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Deng L, Fu Q, Zhang Y, Shui F, Tang J, Wu J, Zeng J. Study of molecular interactions by nonequilibrium capillary electrophoresis of equilibrium mixtures: Originations, developments, and applications. Electrophoresis 2023; 44:1664-1673. [PMID: 37621032 DOI: 10.1002/elps.202300166] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2023] [Revised: 08/16/2023] [Accepted: 08/18/2023] [Indexed: 08/26/2023]
Abstract
Molecular interactions play a vital role in regulating various physiological and biochemical processes in vivo. Kinetic capillary electrophoresis (KCE) is an analytical platform that offers significant advantages in studying the thermodynamic and kinetic parameters of molecular interactions. It enables the simultaneous analysis of these parameters within an interaction pattern and facilitates the screening of binding ligands with predetermined kinetic parameters. Nonequilibrium capillary electrophoresis of equilibrium mixtures (NECEEM) was the first proposed KCE method, and it has found widespread use in studying molecular interactions involving proteins/aptamers, proteins/small molecules, and peptides/small molecules. The successful applications of NECEEM have demonstrated its promising potential for further development and broader application. However, there has been a dearth of recent reviews on NECEEM. To address this gap, our study provides a comprehensive description of NECEEM, encompassing its origins, development, and applications from 2015 to 2022. The primary focus of the applications section is on aptamer selection and screening of small-molecule ligands. Furthermore, we discuss important considerations in NECEEM experimental design, such as buffer suitability, detector selection, and protein adsorption. By offering this thorough review, we aim to contribute to the understanding, advancement, and wider utilization of NECEEM as a valuable tool for studying molecular interactions and facilitating the identification of potential ligands and targets.
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Affiliation(s)
- Li Deng
- School of Pharmacy, Southwest Medical University, Luzhou, Sichuan, P. R. China
| | - Qifeng Fu
- School of Pharmacy, Southwest Medical University, Luzhou, Sichuan, P. R. China
| | - Yujie Zhang
- School of Pharmacy, Southwest Medical University, Luzhou, Sichuan, P. R. China
| | - Fan Shui
- School of Pharmacy, Southwest Medical University, Luzhou, Sichuan, P. R. China
| | - Jia Tang
- School of Pharmacy, Southwest Medical University, Luzhou, Sichuan, P. R. China
| | - Jianming Wu
- School of Pharmacy, Southwest Medical University, Luzhou, Sichuan, P. R. China
- School of Basic Medical Science, Southwest Medical University, Luzhou, Sichuan, P. R. China
| | - Jing Zeng
- School of Pharmacy, Southwest Medical University, Luzhou, Sichuan, P. R. China
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2
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Lee YJ, You HS, Lee SH, Lee SL, Lee H, Sung HJ, Kang HG, Hyun SH. Comparison of Optimal Storage Temperature and Collection Reagents for Living Bacterial Cells in Swab Samples. KOREAN JOURNAL OF CLINICAL LABORATORY SCIENCE 2021. [DOI: 10.15324/kjcls.2021.53.4.326] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022] Open
Affiliation(s)
- Yeong Ju Lee
- Department of Biomedical Laboratory Science, Graduate School, Eulji University, Uijeongbu, Korea
| | - Hee Sang You
- Department of Senior Healthcare, BK21 Plus Program, Graduate School, Eulji University, Uijeongbu, Korea
| | - Song Hee Lee
- Department of Biomedical Laboratory Science, Graduate School, Eulji University, Uijeongbu, Korea
| | - So Lip Lee
- Department of Senior Healthcare, BK21 Plus Program, Graduate School, Eulji University, Uijeongbu, Korea
| | - Han Lee
- Department of Biomedical Laboratory Science, Eulji University, Uijeongbu, Korea
| | - Ho Joong Sung
- Department of Biomedical Laboratory Science, Graduate School, Eulji University, Uijeongbu, Korea
- Department of Senior Healthcare, BK21 Plus Program, Graduate School, Eulji University, Uijeongbu, Korea
- Department of Biomedical Laboratory Science, Eulji University, Uijeongbu, Korea
| | - Hee Gyoo Kang
- Department of Biomedical Laboratory Science, Graduate School, Eulji University, Uijeongbu, Korea
- Department of Senior Healthcare, BK21 Plus Program, Graduate School, Eulji University, Uijeongbu, Korea
- Department of Biomedical Laboratory Science, Eulji University, Uijeongbu, Korea
| | - Sung Hee Hyun
- Department of Biomedical Laboratory Science, Graduate School, Eulji University, Uijeongbu, Korea
- Department of Senior Healthcare, BK21 Plus Program, Graduate School, Eulji University, Uijeongbu, Korea
- Department of Biomedical Laboratory Science, Eulji University, Uijeongbu, Korea
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3
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Tobolkina E, Rudaz S. Capillary Electrophoresis Instruments for Medical Applications and Falsified Drug Analysis/Quality Control in Developing Countries. Anal Chem 2021; 93:8107-8115. [PMID: 34061489 DOI: 10.1021/acs.analchem.1c00839] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
The implementation of integrated analytical techniques to meet stringent requirements in the life sciences requires a well-developed analytical capacity. New technology in analytical equipment for the analysis of large and small molecules is continuously being developed. However, developing countries frequently struggle to keep pace with technological advancements. Hence, it is of utmost importance to better invest in optimizing existing and proven methodologies to tackle life-saving challenges in developing countries. In this regard, capillary electrophoresis is a promising candidate for solving multiple analytical problems compared to its chromatographic and spectroscopic counterparts due to its fast analytical response time and notable cost efficiency. In the following, we summarize various issues and opportunities for capillary electrophoresis to be the technique of choice for the unresolved bottlenecks in analytical equipment in developing countries for drug quality control. This perspective demonstrates that the ongoing quest for the design of new, impactful analytical techniques is a dynamic and rapidly developing research area and mentions some directions and opportunities that have arisen during the recent pandemic.
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Affiliation(s)
- Elena Tobolkina
- Institute of Pharmaceutical Sciences of Western Switzerland, University of Geneva, CH-1211 Geneva 4, Switzerland
| | - Serge Rudaz
- Institute of Pharmaceutical Sciences of Western Switzerland, University of Geneva, CH-1211 Geneva 4, Switzerland
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4
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Hong T, Qiu L, Zhou S, Cai Z, Cui P, Zheng R, Wang J, Tan S, Jiang P. How does DNA 'meet' capillary-based microsystems? Analyst 2021; 146:48-63. [PMID: 33211035 DOI: 10.1039/d0an01336f] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
DNA possesses various chemical and physical properties which make it important in biological analysis. The opportunity for DNA to 'meet' capillary-based microsystems is rapidly increasing owing to the expanding development of miniaturization. Novel capillary-based methods can provide favourable platforms for DNA-ligand interaction assay, DNA translocation study, DNA separation, DNA aptamer selection, DNA amplification assay, and DNA digestion. Meanwhile, DNA exhibits great potential in the fabrication of new capillary-based biosensors and enzymatic bioreactors. Moreover, DNA has received significant research interest in improving capillary electrophoresis (CE) performance. We focus on highlighting the advantages of combining DNA and capillary-based microsystems. The general trend presented in this review suggests that the 'meeting' has offered a stepping stone for the application of DNA and capillary-based microsystems in the field of analytical chemistry.
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Affiliation(s)
- Tingting Hong
- School of Pharmacy, Changzhou University, Changzhou, Jiangsu 213164, China.
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5
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Lee HM, Yang JH, Gwon SY, Kang HG, Hyun SH, Lee J, Sung HJ. Development of novel extraction reagents for analyzing dried blood spots from crime scenes. Forensic Sci Int 2020; 317:110531. [PMID: 33161236 DOI: 10.1016/j.forsciint.2020.110531] [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: 05/26/2020] [Revised: 09/17/2020] [Accepted: 09/26/2020] [Indexed: 10/23/2022]
Abstract
Evidence of dried blood is very valuable in forensic science. Since the discovery of luminescence with Luminol and dried blood spots (DBSs) in 1928, interest and research on blood have continued to date. One of the most important factor that DBSs have is genes. However, the current use of distilled water (DDW) to collect and extract blood samples has disadvantages related to DNA stability. Therefore, this study aimed to develop an extraction reagent that is most suitable for gene extraction from DBSs. Blood was collected from 45 healthy adult men and women in vacuum blood containers without coagulants or anticoagulants. The collected blood was dried in various settings to check the performance of the extraction reagent. Extraction with Tris-EDTA (TE) and phosphate-buffered saline (PBS) was found more suitable in terms of gene interference effects compared with DDW; their performance was also compared with those of the newly developed extraction reagents. Upon comparing the results of polymerase chain reaction for human genomic DNA samples using glyceraldehyde 3-phosphate dehydrogenase (GAPDH) gene as the target, the performance of the newly developed extraction reagents, modified TE and PBS, was found to be relatively good. To determine the optimal composition of the developed extraction reagents, 12 new extraction reagents were developed with different pH and sodium concentrations. Among them, the best results were found when the DNA was extracted using extraction reagent No. 3 with pH 8.0 and containing 1 M NaCl. Next, the four extraction reagents, DDW, TE, PBS, and No. 3 were compared under nine different temperature and humidity conditions. Similarly, under various environmental conditions, extraction reagent No. 3 performed better than other reagents. It is proposed that modified TE and PBS mixed extraction reagents are the most suitable for collecting and preserving crime site samples. The proposed composition for a DNA extraction reagent can contribute greatly to crime scene reconstruction.
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Affiliation(s)
- Hae-Min Lee
- Department of Biomedical Laboratory Science, College of Health Sciences, Eulji University, Republic of Korea; Department of Senior Healthcare, BK21 Plus Program, Graduate School, Eulji University, Republic of Korea
| | - Jung-Hyeon Yang
- Department of Biomedical Laboratory Science, College of Health Sciences, Eulji University, Republic of Korea; Department of Senior Healthcare, BK21 Plus Program, Graduate School, Eulji University, Republic of Korea
| | - Sun-Yeong Gwon
- Department of Biomedical Laboratory Science, College of Health Sciences, Eulji University, Republic of Korea; Department of Biomedical Laboratory Science, Yonsei University, Wonju, Republic of Korea
| | - Hee-Gyoo Kang
- Department of Biomedical Laboratory Science, College of Health Sciences, Eulji University, Republic of Korea; Department of Senior Healthcare, BK21 Plus Program, Graduate School, Eulji University, Republic of Korea
| | - Sung Hee Hyun
- Department of Biomedical Laboratory Science, College of Health Sciences, Eulji University, Republic of Korea; Department of Senior Healthcare, BK21 Plus Program, Graduate School, Eulji University, Republic of Korea
| | - Jiyeong Lee
- Department of Biomedical Laboratory Science, College of Health Sciences, Eulji University, Republic of Korea
| | - Ho Joong Sung
- Department of Biomedical Laboratory Science, College of Health Sciences, Eulji University, Republic of Korea; Department of Senior Healthcare, BK21 Plus Program, Graduate School, Eulji University, Republic of Korea.
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Borodina I, Zaitsev B, Teplykh A, Burygin G, Guliy O. Sensor Based on PZT Ceramic Resonator with Lateral Electric Field for Immunodetectionof Bacteria in the Conducting Aquatic Environment. SENSORS (BASEL, SWITZERLAND) 2020; 20:E3003. [PMID: 32466322 PMCID: PMC7285513 DOI: 10.3390/s20103003] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/26/2020] [Revised: 05/15/2020] [Accepted: 05/22/2020] [Indexed: 01/03/2023]
Abstract
A biological sensor for detection and identification of bacterial cells, including a resonator with a lateral electric field based on PZT ceramics was experimentally investigated. For bacterial immunodetection the frequency dependencies of the electric impedance of the sensor with a suspension of microbial cells were measured before and after adding the specific antibodies. It was found that the addition of specific antibodies to a suspension of microbial cells led to a significant change in these frequency dependencies due to the increase in the conductivity of suspension. The analysis of microbial cells was carried out in aqueous solutions with a conductivity of 4.5-1000 μS/cm, as well as in the tap and drinking water. The detection limit of microbial cells was found to be 103 cells/mLand the analysis time did not exceed 4 min. Experiments with non-specific antibodies were also carried out and it was shown that their addition to the cell suspension did not lead to a change in the analytical signal of the sensor. This confirms the ability to not only detect, but also identify bacterial cells in suspensions.
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Affiliation(s)
- Irina Borodina
- Kotelnikov Institute of Radio Engineering and Electronics of RAS, Saratov Branch, 410019 Saratov, Russia; (I.B.); (A.T.)
| | - Boris Zaitsev
- Kotelnikov Institute of Radio Engineering and Electronics of RAS, Saratov Branch, 410019 Saratov, Russia; (I.B.); (A.T.)
| | - Andrey Teplykh
- Kotelnikov Institute of Radio Engineering and Electronics of RAS, Saratov Branch, 410019 Saratov, Russia; (I.B.); (A.T.)
| | - Gennady Burygin
- Institute of Biochemistry and Physiology of Plants and Microorganisms, Russian Academy of Sciences, 410049 Saratov, Russia; (G.B.); (O.G.)
| | - Olga Guliy
- Institute of Biochemistry and Physiology of Plants and Microorganisms, Russian Academy of Sciences, 410049 Saratov, Russia; (G.B.); (O.G.)
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7
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Yersinia pestis detection using biotinylated dNTPs for signal enhancement in lateral flow assays. Anal Chim Acta 2020; 1112:54-61. [PMID: 32334682 DOI: 10.1016/j.aca.2020.03.059] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2019] [Revised: 03/01/2020] [Accepted: 03/30/2020] [Indexed: 12/12/2022]
Abstract
Due to the extreme infectivity of Yersinia pestis it poses a serious threat as a potential biowarfare agent, which can be rapidly and facilely disseminated. A cost-effective and specific method for its rapid detection at extremely low levels is required, in order to facilitate a timely intervention for containment. Here, we report an ultrasensitive method exploiting a combination of isothermal nucleic acid amplification with a tailed forward primer and biotinylated dNTPs, which is performed in less than 30 min. The polymerase chain reaction (PCR) and enzyme linked oligonucleotide assay (ELONA) were used to optimise assay parameters for implementation on the LFA, and achieved detection limits of 45 pM and 940 fM using SA-HRP and SA-polyHRP, respectively. Replacing PCR with isothermal amplification, namely recombinase polymerase amplification, similar signals were obtained (314 fM), with just 15 min of amplification. The lateral flow detection of the isothermally amplified and labelled amplicon was then explored and detection limits of 7 fM and 0.63 fg achieved for synthetic and genomic DNA, respectively. The incorporation of biotinylated dNTPs and their exploitation for the ultrasensitive molecular detection of a nucleic acid target has been demonstrated and this generic platform can be exploited for a multitude of diverse real life applications.
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8
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Research Progress of M13 Bacteriophage-Based Biosensors. NANOMATERIALS 2019; 9:nano9101448. [PMID: 31614669 PMCID: PMC6835900 DOI: 10.3390/nano9101448] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/03/2019] [Revised: 10/02/2019] [Accepted: 10/03/2019] [Indexed: 12/24/2022]
Abstract
Recently, new virus-based sensor systems that operate on M13 bacteriophage infrastructure have attracted considerable attention. These systems can detect a range of chemicals with excellent sensitivity and selectivity. Filaments consistent with M13 bacteriophages can be ordered by highly established forms of self-assembly. This allows M13 bacteriophages to build a homogeneous distribution and infiltrate the network structure of nanostructures under mild conditions. Phage display, involving the genetic engineering of M13 bacteriophages, is another strong feature of the M13 bacteriophage as a functional building block. The numerous genetic modification possibilities of M13 bacteriophages are clearly the key features, and far more applications are envisaged. This paper reviews the recent progress in the application of the M13 bacteriophage self-assembly structures through to sensor systems and discusses future M13 bacteriophage technology.
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9
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Nguyen BT, Kang MJ. Application of Capillary Electrophoresis with Laser-Induced Fluorescence to Immunoassays and Enzyme Assays. Molecules 2019; 24:E1977. [PMID: 31121978 PMCID: PMC6571882 DOI: 10.3390/molecules24101977] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2019] [Revised: 05/20/2019] [Accepted: 05/21/2019] [Indexed: 02/07/2023] Open
Abstract
Capillary electrophoresis using laser-induced fluorescence detection (CE-LIF) is one of the most sensitive separation tools among electrical separation methods. The use of CE-LIF in immunoassays and enzyme assays has gained a reputation in recent years for its high detection sensitivity, short analysis time, and accurate quantification. Immunoassays are bioassay platforms that rely on binding reactions between an antigen (analyte) and a specific antibody. Enzyme assays measure enzymatic activity through quantitative analysis of substrates and products by the reaction of enzymes in purified enzyme or cell systems. These two category analyses play an important role in the context of biopharmaceutical analysis, clinical therapy, drug discovery, and diagnosis analysis. This review discusses the expanding portfolio of immune and enzyme assays using CE-LIF and focuses on the advantages and disadvantages of these methods over the ten years of existing technology since 2008.
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Affiliation(s)
- Binh Thanh Nguyen
- Molecular Recognition Research Center, Korea Institute of Science and Technology (KIST), Seoul 02792, Korea.
- Division of Bio-Medical Science and Technology (Biological Chemistry), Korea University of Science and Technology (UST), Daejeon 34113, Korea.
| | - Min-Jung Kang
- Molecular Recognition Research Center, Korea Institute of Science and Technology (KIST), Seoul 02792, Korea.
- Division of Bio-Medical Science and Technology (Biological Chemistry), Korea University of Science and Technology (UST), Daejeon 34113, Korea.
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10
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Le ATH, Krylova SM, Krylov SN. Ideal-filter capillary electrophoresis: A highly efficient partitioning method for selection of protein binders from oligonucleotide libraries. Electrophoresis 2019; 40:2553-2564. [PMID: 31069842 DOI: 10.1002/elps.201900028] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2019] [Revised: 04/16/2019] [Accepted: 05/02/2019] [Indexed: 12/22/2022]
Abstract
Selection of affinity ligands for protein targets from oligonucleotide libraries currently involves multiple rounds of alternating steps of partitioning of protein-bound oligonucleotides (binders) from protein-unbound oligonucleotides (nonbinders). We have recently introduced ideal-filter capillary electrophoresis (IFCE) for binder selection in a single step of partitioning. In IFCE, protein-binder complexes and nonbinders move inside the capillary in the opposite directions, and the efficiency of their partitioning reaches 109 , i.e., only one of a billion molecules of nonbinders leaks through IFCE while all binders pass through. The condition of IFCE can be satisfied when the magnitude of the mobility of EOF is smaller than that of the protein-binder complexes and larger than that of nonbinders. The efficiency of partitioning in IFCE is 10 million times higher than those of solid-phase-based methods of partitioning typically used in selection of affinity ligands for protein targets from oligonucleotide libraries. Here, we provide additional details on our justification for IFCE development. We elaborate on electrophoretic aspects of the method and define the theoretical range of EOF mobilities that support IFCE. Based on these theoretical results, we identify an experimental range of background electrolyte's ionic strength that supports IFCE. We also extend our interpretation of the results and discuss in-depth IFCE's prospective in practical applications and fundamental studies.
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Affiliation(s)
- An T H Le
- Department of Chemistry and Centre for Research on Biomolecular Interactions, York University, Toronto, Ontario, Canada
| | - Svetlana M Krylova
- Department of Chemistry and Centre for Research on Biomolecular Interactions, York University, Toronto, Ontario, Canada
| | - Sergey N Krylov
- Department of Chemistry and Centre for Research on Biomolecular Interactions, York University, Toronto, Ontario, Canada
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11
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Le ATH, Krylova SM, Kanoatov M, Desai S, Krylov SN. Ideal-Filter Capillary Electrophoresis (IFCE) Facilitates the One-Step Selection of Aptamers. Angew Chem Int Ed Engl 2019; 58:2739-2743. [PMID: 30577082 DOI: 10.1002/anie.201812974] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2018] [Revised: 12/14/2018] [Indexed: 11/06/2022]
Abstract
Selection of aptamers from oligonucleotide libraries currently requires multiple rounds of alternating steps of partitioning of binders from nonbinders and enzymatic amplification of all collected oligonucleotides. Herein, we report a highly practical solution for reliable one-step selection of aptamers. We introduce partitioning by ideal-filter capillary electrophoresis (IFCE) in which binders and nonbinders move in the opposite directions. The efficiency of IFCE-based partitioning reaches 109 , which is ten million times higher than that of typical solid-phase partitioning methods. One step of IFCE-based partitioning is sufficient for the selection of a high-affinity aptamer pool for a protein target. Partitioning by IFCE promises to become an indispensable tool for fast and robust selection of binders from different types of oligonucleotide libraries.
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Affiliation(s)
- An T H Le
- Centre for Research on Biomolecular Interactions, York University, Toronto, Ontario, M3J 1P3, Canada
| | - Svetlana M Krylova
- Centre for Research on Biomolecular Interactions, York University, Toronto, Ontario, M3J 1P3, Canada
| | - Mirzo Kanoatov
- Centre for Research on Biomolecular Interactions, York University, Toronto, Ontario, M3J 1P3, Canada
| | - Shrey Desai
- Centre for Research on Biomolecular Interactions, York University, Toronto, Ontario, M3J 1P3, Canada
| | - Sergey N Krylov
- Centre for Research on Biomolecular Interactions, York University, Toronto, Ontario, M3J 1P3, Canada
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12
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Le ATH, Krylova SM, Kanoatov M, Desai S, Krylov SN. Ideal‐Filter Capillary Electrophoresis (IFCE) Facilitates the One‐Step Selection of Aptamers. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201812974] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Affiliation(s)
- An T. H. Le
- Centre for Research on Biomolecular InteractionsYork University Toronto Ontario M3J 1P3 Canada
| | - Svetlana M. Krylova
- Centre for Research on Biomolecular InteractionsYork University Toronto Ontario M3J 1P3 Canada
| | - Mirzo Kanoatov
- Centre for Research on Biomolecular InteractionsYork University Toronto Ontario M3J 1P3 Canada
| | - Shrey Desai
- Centre for Research on Biomolecular InteractionsYork University Toronto Ontario M3J 1P3 Canada
| | - Sergey N. Krylov
- Centre for Research on Biomolecular InteractionsYork University Toronto Ontario M3J 1P3 Canada
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13
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Guliy OI, Zaitsev BD, Borodina IA, Burygin GL, Karavaeva OA, Semyonov AP. Analysis of the microbial cell-Ab binding in buffer solution by the piezoelectric resonator. Anal Biochem 2018; 554:53-60. [PMID: 29870693 DOI: 10.1016/j.ab.2018.05.028] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2018] [Accepted: 05/30/2018] [Indexed: 10/14/2022]
Abstract
The possibility of the registration of the interaction of the cells Azospirillum lipoferum Sp59b with the specific antibodies directly in the conducting suspensions by using an acoustic sensor was shown. The main element of the sensor is a piezoelectric resonator with a lateral electric field. The analysis is based on a comparison of the resonator's electrical impedance before and after the specific biological interaction between the cells and antibodies. By using this sensor one can detect and identify the bacterial cells directly in the buffer solution with the conductivity between 2.4 and 20 μS/cm. The minimum detectable concentration of the bacterial cells turned out to be ∼103 cells/ml and for a short time (less than 10 min). Also the possibility of the detection of the cells in the presence of the extraneous microflora was shown. The results provide the opportunities for the development of a new class of the methods for the analysis of the microbial cells in real-time directly in the buffer solution.
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Affiliation(s)
- O I Guliy
- Institute of Biochemistry and Physiology of Plants and Microorganisms, RAS, 13 Prospect Entuziastov, Saratov, 410049, Russia; Saratov State Vavilov Agrarian University, Saratov, 410012, Russia.
| | - B D Zaitsev
- Kotel'nikov Institute of Radio Engineering and Electronics of RAS, Saratov Branch, Saratov, 410019, Russia
| | - I A Borodina
- Kotel'nikov Institute of Radio Engineering and Electronics of RAS, Saratov Branch, Saratov, 410019, Russia
| | - G L Burygin
- Institute of Biochemistry and Physiology of Plants and Microorganisms, RAS, 13 Prospect Entuziastov, Saratov, 410049, Russia; Saratov State Vavilov Agrarian University, Saratov, 410012, Russia
| | - O A Karavaeva
- Institute of Biochemistry and Physiology of Plants and Microorganisms, RAS, 13 Prospect Entuziastov, Saratov, 410049, Russia
| | - A P Semyonov
- Kotel'nikov Institute of Radio Engineering and Electronics of RAS, Saratov Branch, Saratov, 410019, Russia
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14
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Voeten RLC, Ventouri IK, Haselberg R, Somsen GW. Capillary Electrophoresis: Trends and Recent Advances. Anal Chem 2018; 90:1464-1481. [PMID: 29298038 PMCID: PMC5994730 DOI: 10.1021/acs.analchem.8b00015] [Citation(s) in RCA: 187] [Impact Index Per Article: 31.2] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Robert L C Voeten
- Division of BioAnalytical Chemistry, Department of Chemistry and Pharmaceutical Sciences, Vrije Universiteit Amsterdam , de Boelelaan 1085, 1081 HV Amsterdam, The Netherlands.,TI-COAST , Science Park 904, 1098 XH Amsterdam, The Netherlands
| | - Iro K Ventouri
- TI-COAST , Science Park 904, 1098 XH Amsterdam, The Netherlands.,Analytical Chemistry Group, van't Hoff Institute for Molecular Sciences, University of Amsterdam , Science Park 904, 1098 XH Amsterdam, The Netherlands
| | - Rob Haselberg
- Division of BioAnalytical Chemistry, Department of Chemistry and Pharmaceutical Sciences, Vrije Universiteit Amsterdam , de Boelelaan 1085, 1081 HV Amsterdam, The Netherlands
| | - Govert W Somsen
- Division of BioAnalytical Chemistry, Department of Chemistry and Pharmaceutical Sciences, Vrije Universiteit Amsterdam , de Boelelaan 1085, 1081 HV Amsterdam, The Netherlands
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15
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Sicco E, Báez J, Margenat J, García F, Ibarra M, Cabral P, Moreno M, Cerecetto H, Calzada V. Derivatizations of Sgc8-c aptamer to prepare metallic radiopharmaceuticals as imaging diagnostic agents: Syntheses, isolations, and physicochemical characterizations. Chem Biol Drug Des 2017; 91:747-755. [PMID: 29080264 DOI: 10.1111/cbdd.13135] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2017] [Revised: 07/09/2017] [Accepted: 10/04/2017] [Indexed: 12/31/2022]
Abstract
Aptamers, oligonucleotides with the capability to bind to a target through non-covalent bonds with high affinity and specificity, have a great number of advantages as scaffold to prepare molecular imaging agents. In this sense, we have performed post-SELEX modifications of a truncated aptamer, Sgc8-c, which bind to protein tyrosine kinase 7 to obtain a specific molecular targeting probe for in vivo diagnosis and in vivo therapy. Herein, we describe the synthetic efforts to prepare conjugates between Sgc8-c and different metallic ions chelator moieties in short times, high purities, and adequate yields. The selected chelator moieties, derived from 1,4,7,10-tetraazacyclododecane-1,4,7,10-tetraacetic acid, 2-benzyl-1,4,7-triazacyclononane-1,4,7-triacetic acid, and 6-hydrazinonicotinic acid, were covalently attached at the 5'-aptamer position yielding the expected products which were stable in aqueous solution up to 75°C and in typical aptamer storage conditions at least for 30 days.
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Affiliation(s)
- Estefanía Sicco
- Área de Radiofarmacia, Facultad de Ciencias, Centro de Investigaciones Nucleares, Universidad de la República, Montevideo, Uruguay.,Departamento de Desarrollo Biotecnológico, Facultad de Medicina, Instituto de Higiene, Universidad de la República, Montevideo, Uruguay
| | - Jessica Báez
- Área de Radiofarmacia, Facultad de Ciencias, Centro de Investigaciones Nucleares, Universidad de la República, Montevideo, Uruguay.,Facultad de Química, Centro de Evaluación de Biodisponibilidad y Bioequivalencia de Medicamentos, Universidad de la República, Montevideo, Uruguay
| | - Jimena Margenat
- Área de Radiofarmacia, Facultad de Ciencias, Centro de Investigaciones Nucleares, Universidad de la República, Montevideo, Uruguay
| | - Fernanda García
- Área de Radiofarmacia, Facultad de Ciencias, Centro de Investigaciones Nucleares, Universidad de la República, Montevideo, Uruguay
| | - Manuel Ibarra
- Facultad de Química, Centro de Evaluación de Biodisponibilidad y Bioequivalencia de Medicamentos, Universidad de la República, Montevideo, Uruguay
| | - Pablo Cabral
- Área de Radiofarmacia, Facultad de Ciencias, Centro de Investigaciones Nucleares, Universidad de la República, Montevideo, Uruguay
| | - María Moreno
- Departamento de Desarrollo Biotecnológico, Facultad de Medicina, Instituto de Higiene, Universidad de la República, Montevideo, Uruguay
| | - Hugo Cerecetto
- Área de Radiofarmacia, Facultad de Ciencias, Centro de Investigaciones Nucleares, Universidad de la República, Montevideo, Uruguay
| | - Victoria Calzada
- Área de Radiofarmacia, Facultad de Ciencias, Centro de Investigaciones Nucleares, Universidad de la República, Montevideo, Uruguay
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16
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Guliy ОI, Zaitsev BD, Borodina IA, Shikhabudinov АМ, Teplykh AA, Staroverov SA, Fomin AS. The biological acoustic sensor to record the interactions of the microbial cells with the phage antibodies in conducting suspensions. Talanta 2017; 178:569-576. [PMID: 29136863 DOI: 10.1016/j.talanta.2017.09.076] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2017] [Revised: 09/20/2017] [Accepted: 09/28/2017] [Indexed: 12/22/2022]
Abstract
The acoustic biological sensor for the analysis of the bacterial cells in conducting suspension was developed. The sensor represented the two channel delay line based on the piezoelectric plate of Y-X lithium niobate thick of 0.2mm. Two pairs of the interdigital transducers (IDT) for the excitation and reception of shear horizontal acoustic wave of zero order (SH0) in each channel were deposited by the method of photolithography. One channel of the delay line was electrically shorted by the deposition of thin aluminum film between IDTs. The second channel remained as electrically open. The liquid container with the volume of 5ml was fixed on the plate surface between IDTs by the glue, which did not cause the additional insertion loss. For the first time the influence of the conductivity of the cell suspension on the registration of the specific and nonspecific interactions of the bacterial cells with phage-antibodies (phage-Abs) was studied by means of the developed sensor. The dependencies of the change in insertion loss and phase of the output signal on the conductivity of the buffer solution at specific/nonspecific interactions for the electrically open and shorted channels of the delay line were obtained. It was shown that the sensor successfully registered the interactions of microbial cells with phage-Abs in the range of the conductivity of 2-20 μS/cm on the model samples A. brasilense Sp245 - specific phage-Abs. The sensor in the time regime of the operation fast reacted on the specific/nonspecific interaction and the time of the stabilization of the output parameters did not exceed 10min.
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Affiliation(s)
- О I Guliy
- Institute of Biochemistry & Physiology of Plants & Microorganisms RAS, 13 Prospect Enthusiastic, Saratov 410049, Russia; Saratov State Agrarian University, Saratov 410012, Russia; Scientific Research Veterinary Institute, Saratov 410028, Russia.
| | - B D Zaitsev
- Kotel'nikov Institute of Radio Engineering and Electronics RAS, Saratov Branch, Saratov 410019, Russia
| | - I A Borodina
- Kotel'nikov Institute of Radio Engineering and Electronics RAS, Saratov Branch, Saratov 410019, Russia
| | - А М Shikhabudinov
- Kotel'nikov Institute of Radio Engineering and Electronics RAS, Saratov Branch, Saratov 410019, Russia
| | - A A Teplykh
- Kotel'nikov Institute of Radio Engineering and Electronics RAS, Saratov Branch, Saratov 410019, Russia
| | - S A Staroverov
- Scientific Research Veterinary Institute, Saratov 410028, Russia
| | - A S Fomin
- Institute of Biochemistry & Physiology of Plants & Microorganisms RAS, 13 Prospect Enthusiastic, Saratov 410049, Russia; Scientific Research Veterinary Institute, Saratov 410028, Russia
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17
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Ric A, Ong-Meang V, Poinsot V, Martins-Froment N, Chauvet F, Boutonnet A, Ginot F, Ecochard V, Paquereau L, Couderc F. ssDNA degradation along capillary electrophoresis process using a Tris buffer. Electrophoresis 2017; 38:1624-1631. [PMID: 28251659 DOI: 10.1002/elps.201600561] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2016] [Revised: 02/17/2017] [Accepted: 02/18/2017] [Indexed: 11/08/2022]
Abstract
Tris-Acetate buffer is currently used in the selection and the characterization of ssDNA by capillary electrophoresis (CE). By applying high voltage, the migration of ionic species into the capillary generates a current that induces water electrolysis. This phenomenon is followed by the modification of the pH and the production of Tris derivatives. By injecting ten times by capillary electrophoresis ssDNA (50 nM), the whole oligonucleotide was degraded. In this paper, we will show that the Tris buffer in the running vials is modified along the electrophoretic process by electrochemical reactions. We also observed that the composition of the metal ions changes in the running buffer vials. This phenomenon, never described in CE, is important for fluorescent ssDNA analysis using Tris buffer. The oligonucleotides are degraded by electrochemically synthesized species (present in the running Tris vials) until it disappears, even if the separation buffer in the capillary is clean. To address these issues, we propose to use a sodium phosphate buffer that we demonstrate to be electrochemically inactive.
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Affiliation(s)
- Audrey Ric
- Laboratoire des IMRCP, UMR 5623, Université de Toulouse, Université Paul Sabatier, Toulouse, France.,CNRS, Institut de Pharmacologie et de BiologieStructurale, UMR 5089, Université de Toulouse, France.,Picometrics Technologies, Labège, France
| | - Varravaddheay Ong-Meang
- Laboratoire des IMRCP, UMR 5623, Université de Toulouse, Université Paul Sabatier, Toulouse, France
| | - Verena Poinsot
- Laboratoire des IMRCP, UMR 5623, Université de Toulouse, Université Paul Sabatier, Toulouse, France
| | - Nathalie Martins-Froment
- Service commun de spectrométrie de masse, institut de chimie de Toulouse, Université de Toulouse, Université Paul Sabatier, Toulouse, France
| | - Fabien Chauvet
- Laboratoire de Génie Chimique, UMR 5503, Université de Toulouse, Université Paul Sabatier, Toulouse, France
| | | | | | - Vincent Ecochard
- CNRS, Institut de Pharmacologie et de BiologieStructurale, UMR 5089, Université de Toulouse, France
| | - Laurent Paquereau
- CNRS, Institut de Pharmacologie et de BiologieStructurale, UMR 5089, Université de Toulouse, France
| | - François Couderc
- Laboratoire des IMRCP, UMR 5623, Université de Toulouse, Université Paul Sabatier, Toulouse, France
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