1
|
Li S, Xu J, Li H. Highly sensitive detection of Pb 2+ in the environment with DNAzyme and rolling circle amplification reaction. Spectrochim Acta A Mol Biomol Spectrosc 2024; 311:124001. [PMID: 38335590 DOI: 10.1016/j.saa.2024.124001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2023] [Revised: 01/07/2024] [Accepted: 02/04/2024] [Indexed: 02/12/2024]
Abstract
Lead (Pb2+) is a toxic heavy metal that can severely pollute the environment and cause harm to public health. Therefore, the prompt and accurate monitoring of lead levels in the environment is vital. In this study, a novel DNAzyme-based cascade signal amplification biosensor that could detect Pb2+ with high sensitivity was designed through the combination of the strand displacement reaction (SDR) and rolling circle amplification (RCA). When Pb2+ is absent, RCA is triggered under the synergistic action of T4 DNA ligase and phi29 DNA polymerase with an artificially fluorophore-labeled S-chains being released to replace the upstream products generated by repeated RCA, thereby restoring the quenched fluorescence and emitting a strong fluorescent signal. After adding Pb2+, 8-17 DNAzyme binds specifically to Pb2+ and catalyzes the cleavage of the rA site on a single-stranded DNA with artificially modified rA site to restrict the RCA. The designed sensor provides a linear detection range for Pb2+ from 25 pM to 1 µM, with a low limit of detection 8.3 pM. Significantly, this sensor still demonstrates satisfactory performance when used for detecting Pb2+ in environment samples (e.g., river water). We consider that our study can provide reference values and ideas for the development of heavy metal ion detection methods.
Collapse
Affiliation(s)
- Sijiong Li
- College of Environmental and Chemical Engineering, Yanshan University, Qinhuangdao 066000, PR China
| | - Jun Xu
- College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang 330022, PR China; Key Laboratory of Energy Catalysis and Conversion of Nanchang, Nanchang 330022, PR China
| | - Hongbo Li
- College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang 330022, PR China; Key Laboratory of Energy Catalysis and Conversion of Nanchang, Nanchang 330022, PR China.
| |
Collapse
|
2
|
Zhang M, Ye L. Detection of SARS-CoV-2 receptor binding domain using fluorescence probe and DNA flowers enabled by rolling circle amplification. Mikrochim Acta 2023; 190:163. [PMID: 36988717 PMCID: PMC10052277 DOI: 10.1007/s00604-023-05747-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2022] [Accepted: 03/19/2023] [Indexed: 03/30/2023]
Abstract
Using rolling circle amplification (RCA) and two different ways of signal readout, we developed analytical methods to detect the receptor-binding domain (RBD) of SARS-CoV-2 spike protein (S protein). We modified streptavidin-coated magnetic beads with an aptamer of RBD through a biotin-tagged complementary DNA strand (biotin-cDNA). Binding of RBD caused the aptamer to dissociate from the biotin-cDNA, making the cDNA available to initiate RCA on the magnetic beads. Detection of RBD was achieved using a dual signal output. For fluorescence signaling, the RCA products were mixed with a dsDNA probe labeled with fluorophore and quencher. Hybridization of the RCA products caused the dsDNA to separate and to emit fluorescence (λex = 488 nm, λem = 520 nm). To generate easily detectable UV-vis absorbance signal, the RCA amplification was extended to produce DNA flower to encapsulate horseradish peroxidase (HRP). The HRP-encapsulated DNA flower catalyzed a colorimetric reaction between H2O2 and 3,3',5,5'-tetramethylbenzidine (TMB) to generate an optical signal (λabs = 450 nm). The fluorescence and colorimetric assays for RBD have low detection limits (0.11 pg mL-1 and 0.904 pg mL-1) and a wide linear range (0.001-100 ng mL-1). For detection of RBD in human saliva, the recovery was 93.0-100% for the fluorescence assay and 87.2-107% for the colorimetric assay. By combining fluorescence and colorimetric detection with RCA, detection of the target RBD in human saliva was achieved with high sensitivity and selectivity.
Collapse
Affiliation(s)
- Man Zhang
- Division of Pure and Applied Biochemistry, Department of Chemistry, Lund University, Box124, 22100, Lund, Sweden
| | - Lei Ye
- Division of Pure and Applied Biochemistry, Department of Chemistry, Lund University, Box124, 22100, Lund, Sweden.
| |
Collapse
|
3
|
Seo YH, Kim S. Aggregation-induced emission nanoparticles with improved optical absorption for boosting fluorescence signal of tumors in vivo. Spectrochim Acta A Mol Biomol Spectrosc 2022; 280:121534. [PMID: 35752040 DOI: 10.1016/j.saa.2022.121534] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/04/2022] [Revised: 06/17/2022] [Accepted: 06/17/2022] [Indexed: 06/15/2023]
Abstract
Nanomaterial development has been extensively investigated for several decades to realize sensitive and accurate imaging of tumors in vivo. The manufacturing of nanoparticles with highly efficient tumor targeting and excellent optical properties is still an important research topic. The structure and composition ratio of materials that decisively contribute to the brightness and size of nanoparticles have a great influence on image sensitivity and tumor targeting efficiency. In this study, we developed aggregation-induced emission (AIE) nanoparticles with a widened light absorption window (nanoPMeOCN/BDP) to enable sensitive in vivo tumor imaging. The signal of nanoparticles is enhanced by integrating a high-density AIE polymer (PMeOCN) and light-absorbing fluorescent dye (BDP) in a nanoscopic space. BDP not only improves the light absorption of particles but also enhances the fluorescence signal of particles by effectively transferring absorbed energy to PMeOCN. The physically blended nanoPMeOCN/BDP show strong light absorption and improved sensitivity for the imaging of biological tissues because of their excellent optical performance compared to nanoPMeOCN of similar nanosizes (∼19 nm in size). In vivo imaging results further confirm that nanoPMeOCN/BDP can provide amplified signals with the successful accumulation of tumor tissue through the enhanced permeability and retention effect. We expect that the design strategy of nanoparticles with improved light absorption will provide a simple and general method for improving the accuracy of disease diagnosis.
Collapse
Affiliation(s)
- Young Hun Seo
- Biosensor Group, Korea Institute of Science and Technology Europe, Campus E7.1, 66123 Saarbrücken, Germany.
| | - Sehoon Kim
- Center for Theragnosis, Korea Institute of Science and Technology, 5 Hwarang-ro, 14-gil, Seongbuk-gu, Seoul 02792, Republic of Korea; KU-KIST Graduate School of Converging Science and Technology, Korea University, Seoul 02841, Republic of Korea.
| |
Collapse
|
4
|
Chen MY, Lang JY, Bai CC, Yu SS, Kong XJ, Dong LY, Wang XH. Construction of PEGylated boronate-affinity-oriented imprinting magnetic nanoparticles for ultrasensitive detection of ellagic acid from beverages. Anal Bioanal Chem 2022; 414:6557-6570. [PMID: 35831534 DOI: 10.1007/s00216-022-04213-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2022] [Revised: 06/03/2022] [Accepted: 07/04/2022] [Indexed: 11/28/2022]
Abstract
Molecularly imprinted polymers (MIPs) can exhibit antibody-level affinity for target molecules. However, the nonspecific adsorption of non-imprinted regions for non-target molecules limits the application range of MIPs. Herein, we fabricated PEGylated boronate-affinity-oriented ellagic acid-imprinting magnetic nanoparticles (PBEMN), which first integrated boronate-affinity-oriented surface imprinting and sequential PEGylation for small molecule-imprinted MIPs. The resultant PBEMN possess higher adsorption capacity and faster adsorption rate for template ellagic acid (EA) molecules than the non-PEGylated control. To prove the excellent performance, the PBEMN were linked with hydrophilic boronic acid-modified/fluorescein isothiocyanate-loaded graphene oxide (BFGO), because BFGO could selectively label cis-diol-containing substances by boronate-affinity and output ultrasensitive fluorescent signals. Based on a dual boronate-affinity synergy, the PBEMN first selectively captured EA molecules by boronate-affinity-oriented molecular imprinted recognition, and then the EA molecules were further labeled with BFGO through boronate-affinity. The PBEMN linked BFGO (PBPF) strategy provided ultrahigh sensitivity for EA molecules with a limit of detection of 39.1 fg mL-1, resulting from the low nonspecific adsorption of PBEMN and the ultrasensitive fluorescence signal of BFGO. Lastly, the PBPF strategy was successfully employed in the determination of EA concentration in a spiked beverage sample with recovery and relative standard deviation in the range of 96.5 to 104.2% and 3.8 to 5.1%, respectively. This work demonstrates that the integration of boronate-affinity-oriented surface imprinting and sequential PEGylation may be a universal tool for improving the performance of MIPs.
Collapse
Affiliation(s)
- Meng-Ying Chen
- Tianjin Key Laboratory on Technologies Enabling Development of Clinical Therapeutics and Diagnostics, School of Pharmacy, Tianjin Medical University, Building B, 22 Qixiangtai Road, Heping District, Tianjin, 300072, China
| | - Jin-Ye Lang
- Tianjin Key Laboratory on Technologies Enabling Development of Clinical Therapeutics and Diagnostics, School of Pharmacy, Tianjin Medical University, Building B, 22 Qixiangtai Road, Heping District, Tianjin, 300072, China
| | - Chen-Chen Bai
- Tianjin Key Laboratory on Technologies Enabling Development of Clinical Therapeutics and Diagnostics, School of Pharmacy, Tianjin Medical University, Building B, 22 Qixiangtai Road, Heping District, Tianjin, 300072, China
| | - Shi-Song Yu
- Tianjin Key Laboratory on Technologies Enabling Development of Clinical Therapeutics and Diagnostics, School of Pharmacy, Tianjin Medical University, Building B, 22 Qixiangtai Road, Heping District, Tianjin, 300072, China
| | - Xiang-Jin Kong
- School of Chemistry and Chemical Engineering, Shandong Provincial Key Laboratory/Collaborative Innovation Center of Chemical Energy Storage & Novel Cell Technology, Liaocheng University, Liaocheng, 252000, China.
| | - Lin-Yi Dong
- Tianjin Key Laboratory on Technologies Enabling Development of Clinical Therapeutics and Diagnostics, School of Pharmacy, Tianjin Medical University, Building B, 22 Qixiangtai Road, Heping District, Tianjin, 300072, China
| | - Xian-Hua Wang
- Tianjin Key Laboratory on Technologies Enabling Development of Clinical Therapeutics and Diagnostics, School of Pharmacy, Tianjin Medical University, Building B, 22 Qixiangtai Road, Heping District, Tianjin, 300072, China.
| |
Collapse
|
5
|
Li H, Chen M, Luo R, Peng W, Gong X, Chang J. An amplified fluorescent biosensor for Ag + detection through the hybridization chain reactions. Colloids Surf B Biointerfaces 2021; 202:111686. [PMID: 33714924 DOI: 10.1016/j.colsurfb.2021.111686] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2021] [Revised: 03/04/2021] [Accepted: 03/07/2021] [Indexed: 12/17/2022]
Abstract
Ag is widely distributed in nature and it is used in almost all areas of human life. However, due to the widespread use of Ag materials, Ag+ pollution seriously threatens the human health and environment. The traditional detection methods for Ag+ suffer from disadvantages including high operational cost, complicated operating unit and instrument, and high requirements for professionals. Thus, in this study, a new type of Ag+ detection biosensor based on the hybridization signal amplification was designed to overcome these problems. Combining cytosine-Ag+-cytosine mismatch structure with the hybridization chain reaction, this biosensor converted the conventional detection signal into the nucleic acid amplification signal, which realized efficient, rapid, sensitive, and specific detection of Ag+. The limit-of-detection of this sensor reached 0.69 pM, which is much less than the maximum concentration (0.1 mg L-1, 927 nM) suggested for drinking water by the World Health Organization, and the maximum concentration (0.05 mg L-1, 464 nM) suggested by the United States Environmental Protection Agency. This method provides a promising new platform for detecting Ag+ concentrations at ultralow levels.
Collapse
|
6
|
Tu R, Li L, Yuan H, He R, Wang Q. Biosensor-enabled droplet microfluidic system for the rapid screening of 3-dehydroshikimic acid produced in Escherichia coli. J Ind Microbiol Biotechnol 2020; 47:1155-60. [PMID: 32980986 DOI: 10.1007/s10295-020-02316-1] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2020] [Accepted: 09/21/2020] [Indexed: 12/21/2022]
Abstract
Genetically encoded biosensors are powerful tools used to screen metabolite-producing microbial strains. Traditionally, biosensor-based screening approaches also use fluorescence-activated cell sorting (FACS). However, these approaches are limited by the measurement of intracellular fluorescence signals in single cells, rather than the signals associated with populations comprising multiple cells. This characteristic reduces the accuracy of screening because of the variability in signal levels among individual cells. To overcome this limitation, we introduced an approach that combined biosensors with droplet microfluidics (i.e., fluorescence-activated droplet sorting, FADS) to detect labeled cells at a multi-copy level and in an independent droplet microenvironment. We used our previously reported genetically encoded biosensor, 3-dehydroshikimic acid (3-DHS), as a model with which to establish the biosensor-based FADS screening method. We then characterized and compared the effects of the sorting method on the biosensor-based screening system by subjecting the same mutant library to FACS and FADS. Notably, our developed biosensor-enabled, droplet microfluidics-based FADS screening system yielded an improved positive mutant enrichment rate and increased productivity by the best mutant, compared with the single-cell FACS system. In conclusion, the combination of a biosensor and droplet microfluidics yielded a more efficient screening method that could be applied to the biosensor-based high-throughput screening of other metabolites.
Collapse
|
7
|
Zhao F, Zhao T, Deng L, Lv D, Zhang X, Pan X, Xu J, Long G. HCV Reporter System (Viral Infection-Activated Split-Intein-Mediated Reporter System) for Testing Virus Cell-to-cell Transmission ex-vivo. Bio Protoc 2018; 8:e2949. [PMID: 34395761 DOI: 10.21769/bioprotoc.2949] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2018] [Revised: 07/12/2018] [Accepted: 07/20/2018] [Indexed: 11/02/2022] Open
Abstract
Hepatitis C virus (HCV) spread involves two distinct entry pathways: cell-free transmission and cell-to-cell transmission. Cell-to-cell transmission is not only an efficient way for viruses to spread but also an effective method for escaping neutralizing antibodies. We adapted the viral infection-activated split-intein-mediated reporter system (VISI) and developed a straightforward model for Live-cell monitoring of HCV cell-to-cell transmission ex-vivo: co-culture of HCV infected donor cells (red signal) with uninfected recipient cells (green signal) and elimination of the cell-free transmission by adding potent neutralizing antibody AR3A in the supernatant. With this model, the efficiency of cell-to-cell transmission can be evaluated by counting the number of foci designated by the green signal of recipient cells.
Collapse
Affiliation(s)
- Fanfan Zhao
- Key Laboratory of Molecular Virology and Immunology, Institute Pasteur of Shanghai, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Ting Zhao
- Key Laboratory of Molecular Virology and Immunology, Institute Pasteur of Shanghai, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China.,Henan Agriculture University, Zhengzhou, China
| | - Libin Deng
- Key Laboratory of Molecular Virology and Immunology, Institute Pasteur of Shanghai, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Dawei Lv
- Key Laboratory of Molecular Virology and Immunology, Institute Pasteur of Shanghai, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Xiaolong Zhang
- Key Laboratory of Molecular Virology and Immunology, Institute Pasteur of Shanghai, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Xiaoyu Pan
- Key Laboratory of Molecular Virology and Immunology, Institute Pasteur of Shanghai, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Jun Xu
- Henan Agriculture University, Zhengzhou, China
| | - Gang Long
- Key Laboratory of Molecular Virology and Immunology, Institute Pasteur of Shanghai, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
| |
Collapse
|
8
|
Xiao R, Rong Z, Long F, Liu Q. Portable evanescent wave fiber biosensor for highly sensitive detection of Shigella. Spectrochim Acta A Mol Biomol Spectrosc 2014; 132:1-5. [PMID: 24836193 DOI: 10.1016/j.saa.2014.04.090] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2013] [Revised: 03/18/2014] [Accepted: 04/13/2014] [Indexed: 06/03/2023]
Abstract
A portable evanescent wave fiber biosensor was developed to achieve the rapid and highly sensitive detection of Shigella. In this study, a DNA probe was covalently immobilized onto fiber-optic biosensors that can hybridize with a fluorescently labeled complementary DNA. The sensitivity of detection for synthesized oligonucleotides can reach 10(-10) M. The surface of the sensor can be regenerated with 0.5% sodium dodecyl sulfate solution (pH 1.9) for over 30 times without significant deterioration of performance. The total analysis time for a single sample, including the time for measurement and surface regeneration, was less than 6 min. We employed real-time polymerase chain reaction (PCR) and compared the results of both methods to investigate the actual Shigella DNA detection capability of the fiber-optic biosensor. The fiber-optic biosensor could detect as low as 10(2) colony-forming unit/mL Shigella. This finding was comparable with that by real-time PCR, which suggests that this method is a potential alternative to existing detection methods.
Collapse
Affiliation(s)
- Rui Xiao
- Beijing Institute of Radiation Medicine, Beijing 100850, PR China.
| | - Zhen Rong
- Beijing Institute of Radiation Medicine, Beijing 100850, PR China
| | - Feng Long
- School of Environment and Natural Resources, Renmin University of China, Beijing 100872, PR China
| | - Qiqi Liu
- Beijing Institute of Radiation Medicine, Beijing 100850, PR China
| |
Collapse
|