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Yang H, Zhu L, Wang X, Song Y, Dong Y, Xu W. Extension characteristics of TdT and its application in biosensors. Crit Rev Biotechnol 2024; 44:981-995. [PMID: 37880088 DOI: 10.1080/07388551.2023.2270772] [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: 05/30/2023] [Revised: 08/18/2023] [Accepted: 09/14/2023] [Indexed: 10/27/2023]
Abstract
The advantages of rapid amplification of nucleic acid without a template based on terminal deoxyribonucleotidyl transferase (TdT) have been widely used in the field of biosensors. However, the catalytic efficiency of TdT is affected by extension conditions. The sensitivity of TdT- mediated biosensors can be improved only under appropriate conditions. Therefore, in this review, we provide a comprehensive overview of TdT extension characteristics and its applications in biosensors. We focus on the relationship between TdT extension conditions and extension efficiency. Furthermore, the construction strategy of TdT-mediated biosensors according to five different recognition types and their applications in targets are discussed and, finally, several current challenges and prospects in the field are taken into consideration.
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Affiliation(s)
- He Yang
- Department of Nutrition and Health, Ministry of Education, Key Laboratory of Precision Nutrition and Food Quality, Food Laboratory of Zhongyuan, China Agricultural University, Beijing, China
| | - Longjiao Zhu
- Department of Nutrition and Health, Ministry of Education, Key Laboratory of Precision Nutrition and Food Quality, Food Laboratory of Zhongyuan, China Agricultural University, Beijing, China
| | - Xinxin Wang
- Department of Nutrition and Health, Ministry of Education, Key Laboratory of Precision Nutrition and Food Quality, Food Laboratory of Zhongyuan, China Agricultural University, Beijing, China
| | - Yuhan Song
- Department of Nutrition and Health, Ministry of Education, Key Laboratory of Precision Nutrition and Food Quality, Food Laboratory of Zhongyuan, China Agricultural University, Beijing, China
- College of Food Science and Nutritional Engineering, Key Laboratory of Safety Assessment of Genetically Modified Organism (Food Safety), China Agricultural University, Beijing, China
| | - Yulan Dong
- Department of Nutrition and Health, Ministry of Education, Key Laboratory of Precision Nutrition and Food Quality, Food Laboratory of Zhongyuan, China Agricultural University, Beijing, China
- College of Veterinary Medicine, China Agricultural University, Beijing, China
| | - Wentao Xu
- Department of Nutrition and Health, Ministry of Education, Key Laboratory of Precision Nutrition and Food Quality, Food Laboratory of Zhongyuan, China Agricultural University, Beijing, China
- College of Food Science and Nutritional Engineering, Key Laboratory of Safety Assessment of Genetically Modified Organism (Food Safety), China Agricultural University, Beijing, China
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2
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Wu S, Shang Y, Yan Y, Zhou A, Bing T, Zhao Z, Tan W. Aptamer-Based Enforced Phosphatase-Recruiting Chimeras Inhibit Receptor Tyrosine Kinase Signal Transduction. J Am Chem Soc 2024; 146:22445-22454. [PMID: 39087949 DOI: 10.1021/jacs.4c05665] [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: 08/02/2024]
Abstract
Aberrant phosphorylation of receptor tyrosine kinases (RTKs) is usually involved in tumor initiation, progression, and metastasis. However, developing specific and efficient molecular tools to regulate RTK phosphorylation remains a considerable challenge. In this study, we reported novel aptamer-based chimeras to inhibit the phosphorylation of RTKs, such as c-Met and EGFR, by enforced recruitment of a protein tyrosine phosphatase receptor type F (PTPRF). Our studies revealed that aptamer-based chimeras displayed a generic and potent inhibitory effect on RTK phosphorylation induced by growth factor or auto-dimerization in different cell lines and modulated cell biological behaviors by recruiting PTPRF. Furthermore, based on angstrom accuracy of the DNA duplex, the maximum catalytic radius of PTPRF was determined as ∼25.84 nm, providing a basis for the development of phosphatase-recruiting strategies. Taken together, our study provides a generic methodology not only for selectively mediating RTK phosphorylation and cellular biological processes but also for developing novel therapeutic drugs.
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Affiliation(s)
- Shanchao Wu
- Molecular Science and Biomedicine Laboratory (MBL), State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, College of Biology, Aptamer Engineering Center of Hunan Province, Hunan University, Changsha, Hunan 410082, People's Republic of China
| | - Yanxue Shang
- Molecular Science and Biomedicine Laboratory (MBL), State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, College of Biology, Aptamer Engineering Center of Hunan Province, Hunan University, Changsha, Hunan 410082, People's Republic of China
| | - Yuping Yan
- Molecular Science and Biomedicine Laboratory (MBL), State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, College of Biology, Aptamer Engineering Center of Hunan Province, Hunan University, Changsha, Hunan 410082, People's Republic of China
| | - Aili Zhou
- Molecular Science and Biomedicine Laboratory (MBL), State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, College of Biology, Aptamer Engineering Center of Hunan Province, Hunan University, Changsha, Hunan 410082, People's Republic of China
| | - Tao Bing
- The Key Laboratory of Zhejiang Province for Aptamers and Theranostics, Zhejiang Cancer Hospital, Hangzhou Institute of Medicine (HIM), Chinese Academy of Sciences, Hangzhou, Zhejiang 310022, China
| | - Zilong Zhao
- Molecular Science and Biomedicine Laboratory (MBL), State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, College of Biology, Aptamer Engineering Center of Hunan Province, Hunan University, Changsha, Hunan 410082, People's Republic of China
| | - Weihong Tan
- Molecular Science and Biomedicine Laboratory (MBL), State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, College of Biology, Aptamer Engineering Center of Hunan Province, Hunan University, Changsha, Hunan 410082, People's Republic of China
- The Key Laboratory of Zhejiang Province for Aptamers and Theranostics, Zhejiang Cancer Hospital, Hangzhou Institute of Medicine (HIM), Chinese Academy of Sciences, Hangzhou, Zhejiang 310022, China
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3
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Ashley J, Potts IG, Olorunniji FJ. Applications of Terminal Deoxynucleotidyl Transferase Enzyme in Biotechnology. Chembiochem 2023; 24:e202200510. [PMID: 36342345 DOI: 10.1002/cbic.202200510] [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: 09/01/2022] [Revised: 11/04/2022] [Indexed: 11/09/2022]
Abstract
The use of polymerase enzymes in biotechnology has allowed us to gain unprecedented control over the manipulation of DNA, opening up new and exciting applications in areas such as biosensing, polynucleotide synthesis, and DNA storage, aptamer development and DNA-nanotechnology. One of the most intriguing enzymes which has gained prominence in the last decade is terminal deoxynucleotidyl transferase (TdT), which is one of the only polymerase enzymes capable of catalysing the template independent stepwise addition of nucleotides onto an oligonucleotide chain. This unique enzyme has seen a significant increase in a variety of different applications. In this review, we give a comprehensive discussion of the unique properties and applications of TdT as a biotechnology tool, and the application in the enzymatic synthesis of poly/oligonucleotides. Finally, we look at the increasing role of TdT enzyme in biosensing, DNA storage, synthesis of DNA nanostructures and aptamer development, and give a future outlook for this technology.
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Affiliation(s)
- Jon Ashley
- School of Pharmaceutical and Biomolecular Sciences, Liverpool John Moores University, James Parsons Building, 3 Byrom St, Liverpool, L3 3AF, UK
| | - Indiia G Potts
- School of Pharmaceutical and Biomolecular Sciences, Liverpool John Moores University, James Parsons Building, 3 Byrom St, Liverpool, L3 3AF, UK
| | - Femi J Olorunniji
- School of Pharmaceutical and Biomolecular Sciences, Liverpool John Moores University, James Parsons Building, 3 Byrom St, Liverpool, L3 3AF, UK
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4
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Checkerboard arranged G4 nanostructure-supported electrochemical platform and its application to unique bio-enzymes examination. Bioelectrochemistry 2023; 149:108282. [DOI: 10.1016/j.bioelechem.2022.108282] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2022] [Revised: 09/25/2022] [Accepted: 09/28/2022] [Indexed: 11/07/2022]
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5
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Upasham S, Pali M, Jagannath B, Lin KC, Prasad S. Electrochemical Aptasensing for Lifestyle and Chronic Disease Management. Curr Med Chem 2023; 30:895-909. [PMID: 35619314 DOI: 10.2174/0929867329666220520111715] [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: 08/13/2021] [Revised: 01/21/2022] [Accepted: 03/10/2022] [Indexed: 11/22/2022]
Abstract
Over the past decade, researchers have investigated electrochemical sensing for the purpose of fabricating wearable point-of-use platforms. These wearable platforms have the ability to non-invasively track biomarkers that are clinically relevant and provide a comprehensive evaluation of the user's health. Due to many significant operational advantages, aptamer-based sensing is gaining traction.Aptamer-based sensors have properties like long-term stability, resistance to denaturation, and high sensitivity. Using electrochemical sensing with aptamer-based biorecognition is advantageous because it provides significant benefits like lower detection limits, a wider range of operations, and, most importantly, the ability to detect using a label-free approach. This paper provides an outlook into the current state of electrochemical aptasensing. This review looks into the significance of the detection of biomarkers like glucose, cortisol etc., for the purpose of lifestyle and chronic disease monitoring. Moreover, this review will also provide a comprehensive evaluation of the current challenges and prospects in this field.
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Affiliation(s)
- Sayali Upasham
- Department of Bioengineering, University of Texas at Dallas, Richardson, Texas-75080, USA
| | - Madhavi Pali
- Department of Bioengineering, University of Texas at Dallas, Richardson, Texas-75080, USA
| | - Badrinath Jagannath
- Department of Bioengineering, University of Texas at Dallas, Richardson, Texas-75080, USA
| | - Kai-Chun Lin
- Department of Bioengineering, University of Texas at Dallas, Richardson, Texas-75080, USA
| | - Shalini Prasad
- Department of Bioengineering, University of Texas at Dallas, Richardson, Texas-75080, USA
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6
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Ming T, Luo J, Xing Y, Cheng Y, Liu J, Sun S, Kong F, Xu S, Dai Y, Xie J, Jin H, Cai X. Recent progress and perspectives of continuous in vivo testing device. Mater Today Bio 2022; 16:100341. [PMID: 35875195 PMCID: PMC9305619 DOI: 10.1016/j.mtbio.2022.100341] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2022] [Revised: 06/22/2022] [Accepted: 06/23/2022] [Indexed: 11/26/2022] Open
Abstract
Devices for continuous in-vivo testing (CIVT) can detect target substances in real time, thus providing a valuable window into a patient's condition, their response to therapeutics, metabolic activities, and neurotransmitter transmission in the brain. Therefore, CIVT devices have received increased attention because they are expected to greatly assist disease diagnosis and treatment and research on human pathogenesis. However, CIVT has been achieved for only a few markers, and it remains challenging to detect many key markers. Therefore, it is important to summarize the key technologies and methodologies of CIVT, and to examine the direction of future development of CIVT. We review recent progress in the development of CIVT devices, with consideration of the structure of these devices, principles governing continuous detection, and nanomaterials used for electrode modification. This detailed and comprehensive review of CIVT devices serves three purposes: (1) to summarize the advantages and disadvantages of existing devices, (2) to provide a reference for development of CIVT equipment to detect additional important markers, and (3) to discuss future prospects with emphasis on problems that must be overcome for further development of CIVT equipment. This review aims to promote progress in research on CIVT devices and contribute to future innovation in personalized medical treatments.
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Affiliation(s)
- Tao Ming
- Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, 100094, PR China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Jinping Luo
- Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, 100094, PR China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Yu Xing
- Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, 100094, PR China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Yan Cheng
- Obstetrics and Gynecology Department, Peking University First Hospital, Beijing, 100034, PR China
| | - Juntao Liu
- Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, 100094, PR China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Shuai Sun
- Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, 100094, PR China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Fanli Kong
- Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, 100094, PR China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Shihong Xu
- Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, 100094, PR China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Yuchuan Dai
- Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, 100094, PR China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Jingyu Xie
- Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, 100094, PR China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Hongyan Jin
- Obstetrics and Gynecology Department, Peking University First Hospital, Beijing, 100034, PR China
| | - Xinxia Cai
- Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing, 100094, PR China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing, 100049, China
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7
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Rai R, Ranjan R, Dhar P. Life cycle assessment of transparent wood production using emerging technologies and strategic scale-up framework. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 846:157301. [PMID: 35839879 DOI: 10.1016/j.scitotenv.2022.157301] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2022] [Revised: 07/07/2022] [Accepted: 07/08/2022] [Indexed: 06/15/2023]
Abstract
Transparent wood, a sustainable material, holds the potential to replace conventional petroleum-based polymers because of its renewable and biodegradable properties. It has been recently used for construction, energy storage, flexible electronics, and packaging applications. Life cycle analysis (LCA) of transparent wood would provide the environmental impacts during its production and end-of-life (EOL). The cradle-to-gate analysis of transparent wood suggests that sodium hydroxide, sodium sulfite, hydrogen peroxide-based delignification (NaOH + Na2SO3 + H2O2 method), and epoxy infiltration lead to the lowest environmental impacts. It generates approximately 24 % less global warming potential and about 15 % less terrestrial acidification than sodium chlorite delignification and polymethyl methacrylate (PMMA) infiltration. The modelled industrial-scale production has lower electricity consumption (by 98.8 %) and environmental impacts than the laboratory scale (28 % less global warming potential and approximately 97 % less human toxicity). The EOL analysis of transparent wood showed reduced ecological impacts (107 times) in comparison to polyethylene, suggesting that it can be commercially adapted to replace conventional petroleum-based materials.
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Affiliation(s)
- Rohit Rai
- School of Biochemical Engineering, Indian Institute of Technology (BHU), Varanasi, Uttar Pradesh 221005, India
| | - Rahul Ranjan
- School of Biochemical Engineering, Indian Institute of Technology (BHU), Varanasi, Uttar Pradesh 221005, India
| | - Prodyut Dhar
- School of Biochemical Engineering, Indian Institute of Technology (BHU), Varanasi, Uttar Pradesh 221005, India.
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8
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Zhou Q, Xu Z, Liu Z. Molecularly Imprinting–Aptamer Techniques and Their Applications in Molecular Recognition. BIOSENSORS 2022; 12:bios12080576. [PMID: 36004972 PMCID: PMC9406215 DOI: 10.3390/bios12080576] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/24/2022] [Revised: 07/24/2022] [Accepted: 07/26/2022] [Indexed: 11/18/2022]
Abstract
Molecular imprinting–aptamer techniques exhibit the advantages of molecular imprinting and aptamer technology. Hybrids of molecularly imprinted polymer–aptamer (MIP–aptamer) prepared by this technique have higher stability, binding affinity and superior selectivity than conventional molecularly imprinted polymers or aptamers. In recent years, molecular imprinting–aptamer technologies have attracted considerable interest for the selective recognition of target molecules in complex sample matrices and have been used in molecular recognition such as antibiotics, proteins, viruses and pesticides. This review introduced the development of molecular imprinting–aptamer-combining technologies and summarized the mechanism of MIP–aptamer formation. Meanwhile, we discussed the challenges in preparing MIP–aptamer. Finally, we summarized the application of MIP–aptamer to the molecular recognition in disease diagnosis, environmental analysis, food safety and other fields.
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9
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A Novel Biomimetic Network Amplification Strategy Designed Fluorescent Aptasensor Based on Yolk-Shell Fe3O4 Nanomaterials for Aflatoxin B1 Detection. Food Chem 2022; 398:133761. [DOI: 10.1016/j.foodchem.2022.133761] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2022] [Revised: 06/19/2022] [Accepted: 07/20/2022] [Indexed: 11/17/2022]
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10
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Vacacela J, Schaap‐Johansen A, Manikova P, Marcatili P, Prado M, Sun Y, Ashley J. The Protein‐Templated Synthesis of Enzyme‐Generated Aptamers. Angew Chem Int Ed Engl 2022; 61:e202201061. [PMID: 35167174 PMCID: PMC9314878 DOI: 10.1002/anie.202201061] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2022] [Indexed: 01/15/2023]
Abstract
Inspired by the chemical synthesis of molecularly imprinted polymers, we demonstrated for the first time, the protein‐target mediated synthesis of enzyme‐generated aptamers (EGAs). We prepared pre‐polymerisation mixtures containing different ratios of nucleotides, an initiator sequence and protein template and incubated each mixture with terminal deoxynucleotidyl transferase (TdT). Upon purification and rebinding of the EGAs against the target, we observed an enhancement in binding of templated‐EGAs towards the target compared to a non‐templated control. These results demonstrate the presence of two primary mechanisms for the formation of EGAs, namely, the binding of random sequences to the target as observed in systematic evolution of ligands by exponential enrichment (SELEX) and the dynamic competition between TdT enzyme and the target protein for binding of EGAs during synthesis. The latter mechanism serves to increase the stringency of EGA‐based screening and represents a new way to develop aptamers that relies on rational design.
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Affiliation(s)
- Julio Vacacela
- Department of Health Technology Technical University of Denmark Ørsteds Pl. 345C Kgs. Lyngby 2800 Denmark
| | - Anna‐Lisa Schaap‐Johansen
- Department of Health Technology Technical University of Denmark Ørsteds Pl. 345C Kgs. Lyngby 2800 Denmark
| | - Patricia Manikova
- Department of Health Technology Technical University of Denmark Ørsteds Pl. 345C Kgs. Lyngby 2800 Denmark
| | - Paolo Marcatili
- Department of Health Technology Technical University of Denmark Ørsteds Pl. 345C Kgs. Lyngby 2800 Denmark
| | - Marta Prado
- International Iberian Nanotechnology Laboratory (INL) Av. Mestre José Veiga Braga 4715-330 Portugal
| | - Yi Sun
- Department of Health Technology Technical University of Denmark Ørsteds Pl. 345C Kgs. Lyngby 2800 Denmark
| | - Jon Ashley
- Department of Health Technology Technical University of Denmark Ørsteds Pl. 345C Kgs. Lyngby 2800 Denmark
- School of Pharmacy and Biomolecular Sciences Liverpool John Moores University Byrom Street Liverpool L3 3AF UK
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11
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Vacacela J, Schaap‐Johansen A, Manikova P, Marcatili P, Prado M, Sun Y, Ashley J. The Protein‐Templated Synthesis of Enzyme‐Generated Aptamers. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202201061] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Julio Vacacela
- Department of Health Technology Technical University of Denmark Ørsteds Pl. 345C Kgs. Lyngby 2800 Denmark
| | - Anna‐Lisa Schaap‐Johansen
- Department of Health Technology Technical University of Denmark Ørsteds Pl. 345C Kgs. Lyngby 2800 Denmark
| | - Patricia Manikova
- Department of Health Technology Technical University of Denmark Ørsteds Pl. 345C Kgs. Lyngby 2800 Denmark
| | - Paolo Marcatili
- Department of Health Technology Technical University of Denmark Ørsteds Pl. 345C Kgs. Lyngby 2800 Denmark
| | - Marta Prado
- International Iberian Nanotechnology Laboratory (INL) Av. Mestre José Veiga Braga 4715-330 Portugal
| | - Yi Sun
- Department of Health Technology Technical University of Denmark Ørsteds Pl. 345C Kgs. Lyngby 2800 Denmark
| | - Jon Ashley
- Department of Health Technology Technical University of Denmark Ørsteds Pl. 345C Kgs. Lyngby 2800 Denmark
- School of Pharmacy and Biomolecular Sciences Liverpool John Moores University Byrom Street Liverpool L3 3AF UK
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12
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Zhang D, Wang Y, Jin X, Xiao Q, Huang S. A label-free and ultrasensitive electrochemical biosensor for oral cancer overexpressed 1 gene via exonuclease III-assisted target recycling and dual enzyme-assisted signal amplification strategies. Analyst 2022; 147:2412-2424. [DOI: 10.1039/d2an00367h] [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
A label-free and ultrasensitive electrochemical biosensor for ORAOV1 gene via exonuclease III-assisted target recycling and dual enzyme-assisted signal amplification strategies. The detection limit of ORAOV1 gene was as low as 0.019 fM.
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Affiliation(s)
- Dongyou Zhang
- Guangxi Key Laboratory of Natural Polymer Chemistry and Physics, College of Chemistry and Materials, Nanning Normal University, Nanning 530001, P. R. China
| | - Yali Wang
- Guangxi Key Laboratory of Natural Polymer Chemistry and Physics, College of Chemistry and Materials, Nanning Normal University, Nanning 530001, P. R. China
| | - Xiaoyu Jin
- Guangxi Key Laboratory of Natural Polymer Chemistry and Physics, College of Chemistry and Materials, Nanning Normal University, Nanning 530001, P. R. China
| | - Qi Xiao
- Guangxi Key Laboratory of Natural Polymer Chemistry and Physics, College of Chemistry and Materials, Nanning Normal University, Nanning 530001, P. R. China
| | - Shan Huang
- Guangxi Key Laboratory of Natural Polymer Chemistry and Physics, College of Chemistry and Materials, Nanning Normal University, Nanning 530001, P. R. China
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Framework nucleic acid-wrapped protein-inorganic hybrid nanoflowers with three-stage amplified fluorescence polarization for terminal deoxynucleotidyl transferase activity biosensing. Biosens Bioelectron 2021; 193:113564. [PMID: 34416433 DOI: 10.1016/j.bios.2021.113564] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2021] [Revised: 08/07/2021] [Accepted: 08/10/2021] [Indexed: 11/21/2022]
Abstract
Herein, we proposed a terminal deoxynucleotidyl transferase (TdT), a potential biomarker of lymphoid tumors, responsive fluorescence polarization (FP)- sensing protocol based on framework nucleic acid (FNA)-wrapped protein-inorganic hybrid nanoflowers. To achieve this goal, a pair of poly-A-composed extension primers (EPa and EPb) was designed, and protein-inorganic hybrid nanoflowers were synthesized by a biomineralization reaction. EPa was labeled with carboxyfluorescein (FAM) fluorophore to create the preliminary FP signal. EPb was labeled with biotin to conjugate with hybrid nanoflowers. Upon introduction of TdT into the dTTP pool, both EPa and EPb can be catalyzed by TdT to incorporate numerous T bases, thereby facilitating intermolecular hybridization between 'A' and 'T' bases. The final assembled FNA-wrapped hybrid nanoflowers with greatly enhanced molecular volume and weight restrict the free rotation of attached FAMs, causing a great FP enhancement from a designated three-stage FP amplification. Under optimized conditions, the TdT can be detected with a detection limit of 0.023 U/mL and a linear detection from 0.1 U/mL to 100 U/mL within 20 min. As a proof-of-concept study, the first exploitation of FNA and protein-inorganic nanoflowers to improve the FP signal and the merit of FP without sample separation and washing opens a new avenue for biochemical study and disease diagnosis.
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A cathode photoelectrochemical assay of terminal deoxynucleotidyl transferase activity based on Ag-AgI-CNTs composite and surface multisite strand displacement amplification. Biosens Bioelectron 2021; 181:113152. [PMID: 33725504 DOI: 10.1016/j.bios.2021.113152] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2021] [Revised: 03/03/2021] [Accepted: 03/04/2021] [Indexed: 12/22/2022]
Abstract
Photocathode-based assay is anti-interference for real sample detection. Photocathode produces low photocurrent signal and gives rise to poor sensitivity. Herein, a novel cathode photoelectrochemical (CPEC) sensing platform based on Ag-AgI-CNTs as photocathode material and K3[Fe(CN)6] as photoelectron acceptor was established. Since [Fe(CN)6]3- effectively accepted photoelectrons from Ag-AgI-CNTs, it greatly enhanced the CPEC response. Combining a surface multisite strand displacement amplification (SMSDA) strategy, the CPEC platform was applied for the activity assay of terminal deoxynucleotidyl transferase (TdT). In this proposal, oligo dT primer tethered on CPEC platform was in-situ extended to generate a polyA tail. Then the polyA tail formed a stable multi-point hybrid structure with the adjacent oligo dT. After launching the SMSDA, the CPEC platform was covered by more elongated polynucleotide chains and network, which acutely hampered the photoelectron transfer (eT) between photocathode and electron acceptor and caused a reduced photocurrent. The CPEC sensor possessed a satisfactory linear response from 6 × 10-5-0.1 U and a low detection limit of 1.1 × 10-5 U. The strategy offered a more specific and sensitive method for TdT activity assay. It was feasible in the field of TdT-based biochemical research, drug screening, and disease diagnosis.
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15
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Ashley J, Schaap-Johansen AL, Mohammadniaei M, Naseri M, Marcatili P, Prado M, Sun Y. Terminal deoxynucleotidyl transferase-mediated formation of protein binding polynucleotides. Nucleic Acids Res 2021; 49:1065-1074. [PMID: 33398328 PMCID: PMC7826267 DOI: 10.1093/nar/gkaa1263] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2020] [Revised: 12/14/2020] [Accepted: 12/17/2020] [Indexed: 11/16/2022] Open
Abstract
Terminal deoxynucleotidyl transferase (TdT) enzyme plays an integral part in the V(D)J recombination, allowing for the huge diversity in expression of immunoglobulins and T-cell receptors within lymphocytes, through their unique ability to incorporate single nucleotides into oligonucleotides without the need of a template. The role played by TdT in lymphocytes precursors found in early vertebrates is not known. In this paper, we demonstrated a new screening method that utilises TdT to form libraries of variable sized (vsDNA) libraries of polynucleotides that displayed binding towards protein targets. The extent of binding and size distribution of each vsDNA library towards their respective protein target can be controlled through the alteration of different reaction conditions such as time of reaction, nucleotide ratio and initiator concentration raising the possibility for the rational design of aptamers prior to screening. The new approach, allows for the screening of aptamers based on size as well as sequence in a single round, which minimises PCR bias. We converted the protein bound sequences to dsDNA using rapid amplification of variable ends assays (RAVE) and sequenced them using next generation sequencing. The resultant aptamers demonstrated low nanomolar binding and high selectivity towards their respective targets.
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Affiliation(s)
- Jon Ashley
- Technical University of Denmark, Department of Health Technology, Kgs. Lyngby 2800, Denmark.,International Iberian Nanotechnology Laboratory (INL), Av. Mestre José Veiga Braga 4715-330, Portugal
| | | | - Mohsen Mohammadniaei
- Technical University of Denmark, Department of Health Technology, Kgs. Lyngby 2800, Denmark
| | - Maryam Naseri
- Technical University of Denmark, Department of Health Technology, Kgs. Lyngby 2800, Denmark
| | - Paolo Marcatili
- Technical University of Denmark, Department of Health Technology, Kgs. Lyngby 2800, Denmark
| | - Marta Prado
- International Iberian Nanotechnology Laboratory (INL), Av. Mestre José Veiga Braga 4715-330, Portugal
| | - Yi Sun
- Technical University of Denmark, Department of Health Technology, Kgs. Lyngby 2800, Denmark
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16
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Wang X, Xu J, Qin P, Yan C, Liu G, Chen W. Self-assembly of a polythymine embedded activatable molecular beacon for one-step quantification of terminal deoxynucleotidyl transferase activity. Anal Chim Acta 2020; 1141:127-135. [PMID: 33248645 DOI: 10.1016/j.aca.2020.10.048] [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: 06/23/2020] [Revised: 10/22/2020] [Accepted: 10/24/2020] [Indexed: 02/07/2023]
Abstract
We describe an isothermal, single-reaction, and one-step method for signal-on quantification of terminal deoxynucleotidyl transferase (TdT) activity based on the periodic elongation and assembly of polythymine embedded activatable molecular beacon (PTA-MB) into DNA nanostructures. PTA-MB is easily designed according to the rule of the conventional molecular beacon (MB) but engineered with a polyT composed loop. Upon exposure to the specific target TdT, the MB is first elongated with an adenine-rich (A-rich) long chain so that it can then act as the anchoring substrate to capture many original PTA-MBs along its strand. Their unfolding contributes to preliminary fluorescence emission. Significantly, the assembled PTA-MBs can also be elongated and hybridized with residual free PTA-MBs for the second round of signal amplification. Accordingly, multiple rounds of elongation, assembly, and activation of initial PTA-MBs can lead to the formation of DNA nanostructures and induce a dramatically enhanced fluorescence signal for qualitative and quantitative evaluation of TdT activity. The final assay indicated a limit of detection (LOD) of 0.042 U mL-1 TdT and showed excellent selectivity for TdT versus other common enzymes. Moreover, the practical applicability was validated by direct/absolute quantification of TdT in real biological specimens and accurate monitoring of the activity of TdT pretreated by low/high temperature and heavy metal ions. These findings demonstrated that this functional PTA-MB and its unique assembly behavior is most likely to promote the study of oligonucleotide probe-based DNA assembly, providing a reliable, convenient, and universal platform for precise and point-of-care monitoring of various biomolecules.
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Affiliation(s)
- Xinxin Wang
- Engineering Research Center of Bio-process, MOE, School of Food Science and Biological Engineering, Hefei University of Technology, Hefei, 230009, China
| | - Jianguo Xu
- Engineering Research Center of Bio-process, MOE, School of Food Science and Biological Engineering, Hefei University of Technology, Hefei, 230009, China.
| | - Panzhu Qin
- Engineering Research Center of Bio-process, MOE, School of Food Science and Biological Engineering, Hefei University of Technology, Hefei, 230009, China
| | - Chao Yan
- Engineering Research Center of Bio-process, MOE, School of Food Science and Biological Engineering, Hefei University of Technology, Hefei, 230009, China; Research Center for Biomedical and Health Science, School of Life and Health, Anhui Science & Technology University, Fengyang, 233100, China
| | - Guodong Liu
- Research Center for Biomedical and Health Science, School of Life and Health, Anhui Science & Technology University, Fengyang, 233100, China
| | - Wei Chen
- Engineering Research Center of Bio-process, MOE, School of Food Science and Biological Engineering, Hefei University of Technology, Hefei, 230009, China.
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17
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Wang J, Wu Y, Wu Q, Li L, Wang Y, Yang H. Highly sensitive detection of melamine in milk samples based on N-methylmesoporphyrin IX/G-quadruplex structure. Microchem J 2020. [DOI: 10.1016/j.microc.2020.104751] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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18
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Han Y, Zou R, Xiang L, Chen C, Cai C. Engineering a label- and enzyme-free detection of HIV-DNA on a cyclic DNA self-assembling strategy using G-triplexes as the signal reporter. Microchem J 2020. [DOI: 10.1016/j.microc.2020.104656] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
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19
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JIANG H, LV XF, ZHAO KX. Progress of Aptamer Screening Techniques Based on Microfluidic Chips. CHINESE JOURNAL OF ANALYTICAL CHEMISTRY 2020. [DOI: 10.1016/s1872-2040(20)60015-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
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20
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Paul Elisa DD, Vaidyanathan Ganesan V. Switch-on effect on conformation-specific arylamine-DNA adduct by cyclometalated Ir(III) complexes. J Biol Inorg Chem 2020; 25:305-310. [PMID: 32052177 DOI: 10.1007/s00775-020-01762-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2019] [Accepted: 02/06/2020] [Indexed: 12/23/2022]
Abstract
Arylamines are known to form covalent-DNA adducts upon metabolic activation. These covalent adducts adopt different conformational attributes, viz., major groove (B), stacked (S), and minor groove (W), and lead to different types of mutations. The conformation depends on the flanking and next flanking bases at the 3' position of the adduct. Early detection of these conformations by simple probes is an ideal and challenging task. Here, we have reported two Ir(III)-based cyclometalated complexes, viz., [Ir(ppy)2(imiphen)]+ (1) (ppy: 2-phenylpyridine; imiphen: 2-(1H-imidazol-2-yl)-1H-imidazo[4,5-f][1,10]phenanthroline) and [Ir(ppy)2(furphen)]+ (2) (furphen: 2-(furan-2-yl)-1H-imidazo[4,5-f][1,10]phenanthroline) and its interaction with N-acetyl-2-aminofluorene-dG (AAF-dG). The sequences used in this work are NarI sequence (-CG1G2CG3CX-) in which Gs are modified with AAF and X is either C or T. Luminescence studies reveal that the Ir(III) complexes bind to AAF-dG adduct with high specificity toward G1 and G3 compared to G2 and unmodified control. The selectivity also depends on the next flanking base as cytosine favors G3AAF, while thymine favors G1AAF in complex 1 and vice versa for complex 2. The quenching studies confirm that Ir(III) complexes bind with AAF-dG sequences through the minor groove. The outcome of this work reveals that the switch-on effect by the complexes can be utilized for determining the conformational heterogeneity of the adduct and also for similar covalent-DNA adducts.
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Affiliation(s)
- David Dayanidhi Paul Elisa
- Advanced Materials Laboratory, CSIR-Central Leather Research Institute, Adyar, Chennai, 600 020, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Vaidyanathan Vaidyanathan Ganesan
- Advanced Materials Laboratory, CSIR-Central Leather Research Institute, Adyar, Chennai, 600 020, India. .,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India.
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21
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Chu JQ, Wang DX, Zhang LM, Cheng M, Gao RZ, Gu CG, Lang PF, Liu PQ, Zhu LN, Kong DM. Green Layer-by-Layer Assembly of Porphyrin/G-Quadruplex-Based Near-Infrared Nanocomposite Photosensitizer with High Biocompatibility and Bioavailability. ACS APPLIED MATERIALS & INTERFACES 2020; 12:7575-7585. [PMID: 31958010 DOI: 10.1021/acsami.9b21443] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
A simple and green layer-by-layer assembly strategy is developed for the preparation of a highly bioavailable nanocomposite photosensitizer by assembling near-infrared (NIR) light-sensitive porphyrin/G-quadruplex complexes on the surface of a highly biocompatible nanoparticle that is prepared via Zn2+-assisted coordination self-assembly of an amphiphilic amino acid. After being efficiently delivered to the target site and internalized into tumor cells via enhanced permeability and retention effect and interactions between aptamers and tumor markers, the as-prepared nanoassembly can be directly used as an NIR light-responsive photosensitizer for tumor photodynamic therapy (PDT) since the porphyrin/G-quadruplex complexes are exposed on the nanoassembly surface and kept in an active state. It can also disassemble under the synergistic stimuli of an acidic pH environment and overexpressed glutathione, leasing more efficient porphyrin/G-quadruplex composite photosensitizers while reducing the interference caused by glutathione-dependent 1O2 consumption. Since the nanoassembly can work no matter if it is disassembled or not, the compulsory requirement for in vivo photosensitizer release is eliminated, thus resulting in the great improvement of the bioavailability of the photosensitizer. The PDT applications of the nanoassembly were well demonstrated in both in vitro cell and in vivo animal experiments.
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Affiliation(s)
- Jun-Qing Chu
- Department of Chemistry, School of Science , Tianjin University , Tianjin 300072 , P. R. China
| | - Dong-Xia Wang
- Tianjin Key Laboratory of Biosensing and Molecular Recognition, College of Chemistry , Nankai University , Tianjin 300071 , P. R. China
| | - Li-Ming Zhang
- Department of Chemistry, School of Science , Tianjin University , Tianjin 300072 , P. R. China
| | - Meng Cheng
- Department of Chemistry, School of Science , Tianjin University , Tianjin 300072 , P. R. China
| | - Rong-Zhi Gao
- Tianjin Key Laboratory of Biosensing and Molecular Recognition, College of Chemistry , Nankai University , Tianjin 300071 , P. R. China
| | - Cheng-Guang Gu
- Department of Chemistry, School of Science , Tianjin University , Tianjin 300072 , P. R. China
| | - Peng-Fei Lang
- Department of Chemistry, School of Science , Tianjin University , Tianjin 300072 , P. R. China
| | - Pei-Qi Liu
- Department of Chemistry, School of Science , Tianjin University , Tianjin 300072 , P. R. China
| | - Li-Na Zhu
- Department of Chemistry, School of Science , Tianjin University , Tianjin 300072 , P. R. China
| | - De-Ming Kong
- Tianjin Key Laboratory of Biosensing and Molecular Recognition, College of Chemistry , Nankai University , Tianjin 300071 , P. R. China
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22
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Sathiyan G, Chatterjee S, Sen P, Garg A, Gupta RK, Singh A. Thiazolothiazole‐Based Fluorescence Probe towards Detection of Copper and Iron Ions through Formation of Radical Cations. ChemistrySelect 2019. [DOI: 10.1002/slct.201902994] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Affiliation(s)
- Govindasamy Sathiyan
- Department of ChemistryIndian Institute of Technology Kanpur Kanpur- 208016 India
| | - Shovon Chatterjee
- Department of ChemistryIndian Institute of Technology Kanpur Kanpur- 208016 India
| | - Pratik Sen
- Department of ChemistryIndian Institute of Technology Kanpur Kanpur- 208016 India
| | - Ashish Garg
- Department of Material Sciences and EngineeringIndian Institute of Technology Kanpur Kanpur- 208016 India
| | - Raju Kumar Gupta
- Department of Chemical EngineeringCenter for Nanosciences and Center for Environmental Science and EngineeringIndian Institute of Technology Kanpur Kanpur 208016 India
| | - Anand Singh
- Department of ChemistryIndian Institute of Technology Kanpur Kanpur- 208016 India
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Molnar M, Liddell SC, Wadkins RM. Effects of Polyamine Binding on the Stability of DNA i-Motif Structures. ACS OMEGA 2019; 4:8967-8973. [PMID: 31459985 PMCID: PMC6648627 DOI: 10.1021/acsomega.9b00784] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2019] [Accepted: 05/13/2019] [Indexed: 05/12/2023]
Abstract
B-form DNA can adopt alternative structures under conditions such as superhelical duress. Alternative DNA structures are favored when there is asymmetric distribution of guanosine and cytosine on complimentary DNA strands. A guanosine-rich strand can form a four-stranded structure known as a quadruplex (G4). The complimentary cytosine-rich strand can utilize intercalating cytosine-cytosine base pairing to form a four-stranded structure known as the i-motif (iM). Both secondary structures are energetically uphill from double-strand DNA (dsDNA), meaning that additional factors are needed for their formation. Most iMs require slightly acidic conditions for structure stabilization. However, crowding agents such as polyethylene glycols and dextrans can shift the pK a of the iM to near-physiological pH ≈ 7. Nucleic acids have long been known to be bound and stabilized by polyamines such as putrescine, spermidine, and spermine. Polyamines have very high concentrations in cells (0.1-30 mM), and their binding to DNA is driven by electrostatic interactions. Polyamines typically bind in the minor groove of DNA. However, because of the unusual structure of iMs, it was unknown whether polyamines might also bind and stabilize iMs. The study described here was undertaken to analyze polyamine-iM interactions. The thermal stability and pH dependence of iM structures were determined in the presence of polyamines. In contrast to dsDNA, our results suggest that polyamines have considerably weaker interactions with iMs, as demonstrated by the minimal change in iM pH dependence and thermal stability. Our results suggest that polyamines are unlikely to provide a significant source of iM stabilization in vivo.
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Affiliation(s)
- Michael
M. Molnar
- Department of Chemistry and Biochemistry, University of Mississippi, University, Mississippi 38677, United States
| | - Shelby C. Liddell
- Department of Chemistry and Biochemistry, University of Mississippi, University, Mississippi 38677, United States
| | - Randy M. Wadkins
- Department of Chemistry and Biochemistry, University of Mississippi, University, Mississippi 38677, United States
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24
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Wang M, Li R, Chen G, Zhou S, Feng X, Chen Y, He M, Liu D, Song T, Qi H. Highly Stretchable, Transparent, and Conductive Wood Fabricated by in Situ Photopolymerization with Polymerizable Deep Eutectic Solvents. ACS APPLIED MATERIALS & INTERFACES 2019; 11:14313-14321. [PMID: 30915834 DOI: 10.1021/acsami.9b00728] [Citation(s) in RCA: 37] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
The rational design of high-performance, flexible, transparent, electrically conducting sensor attracts considerable attention. However, these designed devices predominantly utilize glass and plastic substrates, which are expensive and not environmentally friendly. Here, novel transparent and conductive woods (TCWs) were fabricated by using renewable wood substrates and low-cost conductive polymers. Polymerizable deep eutectic solvents (PDES), acrylic-acid (AA)/choline chloride (ChCl), were used as backfilling agents and in situ photopolymerized in the delignified wood, which endowed the materials with high transparency (transmittance of 90%), good stretchability (strain up to 80%), and high electrical conductivity (0.16 S m-1). The retained cellulose orientation and strong interactions between the cellulose-rich template and poly(PDES) endow TCWs with excellent mechanical properties. Moreover, TCWs exhibited excellent sensing behaviors to strain/touch, even at low strain. Therefore, these materials can be used to detect weak pressure such as human being's subtle bending-release activities. This work provides a new route to fabricate functional composite materials and devices which have promising potential for electronics applications in flexible displays, tactile skin sensors, and other fields.
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Affiliation(s)
- Ming Wang
- State Key Laboratory of Pulp and Paper Engineering , South China University of Technology , Guangzhou 510640 , China
| | - Renai Li
- State Key Laboratory of Pulp and Paper Engineering , South China University of Technology , Guangzhou 510640 , China
| | - Guixian Chen
- State Key Laboratory of Pulp and Paper Engineering , South China University of Technology , Guangzhou 510640 , China
| | - Shenghui Zhou
- State Key Laboratory of Pulp and Paper Engineering , South China University of Technology , Guangzhou 510640 , China
| | - Xiao Feng
- State Key Laboratory of Pulp and Paper Engineering , South China University of Technology , Guangzhou 510640 , China
| | - Yian Chen
- Leibniz Inst Polymerforsch Dresden eV IPF , Dresden 01069 , Germany
| | - Minghui He
- State Key Laboratory of Pulp and Paper Engineering , South China University of Technology , Guangzhou 510640 , China
| | - Detao Liu
- State Key Laboratory of Pulp and Paper Engineering , South China University of Technology , Guangzhou 510640 , China
| | - Tao Song
- State Key Laboratory of Pulp and Paper Engineering , South China University of Technology , Guangzhou 510640 , China
| | - Haisong Qi
- State Key Laboratory of Pulp and Paper Engineering , South China University of Technology , Guangzhou 510640 , China
- Guangdong Engineering Research Center for Green Fine Chemicals , Guangzhou 510640 , China
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25
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Visual Detection of Cucumber Green Mottle Mosaic Virus Based on Terminal Deoxynucleotidyl Transferase Coupled with DNAzymes Amplification. SENSORS 2019; 19:s19061298. [PMID: 30875853 PMCID: PMC6471243 DOI: 10.3390/s19061298] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/24/2019] [Revised: 03/03/2019] [Accepted: 03/12/2019] [Indexed: 02/06/2023]
Abstract
A simple, rapid, and sensitive visual detection method for observing cucumber green mottle mosaic virus was reported based on the template-independent polymerization activity of terminal deoxynucleotidyl transferase (TdT), coupled with the cascade amplification of Mg2+-dependent DNAzyme and hemin/G-quadruplex DNAzyme. Briefly, the hybridized dsDNA of T1/P1 was cut into two parts at its position of 5′-AA↓CG↑TT-3′ by the restricted enzyme AcII. The longer, newborn fragment originating from P1 was tailed at its 3’-end by oligo dG, and an intact enzymatic sequence of Mg2+-dependent DNAzyme was generated. The substrate sequence in the loop segment of the hairpin probe (HP) hybridized with the newborn enzymatic sequence and was cleaved into two parts in the presence of Mg2+. The locked G-quadruplex sequence in the stem segment of the HP was released, which catalyzed the oxidation of ABTS2- in the presence of H2O2, and the resulting solution turned green. A correlation between the absorbance and concentration of T1 was obtained in a range from 0.1 pM to 2 nM, with a detection limit of 0.1 pM. In addition to promoting a lower detection limit and shorter monitoring time, this method also demonstrated an excellent selectivity to single or double nucleotide changes. Therefore, the designed strategy provided a rapid and efficient platform for viral inspection and plant protection.
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26
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Li W, Zhang Q, Wang Y, Ma Y, Guo Z, Liu Z. Controllably Prepared Aptamer-Molecularly Imprinted Polymer Hybrid for High-Specificity and High-Affinity Recognition of Target Proteins. Anal Chem 2019; 91:4831-4837. [PMID: 30827094 DOI: 10.1021/acs.analchem.9b00465] [Citation(s) in RCA: 53] [Impact Index Per Article: 10.6] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Molecularly imprinted polymers (MIPs) and aptamers, as effective mimics of antibodies, can overcome only some drawbacks of antibodies. Since they have their own advantages and disadvantages, the combination of MIPs with aptamers could be an ideal solution to produce hybrid alternatives with improved properties and desirable features. Although quite a few attempts have been made in this direction, a facile and controllable approach for the preparation of aptamer-MIP hybrids still remains lacking. Herein, we present a new approach for facile and controllable preparation of aptamer-MIP hybrids for high-specificity and high-affinity recognition toward proteins. An aptamer that can bind the glycoprotein alkaline phosphatase (ALP) with relative weak affinity and specificity was used as a ligand, and controllable oriented surface imprinting was carried out with an in-water self-polymerization system of dopamine. A thin layer of polydopamine was formed to cover the template to an appropriate thickness. After removing the template from the polymer, an aptamer-MIP hybrid with apparently improved affinity and specificity toward ALP was obtained, giving cross-reactivity of 3.2-5.6% and a dissociation constant of 1.5 nM. With this aptamer-MIP hybrid, a plasmonic immunosandwich assay (PISA) was developed. Reliable detection of ALP in human serum by the PISA was demonstrated.
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Affiliation(s)
- Wei Li
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , China
| | - Qi Zhang
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , China
| | - Yijia Wang
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , China
| | - Yanyan Ma
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , China
| | - Zhanchen Guo
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , China
| | - Zhen Liu
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , China
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27
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Transition metal complexes based aptamers as optical diagnostic tools for disease proteins and biomolecules. Coord Chem Rev 2019. [DOI: 10.1016/j.ccr.2018.09.010] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
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28
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Lu L, Su H, Liu Q, Li F. Development of a Luminescent Dinuclear Ir(III) Complex for Ultrasensitive Determination of Pesticides. Anal Chem 2018; 90:11716-11722. [PMID: 30192517 DOI: 10.1021/acs.analchem.8b03687] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
To improve the G-quadruplex specificity of Ir(III) complexes, a novel dinuclear Ir(III) complex (Din Ir(III)-1) was designed and synthesized through connecting two mononuclear Ir(III) complexes via a diphenyl bridge. Din Ir(III)-1 presents 3.4-4.1-fold enhancements for G-quadruplex relative to ssDNA and 4.3-5.3-fold enhancements relative to dsDNA in luminescence intensity, respectively, demonstrating an excellent G-quadruplex selectivity. Ascribed to its superior specificity to G-quadruplex, Din Ir(III)-1 was employed to construct a highly sensitive luminescent pesticides' detection platform. The detection is based on acetylcholinesterase (AChE)-catalyzed hydrolysis product-induced DNA conformational transformation and subsequent terminal deoxynucleotidyl transferase (TdT) directed G-quadruplex formation. The assay exhibited a linear response between the emission intensity of Din Ir(III)-1 and the pesticide concentration in the range of 0.5-25 μg/L ( R2 = 0.994), and the limit of detection for the pesticide was as low as 0.37 μg/L when using aldicarb as the model pesticide. Moreover, this strategy demonstrates good applicability for the pesticide detection in real samples. It is also versatile for the detection of other organophosphate or carbamate pesticides, which have the inhibition ability toward AChE. Therefore, the proposed approach is scalable for practical application in food safety and environmental monitoring fields and will provide promising solutions for the assay of pesticide residues.
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Affiliation(s)
- Lihua Lu
- College of Chemistry and Pharmaceutical Sciences , Qingdao Agricultural University , Qingdao 266109 , People's Republic of China
| | - Huijuan Su
- College of Chemistry and Pharmaceutical Sciences , Qingdao Agricultural University , Qingdao 266109 , People's Republic of China
| | - Qingyun Liu
- College of Chemical and Environmental Engineering , Shandong University of Science and Technology , Qingdao 266510 , China
| | - Feng Li
- College of Chemistry and Pharmaceutical Sciences , Qingdao Agricultural University , Qingdao 266109 , People's Republic of China
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Cao C, Zhang F, Goldys EM, Gao F, Liu G. Advances in structure-switching aptasensing towards real time detection of cytokines. Trends Analyt Chem 2018. [DOI: 10.1016/j.trac.2018.03.002] [Citation(s) in RCA: 38] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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30
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Li Z, Zhao J, Wang Z, Dai Z. Nickel-mediated allosteric manipulation of G-quadruplex DNAzyme for highly selective detection of histidine. Anal Chim Acta 2018; 1008:90-95. [DOI: 10.1016/j.aca.2017.12.040] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2017] [Revised: 11/30/2017] [Accepted: 12/11/2017] [Indexed: 11/29/2022]
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31
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Shi T, Wang M, Li H, Wang M, Luo X, Huang Y, Wang HH, Nie Z, Yao S. Simultaneous Monitoring of Cell-surface Receptor and Tumor-targeted Photodynamic Therapy via TdT-initiated Poly-G-Quadruplexes. Sci Rep 2018; 8:5551. [PMID: 29615769 PMCID: PMC5882647 DOI: 10.1038/s41598-018-23902-5] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2017] [Accepted: 03/21/2018] [Indexed: 01/03/2023] Open
Abstract
Cancer cells contain a unique set of cell surface receptors that provide potential targets for tumor theranostics. Here, we propose an efficient approach to construct G-quadruplex-based aptamers that specifically recognize cell-surface receptors and monitor them in an amplified manner. This designed aptamer combined particular sequence for the c-Met on the cell surface and poly-G-quadruplexes structures that allow a rapid and amplified fluorescent readout upon the binding of thioflavin T (ThT). The poly-G-quadruplexes also function as a carrier for photosensitizers such as TMPyP4 in that, the aptamer further trigger the production of reactive oxygen species (ROS) to commit cells to death. This unique c-Met targeting aptamer enabled simultaneous monitoring of c-Met on the cell surface with ThT and photodynamic killing of these lung cancer cells with TMPyP4. This strategy is expected to enhance the development of tumor-targeted diagnosis and drug delivery.
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Affiliation(s)
- Tianhui Shi
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Hunan University, Changsha, 410082, P. R. China
| | - Menglin Wang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Hunan University, Changsha, 410082, P. R. China
| | - Hao Li
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Hunan University, Changsha, 410082, P. R. China
| | - Miao Wang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Hunan University, Changsha, 410082, P. R. China
| | - Xingyu Luo
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Hunan University, Changsha, 410082, P. R. China
| | - Yan Huang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Hunan University, Changsha, 410082, P. R. China
| | - Hong-Hui Wang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Hunan University, Changsha, 410082, P. R. China.
| | - Zhou Nie
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Hunan University, Changsha, 410082, P. R. China.
| | - Shouzhuo Yao
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Hunan University, Changsha, 410082, P. R. China
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Aptamer based fluorometric sulfamethazine assay based on the use of graphene oxide quantum dots. Mikrochim Acta 2018; 185:163. [PMID: 29594795 DOI: 10.1007/s00604-018-2695-8] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2017] [Accepted: 01/19/2018] [Indexed: 12/15/2022]
Abstract
The authors have developed a homogeneous "off-on" fluorometric method for the determination of the antibiotic sulfamethazine (SMZ). Aptamer against SMZ was labeled with graphene oxide quantum dots upon which the Graphene oxide quenched the blue fluorescence of the GOQDs. On addition of SMZ, the aptamers will bind SMZ and this will cause the release of GOQDs. As a result, fluorescence will be regenerated. Fluorescence, best measured at excitation/emission wavelengths of 365/455 nm, increases linearly in the 8 pg·mL-1 to 60 ng·mL-1 SMZ concentration range, with a 5 pg·mL-1 detection limit. The method is reliable and was successfully applied to the determination of SMZ in spiked milk samples, with recoveries ranging from 89 to 96% depending on analyte concentration. Graphical abstract Graphene oxide quantum dots (GOQDs) were covalently bound to the aptamer (apt) against sulfamethazine (SMZ) and adsorbed on the surface of graphene oxide (GO). This results in quenching of the fluorescence of GOQDs. On addition of SMZ, fluorescence is restored due to the release of GOQD@apt from GO.
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Du C, Hu Y, Zhang Q, Guo Z, Ge G, Wang S, Zhai C, Zhu M. Competition-derived FRET-switching cationic conjugated polymer-Ir(III) complex probe for thrombin detection. Biosens Bioelectron 2017; 100:132-138. [PMID: 28886457 DOI: 10.1016/j.bios.2017.08.016] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2017] [Revised: 07/14/2017] [Accepted: 08/07/2017] [Indexed: 02/04/2023]
Abstract
A novel, label-free and convenient strategy for thrombin assay has been developed based on the fluorescence resonance energy transfer (FRET) from a cationic conjugated polymer (CCP) to Ir(III) complex. The energy donor (CCP) and acceptor (Ir(III) complex) were taken into close proximity through π-π stacking interaction and electrostatic interaction, leading to the occurrence of FRET. However, the introduction of the thrombin aptamer upset the status and blocked the FRET process, but afterwards the reappearance of FRET phenomenon was confirmed by the special binding interaction between aptamer and thrombin, thus achieving the quantitative detection of thrombin. This assay could detect thrombin as low concentration as about 0.05pM and provided a highly specific selectivity among other nonspecific proteins. Moreover, the strategy may allow our platform to provide similar sensitivity toward different targets in an aptamer-structure-independent manner. Furthermore, the assay can be used to detect thrombin in diluted real urine or serum samples with a satisfactory recovery, implying its great potential for rapid detection of thrombin in the clinic.
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Affiliation(s)
- Chunnuan Du
- Faculty of Materials Science and Chemical Engineering, Ningbo University, Ningbo 315211, PR China
| | - Yufang Hu
- Faculty of Materials Science and Chemical Engineering, Ningbo University, Ningbo 315211, PR China.
| | - Qingqing Zhang
- Faculty of Materials Science and Chemical Engineering, Ningbo University, Ningbo 315211, PR China
| | - Zhiyong Guo
- Faculty of Materials Science and Chemical Engineering, Ningbo University, Ningbo 315211, PR China
| | - Guoping Ge
- Faculty of Materials Science and Chemical Engineering, Ningbo University, Ningbo 315211, PR China.
| | - Sui Wang
- Faculty of Materials Science and Chemical Engineering, Ningbo University, Ningbo 315211, PR China
| | - Chunyang Zhai
- Faculty of Materials Science and Chemical Engineering, Ningbo University, Ningbo 315211, PR China
| | - Mingshan Zhu
- Faculty of Materials Science and Chemical Engineering, Ningbo University, Ningbo 315211, PR China
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Cao Y, Wang Z, Cao J, Mao X, Chen G, Zhao J. A general protein aptasensing strategy based on untemplated nucleic acid elongation and the use of fluorescent copper nanoparticles: Application to the detection of thrombin and the vascular endothelial growth factor. Mikrochim Acta 2017. [DOI: 10.1007/s00604-017-2393-y] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Liu X, Gao T, Gao X, Ma T, Tang Y, Zhu L, Li J. An aptamer based sulfadimethoxine assay that uses magnetized upconversion nanoparticles. Mikrochim Acta 2017. [DOI: 10.1007/s00604-017-2378-x] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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Ma DL, Wu C, Dong ZZ, Tam WS, Wong SW, Yang C, Li G, Leung CH. The Development of G-Quadruplex-Based Assays for the Detection of Small Molecules and Toxic Substances. Chem Asian J 2017; 12:1851-1860. [PMID: 28470784 DOI: 10.1002/asia.201700533] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2017] [Indexed: 11/12/2022]
Abstract
G-Quadruplexes can be induced to form guanine-rich DNA sequences by certain small molecules or metal ions. In concert with an appropriate signal transducer, such as a fluorescent dye or a phosphorescent metal complex, the ligand-recognition event can be transduced into a luminescent response. This focus review aims to highlight recent examples of aptamer-based and metal-mediated G-quadruplex assays for the detection of small molecules and toxic substances in the last three years. We discuss the mechanisms and features of the different assays and present an outlook and a perspective for the future of this field.
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Affiliation(s)
- Dik-Lung Ma
- Department of Chemistry, Faculty of Science, Hong Kong Baptist University
| | - Chun Wu
- Department of Chemistry, Faculty of Science, Hong Kong Baptist University
| | - Zhen-Zhen Dong
- Department of Chemistry, Faculty of Science, Hong Kong Baptist University
| | - Wing-Sze Tam
- Department of Chemistry, Faculty of Science, Hong Kong Baptist University
| | - Sze-Wan Wong
- Department of Chemistry, Faculty of Science, Hong Kong Baptist University
| | - Chao Yang
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau
| | - Guodong Li
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau
| | - Chung-Hang Leung
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau
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Liu J, Vellaisamy K, Yang G, Leung CH, Ma DL. Luminescent turn-on detection of Hg(II) via the quenching of an iridium(III) complex by Hg(II)-mediated silver nanoparticles. Sci Rep 2017; 7:3620. [PMID: 28620192 PMCID: PMC5472617 DOI: 10.1038/s41598-017-03952-x] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2017] [Accepted: 05/08/2017] [Indexed: 12/28/2022] Open
Abstract
A novel luminescent turn-on detection method for Hg(II) was developed. The method was based on the silver nanoparticle (AgNP)-mediated quenching of Ir(III) complex 1. The addition of Hg(II) ions causes the luminescence of complex 1 to be recovered due to the oxidation of AgNPs by Hg(II) ions to form Ag(I) and Ag/Hg amalgam. The luminescence intensity of 1 increased in accord with an increased Hg(II) concentration ranging from 0 nM to 180 nM, with the detection limit of 5 nM. This approach offers an innovative method for the quantification of Hg(II).
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Affiliation(s)
- Jinshui Liu
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
| | - Kasipandi Vellaisamy
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China
| | - Guanjun Yang
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macao, China
| | - Chung-Hang Leung
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macao, China.
| | - Dik-Lung Ma
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong, China.
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Ma DL, Dong ZZ, Vellaisamy K, Cheung KM, Yang G, Leung CH. Luminescent Strategies for Label-Free G-Quadruplex-Based Enzyme Activity Sensing. CHEM REC 2017; 17:1135-1145. [PMID: 28467681 DOI: 10.1002/tcr.201700014] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2017] [Indexed: 12/30/2022]
Abstract
By catalyzing highly specific and tightly controlled chemical reactions, enzymes are essential to maintaining normal cellular physiology. However, aberrant enzymatic activity can be linked to the pathogenesis of various diseases. Therefore, the unusual activity of particular enzymes can represent testable biomarkers for the diagnosis or screening of certain diseases. In recent years, G-quadruplex-based platforms have attracted wide attention for the monitoring of enzymatic activities. In this Personal Account, we discuss our group's works on the development of G-quadruplex-based sensing system for enzyme activities by using mainly iridium(III) complexes as luminescent label-free probes. These studies showcase the versatility of the G-quadruplex for developing assays for a variety of different enzymes.
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Affiliation(s)
- Dik-Lung Ma
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong
| | - Zhen-Zhen Dong
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong
| | | | - Ka-Man Cheung
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong
| | - Guanjun Yang
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macao
| | - Chung-Hang Leung
- State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macao
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Hao T, Wu X, Xu L, Liu L, Ma W, Kuang H, Xu C. Ultrasensitive Detection of Prostate-Specific Antigen and Thrombin Based on Gold-Upconversion Nanoparticle Assembled Pyramids. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2017; 13:1603944. [PMID: 28371262 DOI: 10.1002/smll.201603944] [Citation(s) in RCA: 49] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2016] [Revised: 01/19/2017] [Indexed: 06/07/2023]
Abstract
Self-assembled nanostructures have been used for the detection of numerous cancer biomarkers. In this study, a gold-upconversion-nanoparticle (Au-UCNP) pyramid based on aptamers is fabricated to simultaneously detect thrombin and prostate-specific antigen (PSA) using surface-enhanced Raman scattering (SERS) and fluorescence, respectively. The higher the concentration of thrombin, the lower the intensity of SERS. PSA connected with the PSA aptamer leads to an increase in fluorescence intensity. The limit of detection of thrombin and PSA reaches 57 × 10-18 and 0.032 × 10-18 m, respectively. In addition, the pyramid also exhibits great target specificity. The results of human serum target detection demonstrate that the Au-UCNP pyramid is an excellent choice for the quantitative determination of cancer biomarkers, and is feasible for the early diagnosis of cancer.
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Affiliation(s)
- Tiantian Hao
- State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
- International Joint Research Laboratory for Biointerface and Biodetection, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
| | - Xiaoling Wu
- State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
- International Joint Research Laboratory for Biointerface and Biodetection, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
| | - Liguang Xu
- State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
- International Joint Research Laboratory for Biointerface and Biodetection, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
| | - Liqiang Liu
- State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
- International Joint Research Laboratory for Biointerface and Biodetection, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
| | - Wei Ma
- State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
- International Joint Research Laboratory for Biointerface and Biodetection, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
| | - Hua Kuang
- State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
- International Joint Research Laboratory for Biointerface and Biodetection, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
| | - Chuanlai Xu
- State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
- International Joint Research Laboratory for Biointerface and Biodetection, Jiangnan University, Wuxi, Jiangsu, 214122, P. R. China
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Liu Z, Luo X, Li Z, Huang Y, Nie Z, Wang HH, Yao S. Enzyme-Activated G-Quadruplex Synthesis for in Situ Label-Free Detection and Bioimaging of Cell Apoptosis. Anal Chem 2017; 89:1892-1899. [DOI: 10.1021/acs.analchem.6b04360] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Zhuoliang Liu
- College
of Science, National University of Defence Technology, Changsha, 410073, People’s Republic of China
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41
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Gao TB, Fan Q, Yu ZT, Cao DK. Cyclometalated Ir(iii) complexes based on 2-(2,4-difluorophenyl)-pyridine and 2,2′-(2-phenyl-1H-imidazole-4,5-diyl)dipyridine: acid/base-induced structural transformation and luminescence switching, and photocatalytic activity for hydrogen evolution. Dalton Trans 2017; 46:8180-8189. [DOI: 10.1039/c7dt01337j] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
1·PF6and2show luminescence switching behaviors, and serve as photosensitizers for H2evolution.
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Affiliation(s)
- Tai-Bao Gao
- State Key Laboratory of Coordination Chemistry
- Coordination Chemistry Institute
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093
| | - Qianwenhao Fan
- State Key Laboratory of Coordination Chemistry
- Coordination Chemistry Institute
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093
| | - Zhen-Tao Yu
- Department of Materials Science and Engineering
- Nanjing University
- Nanjing 210093
- P. R. China
| | - Deng-Ke Cao
- State Key Laboratory of Coordination Chemistry
- Coordination Chemistry Institute
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093
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42
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Tian Y, Wang Y, Sheng Z, Li T, Li X. A colorimetric detection method of pesticide acetamiprid by fine-tuning aptamer length. Anal Biochem 2016; 513:87-92. [PMID: 27612649 DOI: 10.1016/j.ab.2016.09.004] [Citation(s) in RCA: 71] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2016] [Revised: 08/31/2016] [Accepted: 09/04/2016] [Indexed: 12/13/2022]
Abstract
This work investigates the effect of shortening aptamer sequences on the colorimetric detection of acetamiprid using aptamer-wrapped gold nanoparticles (AuNPs). Truncated 37-mer and 25-mer aptamers were generated by deleting excess flanking nucleotides from parental 49-mer acetamiprid-target aptamer. In comparing the responses of the three sequences, truncated aptamers did not improve the ability to discriminate against other tested pesticides. However, comparison between 49-mer and other shorter aptamers showed that shortening aptamer sequences through removing excess flanking nucleotides outsides of binding region improved colorimetric sensitivity for acetamiprid by 3.3 fold. Due to excess bases, the target-bound aptamer might still adhere to AuNPs, resulting in incomplete dissociation of aptamer from AuNPs and therefore the suppression of aggregation responses. This work provides further insight to the effects of aptamer structure on detection of the target, as well as a method by fine-tuning aptamer length for rapid detection of pesticide residues in environments or food.
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Affiliation(s)
- Yu Tian
- Biotech and Pharmaceutical Research Center, Shenyang Research Institute of Chemical Industry, The Sinochem Group, Shenyang, 110021, PR China.
| | - Yuan Wang
- Biotech and Pharmaceutical Research Center, Shenyang Research Institute of Chemical Industry, The Sinochem Group, Shenyang, 110021, PR China
| | - Zhi Sheng
- Biotech and Pharmaceutical Research Center, Shenyang Research Institute of Chemical Industry, The Sinochem Group, Shenyang, 110021, PR China
| | - Tingting Li
- Biotech and Pharmaceutical Research Center, Shenyang Research Institute of Chemical Industry, The Sinochem Group, Shenyang, 110021, PR China
| | - Xu Li
- Biotech and Pharmaceutical Research Center, Shenyang Research Institute of Chemical Industry, The Sinochem Group, Shenyang, 110021, PR China
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43
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Chang Y, Zhuo Y, Chai Y, Xie S, Yuan R. Novel multifunctionalized peryleneteracarboxylic/amine supramolecules for electrochemical assay. J Mater Chem B 2016; 4:5621-5627. [PMID: 32263358 DOI: 10.1039/c6tb01261b] [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
In this work, a series of novel multifunctionalized peryleneteracarboxylic supramolecules were synthesized based on hydrogen bonding interactions between 3,4,9,10-perylenetetracarboxylic acid (PTCA) and amines, which possess large specific surface area, good membrane-forming properties and high stability. Importantly, an interesting phenomenon was found in that these series of supramolecules could conciliate disorderly redox peaks of PTCA and result in a pair of well-defined redox peaks, which were able to act as redox carriers for charge-generation and electron-transportion. And the probable mechanism for this phenomenon was discussed for the first time in detail through the integration of theoretical with practical research. To further reveal the advantages of these novel multifunctionalized supramolecule nanomaterials, PTCA/triethylamine (PTCA/TEA) was chosen as the best candidate for a redox carrier to participate in a "signal-on" aptasensor for thrombin (TB) detection by employing Fe3O4 magnetic beads (MBs) as a good enzyme mimic to catalyze the PTCA/TEA for signal amplification. As a result, a wide linear detection range of 0.0001-50 nM is acquired with a relatively low detection limit of 0.05 pM. And the proposed aptasensor exhibited good specificity and acceptable reproducibility and stability. After all, the explorations between PTCA and amines would set up a meaningful basis in seeking multifunctionalized supramolecule nanomaterials based on PTCA for extending the application of PTCA in a wider range of fields, and exploring the essential reason for the referred peculiar phenomenon for PTCA.
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Affiliation(s)
- Yuanyuan Chang
- Education Ministry Key Laboratory of Luminescent and Real-Time Analytical Chemistry, College of Chemistry and Chemical Engineering, Chongqing 400715, People's Republic of China.
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Novel hybrid probe based on double recognition of aptamer-molecularly imprinted polymer grafted on upconversion nanoparticles for enrofloxacin sensing. Biosens Bioelectron 2016; 87:203-208. [PMID: 27566392 DOI: 10.1016/j.bios.2016.08.051] [Citation(s) in RCA: 84] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2016] [Revised: 08/05/2016] [Accepted: 08/16/2016] [Indexed: 01/01/2023]
Abstract
A novel luminescent "double recognition" method for the detection of enrofloxacin (ENR) is developed to overcome some of the challenges faced by conventional molecularly imprinting. Biotinylated ENR aptamers immobilised on upconversion nanoparticles (UCNPs) surface are implemented to capture and concentrate ENR as the first imprinting recognition safeguard. After correct folding of the aptamer upon the existing targets, polymerization of methacrylic acid monomers around the ENR-aptamer complexes to interact with the residual functional groups of ENR by using molecularly imprinting techniques is the second imprinting recognition safeguard. The "double recognition" imprinting cavities are formed after removal of ENR, displaying recognition properties superior to that of aptamer or traditional molecularly imprinting alone. Another interest of this method is simultaneous molecular recognition and signal conversion by fabricating the "double recognition" receptor on to the surface of UCNPs to form a hybrid sensing system of apta-MIP/UCNPs. The proposed sensing method is applied to measure ENR in different fish samples. Good recoveries between 87.05% and 96.24%, and relative standard deviation (RSD) values in the range of 1.19-4.83% are obtained, with the limits of detection and quantification of 0.04 and 0.12ng/mL, respectively. It indicates that the sensing method is feasible for the quantification of target ENRs in real samples, and show great potential for wide-ranging application in bioassays.
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Ma DL, Wang W, Mao Z, Yang C, Chen XP, Lu JJ, Han QB, Leung CH. A tutorial review for employing enzymes for the construction of G-quadruplex-based sensing platforms. Anal Chim Acta 2016; 913:41-54. [DOI: 10.1016/j.aca.2016.01.043] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2015] [Revised: 01/11/2016] [Accepted: 01/19/2016] [Indexed: 01/31/2023]
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46
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Yan JW, Wang XL, Tan QF, Yao PF, Tan JH, Zhang L. A colorimetric and fluorescent dual probe for palladium in aqueous medium and live cell imaging. Analyst 2016; 141:2376-9. [DOI: 10.1039/c6an00204h] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A colorimetric and fluorescent dual probe for palladium species was rationally developed by combining the resorufin fluorophore with allyl chloroformate.
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Affiliation(s)
- Jin-wu Yan
- School of Bioscience and Bioengineering
- South China University of Technology
- Guangzhou
- P. R. China
| | - Xiao-lin Wang
- School of Bioscience and Bioengineering
- South China University of Technology
- Guangzhou
- P. R. China
| | - Qi-feng Tan
- School of Bioscience and Bioengineering
- South China University of Technology
- Guangzhou
- P. R. China
| | - Pei-fen Yao
- School of Pharmaceutical Science
- Sun Yat-sen University
- Guangzhou 510006
- China
| | - Jia-heng Tan
- School of Pharmaceutical Science
- Sun Yat-sen University
- Guangzhou 510006
- China
| | - Lei Zhang
- School of Bioscience and Bioengineering
- South China University of Technology
- Guangzhou
- P. R. China
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47
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Liu T, Qin Y, Wang Y, Wang C. Prediction of Protein Structural Class Based on Gapped-Dipeptides and a Recursive Feature Selection Approach. Int J Mol Sci 2015; 17:ijms17010015. [PMID: 26712737 PMCID: PMC4730262 DOI: 10.3390/ijms17010015] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2015] [Revised: 12/15/2015] [Accepted: 12/18/2015] [Indexed: 11/18/2022] Open
Abstract
The prior knowledge of protein structural class may offer useful clues on understanding its functionality as well as its tertiary structure. Though various significant efforts have been made to find a fast and effective computational approach to address this problem, it is still a challenging topic in the field of bioinformatics. The position-specific score matrix (PSSM) profile has been shown to provide a useful source of information for improving the prediction performance of protein structural class. However, this information has not been adequately explored. To this end, in this study, we present a feature extraction technique which is based on gapped-dipeptides composition computed directly from PSSM. Then, a careful feature selection technique is performed based on support vector machine-recursive feature elimination (SVM-RFE). These optimal features are selected to construct a final predictor. The results of jackknife tests on four working datasets show that our method obtains satisfactory prediction accuracies by extracting features solely based on PSSM and could serve as a very promising tool to predict protein structural class.
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Affiliation(s)
- Taigang Liu
- College of Information Technology, Shanghai Ocean University, Shanghai 201306, China.
| | - Yufang Qin
- College of Information Technology, Shanghai Ocean University, Shanghai 201306, China.
| | - Yongjie Wang
- College of Food Science & Technology, Shanghai Ocean University, Shanghai 201306, China.
| | - Chunhua Wang
- College of Information Technology, Shanghai Ocean University, Shanghai 201306, China.
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