1
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Chang YC, Arnould B, Heemstra JM, Moeller KD. Developing Microelectrode Arrays for the Point-of-Care Multiplex Detection of Metabolites. Anal Chem 2024; 96:14571-14580. [PMID: 39183484 DOI: 10.1021/acs.analchem.4c02978] [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: 08/27/2024]
Abstract
DNA-aptamer-functionalized electrode arrays can provide an intriguing method for detecting pathogen-derived exometabolites. This work addresses the limitations of previous aptamer-based pathogen detection methods by introducing a novel surface design that bridges the gap between initial efforts in this area and the demands of a point-of-care device. Specifically, the use of a diblock copolymer coating on a high-density microelectrode array and Cu-mediated cross coupling reactions that allow for the exclusive functionalization of that coating by any electrode or set of electrodes in the array provides a device that is stable for 1 year and compatible with the multiplex detection of small-molecule targets. The new chemistry developed allows one to take advantage of a large number of electrodes in the array with one experiment described herein capitalizing on the use of 960 individually addressable electrodes.
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Affiliation(s)
- Yu-Chia Chang
- Department of Chemistry, Washington University in St. Louis, St. Louis, Missouri 63130, United States
| | - Benoit Arnould
- Department of Chemistry, Washington University in St. Louis, St. Louis, Missouri 63130, United States
| | - Jennifer M Heemstra
- Department of Chemistry, Washington University in St. Louis, St. Louis, Missouri 63130, United States
| | - Kevin D Moeller
- Department of Chemistry, Washington University in St. Louis, St. Louis, Missouri 63130, United States
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2
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Bayıl I, Sarowar Hossain M, Tamanna S, Jamir Uddin M, Mashood Ahamed FM, Jardan YAB, Bourhia M, Taskin Tok T. Aptamer biosensor design for the detection of endocrine-disrupting chemicals small organic molecules using novel bioinformatics methods. J Mol Graph Model 2024; 131:108785. [PMID: 38820705 DOI: 10.1016/j.jmgm.2024.108785] [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: 03/07/2024] [Revised: 04/25/2024] [Accepted: 04/29/2024] [Indexed: 06/02/2024]
Abstract
Endocrine-disrupting chemicals (EDCs) are substances that can disrupt the normal functioning of hormones.Using aptamers, which are biological recognition elements, biosensors can quickly and accurately detect EDCs in environmental samples. However, the elucidation of aptamer structures by conventional methods is highly challenging due to their complexity. This has led to the development of three-dimensional aptamer structures based on different models and techniques. To do this, we developed a way to predict the 3D structures of the SS DNA needed for this sequence by starting with an aptamer sequence that has biosensor properties specific to bisphenol-A (BPA), one of the chemicals found in water samples that can interfere with hormones. In addition, we will elucidate the intermolecular mechanisms and binding affinity between aptamers and endocrine disruptors using bioinformatics techniques such as molecular docking, molecular dynamics simulation, and binding energies. The outcomes of our study are to compare modeling programs and force fields to see how reliable they are and how well they agree with results found in the existing literature, to understand the intermolecular mechanisms and affinity of aptamer-based biosensors, and to find a new way to make aptamers that takes less time and costs less.
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Affiliation(s)
- Imren Bayıl
- Department of Bioinformatics and Computational Biology, Gaziantep University, Turkey.
| | - Md Sarowar Hossain
- Department of Pharmacy, Faculty of Allied Health Sciences, Daffodil International University, Birulia 1216, Ashulia, Dhaka, Bangladesh; Faculty of Pharmaceutical Science, Assam Down Town University, Guwahati, Assam, India.
| | - Sonia Tamanna
- Department of Biochemistry and Molecular Biology, University of Dhaka. Dhaka-1000, Bangladesh.
| | - Md Jamir Uddin
- Department of Chemistry, Hajee Mohammad Danesh Science and Technology University, Dinajpur, 5200, Bangladesh.
| | - F M Mashood Ahamed
- PG and Research Department of Chemistry, Jamal Mohamed College (Autonomous), Tiruchirappalli, 620020, India; Affiliated to Bharathidasan University, Tamilnadu, India.
| | - Yousef A Bin Jardan
- Department of Pharmaceutics, College of Pharmacy, King Saud University, P.O. Box 11451, Riyadh, Saudi Arabia.
| | - Mohammed Bourhia
- Department of Chemistry and Biochemistry, Faculty of Medicine and Pharmacy, Ibn Zohr University, Laayoune 70000, Morocco.
| | - Tugba Taskin Tok
- Faculty of Science, Department of Chemistry, Gaziantep University, Turkey.
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3
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Caglayan MO, Şahin S, Üstündağ Z. An Overview of Aptamer-Based Sensor Platforms for the Detection of Bisphenol-A. Crit Rev Anal Chem 2024; 54:1320-1341. [PMID: 36001397 DOI: 10.1080/10408347.2022.2113359] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/15/2022]
Abstract
Endocrine disruptive compounds are natural or anthropogenic environmental micropollutants that alter the function of the endocrine system ultimately damaging the metabolism. Bisphenol A (BPA) is the most common of these pollutants and it is often used in epoxy coatings and polycarbonates as a plasticizer. Therefore, monitoring BPA levels in different environments is very important and challenging. In recent years, an increasing number of BPA detection methods have been proposed. This article presents a critical review of aptamer-based electrochemical, fluorescence-based, colorimetric, and several other BPA detection platforms published in the last decade. Furthermore, a statistical evaluation has been made using principle component analysis showing analytical performance parameters do not create very different clusters. Comparisons to other BPA detection methods are also presented so that the reader has an overall literature overview.
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Affiliation(s)
| | - Samet Şahin
- Department of Bioengineering, Bilecik Şeyh Edebali University, Bilecik, Turkey
| | - Zafer Üstündağ
- Department of Chemistry, Kütahya Dumlupınar University, Kütahya, Turkey
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4
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Zhang Y, Li L, Li J, Ma Q. Integrating aptasensor with an explosive mass-tag signal amplification strategy for ultrasensitive and multiplexed analysis using a miniature mass spectrometer. Biosens Bioelectron 2024; 249:116010. [PMID: 38215638 DOI: 10.1016/j.bios.2024.116010] [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: 11/08/2023] [Revised: 12/23/2023] [Accepted: 01/05/2024] [Indexed: 01/14/2024]
Abstract
Mass probes attached with aptamers and mass tags offer excellent specificity and sensitivity for multiplexed detection, wherein the dissociation of mass tags from the mass probes is as important as their labeling. Herein, aggregation-induced emission luminogen (AIEgen)-tagged mass probes (AIEMPs) were established to analyze estrogens, which integrated aptasensor with an explosive mass-tag signal amplification strategy via a simple ultrasound-assisted emulsification of nanoliposomes. The AIEMPs were assembled by the hybridization of aptamer-modified Fe3O4 nanoparticles (Fe NPs@Apt) and nanoliposomes loaded with massive AIEgen mass tags and partially complementary DNA strands (AIE NLs@cDNA). The aptamer was preferentially and specifically bound to estrogen, resulting in the detachment of AIE NLs from AIEMPs. Subsequently, the AIEMPs were deposited with electrospray solvents for explosive release of mass tags. Using nanoelectrospray ionization mass spectrometry (nanoESI-MS), the AIEMP-based aptasensor achieved ultrasensitive analysis of estrogens with limits of detection of 0.168-0.543 pg/mL and accuracies in the range of 87.9-114.0%. Compared to direct nanoESI-MS detection, the AIEMP-based aptasensor provides a signal amplification of four orders of magnitude. Furthermore, the utilization of different AIEMPs enables multiplexed detection of three estrogens with a miniature mass spectrometer, showing promising potential for on-site detection. This work expands the diversity of mass-tagging strategy and provides a versatile mass probe-based aptasensor platform for routine MS detection of trace analytes.
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Affiliation(s)
- 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
| | - 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
| | - Jingjing Li
- College of Chemistry, Tianjin Normal University, Tianjin 300387, 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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5
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Halmagyi TG, Alsharif NB, Berkal MA, Hempenius MA, Szilagyi I, Vancso GJ, Nardin C. Aptamer Clicked Poly(ferrocenylsilanes) at Au Nanoparticles as Platforms with Multiple Function [†]. Chemistry 2024; 30:e202303979. [PMID: 38206093 DOI: 10.1002/chem.202303979] [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: 11/29/2023] [Revised: 01/10/2024] [Accepted: 01/10/2024] [Indexed: 01/12/2024]
Abstract
Aptamers are widely used in biosensing due to their specific sensitivity toward many targets. Thus, gold nanoparticle (AuNP) aptasensors are subject to intense research due to the complementary properties of aptamers as sensing elements and AuNPs as transducers. We present herein a novel method for the functional coupling of thrombin-specific aptamers to AuNPs via an anionic, redox-active poly(ferrocenylsilane) (PFS) polyelectroyte. The polymer acts as a co-reductant and stabilizer for the AuNPs, provides grafting sites for the aptamer, and can be used as a redox sensing element, making the aptamer-PFS-AuNP composite (aptamer-AuNP) a promising model system for future multifunctional sensors. The aptamer-AuNPs exhibit excellent colloidal stability in high ionic strength environments owing to the combined electrosteric stabilizing effects of the aptamer and the PFS. The synthesis of each assembly element is described, and the colloidal stability and redox responsiveness are studied. As an example to illustrate applications, we present results for thrombin sensitivity and specificity using the specific aptamer.
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Affiliation(s)
- Tibor G Halmagyi
- E2S UPPA, CNRS, IPREM, Universite de Pau et des Pays de l'Adour F-, 64053, Pau, France
| | - Nizar B Alsharif
- MTA-SZTE Momentum Biocolloids Research Group, Department of Physical Chemistry and Materials Science, Interdisciplinary Research Center, University of Szeged H-, 6720, Szeged, Hungary
| | - Mohamed A Berkal
- E2S UPPA, CNRS, IPREM, Universite de Pau et des Pays de l'Adour F-, 64053, Pau, France
| | - Mark A Hempenius
- Sustainable Polymer Chemistry, University of Twente NL-, 7522NB, Enschede, the Netherlands
| | - Istvan Szilagyi
- MTA-SZTE Momentum Biocolloids Research Group, Department of Physical Chemistry and Materials Science, Interdisciplinary Research Center, University of Szeged H-, 6720, Szeged, Hungary
| | - G Julius Vancso
- Sustainable Polymer Chemistry, University of Twente NL-, 7522NB, Enschede, the Netherlands
| | - Corinne Nardin
- E2S UPPA, CNRS, IPREM, Universite de Pau et des Pays de l'Adour F-, 64053, Pau, France
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6
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Chen L, Yang G, Qu F. Advances of aptamer-based small-molecules sensors in body fluids detection. Talanta 2024; 268:125348. [PMID: 37925822 DOI: 10.1016/j.talanta.2023.125348] [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: 06/01/2023] [Revised: 10/24/2023] [Accepted: 10/25/2023] [Indexed: 11/07/2023]
Abstract
The field of aptamer-based sensing has evolved considerably over the past three decades. The aptamer sensor-based detection of small-molecule targets in body fluids is designed for real-time or rapid, low-cost, non- or minimally invasive tracking and diagnosis of human health status. It can be achieved by specifically monitoring biomarkers or metabolites excreted from various body fluids, including blood, urine, cerebrospinal fluid, saliva, ect. This article reviews a comprehensive collection of aptamer-based sensors for detecting small-molecule in various body fluids. A comparative analysis of aptamer features, emerging chemistry, advanced sensing materials, transduction techniques, and detection performance is conducted, and the strengths and pitfalls of each approach are discussed. Finally, the development process and application challenges of aptamer-based sensors in the detection of small-molecule in body fluids are presented and discussed.
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Affiliation(s)
- Li Chen
- School of Life Science, Key Laboratory of Molecular Medicine and Biotherapy, Key Laboratory of Medical Molecule Science and Pharmaceutics Engineering, Beijing Institute of Technology, Beijing, 100081, China
| | - Ge Yang
- CAMS Key Laboratory of Antiviral Drug Research, Beijing Key Laboratory of Antimicrobial Agents, NHC Key Laboratory of Biotechnology of Antibiotics, Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100050, China.
| | - Feng Qu
- School of Life Science, Key Laboratory of Molecular Medicine and Biotherapy, Key Laboratory of Medical Molecule Science and Pharmaceutics Engineering, Beijing Institute of Technology, Beijing, 100081, China.
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7
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Kizilkurtlu AA, Demirbas E, Agel HE. Electrochemical aptasensors for pathogenic detection toward point-of-care diagnostics. Biotechnol Appl Biochem 2023; 70:1460-1479. [PMID: 37277950 DOI: 10.1002/bab.2485] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2023] [Accepted: 05/20/2023] [Indexed: 06/07/2023]
Abstract
A biosensor system refers to a biomedical device, which detects biological, chemical, or biochemical components by converting those signals to an electrical signal by utilizing and uniting physical or chemical transducer with biorecognition elements. An electrochemical biosensor is generally based on the reaction of either production or consumption of electrons under a three-electrode system. Biosensor systems are exploited in a wide range of areas, such as medicine, agriculture, husbandry, food, industry, environment protection, quality control, waste disposal, and the military. Pathogenic infections are the third leading cause of death worldwide after cardiovascular diseases and cancer. Therefore, there is an urgent need for effective diagnostic tools to control food, water, and soil contamination result in protecting human life and health. Aptamers are peptide or oligonucleotide-based molecules that show very high affinity to their targets that are produced from large pools of random amino acid or oligonucleotide sequences. Generally, aptamers have been utilized for fundamental sciences and clinical implementations for their target-specific affinity and have been intensely exploited for different kinds of biosensor applications for approximately 30 years. The convergence of aptamers with biosensor systems enabled the construction of voltammetric, amperometric, and impedimetric biosensors for the detection of specific pathogens. In this review, electrochemical aptamer biosensors were evaluated by discussing the definition, types, and production techniques of aptamers, the advantages of aptamers as a biological recognition element against their alternatives, and a wide range of aptasensor examples from literature in the detection of specific pathogens.
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Affiliation(s)
| | - Erhan Demirbas
- Department of Chemistry, Gebze Technical University, Gebze, Kocaeli, Turkey
| | - Hatice Esra Agel
- BioNano Functional Materials Technologies Research Group TÜBİTAK - Marmara Research Center, Gebze, Kocaeli, Turkey
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8
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Zhao Y, Zhu L, Ding Y, Ji W, Liu K, Liu K, Gao B, Tao X, Dong YG, Wang FQ, Wei D. Simple and cheap CRISPR/Cas12a biosensor based on plug-and-play of DNA aptamers for the detection of endocrine-disrupting compounds. Talanta 2023; 263:124761. [PMID: 37267883 DOI: 10.1016/j.talanta.2023.124761] [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: 03/15/2023] [Revised: 05/10/2023] [Accepted: 05/29/2023] [Indexed: 06/04/2023]
Abstract
Endocrine-disrupting compounds (EDCs) are widely distributed in the environment. Here, we present a CRISPR/Cas12a (CAS) biosensor based on DNA aptamers for point-of-care detection of EDCs. Two typical EDCs, 17β-estradiol (E2) and bisphenol A (BPA), were selected to be detected by the CAS biosensors via the plug-and-play of their DNA aptamers. The results indicated that the performance of the CAS biosensors can be well regulated by controlling the trans-cleavage activity of Cas12a on a single-stranded DNA reporter and optimizing the sequence and ratio of DNA aptamer and activator DNA. Ultimately, two reliable and specific biosensors were developed, with the linear range and limit of detection of 0.2-25 nM and 0.08 nM for E2 and of 0.1-250 nM and 0.06 nM for BPA, respectively. Compared to the existing detection methods, the CAS biosensors showed higher reliability and sensitivity with simple operation, short detection time, and no costly equipment.
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Affiliation(s)
- Yunqiu Zhao
- State Key Laboratory of Bioreactor Engineering, Newworld Institute of Biotechnology, East China University of Science and Technology, Shanghai, 200237, China; Key Laboratory of Biocatalysis and Intelligent Manufacturing (ECUST), China National Light Industry, Shanghai, 200237, China
| | - Lin Zhu
- State Key Laboratory of Bioreactor Engineering, Newworld Institute of Biotechnology, East China University of Science and Technology, Shanghai, 200237, China
| | - Yaxue Ding
- State Key Laboratory of Bioreactor Engineering, Newworld Institute of Biotechnology, East China University of Science and Technology, Shanghai, 200237, China
| | - Weiting Ji
- State Key Laboratory of Bioreactor Engineering, Newworld Institute of Biotechnology, East China University of Science and Technology, Shanghai, 200237, China
| | - Kun Liu
- State Key Laboratory of Bioreactor Engineering, Newworld Institute of Biotechnology, East China University of Science and Technology, Shanghai, 200237, China
| | - Ke Liu
- State Key Laboratory of Bioreactor Engineering, Newworld Institute of Biotechnology, East China University of Science and Technology, Shanghai, 200237, China; Key Laboratory of Biocatalysis and Intelligent Manufacturing (ECUST), China National Light Industry, Shanghai, 200237, China
| | - Bei Gao
- State Key Laboratory of Bioreactor Engineering, Newworld Institute of Biotechnology, East China University of Science and Technology, Shanghai, 200237, China; Key Laboratory of Biocatalysis and Intelligent Manufacturing (ECUST), China National Light Industry, Shanghai, 200237, China
| | - Xinyi Tao
- State Key Laboratory of Bioreactor Engineering, Newworld Institute of Biotechnology, East China University of Science and Technology, Shanghai, 200237, China; Key Laboratory of Biocatalysis and Intelligent Manufacturing (ECUST), China National Light Industry, Shanghai, 200237, China
| | - Yu-Guo Dong
- Key Laboratory of Biocatalysis and Intelligent Manufacturing (ECUST), China National Light Industry, Shanghai, 200237, China.
| | - Feng-Qing Wang
- State Key Laboratory of Bioreactor Engineering, Newworld Institute of Biotechnology, East China University of Science and Technology, Shanghai, 200237, China; Key Laboratory of Biocatalysis and Intelligent Manufacturing (ECUST), China National Light Industry, Shanghai, 200237, China.
| | - Dongzhi Wei
- State Key Laboratory of Bioreactor Engineering, Newworld Institute of Biotechnology, East China University of Science and Technology, Shanghai, 200237, China; Key Laboratory of Biocatalysis and Intelligent Manufacturing (ECUST), China National Light Industry, Shanghai, 200237, China
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9
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Yun W, Lin Y, Wang R, Ha X, Xie N, Xiong X, Xiong Z, Li N, Wang X, Yang L. Dual-amplification colorimetric detection of bisphenol A based on catalytic hairpin assembly and DNAzyme-caused fragment self-assembly hybridization chain reaction. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2023; 15:2522-2527. [PMID: 37191086 DOI: 10.1039/d3ay00409k] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
An efficient and innovative strategy for colorimetric detection of bisphenol A (BPA) is shown here based on target-induced catalytic hairpin assembly (CHA) and DNAzyme-caused fragment self-assembly hybridization chain reaction (HCR). BPA can bind with its aptamer hairpin to trigger CHA, thus forming Y-shaped DNA nanostructures with an enzyme-strand (E-DNA) tail. Subsequently, the E-DNA can cyclically cleave the substrate hairpin, generating many fragments which can cause self-assembly HCR to form long strand DNA. Finally, the formed long strand DNA can hybridize with short single strand DNA on AuNPs, causing the color change of AuNPs from red to blue. Six important detection conditions of the proposed aptasensor were optimized. Under optimal conditions, the biosensor has high sensitivity for BPA detection at concentrations ranging from 0.8 pM to 500 pM and the detection limit is as low as 0.2 pM, providing a promising prospective ultrasensitive detection of BPA.
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Affiliation(s)
- Wen Yun
- College of Environment and Resources, Chongqing Technology and Business University, Chongqing 400067, China
| | - Yiyan Lin
- College of Environment and Resources, Chongqing Technology and Business University, Chongqing 400067, China
| | - Ruiqi Wang
- College of Environment and Resources, Chongqing Technology and Business University, Chongqing 400067, China
| | - Xia Ha
- College of Environment and Resources, Chongqing Technology and Business University, Chongqing 400067, China
| | - Nana Xie
- College of Environment and Resources, Chongqing Technology and Business University, Chongqing 400067, China
| | - Xiaoli Xiong
- College of Environment and Resources, Chongqing Technology and Business University, Chongqing 400067, China
| | - Zhengwei Xiong
- Collaborative Innovation Centre for Child Nutrition and Health Development, Chongqing University of Education, Chongqing 400067, P. R. China
| | - Ning Li
- College of Environment and Resources, Chongqing Technology and Business University, Chongqing 400067, China
| | - Xingmin Wang
- College of Environment and Resources, Chongqing Technology and Business University, Chongqing 400067, China
| | - Lizhu Yang
- School of Pharmaceutical Sciences, Wenzhou Medical University, Wenzhou 325035, China
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10
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Liu L, Yu H, Zhao Q. The Characterization of Binding between Aptamer and Bisphenol A and Developing Electrochemical Aptasensors for Bisphenol A with Rationally Engineered Aptamers. BIOSENSORS 2022; 12:bios12110913. [PMID: 36354422 PMCID: PMC9688307 DOI: 10.3390/bios12110913] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2022] [Revised: 10/16/2022] [Accepted: 10/17/2022] [Indexed: 06/12/2023]
Abstract
Bisphenol A (BPA) is widely used in the manufacture of polycarbonate and epoxy-resin-based products, and BPA contamination often happens in a variety of types of environment and food stuffs. BPA can cause many harmful effects to health due to its high toxicity. The rapid detection of BPA is of great significance in environmental monitoring and food safety. Nucleic acid aptamers show advantages in biosensors due to good chemical stability, the ease of labeling functional groups, and target binding that induces conformation change. Here, we performed a thorough characterization of the binding performance of one 60-nt anti-BPA DNA aptamer with isothermal titration calorimetry (ITC). We found the crucial region of the aptamer sequence for affinity binding with BPA, and the aptamer was able to be truncated to 29-nt DNA without losing affinity. We then developed a simple reagent-less electrochemical aptamer-based sensor for rapid BPA detection with this engineered aptamer. The truncated aptamer with a redox tag methylene blue (MB) was immobilized on a gold electrode. BPA-binding induced the conformation change of the MB-labeled aptamer, moving the MB close to the electrode surface and causing a significant current increase in MB in square wave voltammetry (SWV). Under optimized conditions, we achieved the quantitative detection of BPA with a detection limit of BPA at 0.1 μM. This sensor showed quick response to BPA and could be regenerated by washing with deionized water. This sensor was selective, and it allowed detecting BPA in complex samples, showing its potential in practice. This study will help in further applications of the aptamers of BPA.
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Affiliation(s)
- Liying Liu
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Hao Yu
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Qiang Zhao
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- School of Environment, Hangzhou Institute for Advanced Study, UCAS, Hangzhou 310024, China
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11
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Ren S, Cho S, Lin R, Gedi V, Park S, Ahn CW, Lee DK, Lee MH, Lee S, Kim S. Nonbiodegradable Spiegelmer-Driven Colorimetric Biosensor for Bisphenol A Detection. BIOSENSORS 2022; 12:bios12100864. [PMID: 36291000 PMCID: PMC9599196 DOI: 10.3390/bios12100864] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/09/2022] [Revised: 09/27/2022] [Accepted: 10/05/2022] [Indexed: 05/30/2023]
Abstract
Spiegelmers are enantiomers of natural D-oligonucleotides that bind to targets with distinct structures such as aptamers. The high susceptibility of natural D-form aptamers to nucleases greatly hinders their application in biological environments. Here, a nonbiodegradable spiegelmer-based platform for the sensitive detection of bisphenol A (BPA) was developed. Due to the symmetric molecule of BPA, the D-form aptamer can be directly converted into mirror forms via chemical synthesis. Aptamer-target interactions that involve chemically synthesized spiegelmers were characterized by biolayer interferometry, and their stabilities were tested in various biological fluids by exposure to nucleases. We demonstrate for the first time the use of a nuclease-resistant spiegelmer in a simple, label-free gold nanoparticle-based colorimetric assay to detect BPA in a highly sensitive and selective manner. The aptasensor exhibits an LOD of 0.057 ng/mL and dynamic range of 105 (100 pg/mL to 10 mg/mL). With sensing capacity and biological stability, the developed aptasensor shows great potential to utilize in in-field applications such as water quality monitoring.
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Affiliation(s)
| | | | - Ruixan Lin
- School of Integrative Engineering, Chung-Ang University, Seoul 06974, Korea
| | - Vinayakumar Gedi
- Global Research Laboratory (GRL) for RNAi Medicine, Department of Chemistry, Sungkyunkwan University, Suwon 16419, Korea
| | - Sunyoung Park
- Gangnam Biomedical Research Center, Yonsei University College of Medicine, Seoul 06273, Korea
| | - Chul Woo Ahn
- Division of Endocrinology Department of Internal Medicine, Yonsei College of Medicine, Seoul 03722, Korea
- Severance Institute for Vascular and Metabolic Research, Yonsei University College of Medicine, Seoul 03722, Korea
| | - Dong-Ki Lee
- Global Research Laboratory (GRL) for RNAi Medicine, Department of Chemistry, Sungkyunkwan University, Suwon 16419, Korea
| | - Min-Ho Lee
- School of Integrative Engineering, Chung-Ang University, Seoul 06974, Korea
| | - Sangwook Lee
- PCL Inc., Seoul 05854, Korea
- Research Center for Advanced Science and Technology (RCAST), The University of Tokyo, Tokyo 153-8904, Japan
| | - Soyoun Kim
- PCL Inc., Seoul 05854, Korea
- Convergence Research Institute, Korea University, Seoul 02841, Korea
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12
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Şahin S, Üstündağ Z, Caglayan MO. Spectroscopic ellipsometry-based aptasensor platform for bisphenol a detection. Talanta 2022. [DOI: 10.1016/j.talanta.2022.123885] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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13
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Li T, Wang J, Zhu L, Li C, Chang Q, Xu W. Advanced screening and tailoring strategies of pesticide aptamer for constructing biosensor. Crit Rev Food Sci Nutr 2022; 63:10974-10994. [PMID: 35699641 DOI: 10.1080/10408398.2022.2086210] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
The rapid development of aptamers has helped address the challenges presented by the wide existed pesticides contaminations. Screening of aptamers with excellent performance is a prerequisite for successfully constructing biosensors, while further tailoring of aptamers with enhanced activity greatly improved the assay performance. Firstly, this paper reviewed the advanced screening strategies for pesticides aptamers, including immobilization screening that preserves the native structures of targets, non-immobilized screening based on nanomaterials, capillary electrophoresis-systematic evolution of ligands by exponential enrichment (CE-SELEX), virtual screening in silico, high-throughput selection, and rational secondary library generation methods, which contributed significantly to improve the success rate of screening, reduce the screening time, and ensure aptamer binding affinity. Secondly, the precise tailoring strategies for pesticides aptamers were modularly elaborated, containing deletion, splitting, elongation, and fusion, which provided various advantages like cost-efficiency, enhanced binding affinity, and new derived functional motifs. Thirdly, the developed aptamer-based biosensors (aptasensors) for pesticide detection were systematically reviewed according to the different signal output modes. Finally, the challenges and future perspectives of pesticide detection are discussed comprehensively.
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Affiliation(s)
- Tianshun Li
- Key Laboratory of Precision Nutrition and Food Quality, Department of Nutrition and Health, China Agricultural University,, Beijing, China
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
| | - Jia Wang
- Key Laboratory of Precision Nutrition and Food Quality, Department of Nutrition and Health, China Agricultural University,, Beijing, China
| | - Longjiao Zhu
- Key Laboratory of Precision Nutrition and Food Quality, Department of Nutrition and Health, China Agricultural University,, Beijing, China
| | - Chenwei Li
- Key Laboratory of Precision Nutrition and Food Quality, Department of Nutrition and Health, China Agricultural University,, Beijing, China
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
| | - Qiaoying Chang
- Key Laboratory of Precision Nutrition and Food Quality, Department of Nutrition and Health, China Agricultural University,, Beijing, China
| | - Wentao Xu
- Key Laboratory of Precision Nutrition and Food Quality, Department of Nutrition and Health, China Agricultural University,, Beijing, China
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14
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Aptamer-Based Biosensors for the Analytical Determination of Bisphenol A in Foodstuffs. APPLIED SCIENCES-BASEL 2022. [DOI: 10.3390/app12083752] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Bisphenol A (BPA) is a synthetic compound utilized to manufacture plastics for Food Contact Materials (FCMs) or resins for the inside of food containers. Since it was recognized as an Endocrine-Disrupting Chemical (EDC), its implications in pathologies, such as cancer, obesity, diabetes, immune system alterations, and developmental and mental disorders, have been widely documented. Diet is considered the main source of exposure for humans to BPA. Consequently, continuous monitoring of the levels of BPA in foods is necessary to assess the risk associated with its consumption in one’s diet. So far, many reviews have been published on biosensors and aptamer-based biosensors, but none of them focus on their applications in their analyses of bisphenols in food matrices. With this review, the authors aim to fill this gap and to take a snapshot of the current state-of-the-art research on aptasensors designed to detect BPA in food matrices. Given that a new TDI value has recently been proposed by the EFSA (0.04 ng/kg), the search for new sensitive tools for the quantitative analysis of BPA is more topical and urgent than ever. From this perspective, aptasensors prove to be a good alternative to traditional analytical techniques for determining BPA levels in food.
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15
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Qian S, Chang D, He S, Li Y. Aptamers from random sequence space: Accomplishments, gaps and future considerations. Anal Chim Acta 2022; 1196:339511. [DOI: 10.1016/j.aca.2022.339511] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2021] [Revised: 01/12/2022] [Accepted: 01/15/2022] [Indexed: 02/07/2023]
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16
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Broza YY, Haick H. Biodiagnostics in an era of global pandemics-From biosensing materials to data management. VIEW 2022; 3:20200164. [PMID: 34766159 PMCID: PMC8441813 DOI: 10.1002/viw.20200164] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2020] [Revised: 03/10/2021] [Accepted: 04/12/2021] [Indexed: 12/15/2022] Open
Abstract
The novel corona virus SARS-CoV-2 (COVID-19) has exposed the world to challenges never before seen in fast diagnostics, monitoring, and prevention of the outbreak. As a result, different approaches for fast diagnostic and screening are made and yet to find the ideal way. The current mini-review provides and examines evidence-based innovative and rapid chemical sensing and related biodiagnostic solutions to deal with infectious disease and related pandemic emergencies, which could offer the best possible care for the general population and improve the approachability of the pandemic information, insights, and surrounding contexts. The review discusses how integration of sensing devices with big data analysis, artificial Intelligence or machine learning, and clinical decision support system, could improve the accuracy of the recorded patterns of the disease conditions within an ocean of information. At the end, the mini-review provides a prospective on the requirements to improve our coping of the pandemic-related biodiagnostics as well as future opportunities.
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Affiliation(s)
- Yoav Y. Broza
- Department of Chemical Engineering and Russell Berrie Nanotechnology InstituteTechnion‐Israel Institute of TechnologyHaifaIsrael
| | - Hossam Haick
- Department of Chemical Engineering and Russell Berrie Nanotechnology InstituteTechnion‐Israel Institute of TechnologyHaifaIsrael
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17
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Bao Y, Ye S, Zhou C, Chen L. Molybdenum (IV) Sulfide Nanosheet-Based Aptasensor for the Label-Free Determination of Bisphenol A (BPA) by Electrochemical Impedance Spectroscopy (EIS). ANAL LETT 2022. [DOI: 10.1080/00032719.2022.2039933] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/01/2022]
Affiliation(s)
- Yonghua Bao
- Department of Applied Engineering, Zhejiang Economic & Trade Polytechnic, Hangzhou, China
| | - Sudan Ye
- Department of Applied Engineering, Zhejiang Economic & Trade Polytechnic, Hangzhou, China
- Food Inspection Center, Zhejiang Economic & Trade Polytechnic, Hangzhou, China
| | - Chenyuan Zhou
- Department of Applied Engineering, Zhejiang Economic & Trade Polytechnic, Hangzhou, China
| | - Ling Chen
- Department of Applied Engineering, Zhejiang Economic & Trade Polytechnic, Hangzhou, China
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18
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Cao J, Lv P, Shu Y, Wang J. Aptamer/AuNPs encoders endow precise identification and discrimination of lipoprotein subclasses. Biosens Bioelectron 2022; 196:113743. [PMID: 34740115 DOI: 10.1016/j.bios.2021.113743] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2021] [Revised: 10/21/2021] [Accepted: 10/27/2021] [Indexed: 12/29/2022]
Abstract
Lipoproteins are composed of lipid and apolipoproteins in conjunction with noncovalent bonds. Different lipoprotein categories, particularly Low-Density Lipoprotein (LDL), High-Density Lipoprotein (HDL) and Very Low-Density Lipoprotein (VLDL) disagree in roles for the occurrence and development of cardiovascular disease, and their exact discrimination are critically required. Herein, a multiplexed sensor platform combined with an encoder system is introduced for accurate analysis of multiple lipoproteins in complex matrix. Three encoders, i.e., bare AuNPs, AuNPs-anti-LDL aptamer (AuNPs-apt) and AuNPs-non-aptamer DNA (AuNPs-n), facilitate precise discrimination for lipoprotein subclasses at a fairly low level of 0.490 nM. The binding of single-stranded DNA (ssDNA) with AuNPs prevents them from gathering in a relatively higher level of salt. In targets stimuli, the weaker binding between ssDNA and AuNPs is destroyed to certain degrees depending on the differential affinities among DNA, AuNPs, and multifarious proteins. It results in distinct aggregation states of encoders to cause diverse ultraviolet absorption, which may be statistically characterized to achieve highly facile and precise identification for lipoprotein subclasses. Remarkably, LDL at 0.05-37.5 μg/mL could be identified by the encoder system. 11 typical proteins including three lipoprotein subclasses in human serum were also precisely discriminated. Furthermore, the accurate identification of lipoprotein subclasses with different molar ratios from real clinical serum samples were obtained.
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Affiliation(s)
- Jianfang Cao
- Department of Chemistry, College of Sciences, Northeastern University, Shenyang, 110819, China
| | - Peiying Lv
- Department of Chemistry, College of Sciences, Northeastern University, Shenyang, 110819, China
| | - Yang Shu
- Department of Chemistry, College of Sciences, Northeastern University, Shenyang, 110819, China.
| | - Jianhua Wang
- Department of Chemistry, College of Sciences, Northeastern University, Shenyang, 110819, China.
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19
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Cao J, Shuai M, Shu Y, Wang J. A plasmon resonance-inspired discriminator unscrambles lipoprotein subtypes. Analyst 2022; 147:3035-3042. [DOI: 10.1039/d2an00550f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The identification of lipoprotein subtypes and other proteins based on the PSS-AuNR plasmon resonance discriminator platform.
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Affiliation(s)
- Jianfang Cao
- Research Center for Analytical Sciences, Department of Chemistry, College of Sciences, Northeastern University, Shenyang 110819, China
| | - Mingshu Shuai
- Research Center for Analytical Sciences, Department of Chemistry, College of Sciences, Northeastern University, Shenyang 110819, China
| | - Yang Shu
- Research Center for Analytical Sciences, Department of Chemistry, College of Sciences, Northeastern University, Shenyang 110819, China
| | - Jianhua Wang
- Research Center for Analytical Sciences, Department of Chemistry, College of Sciences, Northeastern University, Shenyang 110819, China
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20
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Tsekeli TR, Sebokolodi TI, Sipuka DS, Olorundare FO, Akanji SP, Nkosi D, Arotiba OA. A poly (propylene imine) dendrimer – Carbon nanofiber based aptasensor for bisphenol A in water. J Electroanal Chem (Lausanne) 2021. [DOI: 10.1016/j.jelechem.2021.115783] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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21
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Kim DM, Go MJ, Lee J, Na D, Yoo SM. Recent Advances in Micro/Nanomaterial-Based Aptamer Selection Strategies. Molecules 2021; 26:5187. [PMID: 34500620 PMCID: PMC8434002 DOI: 10.3390/molecules26175187] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2021] [Revised: 08/20/2021] [Accepted: 08/24/2021] [Indexed: 02/07/2023] Open
Abstract
Aptamers are artificial nucleic acid ligands that have been employed in various fundamental studies and applications, such as biological analyses, disease diagnostics, targeted therapeutics, and environmental pollutant detection. This review focuses on the recent advances in aptamer discovery strategies that have been used to detect various chemicals and biomolecules. Recent examples of the strategies discussed here are based on the classification of these micro/nanomaterial-mediated systematic evolution of ligands by exponential enrichment (SELEX) platforms into three categories: bead-mediated, carbon-based nanomaterial-mediated, and other nanoparticle-mediated strategies. In addition to describing the advantages and limitations of the aforementioned strategies, this review discusses potential strategies to develop high-performance aptamers.
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Affiliation(s)
- Dong-Min Kim
- Center for Applied Life Science, Hanbat National University, Daejeon 34158, Korea;
| | - Myeong-June Go
- School of Integrative Engineering, Chung-Ang University, Seoul 06974, Korea; (M.-J.G.); (J.L.)
| | - Jingyu Lee
- School of Integrative Engineering, Chung-Ang University, Seoul 06974, Korea; (M.-J.G.); (J.L.)
| | - Dokyun Na
- School of Integrative Engineering, Chung-Ang University, Seoul 06974, Korea; (M.-J.G.); (J.L.)
| | - Seung-Min Yoo
- School of Integrative Engineering, Chung-Ang University, Seoul 06974, Korea; (M.-J.G.); (J.L.)
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22
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Tapp M, Dennis P, Naik RR, Milam VT. Competition-Enhanced Ligand Selection to Screen for DNA Aptamers for Spherical Gold Nanoparticles. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2021; 37:9043-9052. [PMID: 34279112 DOI: 10.1021/acs.langmuir.1c01053] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
The Competition-Enhanced Ligand Selection (CompELS) approach was used to identify aptamer candidates for spherical gold nanoparticles (AuNPs). This approach differs from conventional Systematic Evolution of Ligands by EXponential enrichment (SELEX)-based aptamer screening by eliminating repeated elution and polymerase chain reaction (PCR) amplification steps of bound candidate sequences between each selection round to continually enrich the candidate aptamer pool with oligonucleotides remaining from an earlier SELEX selection round. Instead, a new pool of unenriched oligonucleotides is added during each CompELS selection round to compete with existing target-bound oligonucleotides species for target binding sites. In this study, 24 aptamer candidates for AuNPs were identified using the CompELS approach and then compared to reveal similarities in their primary structures and their predicted secondary structures. No strong patterns in individual base identities (position-dependent) nor in segments of consecutive bases (independent of position) prevailed among the identified sequences. Motifs in predicted secondary structures, on the other hand, were shared among otherwise unrelated aptamer sequences. These motifs were revealed using a systematic classification and enumeration of distinct secondary structure elements, namely, hairpins, duplexes, single-stranded segments, interior loops, bulges, and multibranched loops.
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Affiliation(s)
| | - Patrick Dennis
- Materials & Manufacturing Directorate, Soft Matter Materials Branch, Air Force Research Laboratory, Wright-Patterson AFB, Ohio 45433, United States
| | - Rajesh R Naik
- 711th Human Performance Wing, Air Force Research Laboratory, Wright-Patterson AFB, Ohio 45433, United States
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23
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Chang Z, Zhu B, Liu J, Zhu X, Xu M, Travas-Sejdic J. Electrochemical aptasensor for 17β-estradiol using disposable laser scribed graphene electrodes. Biosens Bioelectron 2021; 185:113247. [PMID: 33962157 DOI: 10.1016/j.bios.2021.113247] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2021] [Revised: 03/25/2021] [Accepted: 04/09/2021] [Indexed: 01/08/2023]
Abstract
17β-Estradiol (E2), the strongest of the three major physiological estrogens in females, is an important factor in the female reproductive system. The abnormal level of E2 causes health issues, such as weak bones, urinary tract infections and even depression. Here, we present a novel, sensitive and selective, electrochemical aptasensor for detection of 17β-estradiol (E2). The E2 recognition aptamer was split into two fragments: the first fragment, functionalised with adamantane, is attached to poly(β-cyclodextrin) (poly(β-CD))-modified electrode surface through host-guest interactions between the adamantane and poly(β-CD). The second fragment, labelled with gold nanoparticles, forms the stem-loop structure with the first fragment only in the presence of E2. That specific recognition process triggers the change in the electrochemical signal (a change in the peak current from reduction of AuNPs), recorded by means of differential pulse voltammetry (DPV). The feasibility of the sensing design was firstly investigated on the commercially available glass carbon electrodes (GCE), with achieved a linear detection range of 1.0 × 10-13 to 1.0 × 10-8 M and a limit of detection (LoD) 0.7 fM. The sensing methodology was then translated onto single-use, disposable, laser-scribed graphene electrodes (LSGE) on a plastic substrate. The dynamic sensing range of E2 on LSGE was found to be 1.0 × 10-13 to 1.0 × 10-9 M, with a LoD of 63.1 fM, comparable to these of GCE. The successful translation of the developed E2 aptasensor from GCE to low-cost, disposable LSGE highlights a potential of this sensing platform in commercial, portable sensing detection systems for E2 and similar targets of biological interest.
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Affiliation(s)
- Zhu Chang
- Henan Key Laboratory of Biomolecular Recognition and Sensing, College of Chemistry and Chemical Engineering, Henan Joint International Research Laboratory of Chemo/Biosensing and Early Diagnosis of Major Diseases, Shangqiu Normal University, Shangqiu, 476000, Henan Province, PR China
| | - Bicheng Zhu
- Polymer Biointerface Centre, School of Chemical Sciences, The University of Auckland, Private Bag 92019, Auckland, 1142, New Zealand; MacDiarmid Institute for Advanced Materials and Nanotechnology, Victoria University of Wellington, PO Box 600, Wellington, New Zealand
| | - JinJin Liu
- Henan Key Laboratory of Biomolecular Recognition and Sensing, College of Chemistry and Chemical Engineering, Henan Joint International Research Laboratory of Chemo/Biosensing and Early Diagnosis of Major Diseases, Shangqiu Normal University, Shangqiu, 476000, Henan Province, PR China
| | - Xu Zhu
- Henan Key Laboratory of Biomolecular Recognition and Sensing, College of Chemistry and Chemical Engineering, Henan Joint International Research Laboratory of Chemo/Biosensing and Early Diagnosis of Major Diseases, Shangqiu Normal University, Shangqiu, 476000, Henan Province, PR China
| | - Maotian Xu
- Henan Key Laboratory of Biomolecular Recognition and Sensing, College of Chemistry and Chemical Engineering, Henan Joint International Research Laboratory of Chemo/Biosensing and Early Diagnosis of Major Diseases, Shangqiu Normal University, Shangqiu, 476000, Henan Province, PR China
| | - Jadranka Travas-Sejdic
- Polymer Biointerface Centre, School of Chemical Sciences, The University of Auckland, Private Bag 92019, Auckland, 1142, New Zealand; MacDiarmid Institute for Advanced Materials and Nanotechnology, Victoria University of Wellington, PO Box 600, Wellington, New Zealand.
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24
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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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25
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Tsekeli TR, Tshwenya L, Sebokolodi TI, Ndlovu T, Arotiba OA. An Electrochemical Aptamer Biosensor for Bisphenol A on a Carbon Nanofibre‐silver Nanoparticle Immobilisation Platform. ELECTROANAL 2021. [DOI: 10.1002/elan.202100167] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Tebogo R. Tsekeli
- Department of Chemical Sciences University of Johannesburg Doornfontein 2028 South Africa
| | - Luthando Tshwenya
- Department of Chemical Sciences University of Johannesburg Doornfontein 2028 South Africa
| | | | - Thabile Ndlovu
- Department of Chemistry University of Eswatini Kwaluseni M201 Eswatini
| | - Omotayo A. Arotiba
- Department of Chemical Sciences University of Johannesburg Doornfontein 2028 South Africa
- Centre for Nanomaterials Science Research University of Johannesburg Johannesburg 2028 South Africa
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26
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Lee ES, Kim EJ, Park TK, Bae DW, Cha SS, Kim TW, Kim YP. Gold nanoparticle-assisted SELEX as a visual monitoring platform for the development of small molecule-binding DNA aptasensors. Biosens Bioelectron 2021; 191:113468. [PMID: 34233257 DOI: 10.1016/j.bios.2021.113468] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2021] [Revised: 06/09/2021] [Accepted: 06/26/2021] [Indexed: 02/07/2023]
Abstract
To resolve time-consuming and imperceptible monitoring problems in the traditional systematic evolution of ligands by exponential enrichment (SELEX), we report gold nanoparticle-assisted SELEX (GNP-SELEX) as a visual, proofreading, and self-monitoring platform and its application to small molecule-binding single-stranded DNA (ssDNA) aptasensors. Through the colorimetric changes between rounds, GNP-SELEX enabled the rapid determination of target-specific aptamer library enrichment with neither target modification nor extra monitoring process. We identified ssDNA aptamers with high selectivity and binding affinity by targeting two small molecules (brassinolide; BL and bisphenol A; BPA) as a model. The rational design of selected aptamers by 3D molecular simulation increased their ability to detect BL or BPA in real samples as bioreceptors. These results suggest that GNP-SELEX is useful as a self-monitoring platform to discover ssDNA aptamers as well as to develop aptasensors for diverse targets in a rapid and simple way.
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Affiliation(s)
- Eun-Song Lee
- Department of Life Science, Hanyang University, Seoul, 04763, Republic of Korea; Research Institute for Convergence of Basic Sciences, Hanyang University, Seoul, 04763, Republic of Korea
| | - Eun-Ji Kim
- Department of Life Science, Hanyang University, Seoul, 04763, Republic of Korea
| | - Tae-Ki Park
- Department of Life Science, Hanyang University, Seoul, 04763, Republic of Korea
| | - Da-Woon Bae
- Department of Chemistry and Nanoscience, Ewha Womans University, Seoul, 03760, Republic of Korea
| | - Sun-Shin Cha
- Department of Chemistry and Nanoscience, Ewha Womans University, Seoul, 03760, Republic of Korea
| | - Tae-Wuk Kim
- Department of Life Science, Hanyang University, Seoul, 04763, Republic of Korea; Research Institute for Convergence of Basic Sciences, Hanyang University, Seoul, 04763, Republic of Korea; Research Institute for Natural Sciences, Hanyang University, Seoul, 04763, Republic of Korea.
| | - Young-Pil Kim
- Department of Life Science, Hanyang University, Seoul, 04763, Republic of Korea; Research Institute for Convergence of Basic Sciences, Hanyang University, Seoul, 04763, Republic of Korea; Research Institute for Natural Sciences, Hanyang University, Seoul, 04763, Republic of Korea; Department of HY-KIST Bio-Convergence, Hanyang University, Seoul, 04763, Republic of Korea.
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27
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Lin J, Shi A, Zheng Z, Huang L, Wang Y, Lin H, Lin X. Simultaneous Quantification of Ampicillin and Kanamycin in Water Samples Based on Lateral Flow Aptasensor Strip with an Internal Line. Molecules 2021; 26:molecules26133806. [PMID: 34206584 PMCID: PMC8270245 DOI: 10.3390/molecules26133806] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2021] [Revised: 06/17/2021] [Accepted: 06/18/2021] [Indexed: 12/17/2022] Open
Abstract
In this work, a simple and rapid method based on the lateral flow assay (LFA) has been developed for the detection of dual antibiotics. To achieve the quantitative assay and to reduce the non-specific adsorption, an internal system has been developed. A non-specific DNA was exploited as an internal standard and could be recognized by the DNA marker that was coated at the internal line. Two different kinds of aptamers were applied to recognize ampicillin (AMP) and kanamycin (KAM), and the distance between the detection line and conjugate pad was then optimized. Under the optimum conditions, the quantitative assays of AMP (R2 = 0.984) and KAM (R2 = 0.990) were achieved with dynamic ranges of 0.50 to 500.0 ng/L, and of 0.50 to 1000.0 ng/L, respectively. The LOQs of AMP and KAM were 0.06 ng/L and 0.015 ng/L, respectively. Finally, the proposed method has been successfully applied to analyze aquaculture water, tap water, and lake water, and hospital wastewater, indicating the established method could be used to monitor the environment.
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Affiliation(s)
- Jinbiao Lin
- Provincial Key Laboratory of Naval Architecture & Ocean Engineering, Marine Engineering College, Jimei University, Xiamen 361021, China; (J.L.); (A.S.); (Z.Z.); (H.L.)
| | - Ang Shi
- Provincial Key Laboratory of Naval Architecture & Ocean Engineering, Marine Engineering College, Jimei University, Xiamen 361021, China; (J.L.); (A.S.); (Z.Z.); (H.L.)
| | - Ziwu Zheng
- Provincial Key Laboratory of Naval Architecture & Ocean Engineering, Marine Engineering College, Jimei University, Xiamen 361021, China; (J.L.); (A.S.); (Z.Z.); (H.L.)
| | - Long Huang
- CNTAC Testing Services Co., Ltd., Quanzhou 362700, China
- Correspondence: (L.H.); (X.L.)
| | - Yixin Wang
- Shanghai WEIPU Chemical Technology Service Co., Ltd., Shanghai 200000, China;
| | - Honggui Lin
- Provincial Key Laboratory of Naval Architecture & Ocean Engineering, Marine Engineering College, Jimei University, Xiamen 361021, China; (J.L.); (A.S.); (Z.Z.); (H.L.)
| | - Xuexia Lin
- Department of Chemical Engineering & Pharmaceutical Engineering, College of Chemical Engineering, Huaqiao University, Xiamen 361021, China
- Correspondence: (L.H.); (X.L.)
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28
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Wei Y, Zhou Y, Wei Y, Dong C, Wang L. A fluorescent aptasensor based on berberine for ultrasensitive detection of bisphenol A in tap water. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2021; 13:1816-1822. [PMID: 33885638 DOI: 10.1039/d1ay00180a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The residues of bisphenol A (BPA) in food packaging and water systems have a potential impact on human health; therefore, its analysis and detection have drawn scientists' attention. In this work, based on the change in fluorescence intensity resulting from the conformational switch of a berberine/BPA-aptamer system in the presence and absence of BPA, an ultra-sensitive fluorescence aptasensing system is proposed, in which BPA-aptamer is employed as the identification unit and berberine as the fluorescent probe. Various factors affecting the detection of BPA, including the concentration of the fluorescent probe, BPA-aptamer, BPA, pH, system stability time and other experimental conditions, were investigated in detail. Under the optimal experimental conditions, the fluorescence intensity of the sensing system of berberine/BPA-aptamer exhibited a good linear correlation with the BPA concentration in the range of 0-1300 μM with a LOD of 32 nM. The proposed fluorescent sensing system also exhibited excellent recoveries of 92.4-102.3% in tap water samples and showed good application prospects for the analysis and detection of BPA.
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Affiliation(s)
- Yuxin Wei
- Institute of Environmental Science, Shanxi University, Taiyuan 030006, P. R. China.
| | - Yangyang Zhou
- Institute of Environmental Science, Shanxi University, Taiyuan 030006, P. R. China.
| | - Yanli Wei
- Institute of Environmental Science, Shanxi University, Taiyuan 030006, P. R. China.
| | - Chuan Dong
- Institute of Environmental Science, Shanxi University, Taiyuan 030006, P. R. China.
| | - Li Wang
- Institute of Environmental Science, Shanxi University, Taiyuan 030006, P. R. China.
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Huang L, Wang X. Rapid and sensitive detection of Bisphenol A in water by LF-NMR based on magnetic relaxation switch sensor. Microchem J 2021. [DOI: 10.1016/j.microc.2020.105911] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
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Li T, Yao F, An Y, Li X, Duan J, Yang XD. Novel Complex of PD-L1 Aptamer and Holliday Junction Enhances Antitumor Efficacy in Vivo. Molecules 2021; 26:1067. [PMID: 33670583 PMCID: PMC7921949 DOI: 10.3390/molecules26041067] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2021] [Revised: 02/12/2021] [Accepted: 02/14/2021] [Indexed: 12/11/2022] Open
Abstract
Blocking the PD-1/PD-L1 pathway can diminish immunosuppression and enhance anticancer immunity. PD-1/PD-L1 blockade can be realized by aptamers, which have good biocompatibility and can be synthesized in quantity economically. For in vivo applications, aptamers need to evade renal clearance and nuclease digestion. Here we investigated whether DNA nanostructures could be used to enhance the function of PD-L1 aptamers. Four PD-L1 aptamers (Apt) were built into a Holliday Junction (HJ) to form a tetravalent DNA nanostructure (Apt-HJ). The average size of Apt-HJ was 13.22 nm, which was above the threshold for renal clearance. Apt-HJ also underwent partial phosphorothioate modification and had improved nuclease resistance. Compared with the monovalent PD-L1 aptamer, the tetravalent Apt-HJ had stronger affinity to CT26 colon cancer cells. Moreover, Apt-HJ markedly boosted the antitumor efficacy in vivo vs. free PD-L1 aptamers without raising systemic toxicity. The results indicate that multiple aptamers attached to a DNA nanostructure may significantly improve the function of PD-L1 aptamers in vivo.
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Affiliation(s)
| | | | | | | | | | - Xian-Da Yang
- Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100005, China; (T.L.); (F.Y.); (Y.A.); (X.L.); (J.D.)
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Application of Aptamer-based Biosensor in Bisphenol A Detection. CHINESE JOURNAL OF ANALYTICAL CHEMISTRY 2021. [DOI: 10.1016/s1872-2040(20)60077-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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32
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Translational control of enzyme scavenger expression with toxin-induced micro RNA switches. Sci Rep 2021; 11:2462. [PMID: 33510250 PMCID: PMC7844233 DOI: 10.1038/s41598-021-81679-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2020] [Accepted: 01/08/2021] [Indexed: 12/19/2022] Open
Abstract
Biological computation requires in vivo control of molecular behavior to progress development of autonomous devices. miRNA switches represent excellent, easily engineerable synthetic biology tools to achieve user-defined gene regulation. Here we present the construction of a synthetic network to implement detoxification functionality. We employed a modular design strategy by engineering toxin-induced control of an enzyme scavenger. Our miRNA switch results show moderate synthetic expression control over a biologically active detoxification enzyme molecule, using an established design protocol. However, following a new design approach, we demonstrated an evolutionarily designed miRNA switch to more effectively activate enzyme activity than synthetically designed versions, allowing markedly improved extrinsic user-defined control with a toxin as inducer. Our straightforward new design approach is simple to implement and uses easily accessible web-based databases and prediction tools. The ability to exert control of toxicity demonstrates potential for modular detoxification systems that provide a pathway to new therapeutic and biocomputing applications.
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Cho SW, Lim HJ, Chua B, Son A. Single-stranded DNA probe paired aptasensor with extra dye binding sites to enhance its fluorescence response in the presence of a target compound. RSC Adv 2021; 11:21796-21804. [PMID: 35478796 PMCID: PMC9034146 DOI: 10.1039/d1ra00971k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2021] [Accepted: 06/06/2021] [Indexed: 11/29/2022] Open
Abstract
The purpose of this study is to investigate the possibility of improving the performance of a DNA binding dye water quenching based aptasensor without changing or truncating the aptamer. To demonstrate the possibility of increasing the change in fluorescence of the aptasensor by pairing it with a suitable ssDNA probe, three ssDNA probes (probe 1, 2, and 3) were employed and the fluorescence from the bound dyes was measured. This showed that ssDNA probe 2 created the most additional binding sites. By varying the target compound concentration (0, 0.05, 0.5, 5, 50, and 500 mg L−1 4-n-nonylphenol), the corresponding change in the fluorescence signal of the unpaired and ssDNA probe paired aptasensors were measured and compared over a range of emission wavelengths. The response of all three ssDNA probe paired aptasensors showed good fit (R2 = 0.88–0.92) to a logarithmic response. The sensitivity of the aptasensor paired with ssDNA probe 2 was improved by ∼60%, whereas that of the aptasensor paired with ssDNA probe 3 was only improved by a marginal ∼3%. This study is a demonstration of using an appropriate ssDNA probe to increase the number of binding sites and hence the performance of a DNA binding dye and water quenched aptasensor. It is a possibility that can be extended to similar aptasensors without having to change or truncate the aptamer. Principle of an ssDNA paired aptasensor where extra dye binding sites are created to enhance its fluorescence response.![]()
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Affiliation(s)
- Seo Won Cho
- Department of Environmental Science and Engineering
- Ewha Womans University
- Seoul 03760
- Republic of Korea
- Department of Civil and Environmental Engineering
| | - Hyun Jeong Lim
- Department of Environmental Science and Engineering
- Ewha Womans University
- Seoul 03760
- Republic of Korea
| | - Beelee Chua
- School of Electrical Engineering
- Korea University
- Seoul 02841
- Republic of Korea
| | - Ahjeong Son
- Department of Environmental Science and Engineering
- Ewha Womans University
- Seoul 03760
- Republic of Korea
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Wang Y, Zhao X, Huo B, Ren S, Bai J, Peng Y, Li S, Han D, Wang J, Han T, Gao Z. Sensitive Fluorescence Aptasensor Based on Hybridization Chain Reaction with Upconversion Nanoparticles by Triplex DNA Formation for Bisphenol A Detection. ACS APPLIED BIO MATERIALS 2020. [DOI: 10.1021/acsabm.0c01347] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Yu Wang
- Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin Institute of Environmental and Operational Medicine, Tianjin 300050, P. R. China
| | - Xudong Zhao
- Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin Institute of Environmental and Operational Medicine, Tianjin 300050, P. R. China
| | - Bingyang Huo
- Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin Institute of Environmental and Operational Medicine, Tianjin 300050, P. R. China
- School of Chemistry, Sun Yat-Sen University, Guangzhou 510000, P. R. China
| | - Shuyue Ren
- Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin Institute of Environmental and Operational Medicine, Tianjin 300050, P. R. China
| | - Jialei Bai
- Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin Institute of Environmental and Operational Medicine, Tianjin 300050, P. R. China
| | - Yuan Peng
- Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin Institute of Environmental and Operational Medicine, Tianjin 300050, P. R. China
| | - Shuang Li
- Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin Institute of Environmental and Operational Medicine, Tianjin 300050, P. R. China
| | - Dianpeng Han
- Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin Institute of Environmental and Operational Medicine, Tianjin 300050, P. R. China
| | - Jiang Wang
- Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin Institute of Environmental and Operational Medicine, Tianjin 300050, P. R. China
| | - Tie Han
- Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin Institute of Environmental and Operational Medicine, Tianjin 300050, P. R. China
| | - Zhixian Gao
- Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin Institute of Environmental and Operational Medicine, Tianjin 300050, P. R. China
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Colorimetric detection and bio-magnification of bisphenol A in fish organs and water sources using 3',6'-bis(diethylamino)-2- ((3,4,5trimethyl benzylidene) amino) spiro [isoindoline -1,9'-xanthen ]-3-one (BTSIXO)-Fe 3+ ion conjugate. Food Chem 2020; 345:128627. [PMID: 33348135 DOI: 10.1016/j.foodchem.2020.128627] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2020] [Revised: 10/17/2020] [Accepted: 11/09/2020] [Indexed: 11/22/2022]
Abstract
Current study is focusing mainly on the development of simple, novel, and cost-effective optical sensor to detect and quantify Bisphenol A (BPA) contamination. We designed a very selective and sensitive colorimetric sensor using synthesized 3', 6'- bis(diethylamino) -2- ((3,4,5 trimethyl benzylidene) amino)spiro [isoindoline-1,9'-xanthen] -3-one (BTSIXO) conjugated with Fe3+-ions via very simple eco- friendly synthetic protocol. The sensor has an excellent wide detection range for BPA from 0.1 to 150 ppm with LODs of 0.02 ppm. Finally, the applicability of the sensor was demonstrated in fish samples especially in the organs of Oreochromis mossambicus fingerlings and contaminated industrial water samples. The sensor was also applied for the quantification of BPA present drinking water stored in the plastic bottles. The developed sensor has shown a good agreement and accuracy when compared with ESI-Mass techniques.
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36
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Logic Gates Based on DNA Aptamers. Pharmaceuticals (Basel) 2020; 13:ph13110417. [PMID: 33238657 PMCID: PMC7700249 DOI: 10.3390/ph13110417] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2020] [Revised: 11/19/2020] [Accepted: 11/20/2020] [Indexed: 02/08/2023] Open
Abstract
DNA bio-computing is an emerging trend in modern science that is based on interactions among biomolecules. Special types of DNAs are aptamers that are capable of selectively forming complexes with target compounds. This review is devoted to a discussion of logic gates based on aptamers for the purposes of medicine and analytical chemistry. The review considers different approaches to the creation of logic gates and identifies the general algorithms of their creation, as well as describes the methods of obtaining an output signal which can be divided into optical and electrochemical. Aptameric logic gates based on DNA origami and DNA nanorobots are also shown. The information presented in this article can be useful when creating new logic gates using existing aptamers and aptamers that will be selected in the future.
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Liu L, Zhao Q. A simple fluorescence anisotropy assay for detection of bisphenol A using fluorescently labeled aptamer. J Environ Sci (China) 2020; 97:19-24. [PMID: 32933735 DOI: 10.1016/j.jes.2020.04.016] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2019] [Revised: 04/04/2020] [Accepted: 04/06/2020] [Indexed: 06/11/2023]
Abstract
Bisphenol A (BPA) is one of the environmental endocrine disruptors (EDCs), and BPA contamination in environment can cause high risks to human health. Rapid determination of BPA on sites is in high demand in environmental analysis. Taking advantage of aptamers as affinity ligands and fluorescence anisotropy (FA) analysis, we developed a simple and rapid FA assay for BPA by employing a single tetramethylrhodamine (TMR) labeled short 35-mer DNA aptamer against BPA. The assay is based on the BPA-binding induced conformation change of TMR-labeled aptamer and alteration of interaction between TMR and guanine bases, resulting in change of FA signals. We screened the FA change of aptamer probes having TMR label on a specific site of the aptamer upon BPA addition. The aptamer with a TMR label on the 22nd T base showed large FA-decreasing response to BPA and maintained good binding affinity to BPA. By using this TMR-labeled aptamer, we achieved FA detection of BPA with a detection limit of 0.5 μmol/L under the optimized conditions. This assay was selective towards BPA and enabled the detection of BPA spiked in tap water sample, showing the potential applications on water samples.
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Affiliation(s)
- Liying Liu
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Qiang Zhao
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; University of Chinese Academy of Sciences, Beijing 100049, China.
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38
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Huo B, Hu Y, Gao Z, Li G. Recent advances on functional nucleic acid-based biosensors for detection of food contaminants. Talanta 2020; 222:121565. [PMID: 33167261 DOI: 10.1016/j.talanta.2020.121565] [Citation(s) in RCA: 38] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2020] [Revised: 08/17/2020] [Accepted: 08/19/2020] [Indexed: 02/06/2023]
Abstract
It has seen increasing development of reliable, robust, and flexible biosensors for rapid food-safety analysis in the past few decades. Recently, functional nucleic acid-based biosensors have attracted attention because of their programmability, bottom-up characteristics, and structural switches. However, few systematic reviews devoted to categorizing the potential of DNA nanostructures and devices were found for detecting food contaminants. Hence, the applications of functional nucleic acid-based biosensors were reviewed for analyzing food contaminants, including foodborne pathogen bacteria, biotoxins, heavy metals, and et al. In addition to categorizing the various biosensors, multiple signal readout strategies, such as optical, electrochemical, and mass-based signals were also examined. Finally, the future changes and potential opportunities, as well as practical applications of functional nucleic acid-based biosensors were discussed.
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Affiliation(s)
- Bingyang Huo
- School of Chemistry, Sun Yat-sen University, Guangzhou, 510275, China
| | - Yuling Hu
- School of Chemistry, Sun Yat-sen University, Guangzhou, 510275, China
| | - Zhixian Gao
- Tianjin Key Laboratory of Risk Assessment and Control Technology for Environment and Food Safety, Tianjin Institute of Environmental and Operational Medicine, Tianjin, 300050, China
| | - Gongke Li
- School of Chemistry, Sun Yat-sen University, Guangzhou, 510275, China.
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Lim ES, Lim MC, Park K, Lee G, Lim JA, Woo MA, Lee N, Choi SW, Chang HJ. Selective Binding and Elution of Aptamers for Pesticides Based on Sol-Gel-Coated Nanoporous Anodized Aluminum Oxide Membrane. NANOMATERIALS 2020; 10:nano10081533. [PMID: 32764256 PMCID: PMC7466512 DOI: 10.3390/nano10081533] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/07/2020] [Revised: 07/24/2020] [Accepted: 08/03/2020] [Indexed: 01/19/2023]
Abstract
Sol-gel-based mesopores allow the entry of target small molecules retained in their cavity and aptamers to bind to target molecules. Herein, sol-gel-based materials are applied to screen-selective aptamers for small molecules, such as pesticides. To enhance the efficiency of aptamer screening using a sol-gel, it is necessary to increase the binding surface. In this study, we applied the sol-gel to an anodized aluminum oxide (AAO) membrane, and the morphological features were observed via electron microscopy after spin coating. The binding and elution processes were conducted and confirmed by fluorescence microscopy and polymerase chain reaction. The sol-gel coating on the AAO membrane formed a hollow nanocolumn structure. A diazinon-binding aptamer was bound to the diazinon-containing sol-gel-coated AAO membrane, and the bound aptamer was effectively retrieved from the sol-gel matrix by thermal elution. As a proof of concept, a sol-gel-coated AAO disc was mounted on the edge of a pipette tip, and the feasibility of the prepared platform for the systematic evolution of ligands by exponential enrichment (SELEX) of the aptamer binding was also confirmed. The proposed approach will be applied to an automated SELEX cycle using an automated dispenser, such as a pipetting robot, in the near future.
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Affiliation(s)
- Eun Seob Lim
- Research Group of Consumer Safety, Research Division of Strategic Food Technology, Korea Food Research Institute, Wanju-gun, Jeollabuk-do 55365, Korea; (E.S.L.); (M.-C.L.); (K.P.); (G.L.); (J.-A.L.); (M.-A.W.); (N.L.); (S.-W.C.)
- Department of Food Biotechnology, Korea University of Science and Technology, Daejeon 34113, Korea
| | - Min-Cheol Lim
- Research Group of Consumer Safety, Research Division of Strategic Food Technology, Korea Food Research Institute, Wanju-gun, Jeollabuk-do 55365, Korea; (E.S.L.); (M.-C.L.); (K.P.); (G.L.); (J.-A.L.); (M.-A.W.); (N.L.); (S.-W.C.)
| | - Kisang Park
- Research Group of Consumer Safety, Research Division of Strategic Food Technology, Korea Food Research Institute, Wanju-gun, Jeollabuk-do 55365, Korea; (E.S.L.); (M.-C.L.); (K.P.); (G.L.); (J.-A.L.); (M.-A.W.); (N.L.); (S.-W.C.)
- Department of Molecular Science and Technology, Ajou University, Suwon-si, Gyeonggi-do 16499, Korea
| | - Gaeul Lee
- Research Group of Consumer Safety, Research Division of Strategic Food Technology, Korea Food Research Institute, Wanju-gun, Jeollabuk-do 55365, Korea; (E.S.L.); (M.-C.L.); (K.P.); (G.L.); (J.-A.L.); (M.-A.W.); (N.L.); (S.-W.C.)
- Department of Food Science and Technology, Chonbuk National University, Jeonju-si, Jeollabuk-do 54896, Korea
| | - Jeong-A Lim
- Research Group of Consumer Safety, Research Division of Strategic Food Technology, Korea Food Research Institute, Wanju-gun, Jeollabuk-do 55365, Korea; (E.S.L.); (M.-C.L.); (K.P.); (G.L.); (J.-A.L.); (M.-A.W.); (N.L.); (S.-W.C.)
| | - Min-Ah Woo
- Research Group of Consumer Safety, Research Division of Strategic Food Technology, Korea Food Research Institute, Wanju-gun, Jeollabuk-do 55365, Korea; (E.S.L.); (M.-C.L.); (K.P.); (G.L.); (J.-A.L.); (M.-A.W.); (N.L.); (S.-W.C.)
| | - Nari Lee
- Research Group of Consumer Safety, Research Division of Strategic Food Technology, Korea Food Research Institute, Wanju-gun, Jeollabuk-do 55365, Korea; (E.S.L.); (M.-C.L.); (K.P.); (G.L.); (J.-A.L.); (M.-A.W.); (N.L.); (S.-W.C.)
| | - Sung-Wook Choi
- Research Group of Consumer Safety, Research Division of Strategic Food Technology, Korea Food Research Institute, Wanju-gun, Jeollabuk-do 55365, Korea; (E.S.L.); (M.-C.L.); (K.P.); (G.L.); (J.-A.L.); (M.-A.W.); (N.L.); (S.-W.C.)
| | - Hyun-Joo Chang
- Research Group of Consumer Safety, Research Division of Strategic Food Technology, Korea Food Research Institute, Wanju-gun, Jeollabuk-do 55365, Korea; (E.S.L.); (M.-C.L.); (K.P.); (G.L.); (J.-A.L.); (M.-A.W.); (N.L.); (S.-W.C.)
- Correspondence: ; Tel.: +82-63-219-9326
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Wu YH, Bi H, Ning G, Xu ZG, Liu GQ, Wang YH, Zhao YL. Cyclodextrin subject-object recognition-based aptamer sensor for sensitive and selective detection of tetracycline. J Solid State Electrochem 2020. [DOI: 10.1007/s10008-020-04751-7] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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41
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Recent advances in biosensors for the detection of estrogens in the environment and food. Trends Analyt Chem 2020. [DOI: 10.1016/j.trac.2020.115882] [Citation(s) in RCA: 24] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
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42
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McConnell EM, Nguyen J, Li Y. Aptamer-Based Biosensors for Environmental Monitoring. Front Chem 2020; 8:434. [PMID: 32548090 PMCID: PMC7272472 DOI: 10.3389/fchem.2020.00434] [Citation(s) in RCA: 108] [Impact Index Per Article: 27.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2020] [Accepted: 04/27/2020] [Indexed: 12/20/2022] Open
Abstract
Due to their relative synthetic and chemical simplicity compared to antibodies, aptamers afford enhanced stability and functionality for the detection of environmental contaminants and for use in environmental monitoring. Furthermore, nucleic acid aptamers can be selected for toxic targets which may prove difficult for antibody development. Of particular relevance, aptamers have been selected and used to develop biosensors for environmental contaminants such as heavy metals, small-molecule agricultural toxins, and water-borne bacterial pathogens. This review will focus on recent aptamer-based developments for the detection of diverse environmental contaminants. Within this domain, aptamers have been combined with other technologies to develop biosensors with various signal outputs. The goal of much of this work is to develop cost-effective, user-friendly detection methods that can complement or replace traditional environmental monitoring strategies. This review will highlight recent examples in this area. Additionally, with innovative developments such as wearable devices, sentinel materials, and lab-on-a-chip designs, there exists significant potential for the development of multifunctional aptamer-based biosensors for environmental monitoring. Examples of these technologies will also be highlighted. Finally, a critical perspective on the field, and thoughts on future research directions will be offered.
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Affiliation(s)
| | | | - Yingfu Li
- Department of Biochemistry and Biomedical Sciences, McMaster University, Hamilton, ON, Canada
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Jia M, Sha J, Li Z, Wang W, Zhang H. High affinity truncated aptamers for ultra-sensitive colorimetric detection of bisphenol A with label-free aptasensor. Food Chem 2020; 317:126459. [PMID: 32113141 DOI: 10.1016/j.foodchem.2020.126459] [Citation(s) in RCA: 80] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2019] [Revised: 02/04/2020] [Accepted: 02/19/2020] [Indexed: 12/13/2022]
Abstract
The widespread exposure of bisphenol A (BPA) presents a significant risk to human health. A rapid, ultra-sensitive and label-free colorimetric aptasensor using high affinity truncated aptamers was developed for BPA detection. Truncated 38-mer and 12-mer aptamers specific for BPA were obtained through rationally truncation from 63-mer BPA aptamer. The dissociation constants (Kd) of 38-mer and 12-mer aptamers were determined to be 13.17 nM and 27.05 nM. Then, truncated aptamers were used in label-free colorimetric detection assays based on gold nanoparticles (AuNPs). The limit of detections of aptasensors using 38-mer and 12-mer aptamers were 7.60 pM and 14.41 pM, which were 265-fold and 140-fold lower than that of the aptasensor using 63-mer aptamer, respectively. The recovery rates in milk, orange juice and mineralized water samples were 93.88% to 107.30%. Therefore, the developed BPA colorimetric aptasensor using truncated aptamers has great application prospects in food safety control and environmental monitoring.
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Affiliation(s)
- Min Jia
- Key Laboratory of Animal Resistance Biology of Shandong Province, Institute of Biomedical Sciences, Key Laboratory of Food Nutrition and Safety of Shandong Normal University, College of Life Science, Shandong Normal University, Jinan 250014, PR China.
| | - Junyi Sha
- Key Laboratory of Animal Resistance Biology of Shandong Province, Institute of Biomedical Sciences, Key Laboratory of Food Nutrition and Safety of Shandong Normal University, College of Life Science, Shandong Normal University, Jinan 250014, PR China
| | - Zhihua Li
- Key Laboratory of Animal Resistance Biology of Shandong Province, Institute of Biomedical Sciences, Key Laboratory of Food Nutrition and Safety of Shandong Normal University, College of Life Science, Shandong Normal University, Jinan 250014, PR China
| | - Wenjing Wang
- Key Laboratory of Animal Resistance Biology of Shandong Province, Institute of Biomedical Sciences, Key Laboratory of Food Nutrition and Safety of Shandong Normal University, College of Life Science, Shandong Normal University, Jinan 250014, PR China
| | - Hongyan Zhang
- Key Laboratory of Animal Resistance Biology of Shandong Province, Institute of Biomedical Sciences, Key Laboratory of Food Nutrition and Safety of Shandong Normal University, College of Life Science, Shandong Normal University, Jinan 250014, PR China
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44
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High-performance biosensing based on autonomous enzyme-free DNA circuits. Top Curr Chem (Cham) 2020; 378:20. [DOI: 10.1007/s41061-020-0284-x] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2019] [Accepted: 01/17/2020] [Indexed: 12/28/2022]
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John Ho LS, Fogel R, Limson JL. Generation and screening of histamine-specific aptamers for application in a novel impedimetric aptamer-based sensor. Talanta 2020; 208:120474. [DOI: 10.1016/j.talanta.2019.120474] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2019] [Revised: 10/11/2019] [Accepted: 10/12/2019] [Indexed: 01/29/2023]
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Liu Q, Zhang W, Chen S, Zhuang Z, Zhang Y, Jiang L, LIN JS. SELEX tool: a novel and convenient gel-based diffusion method for monitoring of aptamer-target binding. J Biol Eng 2020; 14:1. [PMID: 31956340 PMCID: PMC6956507 DOI: 10.1186/s13036-019-0223-y] [Citation(s) in RCA: 56] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2019] [Accepted: 12/29/2019] [Indexed: 02/07/2023] Open
Abstract
BACKGROUND Aptamers, single-stranded DNAs or RNAs, can be selected from a library containing random sequences using a method called Systematic Evolution of Ligands by EXponential Enrichment (SELEX). In SELEX, monitoring the enriching statuses of aptamer candidates during the process is a key step until today. Conformational change of an aptamer caused by target-binding in gel can be used to indicate its statuses of binding. RESULTS In this study, an easy-to-implement gel-based diffusion method (GBDM) was developed to monitor the interaction between enriched aptamer candidates and their targets. In order to prove the concept, characterization of aptamers targeting their targets including protein (thrombin) and non-protein molecules (acetamiprid, ATP, atrazine, profenofos and roxithromycin), respectively, were performed using mini gels. Our method has advantages over the common methods including easy performed with labor- and time- saving in experimental operation. The concept has been proven by monitoring enrichment of dynamic aptamer candidate libraries targeting a small molecule 2,2-bis(4-chlorophenyl) acetic acid (DDA) during SELEX process. A mini gel cassette was designed and fabricated by our laboratory to make mini agarose gels for diffusion with different directions. CONCLUSIONS These results indicate that GBDM, in particular, chasing diffusion is suitable for monitoring the interaction between enriched aptamer candidates and their targets. These pioneering efforts are helpful for novel aptamer selection by breaking through the technical bottleneck of aptamer development and helpful for development of novel aptasensors.
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Affiliation(s)
- Qingxiu Liu
- School of Medicine, Huaqiao University, 269 Chenghua Rd, Fengze, Quanzhou, 362021 Fujian China
| | - Wei Zhang
- School of Medicine, Huaqiao University, 269 Chenghua Rd, Fengze, Quanzhou, 362021 Fujian China
| | - Siying Chen
- School of Medicine, Huaqiao University, 269 Chenghua Rd, Fengze, Quanzhou, 362021 Fujian China
| | - Zhenjing Zhuang
- School of Medicine, Huaqiao University, 269 Chenghua Rd, Fengze, Quanzhou, 362021 Fujian China
| | - Yi Zhang
- School of Medicine, Huaqiao University, 269 Chenghua Rd, Fengze, Quanzhou, 362021 Fujian China
| | - Lingli Jiang
- School of Medicine, Huaqiao University, 269 Chenghua Rd, Fengze, Quanzhou, 362021 Fujian China
| | - Jun Sheng LIN
- School of Medicine, Huaqiao University, 269 Chenghua Rd, Fengze, Quanzhou, 362021 Fujian China
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Li H, Ding S, Wang W, Lv Q, Wang Z, Bai H, Zhang Q. Voltammetric aptasensor for bisphenol A based on double signal amplification via gold-coated multiwalled carbon nanotubes and an ssDNA-dye complex. Mikrochim Acta 2019; 186:860. [PMID: 31786663 DOI: 10.1007/s00604-019-4006-4] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2019] [Accepted: 11/04/2019] [Indexed: 02/03/2023]
Abstract
An aptasensor is described for the electrochemical determination of bisphenol A (BPA). Gold-coated multiwalled carbon nanotubes (Au/MWCNTs) and a single-stranded DNA-dye complex are used as a double signal-amplification system. The BPA-binding aptamer was assembled on a disposable electrode modified with Au/MWCNTs. Methylene blue (MB) was then intercalated into the immobilized aptamer with an approximately molecular ratio of 4 to form a complex. Upon interaction with BPA, the immobilized aptamer underwent a conformational change. This causes the intercalated MB to be released from the complex into solution. As a result, the electrochemical signal of the intercalated MB, typically measured using square wave voltammetry at a potential of -0.20 V (vs. Ag/AgCl (saturated KCl)) decreases. The fabrication of the aptasensor was characterized by the scanning electron microscopy, atomic force microscopy, and electrochemical techniques. Under optimal experimental conditions, the current drops linearly with the logarithm of BPA concentrations over the range from 10 fM to 1 nM, and the limit of detection is 8 fM. The assay was applied to the determination of BPA in plastic drinking bottles, tap water, and milk. Graphical AbstractSchematic illustration of fabricating the aptasensor for bisphenol A (BPA) based on double signal amplification via gold-coated multiwalled carbon nanotubes (Au/MWCNT) and an aptamer-dye complex. PET: poly(ethylene terephthalate).
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Affiliation(s)
- Haiyu Li
- Chinese Academy of Inspection and Quarantine, Beijing, 100176, China
| | - Shounian Ding
- School of Chemistry and Chemical Engineering, Southeast University, Nanjing, 211189, China
| | - Wan Wang
- Chinese Academy of Inspection and Quarantine, Beijing, 100176, China
| | - Qing Lv
- Chinese Academy of Inspection and Quarantine, Beijing, 100176, China
| | - Zhijuan Wang
- Chinese Academy of Inspection and Quarantine, Beijing, 100176, China
| | - Hua Bai
- Chinese Academy of Inspection and Quarantine, Beijing, 100176, China
| | - Qing Zhang
- Chinese Academy of Inspection and Quarantine, Beijing, 100176, China.
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Guo Z, Tang J, Li M, Liu Y, Yang H, Kong J. An ultrasensitive fluorescent aptasensor based on truncated aptamer and AGET ATRP for the detection of bisphenol A. Anal Bioanal Chem 2019; 411:7807-7815. [PMID: 31745613 DOI: 10.1007/s00216-019-02179-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2019] [Revised: 09/13/2019] [Accepted: 09/30/2019] [Indexed: 12/12/2022]
Abstract
Given the gigantic harmfulness of bisphenol A (BPA), a novel and ultrasensitive aptasensor, which employs the truncated BPA aptamer, click chemistry, and activators generated by electron transfer for atom transfer radical polymerization (AGET ATRP), was developed herein for the quantitative determination of BPA. Firstly, hairpin DNAs (hairpins) with a thiol at the 5' end and an azide group at the 3' end were conjugated with aminated magnetic beads (MBs) through heterobifunctional cross-linkers. BPA truncated aptamer (ssDNA-A) hybridizes with its complementary single-stranded DNA (ssDNA-B) to form double-stranded DNA. In the presence of BPA, ssDNA-A specifically captures BPA, and then ssDNA-B is released. Subsequently, the ssDNA-B hybridizes with hairpins to expose the azide group near the surface of the MBs. Then, propargyl-2-bromoisobutyrate (PBIB), the initiator of AGET ATRP containing alkynyl group, was conjugated with azide group of hairpins via the Cu(I)-catalyzed azide-alkyne cycloaddition (CuAAC). Consequently, a large number of fluorescein-o-acrylate (FA) were introduced to the MBs through AGET ATRP, resulting in that the fluorescence intensity was increased dramatically. Obviously, the fluorescence intensity was especially sensitive to the change of BPA concentration, and this method can be used in quantitative determination of BPA. Under optimal conditions, a broad liner range from 100 fM to 100 nM and a low limit of detection (LOD) of 6.6 fM were obtained. Moreover, the method exhibits not only excellent specificity for BPA detection over BPA analogues but high anti-interference ability in real water sample detection, indicating that it has huge application prospect in food safety and environment monitoring.
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Affiliation(s)
- Zhuangzhuang Guo
- Pharmacy College, Henan University of Chinese Medicine, Zhengzhou, 450046, Henan, China
| | - Jinfa Tang
- The First Affilicated Hospital of Henan University of Chinese Medicine, Zhengzhou, 450099, Henan, China
| | - Manman Li
- Pharmacy College, Henan University of Chinese Medicine, Zhengzhou, 450046, Henan, China
| | - Yanju Liu
- Pharmacy College, Henan University of Chinese Medicine, Zhengzhou, 450046, Henan, China.
| | - Huaixia Yang
- Pharmacy College, Henan University of Chinese Medicine, Zhengzhou, 450046, Henan, China.
| | - Jinming Kong
- School of Environmental and Biological Engineering, Nanjing University of Science and Technology, Nanjing, 210094, Jiangsu, China.
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Jiang N, Zhu T, Hu Y. Competitive aptasensor with gold nanoparticle dimers and magnetite nanoparticles for SERS-based determination of thrombin. Mikrochim Acta 2019; 186:747. [PMID: 31691866 DOI: 10.1007/s00604-019-3787-9] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2019] [Accepted: 08/27/2019] [Indexed: 12/20/2022]
Abstract
It is known that the intensity of surface-enhanced Raman scattering (SERS) of monomeric gold nanoparticles (GNPs) is insufficient for ultrasensitive analysis. The authors describe dimeric GNPs for use in a competitive SERS and aptamer based assay for thrombin. The reagent 1,2-bis(4-pyridyl) ethylene serves as both the coupling agent and the Raman reporter on the GNP dimers. In the presence of thrombin, the hybridization of two aptamers, one attached to the GNP dimers, the other to magnetic nanoparticles, is competitively prevented. This method takes advantage of the unique "hot spots" of the GNP dimers to amplify the Raman signal. This results in an ultra-sensitive thrombin assay when compared to assays using GNP monomers. The limit of detection is as low as 1 fM of thrombin. The Raman intensity, best measured at 1612 cm-1, increases linearly in the 1 fM to 10 nM thrombin concentration range. The method was applied to the determinaiton of thrombin in spiked simulated body fluid and human serum. Graphical abstract This method takes advantage of the unique "hot spots" of the gold nanoparticle dimers to amplify the Raman signal. The dimers are linked to the magnetic nanoparticles via an aptamer. The use of both competitive displacement and magnetic separation greatly improves the sensitivity of the thrombin assay.
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Affiliation(s)
- Ningjing Jiang
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science, Guangzhou Key Laboratory of spectral analysis and functional probes, College of Biophotonics, South China Normal University, Guangzhou, 510631, People's Republic of China
| | - Tingfeng Zhu
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science, Guangzhou Key Laboratory of spectral analysis and functional probes, College of Biophotonics, South China Normal University, Guangzhou, 510631, People's Republic of China
| | - Yongjun Hu
- MOE Key Laboratory of Laser Life Science & Institute of Laser Life Science, Guangzhou Key Laboratory of spectral analysis and functional probes, College of Biophotonics, South China Normal University, Guangzhou, 510631, People's Republic of China.
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Clemente APB, Kuang H, Shabana AM, Labuza TP, Kokkoli E. Design of an Aptamer-Amphiphile for the Detection of β-Lactoglobulin on a Liquid Crystal Interface. Bioconjug Chem 2019; 30:2763-2770. [PMID: 31589417 DOI: 10.1021/acs.bioconjchem.9b00412] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
An aptamer-amphiphile was designed that binds to β-lactoglobulin (β-LG), a major allergen from cow's milk. For this work, a 23-nucleotide ssDNA aptamer β-LG-23, capable of forming antiparallel G-quadruplexes was used, and its specificity and binding affinity of 22 ± 2 nM for β-LG were evaluated via enzyme-linked apta-sorbent assay (ELASA). The β-LG-23 aptamer was synthesized as an amphiphile by conjugating it to a C16 double tail via different spacers, and the effect of the spacers on the binding affinity and secondary structure of the aptamer was investigated. From all amphiphiles tested, direct conjugation of the aptamer to the tail gave the lowest binding affinity to β-LG (37 ± 2 nM), while maintaining the antiparallel G-quadruplex secondary structure of the aptamer. As a proof of concept, the β-LG-23 aptamer-amphiphile was used to decorate the interface of a liquid crystal (LC) and effectively detected 10 nM or 0.18 ppm of β-LG with a 20 min equilibration time, thus demonstrating that it has the potential to be used for fast and label-free detection of β-LG.
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Affiliation(s)
- Ana Paula Brumann Clemente
- Department of Food Science and Nutrition , University of Minnesota , St. Paul , Minnesota 55108 , United States
| | - Huihui Kuang
- Institute for NanoBioTechnology , Johns Hopkins University , Baltimore , Maryland 21218 , United States
| | - Ahmed M Shabana
- Institute for NanoBioTechnology , Johns Hopkins University , Baltimore , Maryland 21218 , United States.,Department of Pharmaceutics and Industrial Pharmacy, Faculty of Pharmacy , Cairo University , Cairo 11562 , Egypt
| | - Theodore P Labuza
- Department of Food Science and Nutrition , University of Minnesota , St. Paul , Minnesota 55108 , United States
| | - Efrosini Kokkoli
- Institute for NanoBioTechnology , Johns Hopkins University , Baltimore , Maryland 21218 , United States.,Department of Chemical and Biomolecular Engineering , Johns Hopkins University , Baltimore , Maryland 21218 , United States
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