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Yang X, Huang Y, Yang S, Tang M, Liu J, Shen J, Fa H, Huo D, Hou C, Yang M. A label-free fluorescent sensor for rapid and sensitive detection of ctDNA based on fluorescent PDA nanoparticles. Analyst 2023; 148:4885-4896. [PMID: 37650747 DOI: 10.1039/d3an01169k] [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: 09/01/2023]
Abstract
Technological advances in the detection of circulating tumor DNA (ctDNA) have made new options available for diagnosis, classification, biological studies, and treatment selection. However, effective and practical methods for analyzing this emerging class of biomarkers are still lacking. In this work, a fluorescent biosensor was designed for the label-free detection of ctDNA (EGFR 19 del for non-small cell lung cancer, NSCLC). The biosensor was based on the fact that MnO2 nanosheets (MnO2 NSs) have stronger affinity towards single-stranded DNA (ssDNA), as compared with double-stranded DNA (dsDNA). As a high-performance nanoenzyme, MnO2 NSs could oxidize dopamine (DA) into fluorescent polydopamine nanoparticles (FL-PDA NPs), which could be used as a fluorescence signal. The probe ssDNA could be adsorbed on the surface of MnO2 NSs through π-π stacking, and the active site would be masked, causing a lower fluorescence. After the targets were recognized by probe ssDNA to form dsDNA, its affinity for MnO2 NSs decreased and the active site recovered, causing a restored fluorescence. It was verified that Mn ions, •OH radicals and electron transfer were the important factors in the catalytic oxidation of DA. Under the optimal experimental conditions, this biosensor exhibited a detection limit of 380 pM and a linear range of 25-125 nM, providing reliable readout in a short time (45 min). This sensor exhibited outstanding specificity, stability and reproducibility. In addition, this sensor was applied to the detection of ctDNA in serum samples and cell lysates. It is demonstrated that FL-PDA NPs can be used as a fluorescence signal for easy, rapid and label-free detection of ctDNA without any other amplification strategies, and the proposed strategy has great potential for biomarker detection in the field of liquid biopsy.
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Affiliation(s)
- Xiao Yang
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing 400044, PR China.
| | - Yang Huang
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing 400044, PR China.
| | - Siyi Yang
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing 400044, PR China.
| | - Miao Tang
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing 400044, PR China.
| | - Juan Liu
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing 400044, PR China.
| | - Jinhui Shen
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing 400044, PR China.
| | - Huanbao Fa
- College of Chemistry and Chemical Engineering, Chongqing University, Chongqing 400044, PR China
| | - Danqun Huo
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing 400044, PR China.
- College of Bioengineering, Chongqing University, Chongqing 400044, PR China
| | - Changjun Hou
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing 400044, PR China.
- College of Bioengineering, Chongqing University, Chongqing 400044, PR China
| | - Mei Yang
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing 400044, PR China.
- College of Bioengineering, Chongqing University, Chongqing 400044, PR China
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Wei L, Kong X, Wang M, Zhang Y, Pan R, Cheng Y, Lv Z, Zhou J, Ming J. A label-free T4 polynucleotide kinase fluorescence sensor based on split dimeric G-quadruplex and ligation-induced dimeric G-quadruplex/thioflavin T conformation. Anal Bioanal Chem 2022; 414:7923-7933. [PMID: 36136111 DOI: 10.1007/s00216-022-04327-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2022] [Revised: 09/03/2022] [Accepted: 09/06/2022] [Indexed: 11/01/2022]
Abstract
The phosphorylation process of DNA by T4 polynucleotide kinase (T4 PNK) plays a crucial role in DNA recombination, DNA replication, and DNA repair. Traditional monomeric G-quadruplex (G4) systems are always activated by single cation such as K+ or Na+. The conformation transformation caused by the coexistence of multiple cations may interfere with the signal readout and limit their applications in physiological system. In view of the stability of dimeric G4 in multiple cation solution, we reported a label-free T4 PNK fluorescence sensor based on split dimeric G4 and ligation-induced dimeric G4/thioflavin T (ThT) conformation. The dimeric G4 was divided into two independent pieces of one normal monomeric G4 and the other monomeric G4 fragment phosphorylated by T4 PNK in order to decrease the background signal. With the introduction of template DNA, DNA ligase, and invasive DNA, the dimeric G4 could be generated and liberated to combine with ThT to show obvious fluorescence signal. Using our strategy, the linear range from 0.005 to 0.5 U mL-1, and the detection limit of 0.0021 U mL-1 could be achieved without the consideration of interference caused by the coexistence of multiple cations. Additionally, research in real sample determination and inhibition effect investigations indicated its further potential application value in biochemical process research and clinic diagnostics.
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Affiliation(s)
- Liuya Wei
- School of Pharmacy, Weifang Medical University, Weifang, 261053, People's Republic of China
| | - Xianglong Kong
- School of Pharmacy, Weifang Medical University, Weifang, 261053, People's Republic of China
| | - Mengran Wang
- School of Pharmacy, Weifang Medical University, Weifang, 261053, People's Republic of China
| | - Yixin Zhang
- School of Clinical Medicine, Weifang Medical University, Weifang, 261053, People's Republic of China
| | - Ruiyan Pan
- School of Pharmacy, Weifang Medical University, Weifang, 261053, People's Republic of China
| | - Yuanzheng Cheng
- School of Pharmacy, Weifang Medical University, Weifang, 261053, People's Republic of China
| | - Zhihua Lv
- School of Medicine and Pharmacy, Ocean University of China, Qingdao, 266003, People's Republic of China.
| | - Jin Zhou
- School of Pharmacy, Weifang Medical University, Weifang, 261053, People's Republic of China.
| | - Jingjing Ming
- School of Pharmacy, Weifang Medical University, Weifang, 261053, People's Republic of China.
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Shen Y, Shen X, Ge J, Qu L, Li Z. A highly sensitive fluorescent biosensor for the detection of cytochrome c based on polydopamine nanotubes and exonuclease I amplification. NEW J CHEM 2021. [DOI: 10.1039/d1nj02112e] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
A novel fluorescence method for the detection of Cyt c was developed based on PDANTs and exonuclease I amplification.
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Affiliation(s)
- Yanmei Shen
- College of Chemistry, Green Catalysis Center, Henan Joint International Research Laboratory of Green Construction of Functional Molecules and Their Bioanalytical Applications
- Zhengzhou Key Laboratory of Functional Nanomaterial and Medical Theranostic
- Zhengzhou University
- Zhengzhou 450001
- P. R. China
| | - Xueping Shen
- College of Chemistry, Green Catalysis Center, Henan Joint International Research Laboratory of Green Construction of Functional Molecules and Their Bioanalytical Applications
- Zhengzhou Key Laboratory of Functional Nanomaterial and Medical Theranostic
- Zhengzhou University
- Zhengzhou 450001
- P. R. China
| | - Jia Ge
- College of Chemistry, Green Catalysis Center, Henan Joint International Research Laboratory of Green Construction of Functional Molecules and Their Bioanalytical Applications
- Zhengzhou Key Laboratory of Functional Nanomaterial and Medical Theranostic
- Zhengzhou University
- Zhengzhou 450001
- P. R. China
| | - Lingbo Qu
- College of Chemistry, Green Catalysis Center, Henan Joint International Research Laboratory of Green Construction of Functional Molecules and Their Bioanalytical Applications
- Zhengzhou Key Laboratory of Functional Nanomaterial and Medical Theranostic
- Zhengzhou University
- Zhengzhou 450001
- P. R. China
| | - Zhaohui Li
- College of Chemistry, Green Catalysis Center, Henan Joint International Research Laboratory of Green Construction of Functional Molecules and Their Bioanalytical Applications
- Zhengzhou Key Laboratory of Functional Nanomaterial and Medical Theranostic
- Zhengzhou University
- Zhengzhou 450001
- P. R. China
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Cao X, Zhang K, Yan W, Xia Z, He S, Xu X, Ye Y, Wei Z, Liu S. Calcium ion assisted fluorescence determination of microRNA-167 using carbon dots-labeled probe DNA and polydopamine-coated Fe 3O 4 nanoparticles. Mikrochim Acta 2020; 187:212. [PMID: 32157454 DOI: 10.1007/s00604-020-4209-8] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2019] [Accepted: 03/02/2020] [Indexed: 12/18/2022]
Abstract
A selective and sensitive fluorescence biosensor is described for determination of microRNA-167 using fluorescent resonant energy transfer (FRET) strategy. The FRET system comprises carbon dots (CDs, donor) labeled with probe DNA (pDNA) and polydopamine (PDA)-coated Fe3O4 nanoparticles (Fe3O4@PDA NPs, acceptor). The CDs-pDNA can be absorbed onto the surface of Fe3O4@PDA NPs because of the strong π interaction between pDNA and PDA. With the enhanced adsorption ability of Fe3O4@PDA NPs by Ca2+, the fluorescence intensity of CDs at 445 nm (excitation at 360 nm) is quenched. In presence of microRNA-167, the hybridized complex of CDs-pDNA-microRNA-167 will be released from the surface of Fe3O4@PDA NPs due to the weak π interaction of the complex and PDA. This results in the fluorescence recovery of CDs. By application of twice-magnetic separation, the biosensor shows a wide linear range of 0.5-100 nM to microRNA-167 with a 76 pM detection limit. The method was applied to the determination of microRNA-167 in samples of total microRNA extractions from A. thaliana seedlings, and the recoveries ranged from 96.4 to 98.3%.
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Affiliation(s)
- Xiaodong Cao
- School of Food Science and Engineering, Hefei University of Technology, Hefei, 230009, China
| | - Kairui Zhang
- School of Food Science and Engineering, Hefei University of Technology, Hefei, 230009, China
| | - Wuwen Yan
- School of Food Science and Engineering, Hefei University of Technology, Hefei, 230009, China
| | - Zihao Xia
- School of Food Science and Engineering, Hefei University of Technology, Hefei, 230009, China
| | - Shudong He
- School of Food Science and Engineering, Hefei University of Technology, Hefei, 230009, China
| | - Xuan Xu
- School of Chemistry and Molecular Engineering, Nanjing Tech University, Nanjing, 211816, China
| | - Yongkang Ye
- School of Food Science and Engineering, Hefei University of Technology, Hefei, 230009, China.
| | - Zhaojun Wei
- School of Food Science and Engineering, Hefei University of Technology, Hefei, 230009, China
| | - Songqin Liu
- Jiangsu Province Hi-Tech Key Laboratory for Bio-medical Research, School of Chemistry and Chemical Engineering, Southeast University, Nanjing, 211189, China.
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