent grafted with a scramble sequence. A high specificity was also obtained as recoveries for most of other ions were lower than 15%. The capacity of this oligosorbent estimated to 180 ng of Cd(II) for 30 mg of support was perfectly adapted to the trace analysis of Cd(II). The extraction procedure was then applied to a serum sample which was first subjected to acid precipitation. The initial concentration of cadmium in the serum was estimated to 1.83 µg/L using standard addition method and an extraction yield of 75 ± 1.6% was measured. Comparison of these results with those obtained without oligoextraction (recovery of 57%) showed a significant reduction of matrix effects in ICP-MS thanks to the use of the oligosorbent, underlining its interest for a more reliable quantification of Cd(II). This result was confirmed by performing the oligoextraction protocol on a certified serum.
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Affiliation(s)
- Fanny Gignac
- Department of Analytical, Bioanalytical Sciences, and Miniaturization (LSABM), UMR 8231 Chemistry, Biology and Innovation (CBI), ESPCI Paris, PSL University, CNRS, 10 rue Vauquelin, Paris 75005, France; Sorbonne Université, 4 place jussieu, Paris 75005, France
| | - Nathalie Delaunay
- Department of Analytical, Bioanalytical Sciences, and Miniaturization (LSABM), UMR 8231 Chemistry, Biology and Innovation (CBI), ESPCI Paris, PSL University, CNRS, 10 rue Vauquelin, Paris 75005, France
| | - Valérie Pichon
- Department of Analytical, Bioanalytical Sciences, and Miniaturization (LSABM), UMR 8231 Chemistry, Biology and Innovation (CBI), ESPCI Paris, PSL University, CNRS, 10 rue Vauquelin, Paris 75005, France; Sorbonne Université, 4 place jussieu, Paris 75005, France.
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Souza ID, Queiroz MEC. Organic-silica hybrid monolithic sorbents for sample preparation techniques: A review on advances in synthesis, characterization, and applications. J Chromatogr A 2024; 1713:464518. [PMID: 38000199 DOI: 10.1016/j.chroma.2023.464518] [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: 07/08/2023] [Revised: 11/14/2023] [Accepted: 11/16/2023] [Indexed: 11/26/2023]
Abstract
Organic-silica hybrid monolithic materials have attracted considerable attention as potential stationary phases in separation science. These materials combine the advantages of organic polymer and silica-based monoliths, including easy preparation, lower back pressure, high permeability, excellent mechanical strength, thermal stability, and tunable surface chemistry with high surface area and selectivity. The outstanding chromatographic efficiency as stationary phase of hybrid monolithic capillary columns for capillary liquid chromatography and capillary electrochromatography has been reported in many papers. Organic-silica hybrid monolithic materials have also been extensively used in the field of sample preparation. Owing to their surface functionalities, these porous sorbents offer unique selectivity for pre-concentration of different analytes in the most complex matrixes by fast dynamic transport. These sorbents not only improve the analytical method sensitivity, but also introduce novelties in terms of extraction devices and instrument coupling strategies. The current review covers the period spanning from 2017 to 2023 and describes the properties of organic-inorganic hybrid monolithic materials, the present status of this technology and summarizes recent developments in their use as innovative sorbents for microextraction sample preparation techniques (solid phase microextraction with pipette tip, offline in-tube SPME, in-tube SPME online with LC, and in-tube SPME directly coupled with mass spectrometry). Aspects such as the synthesis methods (sol-gel process, one-pot approach, and polyhedral oligomeric silsesquioxanes-based procedure), characterization techniques, and strategies to improve extraction efficiency in various applications in different areas (environmental, food, bioanalysis, and proteomics) are also discussed.
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Affiliation(s)
- Israel D Souza
- Departamento de Química, Faculdade de Filosofia Ciências e Letras de Ribeirão Preto, University of Sao Paulo, Av. Bandeirantes, 3900, Ribeirao Preto, SP 14040-901, Brazil.
| | - Maria Eugênia C Queiroz
- Departamento de Química, Faculdade de Filosofia Ciências e Letras de Ribeirão Preto, University of Sao Paulo, Av. Bandeirantes, 3900, Ribeirao Preto, SP 14040-901, Brazil
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4
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Vergara-Barberán M, Catalá-Icardo M, Simó-Alfonso EF, Benavente F, Herrero-Martínez JM. Aptamer-functionalized stir bar sorptive extraction for selective isolation, identification, and determination of concanavalin A in food by MALDI-TOF-MS. Mikrochim Acta 2023; 190:219. [PMID: 37178355 PMCID: PMC10182934 DOI: 10.1007/s00604-023-05795-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2023] [Accepted: 04/10/2023] [Indexed: 05/15/2023]
Abstract
An aptamer-functionalized stir bar sorptive extraction (SBSE) coating is described for the first time devoted to selective isolation and preconcentration of an allergenic food protein, concavanalin A (Con A), followed by matrix-assisted laser desorption/ionization mass spectrometry (MALDI-TOF-MS) determination. For this purpose, the polytetrafluoroethylene surface of commercial magnetic stir bars was properly modified and vinylized to immobilize a thiol-modified aptamer against Con A via straightforward "thiol-ene" click chemistry. The aptamer-functionalized stir bar was employed as SBSE sorbent to isolate Con A, and several parameters that can affect the extraction efficiency were investigated. Under the optimized conditions, Con A was extracted and desorbed during 30 and 45 min, respectively, at 25 °C and 600 rpm. The SBSE MALDI-TOF-MS method provided limits of detection of 0.5 μg mL-1 for Con A. Furthermore, the SBSE coating was highly selective to Con A compared to other lectins. The developed method was successfully applied to the determination of low levels of Con A in several food matrices (i.e., white beans as well as chickpea, lentils, and wheat flours). Recoveries ranged from 81 to 97% with relative standard deviations below 7%. The aptamer-based stir bars presented suitable physical and chemical long-term stability (1 month) and a reusability of 10 and 5 extraction cycles with standards and food extracts, respectively. The developed aptamer-affinity extraction devices open up the possibility of developing novel highly selective SBSE coatings for the extraction of proteins and peptides from complex samples.
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Affiliation(s)
- María Vergara-Barberán
- Department of Chemical Engineering and Analytical Chemistry, Institute for Research on Nutrition and Food Safety (INSA•UB), University of Barcelona, C/Martí i Franquès 1-11, 08028, Barcelona, Spain
- Department of Analytical Chemistry, University of Valencia, C/Doctor Moliner 50E, 46100, Burjassot, Valencia, Spain
| | - Mónica Catalá-Icardo
- Instituto de Investigación para la Gestión Integrada de Zonas Costeras, Campus de Gandia, Universitat Politècnica de València, C/Paranimf 1, 46730, Grau de Gandia, Valencia, Spain
| | - Ernesto F Simó-Alfonso
- Department of Analytical Chemistry, University of Valencia, C/Doctor Moliner 50E, 46100, Burjassot, Valencia, Spain
| | - Fernando Benavente
- Department of Chemical Engineering and Analytical Chemistry, Institute for Research on Nutrition and Food Safety (INSA•UB), University of Barcelona, C/Martí i Franquès 1-11, 08028, Barcelona, Spain
| | - José Manuel Herrero-Martínez
- Department of Analytical Chemistry, University of Valencia, C/Doctor Moliner 50E, 46100, Burjassot, Valencia, Spain.
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Vergara-Barberán M, Simó-Alfonso EF, Herrero-Martínez JM, Benavente F. Accurate determination of the milk protein allergen β-lactoglobulin by on-line aptamer affinity solid-phase extraction capillary electrophoresis-mass spectrometry. Talanta 2023; 259:124542. [PMID: 37086682 DOI: 10.1016/j.talanta.2023.124542] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2023] [Revised: 04/04/2023] [Accepted: 04/08/2023] [Indexed: 04/24/2023]
Abstract
An on-line aptamer affinity solid-phase extraction capillary electrophoresis-mass spectrometry (AA-SPE-CE-MS) method was developed to purify, preconcentrate, separate, and characterize the milk allergenic protein β-lactoglobulin (β-LG) in food samples. The sorbent to pack into the SPE microcartidges was prepared by immobilizing an aptamer against β-LG onto magnetic bead particles. After optimizing the SPE-CE-MS method, the sample (ca. 75 μL) was loaded in separation background electrolyte (BGE, 2 M acetic acid pH 2.2), while a solution of 100 mM NH4OH (pH 11.2) (ca. 100 nL) was used for the protein elution. The linearity of the method ranged between 0.1 and 20 μg mL-1 and the limit of detection (LOD) was 0.05 μg mL-1, which was 200 times lower than by CE-MS. The method was repeatable in terms of relative standard deviation (RSD) for migration times and peak areas (<0.5% and 2.4%, respectively) and microcartridge lifetime was more than 25 analyses. The applicability of the method for the determination of low levels of β-LG was shown by analyzing milk-free foods (i.e. a 100% cocoa dark chocolate, a hypoallergenic formula for infants, and a dairy-free white bread) and milk-containing white breads. Results were satisfactory in all cases, thus demonstrating the great potential of the developed method for accurate food safety and quality control.
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Affiliation(s)
- María Vergara-Barberán
- Department of Chemical Engineering and Analytical Chemistry, Institute for Research on Nutrition and Food Safety (INSA •UB), University of Barcelona, C/ Martí i Franquès 1-11, 08028 Barcelona, Spain; Department of Analytical Chemistry, University of Valencia, C/ Doctor Moliner 50, 46100 Burjassot, Spain
| | | | | | - Fernando Benavente
- Department of Chemical Engineering and Analytical Chemistry, Institute for Research on Nutrition and Food Safety (INSA •UB), University of Barcelona, C/ Martí i Franquès 1-11, 08028 Barcelona, Spain.
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6
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Lv Y, Shang Y, Li L, Zhang Y, Ma Q. Online hyphenation of in-capillary aptamer-functionalized solid-phase microextraction and extraction nanoelectrospray ionization for miniature mass spectrometry analysis. Analyst 2023; 148:1815-1823. [PMID: 36939082 DOI: 10.1039/d3an00111c] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/11/2023]
Abstract
Direct mass spectrometry (MS) analysis is vital to chemical and biological investigations. However, measuring complex samples is challenging due to matrix interference, resulting in compromised MS performance. In this study, an integrated experimental protocol has been developed, combining in-capillary aptamer-functionalized solid-phase microextraction (SPME), extraction nanoelectrospray ionization (nanoESI), and miniature MS analysis. The established method was applied to analyze caffeine in electronic cigarette liquid and beverage samples as proof-of-concept demonstrations. A custom SPME strip fabricated with caffeine-binding aptamers was prepared with an immobilization density of up to 0.812 nmol cm-2. Critical parameters affecting the effects of extraction, desorption, and ionization were optimized. A novel transition ion ratio-based strategy with enhanced quantitation accuracy was developed. The analytical performance of the proposed method was evaluated under optimized conditions. Acceptable recoveries of 87.5-111.5% with relative standard deviations of 3.1-6.1% and satisfactory sensitivity with limits of detection of 1.5 and 3 ng mL-1 and limits of quantitation of 5 and 10 ng mL-1 were obtained, respectively. The developed approach demonstrates a promising potential for rapid on-site applications with appealing analytical performance and efficiency.
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Affiliation(s)
- Yueguang Lv
- Key Laboratory of Consumer Product Quality Safety Inspection and Risk Assessment for State Market Regulation, Chinese Academy of Inspection and Quarantine, Beijing 100176, China.
| | - Yuhan Shang
- Key Laboratory of Consumer Product Quality Safety Inspection and Risk Assessment for State Market Regulation, Chinese Academy of Inspection and Quarantine, Beijing 100176, China.
| | - Linsen Li
- Key Laboratory of Consumer Product Quality Safety Inspection and Risk Assessment for State Market Regulation, Chinese Academy of Inspection and Quarantine, Beijing 100176, China. .,Key Laboratory of Molecular Medicine and Biotherapy, School of Life Science, Beijing Institute of Technology, Beijing 100081, China
| | - Ying Zhang
- Key Laboratory of Consumer Product Quality Safety Inspection and Risk Assessment for State Market Regulation, Chinese Academy of Inspection and Quarantine, Beijing 100176, China.
| | - Qiang Ma
- Key Laboratory of Consumer Product Quality Safety Inspection and Risk Assessment for State Market Regulation, Chinese Academy of Inspection and Quarantine, Beijing 100176, China.
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Fathi-Karkan S, Mirinejad S, Ulucan-Karnak F, Mukhtar M, Almanghadim HG, Sargazi S, Rahdar A, Díez-Pascual AM. Biomedical applications of aptamer-modified chitosan nanomaterials: An updated review. Int J Biol Macromol 2023; 238:124103. [PMID: 36948344 DOI: 10.1016/j.ijbiomac.2023.124103] [Citation(s) in RCA: 15] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2022] [Revised: 03/02/2023] [Accepted: 03/16/2023] [Indexed: 03/24/2023]
Abstract
Among polysaccharides of environmental and economic interest, chitosan (CS) is receiving much attention, particularly in the food and biotechnology industries to encapsulate active food ingredients and immobilize enzymes. CS nanoparticles (CS NPs) combine the intrinsic beneficial properties of both natural polymers and nanoscale particles such as quantum size effect, biocompatibility, biodegradability, and ease of modification, and have great potential for bioimaging, drug delivery, and biosensing applications. Aptamers are single-stranded oligonucleotides that can fold into predetermined structures and bind to the corresponding biomolecules. They are mainly used as targeting ligands in biosensors, disease diagnostic kits and treatment strategies. They can deliver contrast agents and drugs into cancer cells and tissues, control microorganism growth and precisely target pathogens. Aptamer-conjugated CS NPs can significantly improve the efficacy of conventional therapies, minimize their side effects on normal tissues, and overcome the enhanced permeability retention (EPR) effect. Further, aptamer-conjugated carbohydrate-based nanobiopolymers have shown excellent antibacterial and antiviral properties and can be used to develop novel biosensors for the efficient detection of antibiotics, toxins, and other biomolecules. This updated review aims to provide a comprehensive overview of the bioapplications of aptamer-conjugated CS NPs used as innovative diagnostic and therapeutic platforms, their limitations, and potential future directions.
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Affiliation(s)
- Sonia Fathi-Karkan
- Department of Advanced Sciences and Technologies in Medicine, School of Medicine, North Khorasan University of Medical Sciences, Bojnurd 94531-55166, Iran
| | - Shekoufeh Mirinejad
- Cellular and Molecular Research Center, Research Institute of Cellular and Molecular Sciences in Infectious Diseases, Zahedan University of Medical Sciences, Zahedan 98167-43463, Iran
| | - Fulden Ulucan-Karnak
- Department of Medical Biochemistry, Faculty of Medicine, Ege University, İzmir 35100, Turkey
| | - Mahwash Mukhtar
- Faculty of Pharmacy, Institute of Pharmaceutical Technology and Regulatory Affairs, University of Szeged, 6720 Szeged, Hungary.
| | | | - Saman Sargazi
- Cellular and Molecular Research Center, Research Institute of Cellular and Molecular Sciences in Infectious Diseases, Zahedan University of Medical Sciences, Zahedan 98167-43463, Iran
| | - Abbas Rahdar
- Department of Physics, University of Zabol, Zabol, P.O. Box 98613-35856, Iran.
| | - Ana M Díez-Pascual
- Universidad de Alcalá, Facultad de Ciencias, Departamento de Química Analítica, Química Física e Ingeniería Química, Ctra. Madrid-Barcelona, Km. 33.6, 28805 Alcalá de Henares, Madrid, Spain.
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Salim H, Pont L, Giménez E, Benavente F. On-line aptamer affinity solid-phase extraction direct mass spectrometry for the rapid analysis of α-synuclein in blood. Anal Chim Acta 2023; 1256:341149. [PMID: 37037631 DOI: 10.1016/j.aca.2023.341149] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2023] [Revised: 03/20/2023] [Accepted: 03/26/2023] [Indexed: 03/28/2023]
Abstract
On-line aptamer affinity solid-phase extraction direct mass spectrometry (AA-SPE-MS) is presented for the rapid purification, preconcentration, and characterization of α-synuclein (α-syn), which is a protein biomarker related to Parkinson's disease. Valve-free AA-SPE-MS is easily implemented using the typical SPE microcartridges and instrumental set-up necessary for on-line aptamer affinity solid-phase extraction capillary electrophoresis-mass spectrometry (AA-SPE-CE-MS). The essential requirement is substituting the application of the separation voltage by a pressure of 100 mbar for mobilization of the eluted protein through the capillary towards the mass spectrometer. Under optimized conditions with recombinant α-syn, repeatability is good in terms of migration time and peak area (percent relative standard deviation (%RSD) values (n = 3) are 1.3 and 6.6% at 1 μg mL-1, respectively). The method is satisfactorily linear between 0.025 and 5 μg mL-1 (R2 > 0.986), and limit of detection (LOD) is 0.02 μg mL-1 (i.e. 1000, 500, and 10 times lower than by CE-MS, direct MS, and AA-SPE-CE-MS, respectively). The established AA-SPE-MS method is further compared with AA-SPE-CE-MS, including for the analysis of α-syn in blood. The comparison discloses the advantages and disadvantages of AA-SPE-MS for the rapid and sensitive targeted analysis of protein biomarkers in biological fluids.
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In-Tube Solid-Phase Microextraction Directly Coupled to Mass Spectrometric Systems: A Review. SEPARATIONS 2022. [DOI: 10.3390/separations9120394] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
Abstract
Since it was introduced in 1997, in-tube solid-phase microextraction (in-tube SPME), which uses a capillary column as extraction device, has been continuously developed as online microextraction coupled to LC systems (in-tube SPME-LC). In the last decade, new couplings have been evaluated on the basis of state-of-the-art LC instruments, including direct coupling of in-tube SPME to MS/MS systems, without chromatographic separation, for high-throughput analysis. In-tube SPME coupling to MS/MS has been possible thanks to the selectivity of capillary column coatings and MS/MS systems (SRM mode). Different types of capillary columns (wall-coated open-tubular, porous-layer open-tubular, sorbent-packed, porous monolithic rods, or fiber-packed) with selective stationary phases have been developed to increase the sorption capacity and selectivity of in-tube SPME. This review focuses on the in-tube SPME principle, extraction configurations, current advances in direct coupling to MS/MS systems, experimental parameters, coatings, and applications in different areas (food, biological, clinical, and environmental areas) over the last years.
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Recent developments in application of nucleic acid aptamer in food safety. Food Control 2022. [DOI: 10.1016/j.foodcont.2022.109406] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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Bor G, Bulut U, Man E, Balaban Hanoglu S, Evran S, Timur S. Synthetic antibodies for methamphetamine analysis: Design of high affinity aptamers and their use in electrochemical biosensors. J Electroanal Chem (Lausanne) 2022. [DOI: 10.1016/j.jelechem.2022.116686] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/15/2022]
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Abdelbasset WK, Savina SV, Mavaluru D, Shichiyakh RA, Bokov DO, Mustafa YF. Smartphone based aptasensors as intelligent biodevice for food contamination detection in food and soil samples: Recent advances. Talanta 2022; 252:123769. [PMID: 36041314 DOI: 10.1016/j.talanta.2022.123769] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2022] [Revised: 07/11/2022] [Accepted: 07/21/2022] [Indexed: 01/03/2023]
Abstract
Nowadays, the integration of conventional analytical approaches with smartphones has been developed novel, emerging and affordable devices for improving on-site detection platforms in the fields of food safety. Smartphone-based aptasensors as the next generation of portable aptasensing technique has attracted considerable attention as it offers a semi-automated user interface that can be exploited by inexpert characters. Wireless data transferability is an undeniable advantage that home-testing platforms have as well as it can suggest high computational power. In addition, these types of biodevices can provide real-time monitoring in terms of exchanging digital networks in real-time. To elaborate, the ability of smartphones to connect through the Internet is one of the most critical advantages of smartphone-based aptasensor that can be uploaded to Cloud databases and results can be disseminated as spatio-temporal maps across the globe. This review focused on the recent progress and technical breakthroughs of aptasensor on the smartphone as a groundbreaking enterprise in the field of biochemical analysis, importantly in the aspect of the combination of different types of biosensors including electrochemical, optical and colorimetric. In our opinion, this review can broaden our understanding of using smartphones as a portable sensing approach by addressing the current challenges and future perspectives.
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Affiliation(s)
- Walid Kamal Abdelbasset
- Department of Health and Rehabilitation Sciences, College of Applied Medical Sciences, Prince Sattam bin Abdulaziz University, Al Kharj, Saudi Arabia; Department of Physical Therapy, Kasr Al-Aini Hospital, Cairo University, Giza, Egypt.
| | - Svetlana Vladimirovna Savina
- Department of business informatics, Financial University under the Government of the Russian Federation, Moscow, Russian Federation
| | - Dinesh Mavaluru
- Department of Information Technology, College of Computing and Informatics, Saudi Electronic University, Riyadh, Saudi Arabia
| | - Rustem Adamovich Shichiyakh
- Kuban State Agrarian University Named after I.T. Trubilin, 350044, Krasnodar, Kalinina Str. 13, Russian Federation
| | - Dmitry Olegovich Bokov
- Institute of Pharmacy, Sechenov First Moscow State Medical University, 8 Trubetskaya St., bldg. 2, Moscow, 119991, Russian Federation; Laboratory of Food Chemistry, Federal Research Center of Nutrition, Biotechnology and Food Safety, 2/14 Ustyinsky pr., Moscow, 109240, Russian Federation
| | - Yasser Fakri Mustafa
- Department of Pharmaceutical Chemistry, College of Pharmacy, University of Mosul, Mosul, 41001, Iraq
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Liu R, Zhang F, Sang Y, Katouzian I, Jafari SM, Wang X, Li W, Wang J, Mohammadi Z. Screening, identification, and application of nucleic acid aptamers applied in food safety biosensing. Trends Food Sci Technol 2022. [DOI: 10.1016/j.tifs.2022.03.025] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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14
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A Label-free Fluorescent Aptasensor Based on Exonuclease I for the Determination of Ochratoxin A. CHINESE JOURNAL OF ANALYTICAL CHEMISTRY 2022. [DOI: 10.1016/j.cjac.2022.100126] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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Wang J, Zhu L, Li T, Li X, Huang K, Xu W. Multiple functionalities of functional nucleic acids for developing high-performance lateral flow assays. Trends Analyt Chem 2022. [DOI: 10.1016/j.trac.2022.116529] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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Vergara-Barberán M, Lerma-García MJ, Simó-Alfonso EF, García-Hernández M, Martín ME, García-Sacristán A, González VM, Herrero-Martínez JM. Selection and characterization of DNA aptamers for highly selective recognition of the major allergen of olive pollen Ole e 1. Anal Chim Acta 2022; 1192:339334. [PMID: 35057930 DOI: 10.1016/j.aca.2021.339334] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2021] [Revised: 11/23/2021] [Accepted: 11/25/2021] [Indexed: 02/05/2023]
Abstract
In this study, single-stranded DNA aptamers with binding affinity to Ole e 1, the major allergen of olive pollen, were selected using systematic evolution of ligands by exponential enrichment (SELEX) method. Binding of the aptamers was firstly established by enzyme-linked oligonucleotide assay (ELONA) and aptaprecipitation assays. Additionally, aptamer-modified monolithic capillary chromatography was used in order to evaluate the recognition of this allergenic protein against other non-target proteins. The results indicated that AptOle1#6 was the aptamer that provided the highest affinity for Ole e 1. The selected aptamer showed good selective recognition of this protein, being not able to retain other non-target proteins (HSA, cyt c, and other pollen protein such as Ole e 9). The feasibility of the affinity monolithic column was demonstrated by selective recognition of Ole e 1 in an allergy skin test. The stability and reproducibility of this monolithic column was suitable, with relative standard deviations (RSDs) in retention times and peak area values of 7.8 and 9.3%, respectively (column-to-column reproducibility). This is the first study that describes the design of an efficient DNA aptamer for this relevant allergen.
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Affiliation(s)
- María Vergara-Barberán
- Department of Analytical Chemistry, University of Valencia, C. Doctor Moliner 50, E-46100, Burjassot, Valencia, Spain
| | - María Jesús Lerma-García
- Department of Analytical Chemistry, University of Valencia, C. Doctor Moliner 50, E-46100, Burjassot, Valencia, Spain
| | - Ernesto F Simó-Alfonso
- Department of Analytical Chemistry, University of Valencia, C. Doctor Moliner 50, E-46100, Burjassot, Valencia, Spain
| | - Marta García-Hernández
- Grupo de Aptámeros. Departamento de Bioquímica-Investigación, Hospital Universitario Ramón y Cajal (IRYCIS), Carretera de Colmenar Viejo Km.9.100, CP-28034, Madrid, Spain
| | - M Elena Martín
- Grupo de Aptámeros. Departamento de Bioquímica-Investigación, Hospital Universitario Ramón y Cajal (IRYCIS), Carretera de Colmenar Viejo Km.9.100, CP-28034, Madrid, Spain
| | | | - Víctor M González
- Grupo de Aptámeros. Departamento de Bioquímica-Investigación, Hospital Universitario Ramón y Cajal (IRYCIS), Carretera de Colmenar Viejo Km.9.100, CP-28034, Madrid, Spain; Aptus Biotech SL, Av. Cardenal Herrera Oria 298, CP-28035, Madrid, Spain
| | - José Manuel Herrero-Martínez
- Department of Analytical Chemistry, University of Valencia, C. Doctor Moliner 50, E-46100, Burjassot, Valencia, Spain.
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Wang Y, Zhang C, Wang J, Knopp D. Recent Progress in Rapid Determination of Mycotoxins Based on Emerging Biorecognition Molecules: A Review. Toxins (Basel) 2022; 14:toxins14020073. [PMID: 35202100 PMCID: PMC8874725 DOI: 10.3390/toxins14020073] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2021] [Revised: 01/14/2022] [Accepted: 01/15/2022] [Indexed: 12/12/2022] Open
Abstract
Mycotoxins are secondary metabolites produced by fungal species, which pose significant risk to humans and livestock. The mycotoxins which are produced from Aspergillus, Penicillium, and Fusarium are considered most important and therefore regulated in food- and feedstuffs. Analyses are predominantly performed by official laboratory methods in centralized labs by expert technicians. There is an urgent demand for new low-cost, easy-to-use, and portable analytical devices for rapid on-site determination. Most significant advances were realized in the field bioanalytical techniques based on molecular recognition. This review aims to discuss recent progress in the generation of native biomolecules and new bioinspired materials towards mycotoxins for the development of reliable bioreceptor-based analytical methods. After brief presentation of basic knowledge regarding characteristics of most important mycotoxins, the generation, benefits, and limitations of present and emerging biorecognition molecules, such as polyclonal (pAb), monoclonal (mAb), recombinant antibodies (rAb), aptamers, short peptides, and molecularly imprinted polymers (MIPs), are discussed. Hereinafter, the use of binders in different areas of application, including sample preparation, microplate- and tube-based assays, lateral flow devices, and biosensors, is highlighted. Special focus, on a global scale, is placed on commercial availability of single receptor molecules, test-kits, and biosensor platforms using multiplexed bead-based suspension assays and planar biochip arrays. Future outlook is given with special emphasis on new challenges, such as increasing use of rAb based on synthetic and naïve antibody libraries to renounce animal immunization, multiple-analyte test-kits and high-throughput multiplexing, and determination of masked mycotoxins, including stereoisomeric degradation products.
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Affiliation(s)
- Yanru Wang
- College of Food Science and Engineering, Northwest A&F University, Yangling, Xianyang 712100, China; (Y.W.); (C.Z.)
| | - Cui Zhang
- College of Food Science and Engineering, Northwest A&F University, Yangling, Xianyang 712100, China; (Y.W.); (C.Z.)
| | - Jianlong Wang
- College of Food Science and Engineering, Northwest A&F University, Yangling, Xianyang 712100, China; (Y.W.); (C.Z.)
- Correspondence: (J.W.); (D.K.)
| | - Dietmar Knopp
- Chair for Analytical Chemistry and Water Chemistry, Institute of Hydrochemistry, Technische Universitat München, Elisabeth-Winterhalter-Weg 6, D-81377 München, Germany
- Correspondence: (J.W.); (D.K.)
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18
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Wang J, Zhou Y, Jiang L. Bio-inspired Track-Etched Polymeric Nanochannels: Steady-State Biosensors for Detection of Analytes. ACS NANO 2021; 15:18974-19013. [PMID: 34846138 DOI: 10.1021/acsnano.1c08582] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
Abstract
Bio-inspired polymeric nanochannel (also referred as nanopore)-based biosensors have attracted considerable attention on account of their controllable channel size and shape, multi-functional surface chemistry, unique ionic transport properties, and good robustness for applications. There are already very informative reviews on the latest developments in solid-state artificial nanochannel-based biosensors, however, which concentrated on the resistive-pulse sensing-based sensors for practical applications. The steady-state sensing-based nanochannel biosensors, in principle, have significant advantages over their counterparts in term of high sensitivity, fast response, target analytes with no size limit, and extensive suitable range. Furthermore, among the diverse materials, nanochannels based on polymeric materials perform outstandingly, due to flexible fabrication and wide application. This compressive Review summarizes the recent advances in bio-inspired polymeric nanochannels as sensing platforms for detection of important analytes in living organisms, to meet the high demand for high-performance biosensors for analysis of target analytes, and the potential for development of smart sensing devices. In the future, research efforts can be focused on transport mechanisms in the field of steady-state or resistive-pulse nanochannel-based sensors and on developing precisely size-controlled, robust, miniature and reusable, multi-functional, and high-throughput biosensors for practical applications. Future efforts should aim at a deeper understanding of the principles at the molecular level and incorporating these diverse pore architectures into homogeneous and defect-free multi-channel membrane systems. With the rapid advancement of nanoscience and biotechnology, we believe that many more achievements in nanochannel-based biosensors could be achieved in the near future, serving people in a better way.
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Affiliation(s)
- Jian Wang
- College of Materials and Chemistry & Chemical Engineering, Chengdu University of Technology, Chengdu 610059, People's Republic of China
| | - Yahong Zhou
- Key Laboratory of Bio-inspired Materials and Interface Science, Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Beijing 100190, People's Republic of China
- Key Laboratory of Bio-inspired Smart Interfacial Science and Technology of Ministry of Education, School of Chemistry, Beihang University, Beijing 100191, People's Republic of China
| | - Lei Jiang
- Key Laboratory of Bio-inspired Materials and Interface Science, Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Beijing 100190, People's Republic of China
- Key Laboratory of Bio-inspired Smart Interfacial Science and Technology of Ministry of Education, School of Chemistry, Beihang University, Beijing 100191, People's Republic of China
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19
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Zhao T, Zhang M, Peng Q, Lin X, Xie Z. Facile DNA adsorption enabling ammonium-based hydrophilic affinity monolithic column for high-performance online selective microextraction of ochratoxin A. Anal Chim Acta 2021; 1185:339077. [PMID: 34711314 DOI: 10.1016/j.aca.2021.339077] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2021] [Revised: 09/09/2021] [Accepted: 09/15/2021] [Indexed: 11/30/2022]
Abstract
Herein, a facile protocol of simple DNA adsorption on UV-initiated polymerization supports was proposed for effectively fabricating aptamer-based affinity monolithic column. Hydrophilic cationic monolith with an excellent mechanical stability was achieved within 7 min and then massive aptamers were directly bound by DNA charge-dependent adsorption. Strong cationic quaternary ammonium-based monomer was employed to provide effective and stable positive charge surface for aptamer immobilization in a wide range of pH. An ultra-high aptamer coverage density of 6813 pmol/μL was achieved to gain a highly specific online recognition performance. Limitations such as low aptamer capacity, tedious modification and time-consuming reactions in the traditional biological or covalent modification strategies were avoided. By using ochratoxin A (OTA) as the given analyte, the selective recognition and high recoveries were successfully achieved, and little cross-reactivity towards OTB analogue was only 0.5% even if the content of OTB got up to 125 folds of OTA. Applied to sample analysis, the satisfactory discriminations of trace OTA were obtained at 93.9 ± 1.9% - 96.5 ± 1.7%(n = 3)in beer, wheat and chicken liver samples. It might light a cost-effective access to efficiently preparing high-performance affinity monoliths towards the selective in-tube microextraction of OTA.
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Affiliation(s)
- Tingting Zhao
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China
| | - Min Zhang
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China
| | - Qi Peng
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China
| | - Xucong Lin
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China.
| | - Zenghong Xie
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China
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20
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Zhao T, Ding X, Lin C, Lin X, Xie Z. In situ photo-initiated polymerized oligonucleotide-functionalized hydrophilic capillary affinity monolith for highly selective in-tube microextraction of ochratoxin A mycotoxin. Mikrochim Acta 2021; 188:341. [PMID: 34523048 DOI: 10.1007/s00604-021-04997-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2021] [Accepted: 08/23/2021] [Indexed: 11/24/2022]
Abstract
A photo-initiated polymerized oligonucleotide-grafted hydrophilic affinity monolithic column was synthesized in situ, and exploited for selective in-tube solid phase micro-extraction (IT-SPME) protocol towards the sensitive detection of ochratoxin A (OTA). Only 7 min was required for the rapid polymerization of aptamer-based affinity monolith, which was much less than the reaction time of most thermal polymerization (12-16 h) and sol-gel chemistry methods (up to 52 h). Characterizations such as polymerization recipes, structure morphology, FTIR spectrum, elemental mapping, mechanical stability, and specific recognition performance were evaluated. A significantly hydrophilic nature with a low contact angle of 15° was observed, and a mixed-mode mechanism including aptamer affinity recognition and hydrophilic interaction (HI) was employed. By coupling with HPLC-fluorescence detection, the highly specific online recognition performance was achieved with an extremely low nonspecific adsorption of the analogues. The calibration curve of OTA was obtained in the concentration range 0.05-50.00 ng·mL-1 with a limit of detection (LOD, S/N = 3) of 0.012 ng·mL-1. Applied to sample analysis, acceptable recovery yields of 95.1 ± 1.4% - 99.5 ± 2.2% (n = 3) were obtained in beer and red wine. The proposed method lighted a promising way to efficiently preparing a hydrophilic aptamer-affinity monolith for highly specific recognition of trace mycotoxin by IT-SPME coupled with HPLC. A hydrophilic oligonucleotide-based affinity capillary monolith was explored via in situ photopolymerization for overcoming low preparation efficiency and achieving high-performance online IT-SPME of OTA mycotoxin.
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Affiliation(s)
- Tingting Zhao
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China
| | - Xinyue Ding
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China
| | - Chenchen Lin
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China
| | - Xucong Lin
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China.
| | - Zenghong Xie
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China
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21
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Zhao T, Tong S, Zhou S, Lin C, Lin X, Xie Z. A facile aptamer immobilization strategy to fabricate a robust affinity monolith for highly specific in-tube solid-phase microextraction. Analyst 2021; 146:5732-5739. [PMID: 34515698 DOI: 10.1039/d1an00993a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Developing a functional affinity monolithic column towards in-tube solid-phase microextraction (IT-SPME) for selective sample pretreatment is critical. Herein, a high-performance capillary affinity monolithic column with an ultra-high aptamer coverage density was rapidly fabricated via a simple adsorption strategy, in which aptamers with natural sequences were directly immobilized on an ammonium-based strongly cationic matrix. Limitations of the traditional biological or covalent methods such as time-consuming modification reactions, special requirement of active groups (e.g. -NH2 and -SH) on the aptamer, and low aptamer coverage density levels were avoided. An ultra-high coverage density of 8616 pmol μL-1 was achieved with excellent stability, and the highest aptamer-modification level among all the current methods was reached. Selective recognition and high recovery yields of the model mycotoxin ochratoxin A (OTA) were achieved in 95.9 ± 0.98%-97.9 ± 0.28% (n = 3). In particular, there was little cross-reactivity towards the OTB analogue of only 0.5% even in the case of 250 fold of the analogue OTB, which was not reported in previous affinity monoliths. Upon sample analysis, satisfactory discriminations of trace OTA were obtained at 93.7 ± 1.4%-95.5 ± 2.5% (n = 3) in beer and wheat. A facile and direct method for efficiently fabricating an aptamer-based affinity monolith towards online selective IT-SPME was proposed.
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Affiliation(s)
- Tingting Zhao
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, P.R. China.
| | - Shiqian Tong
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, P.R. China.
| | - Susu Zhou
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, P.R. China.
| | - Chenchen Lin
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, P.R. China.
| | - Xucong Lin
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, P.R. China. .,Engineering Technology Research Center on Reagent and Instrument for Rapid Detection of Product Quality and Food Safety, Fujian, Fuzhou, 350108, P.R. China
| | - Zenghong Xie
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, P.R. China. .,Engineering Technology Research Center on Reagent and Instrument for Rapid Detection of Product Quality and Food Safety, Fujian, Fuzhou, 350108, P.R. China
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22
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Kanu AB. Recent developments in sample preparation techniques combined with high-performance liquid chromatography: A critical review. J Chromatogr A 2021; 1654:462444. [PMID: 34380070 DOI: 10.1016/j.chroma.2021.462444] [Citation(s) in RCA: 56] [Impact Index Per Article: 18.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2021] [Revised: 07/21/2021] [Accepted: 07/24/2021] [Indexed: 12/29/2022]
Abstract
This review article compares and contrasts sample preparation techniques coupled with high-performance liquid chromatography (HPLC) and describes applications developed in biomedical, forensics, and environmental/industrial hygiene in the last two decades. The proper sample preparation technique can offer valued data for a targeted application when coupled to HPLC and a suitable detector. Improvements in sample preparation techniques in the last two decades have resulted in efficient extraction, cleanup, and preconcentration in a single step, thus providing a pathway to tackle complex matrix applications. Applications such as biological therapeutics, proteomics, lipidomics, metabolomics, environmental/industrial hygiene, forensics, glycan cleanup, etc., have been significantly enhanced due to improved sample preparation techniques. This review looks at the early sample preparation techniques. Further, it describes eight sample preparation technique coupled to HPLC that has gained prominence in the last two decades. They are (1) solid-phase extraction (SPE), (2) liquid-liquid extraction (LLE), (3) gel permeation chromatography (GPC), (4) Quick Easy Cheap Effective Rugged, Safe (QuEChERS), (5) solid-phase microextraction (SPME), (6) ultrasonic-assisted solvent extraction (UASE), and (7) microwave-assisted solvent extraction (MWASE). SPE, LLE, GPC, QuEChERS, and SPME can be used offline and online with HPLC. UASE and MWASE can be used offline with HPLC but have also been combined with the online automated techniques of SPE, LLE, GPC, or QuEChERS for targeted analysis. Three application areas of biomedical, forensics, and environmental/industrial hygiene are reviewed for the eight sample preparation techniques. Three hundred and twenty references on the eight sample preparation techniques published over the last two decades (2001-2021) are provided. Other older references were included to illustrate the historical development of sample preparation techniques.
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Affiliation(s)
- A Bakarr Kanu
- Department of Chemistry, Winston-Salem State University, Winston-Salem, NC 27110, United States.
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23
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Chang T, He S, Amini R, Li Y. Functional Nucleic Acids Under Unusual Conditions. Chembiochem 2021; 22:2368-2383. [PMID: 33930229 DOI: 10.1002/cbic.202100087] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2021] [Revised: 04/24/2021] [Indexed: 02/06/2023]
Abstract
Functional nucleic acids (FNAs), including naturally occurring ribozymes and riboswitches as well as artificially created DNAzymes and aptamers, have been popular molecular toolboxes for diverse applications. Given the high chemical stability of nucleic acids and their ability to fold into diverse sequence-dependent structures, FNAs are suggested to be highly functional under unusual reaction conditions. This review will examine the progress of research on FNAs under conditions of low pH, high temperature, freezing conditions, and the inclusion of organic solvents and denaturants that are known to disrupt nucleic acid structures. The FNA species to be discussed include ribozymes, riboswitches, G-quadruplex-based peroxidase mimicking DNAzymes, RNA-cleaving DNAzymes, and aptamers. Research within this space has not only revealed the hidden talents of FNAs but has also laid important groundwork for pursuing these intriguing functional macromolecules for unique applications.
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Affiliation(s)
- Tianjun Chang
- Department of Biochemistry and Biomedical Sciences, McMaster University, 1280 Main Street West, Hamilton, L8S 4K1, Canada
- Department of Biology, Institute of Resources and Environment, Henan Polytechnic University, Jiaozuo, 454000, Henan, P. R. China
| | - Sisi He
- Department of Biochemistry and Biomedical Sciences, McMaster University, 1280 Main Street West, Hamilton, L8S 4K1, Canada
- School of Science, Harbin Institute of Technology (Shenzhen), University Town, Shenzhen, 518055, Guangdong, P. R. China
| | - Ryan Amini
- Department of Biochemistry and Biomedical Sciences, McMaster University, 1280 Main Street West, Hamilton, L8S 4K1, Canada
| | - Yingfu Li
- Department of Biochemistry and Biomedical Sciences, McMaster University, 1280 Main Street West, Hamilton, L8S 4K1, Canada
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24
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Membrane-protected molecularly imprinted polymers: Towards selectivity improvement of liquid-phase microextraction. Trends Analyt Chem 2021. [DOI: 10.1016/j.trac.2021.116236] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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25
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Zhao T, Ding X, Chen Y, Lin C, Qi G, Lin X, Xie Z. Towards highly specific aptamer-affinity monolithic column by efficient UV light-initiated polymerization in "one-pot". Anal Chim Acta 2021; 1165:338517. [PMID: 33975695 DOI: 10.1016/j.aca.2021.338517] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2021] [Revised: 04/03/2021] [Accepted: 04/12/2021] [Indexed: 01/08/2023]
Abstract
Time-consuming or tedious operation in multiple-step process might is the obstacle for efficiently preparing aptamer-affinity monolithic column. Here, a new and facile strategy to prepare aptamer-based hybrid affinity monolith in "one-pot" at room temperature was exploited, in which UV light-initiated free-radical polymerization and "thiol-ene" click reaction were implemented simultaneously. Only 7 min was cost for finishing the polymerization reaction, which was only 1/100 of that for the traditional thermal polymerization. Using ochratoxin A (OTA) as the model analyte, the recipe for photo-initiated polymerization was optimized, and SEM morphology, FTIR, EDS, pore size distribution and specific recognition performance were also studied. Compared with traditional thermal polymerization, the resultant monolith was achieved more facilely and displayed better results such as more homogeneous skeleton structure, higher reaction efficiency of aptamer (>88.2%) and better specific selectivity to OTA. Besides, an extremely low nonspecific adsorption of analogues was obtained and showed a level at only 1/25 of that in the similar aptamer-affinity monolith prepared by thermal polymerization. Applied to beer and red wine samples, good recovery yields about 99.7 ± 4.0% -101.2 ± 2.3% (n = 3)was achieved with the acceptable RSDs. It would open up a rapid and promising access to efficiently preparing high-performance aptamer-based affinity monolithic columns for online specific recognition.
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Affiliation(s)
- Tingting Zhao
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China
| | - Xinyue Ding
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China
| | - Yiqiong Chen
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China
| | - Chenchen Lin
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China
| | - Guomin Qi
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China
| | - Xucong Lin
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China; Engineering Technology Research Center on Reagent and Instrument for Rapid Detection of Product Quality and Food Safety, Fujian, Fuzhou, 350108, People's Republic of China.
| | - Zenghong Xie
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, 350108, People's Republic of China; Engineering Technology Research Center on Reagent and Instrument for Rapid Detection of Product Quality and Food Safety, Fujian, Fuzhou, 350108, People's Republic of China
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26
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Delaunay N, Combès A, Pichon V. Immunoaffinity Extraction and Alternative Approaches for the Analysis of Toxins in Environmental, Food or Biological Matrices. Toxins (Basel) 2020; 12:toxins12120795. [PMID: 33322240 PMCID: PMC7764248 DOI: 10.3390/toxins12120795] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2020] [Revised: 12/09/2020] [Accepted: 12/11/2020] [Indexed: 12/12/2022] Open
Abstract
The evolution of instrumentation in terms of separation and detection allowed a real improvement of the sensitivity and analysis time. However, the analysis of ultra-traces of toxins in complex samples requires often a step of purification and even preconcentration before their chromatographic analysis. Therefore, immunoaffinity sorbents based on specific antibodies thus providing a molecular recognition mechanism appear as powerful tools for the selective extraction of a target molecule and its structural analogs to obtain more reliable and sensitive quantitative analysis in environmental, food or biological matrices. This review focuses on immunosorbents that have proven their efficiency in selectively extracting various types of toxins of various sizes (from small mycotoxins to large proteins) and physicochemical properties. Immunosorbents are now commercially available, and their use has been validated for numerous applications. The wide variety of samples to be analyzed, as well as extraction conditions and their impact on extraction yields, is discussed. In addition, their potential for purification and thus suppression of matrix effects, responsible for quantification problems especially in mass spectrometry, is presented. Due to their similar properties, molecularly imprinted polymers and aptamer-based sorbents that appear to be an interesting alternative to antibodies are also briefly addressed by comparing their potential with that of immunosorbents.
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Affiliation(s)
- Nathalie Delaunay
- Department of Analytical, Bioanalytical Sciences and Miniaturization (LSABM), CBI ESPCI Paris, PSL University, CNRS, 75005 Paris, France; (N.D.); (A.C.)
| | - Audrey Combès
- Department of Analytical, Bioanalytical Sciences and Miniaturization (LSABM), CBI ESPCI Paris, PSL University, CNRS, 75005 Paris, France; (N.D.); (A.C.)
| | - Valérie Pichon
- Department of Analytical, Bioanalytical Sciences and Miniaturization (LSABM), CBI ESPCI Paris, PSL University, CNRS, 75005 Paris, France; (N.D.); (A.C.)
- Department of Chemistry, Sorbonne University, 75005 Paris, France
- Correspondence:
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27
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Setlem K, Mondal B, Shylaja R, Parida M. Dual Aptamer-DNAzyme based colorimetric assay for the detection of AFB1 from food and environmental samples. Anal Biochem 2020; 608:113874. [PMID: 32750356 DOI: 10.1016/j.ab.2020.113874] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2020] [Revised: 07/06/2020] [Accepted: 07/13/2020] [Indexed: 02/07/2023]
Abstract
In the present study, a colorimetric biosensor strategy is devised in combination with apta-magnetic separation assisted with DNAzyme based colorimetric detection of Aflatoxin B1 (AFB1). The optimized analytical procedures consisted of the capture of AFB1 by biotinylated aptamer conjugated to streptavidin magnetic beads and detection by a colorimetric signal from a DNAzyme modified aptamer in presence hemin and H2O2/TMB (3', 3', 5, 5'- tetramethylbenzidine). The DNA concentration, incubation time, hemin, and NaCl concentrations were evaluated and optimized. The visual optical signal thus generated could determine the presence of AFB1 in the given sample. The selectivity of the method with other mycotoxins was evaluated. The linear range of AFB1 from 0 to 200 ppb was assessed and detected as low as 40 ppb visually. The absorbance of blue color generated by the catalytic reaction was in a linear correlation with AFB1 concentrations and was able to detect as low as 22.6 ppb (LOD). The suitability of the assay for AFB1 quantification in sorghum and natural samples was also evaluated. Thus, the developed assay could be a reliable, inexpensive, alternative tool for possible use as a screening method for aflatoxins and other mycotoxins.
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Affiliation(s)
| | - Bhairab Mondal
- Defence Food Research Laboratory (DFRL), Mysore, 570011, India.
| | - R Shylaja
- Defence Food Research Laboratory (DFRL), Mysore, 570011, India.
| | - Manmohan Parida
- Defence Food Research Laboratory (DFRL), Mysore, 570011, India.
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Radko S, Ptitsyn K, Novikova S, Kiseleva Y, Moysa A, Kurbatov L, Mannanova M, Zgoda V, Ponomarenko E, Lisitsa A, Archakov A. Evaluation of Aptamers as Affinity Reagents for an Enhancement of SRM-Based Detection of Low-Abundance Proteins in Blood Plasma. Biomedicines 2020; 8:E133. [PMID: 32456365 PMCID: PMC7277749 DOI: 10.3390/biomedicines8050133] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2020] [Revised: 05/18/2020] [Accepted: 05/22/2020] [Indexed: 12/12/2022] Open
Abstract
Selected reaction monitoring (SRM) is a mass spectrometric technique characterized by the exceptionally high selectivity and sensitivity of protein detection. However, even with this technique, the quantitative detection of low- and ultralow-abundance proteins in blood plasma, which is of great importance for the search and verification of novel protein disease markers, is a challenging task due to the immense dynamic range of protein abundance levels. One approach used to overcome this problem is the immunoaffinity enrichment of target proteins for SRM analysis, employing monoclonal antibodies. Aptamers appear as a promising alternative to antibodies for affinity enrichment. Here, using recombinant protein SMAD4 as a model target added at known concentrations to human blood plasma and SRM as a detection method, we investigated a relationship between the initial amount of the target protein and its amount in the fraction enriched with SMAD4 by an anti-SMAD4 DNA-aptamer immobilized on magnetic beads. It was found that the aptamer-based enrichment provided a 30-fold increase in the sensitivity of SRM detection of SMAD4. These results indicate that the aptamer-based affinity enrichment of target proteins can be successfully employed to improve quantitative detection of low-abundance proteins by SRM in undepleted human blood plasma.
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Affiliation(s)
- Sergey Radko
- Institute of Biomedical Chemistry, Moscow 119121, Russia; (K.P.); (S.N.); (A.M.); (L.K.); (M.M.); (V.Z.); (E.P.); (A.L.); (A.A.)
| | - Konstantin Ptitsyn
- Institute of Biomedical Chemistry, Moscow 119121, Russia; (K.P.); (S.N.); (A.M.); (L.K.); (M.M.); (V.Z.); (E.P.); (A.L.); (A.A.)
| | - Svetlana Novikova
- Institute of Biomedical Chemistry, Moscow 119121, Russia; (K.P.); (S.N.); (A.M.); (L.K.); (M.M.); (V.Z.); (E.P.); (A.L.); (A.A.)
| | - Yana Kiseleva
- Russian Scientific Center of Roentgenoradiology, Moscow 117485, Russia;
| | - Alexander Moysa
- Institute of Biomedical Chemistry, Moscow 119121, Russia; (K.P.); (S.N.); (A.M.); (L.K.); (M.M.); (V.Z.); (E.P.); (A.L.); (A.A.)
| | - Leonid Kurbatov
- Institute of Biomedical Chemistry, Moscow 119121, Russia; (K.P.); (S.N.); (A.M.); (L.K.); (M.M.); (V.Z.); (E.P.); (A.L.); (A.A.)
| | - Maria Mannanova
- Institute of Biomedical Chemistry, Moscow 119121, Russia; (K.P.); (S.N.); (A.M.); (L.K.); (M.M.); (V.Z.); (E.P.); (A.L.); (A.A.)
| | - Victor Zgoda
- Institute of Biomedical Chemistry, Moscow 119121, Russia; (K.P.); (S.N.); (A.M.); (L.K.); (M.M.); (V.Z.); (E.P.); (A.L.); (A.A.)
| | - Elena Ponomarenko
- Institute of Biomedical Chemistry, Moscow 119121, Russia; (K.P.); (S.N.); (A.M.); (L.K.); (M.M.); (V.Z.); (E.P.); (A.L.); (A.A.)
| | - Andrey Lisitsa
- Institute of Biomedical Chemistry, Moscow 119121, Russia; (K.P.); (S.N.); (A.M.); (L.K.); (M.M.); (V.Z.); (E.P.); (A.L.); (A.A.)
| | - Alexander Archakov
- Institute of Biomedical Chemistry, Moscow 119121, Russia; (K.P.); (S.N.); (A.M.); (L.K.); (M.M.); (V.Z.); (E.P.); (A.L.); (A.A.)
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ZHAO Y, WANG N, GAO HL, GUO ZX, LU AX, GUO XJ, LU JH, LUAN YX. Determination of Aflatoxin B1 in Lotus Seed by High Performance Liquid Chromatography with Aptamer Affinity Column for Purification and Enrichment. CHINESE JOURNAL OF ANALYTICAL CHEMISTRY 2020. [DOI: 10.1016/s1872-2040(20)60022-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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Wang S, Niu R, Yang Y, Zhou X, Luo S, Zhang C, Wang Y. Aptamer-functionalized chitosan magnetic nanoparticles as a novel adsorbent for selective extraction of ochratoxin A. Int J Biol Macromol 2020; 153:583-590. [PMID: 32151722 DOI: 10.1016/j.ijbiomac.2020.03.035] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2020] [Revised: 03/05/2020] [Accepted: 03/05/2020] [Indexed: 01/19/2023]
Abstract
The preparation and application of aptamer-functionalized chitosan magnetic nanoparticles (Fe3O4@CTS@Apt nanoparticles) for selective extraction and determination ochratoxin A (OTA) were described in this study. Magnetic nanoparticle was synthesized by the coprecipitation method followed by coating with chitosan to improve its stability and biocompatibility. Further characterization was performed by scan electron microscopy (SEM), transmission electron microscopy (TEM), Fourier transform infrared spectroscopy (FT-IR), X-ray diffraction (XRD), thermogravimetric analysis (TGA) and magnetic property measurement, and the results clearly indicated that the obtained magnetic chitosan nanoparticle was composed of magnetic core and chitosan coating layer. Aptamers specific to OTA were coupled onto the magnetic chitosan nanoparticles, and an extraction procedure was developed by optimization. When challenged with food samples fortified with OTA at 5 and 10 μg/kg, recoveries ranging from 91.3% to 99.1% with relative standard deviation (RSD) ≤ 4.2% were achieved by aptamer-functionalized magnetic extraction, which is very close to the results obtained by immunoaffinity chromatography extraction, indicating that this magnetic adsorbent could be hopefully used to achieve a fast and efficient extraction and detection of OTA in food samples.
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Affiliation(s)
- Shuwen Wang
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang 212013, China
| | - Rui Niu
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang 212013, China
| | - Yamei Yang
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang 212013, China
| | - Xinghua Zhou
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang 212013, China
| | - Shilong Luo
- Sinograin Zhenjiang Grain & Oil Quality Testing Center Co., Ltd., Zhenjiang 212006, China
| | - Chen Zhang
- Sinograin Zhenjiang Grain & Oil Quality Testing Center Co., Ltd., Zhenjiang 212006, China
| | - Yun Wang
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang 212013, China.
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Balaban S, Man E, Durmus C, Bor G, Ceylan AE, Pinar Gumus Z, Evran S, Coskunol H, Timur S. Sensor Platform with a Custom‐tailored Aptamer for Diagnosis of Synthetic Cannabinoids. ELECTROANAL 2020. [DOI: 10.1002/elan.201900670] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Simge Balaban
- Department of Biochemistry, Faculty of ScienceEge University 35100 Izmir Turkey
| | - Ezgi Man
- Department of Biochemistry, Faculty of ScienceEge University 35100 Izmir Turkey
| | - Ceren Durmus
- Department of Biochemistry, Faculty of ScienceEge University 35100 Izmir Turkey
| | - Gulsah Bor
- Department of Biochemistry, Faculty of ScienceEge University 35100 Izmir Turkey
| | - Ayse Elcin Ceylan
- Department of Biochemistry, Faculty of ScienceEge University 35100 Izmir Turkey
| | - Z. Pinar Gumus
- Ege University, Faculty of Medicine, Department of Mental Health and Diseases 35100 Bornova, Izmir Turkey
| | - Serap Evran
- Department of Biochemistry, Faculty of ScienceEge University 35100 Izmir Turkey
| | - Hakan Coskunol
- Central Research Test and Analysis Laboratory Application and Research CenterEge University 35100 Izmir Turkey
| | - Suna Timur
- Department of Biochemistry, Faculty of ScienceEge University 35100 Izmir Turkey
- Ege University, Faculty of Medicine, Department of Mental Health and Diseases 35100 Bornova, Izmir Turkey
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Pero-Gascon R, Benavente F, Minic Z, Berezovski MV, Sanz-Nebot V. On-line Aptamer Affinity Solid-Phase Extraction Capillary Electrophoresis-Mass Spectrometry for the Analysis of Blood α-Synuclein. Anal Chem 2019; 92:1525-1533. [PMID: 31825201 DOI: 10.1021/acs.analchem.9b04802] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
In this paper, an on-line aptamer affinity solid-phase extraction capillary electrophoresis-mass spectrometry method is described for the purification, preconcentration, separation, and characterization of α-synuclein (α-syn) in blood at the intact protein level. A single-stranded DNA aptamer is used to bind with high affinity and selectivity α-syn, which is a major component of Lewy bodies, the typical aggregated protein deposits found in Parkinson's disease (PD). Under the conditions optimized with recombinant α-syn, repeatability (2.1 and 5.4% percent relative standard deviation for migration times and peak areas, respectively) and microcartridge lifetime (around 20 analyses/microcartridge) were good, the method was linear between 0.5 and 10 μg·mL-1, and limit of detection was 0.2 μg·mL-1 (100 times lower than by CE-MS, 20 μg·mL-1). The method was subsequently applied to the analysis of endogenous α-syn from red blood cells lysate of healthy controls and PD patients.
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Affiliation(s)
- Roger Pero-Gascon
- Department of Chemical Engineering and Analytical Chemistry, Institute for Research on Nutrition and Food Safety (INSA·UB) , University of Barcelona , Barcelona 08028 , Spain
| | - Fernando Benavente
- Department of Chemical Engineering and Analytical Chemistry, Institute for Research on Nutrition and Food Safety (INSA·UB) , University of Barcelona , Barcelona 08028 , Spain
| | - Zoran Minic
- Department of Chemistry and Biomolecular Sciences , University of Ottawa , Ottawa , Ontario K1N 6N5 , Canada
| | - Maxim V Berezovski
- Department of Chemistry and Biomolecular Sciences , University of Ottawa , Ottawa , Ontario K1N 6N5 , Canada
| | - Victoria Sanz-Nebot
- Department of Chemical Engineering and Analytical Chemistry, Institute for Research on Nutrition and Food Safety (INSA·UB) , University of Barcelona , Barcelona 08028 , Spain
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Affiliation(s)
- Valérie Pichon
- Laboratoire des Sciences Analytiques, Bioanalytiques et Miniaturisation-UMR Chimie Biologie Innovation 8231, ESPCI Paris, CNRS , PSL* Research University , 10 rue Vauquelin , 75005 Paris , France.,Sorbonne Université , 75005 Paris , France
| | - Nathalie Delaunay
- Laboratoire des Sciences Analytiques, Bioanalytiques et Miniaturisation-UMR Chimie Biologie Innovation 8231, ESPCI Paris, CNRS , PSL* Research University , 10 rue Vauquelin , 75005 Paris , France
| | - Audrey Combès
- Laboratoire des Sciences Analytiques, Bioanalytiques et Miniaturisation-UMR Chimie Biologie Innovation 8231, ESPCI Paris, CNRS , PSL* Research University , 10 rue Vauquelin , 75005 Paris , France
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Current trends in affinity-based monoliths in microextraction approaches: A review. Anal Chim Acta 2019; 1084:1-20. [DOI: 10.1016/j.aca.2019.07.020] [Citation(s) in RCA: 28] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2019] [Revised: 07/08/2019] [Accepted: 07/09/2019] [Indexed: 12/15/2022]
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Yu M, Wang L, Hu L, Li Y, Luo D, Mei S. Recent applications of magnetic composites as extraction adsorbents for determination of environmental pollutants. Trends Analyt Chem 2019. [DOI: 10.1016/j.trac.2019.07.022] [Citation(s) in RCA: 49] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
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36
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Mascini M, Dikici E, Robles Mañueco M, Perez-Erviti JA, Deo SK, Compagnone D, Wang J, Pingarrón JM, Daunert S. Computationally Designed Peptides for Zika Virus Detection: An Incremental Construction Approach. Biomolecules 2019; 9:biom9090498. [PMID: 31533374 PMCID: PMC6770336 DOI: 10.3390/biom9090498] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2019] [Revised: 09/12/2019] [Accepted: 09/14/2019] [Indexed: 12/11/2022] Open
Abstract
Herein, and in contrast to current production of anti-Zika virus antibodies, we propose a semi-combinatorial virtual strategy to select short peptides as biomimetic antibodies/binding agents for the detection of intact Zika virus (ZIKV) particles. The virtual approach was based on generating different docking cycles of tetra, penta, hexa, and heptapeptide libraries by maximizing the discrimination between the amino acid motif in the ZIKV and dengue virus (DENV) envelope protein glycosylation site. Eight peptides, two for each length (tetra, penta, hexa, and heptapeptide) were then synthesized and tested vs. intact ZIKV particles by using a direct enzyme linked immunosorbent assay (ELISA). As a reference, we employed a well-established anti-ZIKV antibody, the antibody 4G2. Three peptide-based assays had good detection limits with dynamic range starting from 105 copies/mL of intact ZIKV particles; this was one order magnitude lower than the other peptides or antibodies. These three peptides showed slight cross-reactivity against the three serotypes of DENV (DENV-1, -2, and -3) at a concentration of 106 copies/mL of intact virus particles, but the discrimination between the DENV and ZIKV was lost when the coating concentration was increased to 107 copies/mL of the virus. The sensitivity of the peptides was tested in the presence of two biological matrices, serum and urine diluted 1:10 and 1:1, respectively. The detection limits decreased about one order of magnitude for ZIKV detection in serum or urine, albeit still having for two of the three peptides tested a distinct analytical signal starting from 106 copies/mL, the concentration of ZIKV in acute infection.
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Affiliation(s)
- Marcello Mascini
- Department of Analytical Chemistry, Faculty of Chemistry, University Complutense of Madrid, Ciudad Universitaria s/n, 28040 Madrid, Spain.
- Faculty of Bioscience and Technology for Food, Agriculture and Environment, University of Teramo, 64100 Teramo, Italy.
| | - Emre Dikici
- Department of Biochemistry and Molecular Biology, Miller School of Medicine, University of Miami, Miami, FL 33136, USA.
- Dr. JT Macdonald Foundation Biomedical Nanotechnology Institute, University of Miami, Miami, FL 33136, USA.
| | - Marta Robles Mañueco
- Department of Biochemistry and Molecular Biology, Miller School of Medicine, University of Miami, Miami, FL 33136, USA.
| | - Julio A Perez-Erviti
- Center for Protein Studies, Faculty of Biology, University of Havana, Havana 10400, Cuba.
| | - Sapna K Deo
- Department of Biochemistry and Molecular Biology, Miller School of Medicine, University of Miami, Miami, FL 33136, USA.
- Dr. JT Macdonald Foundation Biomedical Nanotechnology Institute, University of Miami, Miami, FL 33136, USA.
| | - Dario Compagnone
- Faculty of Bioscience and Technology for Food, Agriculture and Environment, University of Teramo, 64100 Teramo, Italy.
| | - Joseph Wang
- Department of Nanoengineering, University of California, San Diego, La Jolla, CA 92093, USA.
| | - José M Pingarrón
- Department of Analytical Chemistry, Faculty of Chemistry, University Complutense of Madrid, Ciudad Universitaria s/n, 28040 Madrid, Spain.
| | - Sylvia Daunert
- Department of Biochemistry and Molecular Biology, Miller School of Medicine, University of Miami, Miami, FL 33136, USA.
- Dr. JT Macdonald Foundation Biomedical Nanotechnology Institute, University of Miami, Miami, FL 33136, USA.
- University of Miami Clinical and Translational Science Institute, University of Miami, Miami, FL 33136, USA.
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Yu X, Lai S, Wang L, Chen Y, Lin X, Xie Z. Preparation of aptamer-bound polyamine affinity monolithic column via a facile triazine-bridged strategy and application to on-column specific discrimination of ochratoxin A. J Sep Sci 2019; 42:2272-2279. [PMID: 31038265 DOI: 10.1002/jssc.201900175] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2019] [Revised: 04/10/2019] [Accepted: 04/17/2019] [Indexed: 12/25/2022]
Abstract
Developing a high-performance modification protocol is critical for efficiently fabricating affinity monolith. Herein, by using 2,4,6-trichloro-1,3,5-triazine as the linker, a simple triazine-bridged approach was proposed for efficiently fabricating aptamer-grafted polyhedral oligomeric silsesquioxane-polyethyleneimine affinity monolith with high specificity toward ochratoxin A. Experimental parameters, column characteristics and specificity performances of the resultant affinity monolith were investigated in detail. Under the optimal conditions, 2,4,6-trichloro-1,3,5-triazine was rapidly grafted on the polyamine matrix, and effectively applied to the subsequent bridge linkage of aptamers. It was simple and effective, which resulted in a significant decrease of modification time, excellent properties including the high coverage density of aptamer up to 1799 pmol/μL and sensitive detection of ochratoxin A as low as 10 pg/mL in beer samples. This protocol provides a facile approach for fabricating aptamer-grafted polyamine affinity monoliths with highly selective discrimination performance.
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Affiliation(s)
- Xia Yu
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, P. R. China.,Zhejiang Fuxing Environment Development, Zhejiang, P. R. China
| | - Shuoke Lai
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, P. R. China
| | - Li Wang
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, P. R. China
| | - Yiqiong Chen
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, P. R. China
| | - Xucong Lin
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, P. R. China
| | - Zenghong Xie
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou, P. R. China
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40
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Chen Y, Ding X, Zhu D, Lin X, Xie Z. Preparation and evaluation of highly hydrophilic aptamer-based hybrid affinity monolith for on-column specific discrimination of ochratoxin A. Talanta 2019; 200:193-202. [PMID: 31036173 DOI: 10.1016/j.talanta.2019.03.053] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2018] [Revised: 03/10/2019] [Accepted: 03/14/2019] [Indexed: 12/28/2022]
Abstract
Nonspecific adsorption is a challenge of specific recognition on aptamer-based affinity monoliths. Here, a novel highly hydrophilic polyhedral oligomeric silsesquioxane (POSS)-containing aptamer-based hybrid-silica affinity monolith with a good recognition nature was prepared and used for specific discrimination of ochratoxin A (OTA). A homogeneous polymerization mixture consisted of POSS chemicals, hydrophilic monomers and aptamer solution was directly polymerized via the "one-pot" method. Preparation and characterization of the resultant affinity monolith were studied in detail. A highly hydrophilic nature was obtained and the typical hydrophilic interaction liquid chromatography (HILIC) was observed when acetonitrile (ACN) content in mobile phase was 25%, which reached the highest hydrophilicity of POSS-based hybrid monoliths. By using OTA as model analyte, the nonspecific adsorption was effectively suppressed. The recovery of the analogue ochratoxin B (OTB) was only about 0.1% even if the content of OTB was 50 times more than OTA, which was much better than other POSS-containing monoliths and polar siloxane-based hybrid monoliths. Applied to beer samples, the adsorption of background materials was drastically resisted, and efficient recognition of OTA was obtained with the recoveries of 94.9-99.8%. Much less disturbance was observed than that occurred in hydrophobic POSS-based affinity monolith. It lights an attractive implement with high hydrophilicity and specificity for online selective recognition of OTA.
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Affiliation(s)
- Yiqiong Chen
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou 350108, China
| | - Xinyue Ding
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou 350108, China
| | - Dandan Zhu
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou 350108, China
| | - Xucong Lin
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou 350108, China.
| | - Zenghong Xie
- Institute of Food Safety and Environment Monitoring, Fuzhou University, Fuzhou 350108, China
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Chen Y, Zhu D, Ding X, Qi G, Lin X, Xie Z. Highly hydrophilic polyhedral oligomeric silsesquioxane (POSS)-containing aptamer-modified affinity hybrid monolith for efficient on-column discrimination with low nonspecific adsorption. Analyst 2019; 144:1555-1564. [DOI: 10.1039/c8an01890a] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A highly hydrophilic aptamer-modified POSS-containing hybrid affinity monolith is presented for efficient on-column discrimination with low non-specific adsorption.
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Affiliation(s)
- Yiqiong Chen
- Institute of Food Safety and Environment Monitoring
- Fuzhou University
- Fuzhou
- China
| | - Dandan Zhu
- Institute of Food Safety and Environment Monitoring
- Fuzhou University
- Fuzhou
- China
| | - Xinyue Ding
- Institute of Food Safety and Environment Monitoring
- Fuzhou University
- Fuzhou
- China
| | - Guomin Qi
- Institute of Food Safety and Environment Monitoring
- Fuzhou University
- Fuzhou
- China
| | - Xucong Lin
- Institute of Food Safety and Environment Monitoring
- Fuzhou University
- Fuzhou
- China
| | - Zenghong Xie
- Institute of Food Safety and Environment Monitoring
- Fuzhou University
- Fuzhou
- China
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Antipova OM, Zavyalova EG, Golovin AV, Pavlova GV, Kopylov AM, Reshetnikov RV. Advances in the Application of Modified Nucleotides in SELEX Technology. BIOCHEMISTRY (MOSCOW) 2018; 83:1161-1172. [PMID: 30472954 DOI: 10.1134/s0006297918100024] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Aptamers are widely used as molecular recognition elements for detecting and blocking functional biological molecules. Since the common "alphabet" of DNA and RNA consists of only four letters, the chemical diversity of aptamers is less than the diversity of protein recognition elements built of 20 amino acids. Chemical modification of nucleotides enlarges the potential of DNA/RNA aptamers. This review describes the latest achievements in a variety of approaches to aptamers selection with an extended genetic alphabet.
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Affiliation(s)
- O M Antipova
- Lomonosov Moscow State University, Faculty of Chemistry, Moscow, 119991, Russia. .,Apto-Pharm Ltd., Moscow, 115564, Russia
| | - E G Zavyalova
- Lomonosov Moscow State University, Faculty of Chemistry, Moscow, 119991, Russia.,Apto-Pharm Ltd., Moscow, 115564, Russia
| | - A V Golovin
- Apto-Pharm Ltd., Moscow, 115564, Russia.,Lomonosov Moscow State University, Faculty of Bioengineering and Bioinformatics, Moscow, 119234, Russia.,Sechenov First Moscow State Medical University, Institute of Molecular Medicine, Moscow, 119991, Russia
| | - G V Pavlova
- Apto-Pharm Ltd., Moscow, 115564, Russia.,Sechenov First Moscow State Medical University, Institute of Molecular Medicine, Moscow, 119991, Russia.,Institute of Gene Biology, Russian Academy of Sciences, Moscow, 119334, Russia.,Burdenko National Scientific and Practical Center for Neurosurgery, Ministry of Healthcare of the Russian Federation, Moscow, 125047, Russia
| | - A M Kopylov
- Lomonosov Moscow State University, Faculty of Chemistry, Moscow, 119991, Russia.,Apto-Pharm Ltd., Moscow, 115564, Russia
| | - R V Reshetnikov
- Apto-Pharm Ltd., Moscow, 115564, Russia.,Lomonosov Moscow State University, Faculty of Bioengineering and Bioinformatics, Moscow, 119234, Russia.,Sechenov First Moscow State Medical University, Institute of Molecular Medicine, Moscow, 119991, Russia.,Institute of Gene Biology, Russian Academy of Sciences, Moscow, 119334, Russia
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Effect of Transport Parameters and Device Geometry on Extraction Kinetics and Efficiency in Direct Immersion Solid-phase Microextraction. Anal Chem 2018; 90:11548-11555. [PMID: 30146870 DOI: 10.1021/acs.analchem.8b02855] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
An alternative strategy to increase mass transfer entails geometry optimization of the extraction systems including design of solid-phase microextraction (SPME) probes. In this work, a computational model was employed to elucidate practical aspects such as efficiency and kinetics of extraction by employing several new geometries. Extraction of a model analyte at static conditions with the configurations, such as thin-film, fiber, coated tip, and nanoparticles, was numerically simulated to obtain an in-depth understanding of the advantages and limitations of each geometry in microextraction and exhaustive modes. The attained results associated with the equilibration time dependency on shape were in good agreement with previously reported experimental observations. They demonstrate that the mass-transfer is highly dependent on the size and shape of the coatings and increases with a decrease in size of the devices particularly rapidly below 10 μm caused by radial diffusion effect. Nevertheless, extractions performed using octadecyl-functionalized magnetic nanoparticles demonstrated that higher enrichment factors are achievable with the use of a fewer number of particles in comparison to factors achieved via exhaustive extraction, where a larger number of particles must be employed, confirming theoretical predictions. The conclusions reached are valid for any extraction method. The results obtained herein are very useful toward the design and optimization of future extraction technologies and approaches.
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Khodadadi M, Malekpour A, Mehrgardi MA. Aptamer functionalized magnetic nanoparticles for effective extraction of ultratrace amounts of aflatoxin M1 prior its determination by HPLC. J Chromatogr A 2018; 1564:85-93. [DOI: 10.1016/j.chroma.2018.06.022] [Citation(s) in RCA: 43] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2017] [Revised: 04/03/2018] [Accepted: 06/08/2018] [Indexed: 12/11/2022]
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45
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Molecularly imprinted polymers for the determination of organophosphorus pesticides in complex samples. Talanta 2018; 176:465-478. [DOI: 10.1016/j.talanta.2017.08.067] [Citation(s) in RCA: 92] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2017] [Revised: 08/16/2017] [Accepted: 08/20/2017] [Indexed: 11/20/2022]
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46
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Aptamers as the Agent in Decontamination Assays (Apta-Decontamination Assays): From the Environment to the Potential Application In Vivo. J Nucleic Acids 2017; 2017:3712070. [PMID: 29225967 PMCID: PMC5684557 DOI: 10.1155/2017/3712070] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2017] [Accepted: 09/10/2017] [Indexed: 12/21/2022] Open
Abstract
The binding specificity and affinity of aptamers have long been harnessed as the key elements in the development of aptamer-based assays, particularly aptasensing application. One promising avenue that is currently explored based on the specificity and affinity of aptamers is the application of aptamers in the decontamination assays. Aptamers have been successfully harnessed as the decontamination agents to remove contaminants from the environment and to decontaminate infectious elements. The reversible denaturation property inherent in aptamers enables the repeated usage of aptamers, which can immensely save the cost of decontamination. Analogous to the point-of-care diagnostics, there is no doubt that aptamers can also be deployed in the point-of-care aptamer-based decontamination assay, whereby decontamination can be performed anywhere and anytime for instantaneous decision-making. It is also prophesied that aptamers can also serve more than as a decontaminant, probably as a tool to capture and kill hazardous elements, particularly pathogenic agents.
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Xu Y, Tan S, Liang Q, Ding M. One-Step Facile Synthesis of Aptamer-Modified Graphene Oxide for Highly Specific Enrichment of Human A-Thrombin in Plasma. SENSORS 2017; 17:s17091986. [PMID: 28902155 PMCID: PMC5621013 DOI: 10.3390/s17091986] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/18/2017] [Revised: 08/21/2017] [Accepted: 08/22/2017] [Indexed: 01/25/2023]
Abstract
The enrichment of low-abundance proteins in complex biological samples plays an important role in clinical diagnostics and biomedical research. This work reports a novel one-step method for the synthesis of aptamer-modified graphene oxide (GO/Apt) nanocomposites, without introducing the use of gold, for the rapid and specific separation and enrichment of human α-thrombin from buffer solutions with highly concentrated interferences. The obtained GO/Apt nanocomposites had remarkable aptamer immobilization, up to 44.8 nmol/mg. Furthermore, GO/Apt nanocomposites exhibited significant specific enrichment efficiency for human α-thrombin (>90%), even under the presence of 3000-fold interference proteins, which was better than the performance of other nanomaterials. Finally, the GO/Apt nanocomposites were applied in the specific capturing of human α-thrombin in highly concentrated human plasma solutions with negligible nonspecific binding of other proteins, which demonstrated their prospects in rare protein analysis and biosensing applications.
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Affiliation(s)
- Yuan Xu
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology, Ministry of Education, Department of Chemistry, Tsinghua University, Beijing 100084, China.
| | - Siyuan Tan
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology, Ministry of Education, Department of Chemistry, Tsinghua University, Beijing 100084, China.
| | - Qionglin Liang
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology, Ministry of Education, Department of Chemistry, Tsinghua University, Beijing 100084, China.
| | - Mingyu Ding
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology, Ministry of Education, Department of Chemistry, Tsinghua University, Beijing 100084, China.
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Di Venere M, Viglio S, Cagnone M, Bardoni A, Salvini R, Iadarola P. Advances in the analysis of “less-conventional” human body fluids: An overview of the CE- and HPLC-MS applications in the years 2015-2017. Electrophoresis 2017; 39:160-178. [DOI: 10.1002/elps.201700276] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2017] [Revised: 07/28/2017] [Accepted: 07/31/2017] [Indexed: 12/15/2022]
Affiliation(s)
- Monica Di Venere
- Department of Molecular Medicine; Biochemistry Unit; University of Pavia; Pavia PV Italy
| | - Simona Viglio
- Department of Molecular Medicine; Biochemistry Unit; University of Pavia; Pavia PV Italy
| | - Maddalena Cagnone
- Department of Molecular Medicine; Biochemistry Unit; University of Pavia; Pavia PV Italy
| | - Anna Bardoni
- Department of Molecular Medicine; Biochemistry Unit; University of Pavia; Pavia PV Italy
| | - Roberta Salvini
- Department of Molecular Medicine; Biochemistry Unit; University of Pavia; Pavia PV Italy
| | - Paolo Iadarola
- Department of Biology and Biotechnologies “L. Spallanzani”; Biochemistry Unit; University of Pavia; Pavia PV Italy
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Xu J, Li W, Shen P, Li Y, Li Y, Deng Y, Zheng Q, Liu Y, Ding Z, Li J, Zheng T. Microfluidic fabrication of photonic encoding magnetized silica microspheres for aptamer-based enrichment of Ochratoxin A. Mikrochim Acta 2017. [DOI: 10.1007/s00604-017-2400-3] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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Carrasquilla C, Kapteyn E, Li Y, Brennan JD. Sol-Gel-Derived Biohybrid Materials Incorporating Long-Chain DNA Aptamers. Angew Chem Int Ed Engl 2017; 56:10686-10690. [PMID: 28556430 DOI: 10.1002/anie.201702859] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2017] [Indexed: 11/10/2022]
Abstract
Sol-gel-derived bio/inorganic hybrid materials have been examined for diverse applications, including biosensing, affinity chromatography and drug discovery. However, such materials have mostly been restricted to the interaction between entrapped biorecognition elements and small molecules, owing to the requirement for nanometer-scale mesopores in the matrix to retain entrapped biorecognition elements. Herein, we report on a new class of macroporous bio/inorganic hybrids, engineered through a high-throughput materials screening approach, that entrap micron-sized concatemeric DNA aptamers. We demonstrate that the entrapment of these long-chain DNA aptamers allows their retention within the macropores of the silica material, so that aptamers can interact with high molecular weight targets such as proteins. Our approach overcomes the major limitation of previous sol-gel-derived biohybrid materials by enabling molecular recognition for targets beyond small molecules.
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Affiliation(s)
- Carmen Carrasquilla
- Biointerfaces Institute and the Department of Biochemistry and Biomedical Sciences, McMaster University, 1280 Main Street West, Hamilton, ON, L8S 0A3, Canada), or
| | - Emily Kapteyn
- Biointerfaces Institute and the Department of Biochemistry and Biomedical Sciences, McMaster University, 1280 Main Street West, Hamilton, ON, L8S 0A3, Canada), or
| | - Yingfu Li
- Biointerfaces Institute and the Department of Biochemistry and Biomedical Sciences, McMaster University, 1280 Main Street West, Hamilton, ON, L8S 0A3, Canada), or
| | - John D Brennan
- Biointerfaces Institute and the Department of Biochemistry and Biomedical Sciences, McMaster University, 1280 Main Street West, Hamilton, ON, L8S 0A3, Canada), or
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