101
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Fu C, Yang Y, Qiu F, Shi AC. Fractional yield and phase separation of ladder-like interpolymer complexation between diblock copolymers. POLYMER 2019. [DOI: 10.1016/j.polymer.2019.121836] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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102
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Wu H, Chen TT, Wang XN, Ke Y, Jiang JH. RNA imaging in living mice enabled by an in vivo hybridization chain reaction circuit with a tripartite DNA probe. Chem Sci 2019; 11:62-69. [PMID: 32110357 PMCID: PMC7012062 DOI: 10.1039/c9sc03469b] [Citation(s) in RCA: 63] [Impact Index Per Article: 12.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2019] [Accepted: 10/15/2019] [Indexed: 12/13/2022] Open
Abstract
RNA imaging in living animals helps decipher biology and creates new theranostics for disease treatment. Due to their low delivery efficiency and high background, however, fluorescence probes for in situ RNA imaging in living mice have not been reported. We develop a new cell-targeting fluorescent probe that enables RNA imaging in living mice via an in vivo hybridization chain reaction (HCR). The minimalistic Y-shaped design of the tripartite DNA probe improves its performance in live animal studies and serves as a modular scaffold for three DNA motifs for cell-targeting and the HCR circuit. The tripartite DNA probe allows facile synthesis with a high yield and demonstrates ultrasensitive RNA detection in vitro. The probe also exhibits selective and efficient internalization into folate (FA) receptor-overexpressed cells via a caveolar-mediated endocytosis mechanism and produces fluorescence signals dynamically correlated with intracellular target expressions. Furthermore, the probe exhibits specific delivery into tumor cells and allows high-contrast imaging of miR-21 in living mice. The tripartite DNA design may open the door for intracellular RNA imaging in living animals using DNA-minimal structures and its design strategy can help future development of DNA-based multi-functional molecular probes.
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Affiliation(s)
- Han Wu
- State Key Laboratory of Chemo/Bio-Sensing and Chemometrics , College of Chemistry and Chemical Engineering , Hunan University , Changsha 410082 , P. R. China . .,Wallace H. Coulter Department of Biomedical Engineering , Emory University School of Medicine , Emory University , Atlanta , Georgia 30322 , USA .
| | - Ting-Ting Chen
- State Key Laboratory of Chemo/Bio-Sensing and Chemometrics , College of Chemistry and Chemical Engineering , Hunan University , Changsha 410082 , P. R. China .
| | - Xiang-Nan Wang
- State Key Laboratory of Chemo/Bio-Sensing and Chemometrics , College of Chemistry and Chemical Engineering , Hunan University , Changsha 410082 , P. R. China .
| | - Yonggang Ke
- Wallace H. Coulter Department of Biomedical Engineering , Emory University School of Medicine , Emory University , Atlanta , Georgia 30322 , USA .
| | - Jian-Hui Jiang
- State Key Laboratory of Chemo/Bio-Sensing and Chemometrics , College of Chemistry and Chemical Engineering , Hunan University , Changsha 410082 , P. R. China .
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103
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Liu Y, Ge Z, Chen M, He H, Zhang X, Wang S. Ratiometric electrochemical biosensor based on Exo III-Assisted recycling amplification for the detection of CAG trinucleotide repeats. Biosens Bioelectron 2019; 142:111537. [DOI: 10.1016/j.bios.2019.111537] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2019] [Revised: 07/11/2019] [Accepted: 07/24/2019] [Indexed: 12/12/2022]
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104
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Sepehri S, Zardán Gómez de la Torre T, Schneiderman JF, Blomgren J, Jesorka A, Johansson C, Nilsson M, Albert J, Strømme M, Winkler D, Kalaboukhov A. Homogeneous Differential Magnetic Assay. ACS Sens 2019; 4:2381-2388. [PMID: 31397152 DOI: 10.1021/acssensors.9b00969] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
Assays are widely used for detection of various targets, including pathogens, drugs, and toxins. Homogeneous assays are promising for the realization of point-of-care diagnostics as they do not require separation, immobilization, or washing steps. For low concentrations of target molecules, the speed and sensitivity of homogeneous assays have hitherto been limited by slow binding kinetics, time-consuming amplification steps, and the presence of a high background signal. Here, we present a homogeneous differential magnetic assay that utilizes a differential magnetic readout that eliminates previous limitations of homogeneous assays. The assay uses a gradiometer sensor configuration combined with precise microfluidic sample handling. This enables simultaneous differential measurement of a positive test sample containing a synthesized Vibrio cholerae target and a negative control sample, which reduces the background signal and increases the readout speed. Very low concentrations of targets down to femtomolar levels are thus detectable without any additional amplification of the number of targets. Our homogeneous differential magnetic assay method opens new possibilities for rapid and highly sensitive diagnostics at the point of care.
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Affiliation(s)
| | | | - Justin F. Schneiderman
- MedTech West and the Institute of Neuroscience and Physiology, University of Gothenburg, SE-405 30 Göteborg, Sweden
| | - Jakob Blomgren
- RISE − Research Institute of Sweden, SE-411 33 Göteborg, Sweden
| | | | | | - Mats Nilsson
- Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University,
Box 1031,SE-171 21 Solna, Sweden
| | - Jan Albert
- Department of Clinical Microbiology, Karolinska University Hospital, SE-171 76 Stockholm, Sweden
- Department of Microbiology, Tumor and Cell Biology, Karolinska Institute, SE-171 77 Stockholm, Sweden
| | - Maria Strømme
- The Ångström Laboratory, Department of Engineering Sciences, Uppsala University, Box 534, SE-751 21 Uppsala, Sweden
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105
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Wang H, Wang H, Wu Q, Liang M, Liu X, Wang F. A DNAzyme-amplified DNA circuit for highly accurate microRNA detection and intracellular imaging. Chem Sci 2019; 10:9597-9604. [PMID: 32055333 PMCID: PMC7006504 DOI: 10.1039/c9sc03552d] [Citation(s) in RCA: 75] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2019] [Accepted: 08/25/2019] [Indexed: 12/27/2022] Open
Abstract
A rationally and modularly engineered CHA-HCR-DNAzyme circuit was constructed for amplified biosensing and bioimaging with high performance.
Biomolecular self-assembly circuits have been well developed for high-performance biosensing and bioengineering applications. Here we designed an isothermal concatenated nucleic acid amplification system which is composed of a lead-in catalyzed hairpin assembly (CHA), intermediate hybridization chain reaction (HCR) and ultimate DNAzyme amplifier units. The analyte initiates the self-assembly of hairpin reactants into dsDNA products in CHA, which generates numerous trigger sequences for activating the subsequent HCR-assembled long tandem DNAzyme nanowires. The as-acquired DNAzyme catalyzed the successive cleavage of its substrates, leading to an amplified fluorescence readout. The sophisticated design of our CHA-HCR-DNAzyme scheme was systematically investigated in vitro and showed dramatically enhanced detection performance. As a general sensing strategy, this CHA-HCR-DNAzyme method enables the amplified analysis of miRNA and its accurate intracellular imaging in living cells, originating from their synergistic signal amplifications. This method shows great potential for analyzing trace amounts of biomarkers in various clinical research studies.
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Affiliation(s)
- Hong Wang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
| | - Huimin Wang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
| | - Qiong Wu
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
| | - Meijuan Liang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
| | - Xiaoqing Liu
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
| | - Fuan Wang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
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106
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Cyclic enzymatic amplification method for highly sensitive detection of nuclear factor-kappa B. Anal Chim Acta 2019; 1068:80-86. [DOI: 10.1016/j.aca.2019.03.059] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2018] [Revised: 03/27/2019] [Accepted: 03/28/2019] [Indexed: 12/11/2022]
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107
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Huang ZM, Lin MY, Zhang CH, Wu Z, Yu RQ, Jiang JH. Recombinant Fusion Streptavidin as a Scaffold for DNA Nanotetrads for Nucleic Acid Delivery and Telomerase Activity Imaging in Living Cells. Anal Chem 2019; 91:9361-9365. [DOI: 10.1021/acs.analchem.9b02115] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Zhi-Mei Huang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, P. R. China
| | - Mei-Ya Lin
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, P. R. China
| | - Chong-Hua Zhang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, P. R. China
| | - Zhenkun Wu
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, P. R. China
| | - Ru-Qin Yu
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, P. R. China
| | - Jian-Hui Jiang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha, Hunan 410082, P. R. China
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108
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Lou YF, Peng YB, Luo X, Yang Z, Wang R, Sun D, Li L, Tan Y, Huang J, Cui L. A universal aptasensing platform based on cryonase-assisted signal amplification and graphene oxide induced quenching of the fluorescence of labeled nucleic acid probes: application to the detection of theophylline and ATP. Mikrochim Acta 2019; 186:494. [PMID: 31267250 DOI: 10.1007/s00604-019-3596-1] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2019] [Accepted: 06/09/2019] [Indexed: 10/26/2022]
Abstract
This study describes a universal fluorometric method for sensitive detection of analytes by using aptamers. It is based on the use of graphene oxide (GO) and cryonase-assisted signal amplification. GO is a strong quencher of FAM-labeled nucleic acid probes, while cryonase digests all types of nucleic acid probes. This makes the platform widely applicable to analytes for which the corresponding aptamers are available. Theophylline and ATP were chosen as model analytes. In the absence of targets, dye-labeled aptamers are in a flexible single strand state and adsorb on the GO. As a result, the probes are non-fluorescent due to the efficient quenching of dyes by GO. Upon the addition of a specific target, the aptamer/target complex desorbed from the GO surface and the probe becomes fluorescent. The released complex will immediately become a substrate for cryonase digestion and subsequently releasing the target to bind to another aptamer to initiate the next round of cleavage. This cyclic reaction will repeat again and again until all the related-probes are consumed and all fluorophores light up, resulting in significant fluorescent signal amplification. The detection limits are 47 nM for theophylline and 22.5 nM for ATP. This is much better than that of known methods. The assay requires only mix-and-measure steps that can be accomplished rapidly. In our perception, the detection scheme holds great promise for the design enzyme-aided amplification mechanisms for use in bioanalytical methods. Graphical abstract A cryonase-assisted signal amplification (CASA) method has been developed by using graphene oxide (GO) conjugated with a fluorophore-labeled aptamer for fluorescence signal generation. It has a large scope because it may be applied to numerous analytes.
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Affiliation(s)
- Yi-Fei Lou
- Department of Chemistry, Zhejiang Sci-Tech University, Hangzhou, 310008, China
| | - Yong-Bo Peng
- Guangdong Provincial Key Laboratory of Construction and Detection in Tissue Engineering, School of Biomedical Engineering, Southern Medical University, Guangzhou, 510515, China.,Molecular Science and Biomedicine Laboratory (MBL), College of Life Sciences, Hunan University, Changsha, 410082, China.,School of Chinese Medicine, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Estates Building, 10 Sassoon Road, Hong Kong, 00852, People's Republic of China
| | - Xiaowei Luo
- Department of Chemistry, University of Washington, Seattle, WA, 98195, USA
| | - Zhiming Yang
- Department of Chemistry, Zhejiang Sci-Tech University, Hangzhou, 310008, China
| | - Ruifeng Wang
- Department of Chemistry, Zhejiang Sci-Tech University, Hangzhou, 310008, China
| | - Dewen Sun
- Department of Chemistry, Zhejiang Sci-Tech University, Hangzhou, 310008, China
| | - Lingxiangyu Li
- Department of Chemistry, Zhejiang Sci-Tech University, Hangzhou, 310008, China
| | - Yuyu Tan
- Department of Biomedical Engineering School of Electrical Engineering, University of South China, Hengyang, 421002, China
| | - Jiahao Huang
- Guangdong Provincial Key Laboratory of Construction and Detection in Tissue Engineering, School of Biomedical Engineering, Southern Medical University, Guangzhou, 510515, China.
| | - Liang Cui
- Department of Chemistry, Zhejiang Sci-Tech University, Hangzhou, 310008, China.
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109
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Pourreza N, Ghomi M. Hydrogel based aptasensor for thrombin sensing by Resonance Rayleigh Scattering. Anal Chim Acta 2019; 1079:180-191. [PMID: 31387709 DOI: 10.1016/j.aca.2019.06.049] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2019] [Revised: 06/02/2019] [Accepted: 06/22/2019] [Indexed: 12/12/2022]
Abstract
In this research, a novel Resonance Rayleigh Scattering (RRS) aptasensor was developed for thrombin monitoring using in-situ synthesized and embedded Au nanoparticles (AuNPs) into poly vinyl alcohol -borax hydrogel (PBH). Thiolated-thrombin binding aptamer (thiolated-TBA) was attached to the surface of AuNPs embedded into PBH to design the PBH-aptasensor for thrombin detection (thiolated-TBA@AuNPs-PBH). To verify the characteristic and morphology of PBH nanocomposite, energy dispersive X-ray analysis, TEM, average particle size analizer and UV-Vis spectra were performed. The difference in RRS intensities in the absence and presence of thrombin was calculated and selected as the monitoring signal. Effect of different parameters on the RRS signal was investigated at excitation wavelength of 500 nm. Under the approved conditions, the linear detection range was validated over the concentration of 0.70 pM- 0.02 μM. The limit of detection based on 3Sb was 0.10 pM. The relative standard deviation for 5.6 pM and 3.6 nM were 4.0 and 2.7% (n = 10), respectively. The proposed aptasensor was successfully applied as an experimental model for thrombin detection in serum samples of healthy volunteers with acceptable results.
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Affiliation(s)
- Nahid Pourreza
- Department of Chemistry, Faculty of Science, Shahid Chamran University of Ahvaz, Ahvaz, Iran.
| | - Matineh Ghomi
- Department of Chemistry, Faculty of Science, Shahid Chamran University of Ahvaz, Ahvaz, Iran
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110
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Yu Y, Zhou Y, Zhu M, Liu M, Zhu H, Chen Y, Su G, Chen W, Peng H. Programming a split G-quadruplex in a DNA nanocage and its microRNA imaging in live cells. Chem Commun (Camb) 2019; 55:5131-5134. [PMID: 30973555 DOI: 10.1039/c9cc02096a] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
A novel approach to program target-responsive devices by incorporating the split G4 motifs in a DNA nanocage has been developed. The rigid prism outcompetes the flexible one in reaction kinetics and signal/background ratios, which can be easily internalized by cells and successfully applied in microRNA imaging in live cells.
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Affiliation(s)
- Yanyan Yu
- School of Pharmacy, Nantong University, Nantong, Jiangsu 226001, China.
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111
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Zhang X, Liu S, Song X, Wang H, Wang J, Wang Y, Huang J, Yu J. DNA three-way junction-actuated strand displacement for miRNA detection using a fluorescence light-up Ag nanocluster probe. Analyst 2019; 144:3836-3842. [PMID: 31095133 DOI: 10.1039/c9an00508k] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
A rapid and label-free fluorescence biosensing strategy for highly sensitive detection of microRNA-122 (miR-122) has been developed by the combination of DNA three-way junction (TWJ)-actuated strand displacement and a fluorescence light-up Ag nanocluster (AgNC) probe. In the presence of target miR-122, the attachment of miR-122 to its complementary DNA results in the unblocking of the toehold and branch migration domains in the TWJ, activating the strand displacement reaction (SDR) accompanied by the proximity between the G-rich DNA probe and DNA-AgNC probe; thus a remarkably enhanced fluorescence signal of AgNCs can be obtained owing to the G-rich fluorescence enhancement mechanism. The results reveal that this biosensor exhibits superb specificity and high sensitivity toward miR-122 with a detection limit of 0.030 nM. In addition, the practicality of the biosensor is demonstrated by analyzing miR-122 in three cell lines with satisfactory results. Furthermore, by the utilization of the toehold-mediated SDR and DNA-AgNC conjugates, this proposed strategy offers the advantages of rapidness, convenience, low cost, and simplified operation without the need for biological labeling and the addition of enzymes. Thus, the constructed biosensor might provide a valuable and practical tool for detecting miRNA and the related clinical diagnosis and fundamental biomedicine research.
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Affiliation(s)
- Xue Zhang
- College of Biological Sciences and Technology, University of Jinan, Jinan 250022, P. R. China.
| | - Su Liu
- School of Water Conservancy and Environment, University of Jinan, Jinan 250022, P. R. China
| | - Xiaolei Song
- School of Water Conservancy and Environment, University of Jinan, Jinan 250022, P. R. China
| | - Haiwang Wang
- College of Biological Sciences and Technology, University of Jinan, Jinan 250022, P. R. China.
| | - Jingfeng Wang
- College of Biological Sciences and Technology, University of Jinan, Jinan 250022, P. R. China.
| | - Yu Wang
- College of Biological Sciences and Technology, University of Jinan, Jinan 250022, P. R. China.
| | - Jiadong Huang
- College of Biological Sciences and Technology, University of Jinan, Jinan 250022, P. R. China. and Key Laboratory of Chemical Sensing & Analysis in Universities of Shandong, College of Chemistry and Chemical Engineering, University of Jinan, Jinan 250022, P. R. China
| | - Jinghua Yu
- Key Laboratory of Chemical Sensing & Analysis in Universities of Shandong, College of Chemistry and Chemical Engineering, University of Jinan, Jinan 250022, P. R. China
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112
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Gan H, Wu J, Ju H. Proximity hybridization-induced on particle DNA walker for ultrasensitive protein detection. Anal Chim Acta 2019; 1074:142-149. [PMID: 31159934 DOI: 10.1016/j.aca.2019.05.013] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2019] [Revised: 04/18/2019] [Accepted: 05/05/2019] [Indexed: 11/15/2022]
Abstract
A simple proximity hybridization-induced on particle DNA walker was designed for ultrasensitive detection of proteins, for example platelet-derived growth factor (PDGF-BB) secreted by cancer cells, in which the DNA walker was activated by specific target binding and powered by an enzymatic cleavage to produce amplified signal. High-density FAM-labeled hairpin oligonucleotides (FAM-DNA1) were functionalized on AuNPs to construct three-dimensional (3D) DNA tracks. The specific binding of PDGF-BB with two aptamer probes (DNA3 and DNA4) led to the proximity hybridization-induced DNA displacement and the free of DNA walker (DNA2) to perform movement on the 3D tracks by an enzymatic cleavage, resulting in the release of massive FAM-DNA1 fragments from the AuNPs and the generation of fluorescent signal. This DNA walker based sensing strategy could detect PDGF-BB in a concentration range of 4 orders of magnitude with a detection limit down to sub-pM level. The practical applicability of the assay was demonstrated by detecting PDGF-BB secreted from MCF-7 cells with satisfactory results. The proposed DNA walker based assay could conveniently detect PDGF-BB with high sensitivity and good accuracy, along with the good extensibility of the assay, showing promise for practical diagnosis.
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Affiliation(s)
- Haiying Gan
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, PR China
| | - Jie Wu
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, PR China.
| | - Huangxian Ju
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, PR China
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113
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Liu X, Li X, Gao X, Ge L, Sun X, Li F. A Universal Paper-Based Electrochemical Sensor for Zero-Background Assay of Diverse Biomarkers. ACS APPLIED MATERIALS & INTERFACES 2019; 11:15381-15388. [PMID: 30964973 DOI: 10.1021/acsami.9b03860] [Citation(s) in RCA: 79] [Impact Index Per Article: 15.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
This paper describes a universal paper-based electrochemical sensing platform that uses a paper modified with signal molecule-labeled DNA and a screen-printed electrode along with target recognition solutions to achieve the detection of multiple types of biomarkers. These assays rely on the target-induced synthesis of Mg2+-dependent DNAzyme for catalyzing the cleavage of substrate DNA from paper, which have been demonstrated by using microRNA recognition probe for miR-21, a phosphorylated hairpin probe for alkaline phosphatase, and a DNA aptamer for carcinoembryonic antigen assays, respectively. Taking advantages of the high specific target-triggered polymerization/nicking and DNAzyme-catalyzed signal amplification, the present assays enable highly sensitive and selective detection of these targets with zero-background. These assays can also be applied to detect target in spiked serum samples, demonstrating the potential for point-of-care detection of clinical samples.
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Affiliation(s)
- Xiaojuan Liu
- College of Chemistry and Pharmaceutical Sciences , Qingdao Agricultural University , Qingdao 266109 , P. R. China
| | - Xiuyuan Li
- College of Chemistry and Pharmaceutical Sciences , Qingdao Agricultural University , Qingdao 266109 , P. R. China
| | - Xin Gao
- College of Chemistry and Pharmaceutical Sciences , Qingdao Agricultural University , Qingdao 266109 , P. R. China
| | - Lei Ge
- College of Chemistry and Pharmaceutical Sciences , Qingdao Agricultural University , Qingdao 266109 , P. R. China
| | - Xinzhi Sun
- College of Chemistry and Pharmaceutical Sciences , Qingdao Agricultural University , Qingdao 266109 , P. R. China
| | - Feng Li
- College of Chemistry and Pharmaceutical Sciences , Qingdao Agricultural University , Qingdao 266109 , P. R. China
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114
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Yang H, Fu F, Li W, Wei W, Zhang Y, Liu S. Telomerase and poly(ADP-ribose) polymerase-1 activity sensing based on the high fluorescence selectivity and sensitivity of TOTO-1 towards G bases in single-stranded DNA and poly(ADP-ribose). Chem Sci 2019; 10:3706-3714. [PMID: 31015914 PMCID: PMC6461019 DOI: 10.1039/c8sc05770b] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2018] [Accepted: 02/18/2019] [Indexed: 01/12/2023] Open
Abstract
Telomerase and poly(ADP-ribose) polymerase-1 (PARP-1) are two potential cancer biomarkers and are closely related to tumor initiation and malignant progression. TOTO-1 is well-known for differentiating ss-DNA from ds-DNA because it is virtually non-fluorescent without DNA and exhibits very low fluorescence with ss-DNA, while it emits strong fluorescence with ds-DNA. In this paper, for the first time, it was found that TOTO-1 has high fluorescence selectivity and sensitivity towards the G bases in single-stranded DNA and poly(ADP-ribose) (PAR). Poly(dG) was used as the model target to explore its possible mechanism. Molecular dynamics (MD) simulation proved that intramolecular π-π stacking existed in TOTO-1 (in an aqueous solution), while intermolecular π-π stacking formed between TOTO-1 and poly(dG) in a similar way as that observed for dsDNA. Interestingly, telomerase and PARP-1 catalyzed the formation of G-rich DNA and PAR in vivo, respectively. Therefore, TOTO-1 was explored in detecting both of them, obtaining satisfactory results. To the best of our knowledge, no probe has been reported to recognize PAR. It is also the first time where telomerase is detected based on the specific recognition of G bases. Importantly, integrating multiple functions into one probe that can detect not only telomerase but also PARP-1 will significantly raise the specificity of screening cancer and decrease false positive proportion, which make TOTO-1 a promising candidate probe for clinical diagnosis and pharmaceutical screening.
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Affiliation(s)
- Haitang Yang
- Jiangsu Engineering Laboratory of Smart Carbon-Rich Materials and Device , Jiangsu Province Hi-Tech Key Laboratory for Bio-medical Research , School of Chemistry and Chemical Engineering , Southeast University , Nanjing, 211189 , China . ; ; ; Tel: +86-25-52090613
| | - Fangjia Fu
- Institution of Theoretical and Computational Chemistry , School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , People's Republic of China
| | - Wei Li
- Institution of Theoretical and Computational Chemistry , School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , People's Republic of China
| | - Wei Wei
- Jiangsu Engineering Laboratory of Smart Carbon-Rich Materials and Device , Jiangsu Province Hi-Tech Key Laboratory for Bio-medical Research , School of Chemistry and Chemical Engineering , Southeast University , Nanjing, 211189 , China . ; ; ; Tel: +86-25-52090613
| | - Yuanjian Zhang
- Jiangsu Engineering Laboratory of Smart Carbon-Rich Materials and Device , Jiangsu Province Hi-Tech Key Laboratory for Bio-medical Research , School of Chemistry and Chemical Engineering , Southeast University , Nanjing, 211189 , China . ; ; ; Tel: +86-25-52090613
| | - Songqin Liu
- Jiangsu Engineering Laboratory of Smart Carbon-Rich Materials and Device , Jiangsu Province Hi-Tech Key Laboratory for Bio-medical Research , School of Chemistry and Chemical Engineering , Southeast University , Nanjing, 211189 , China . ; ; ; Tel: +86-25-52090613
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115
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Zhao J, Chu H, Zhao Y, Lu Y, Li L. A NIR Light Gated DNA Nanodevice for Spatiotemporally Controlled Imaging of MicroRNA in Cells and Animals. J Am Chem Soc 2019; 141:7056-7062. [DOI: 10.1021/jacs.9b01931] [Citation(s) in RCA: 154] [Impact Index Per Article: 30.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Jian Zhao
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology, Beijing 100190, China
| | - Hongqian Chu
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology, Beijing 100190, China
| | - Ya Zhao
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology, Beijing 100190, China
| | - Yi Lu
- Department of Chemistry, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, United States
| | - Lele Li
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety and CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology, Beijing 100190, China
- Center of Materials Science and Optoelectronics Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
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116
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Li H, Tang Y, Zhao W, Wu Z, Wang S, Yu R. Palindromic molecular beacon-based intramolecular strand-displacement amplification strategy for ultrasensitive detection of K-ras gene. Anal Chim Acta 2019; 1065:98-106. [PMID: 31005156 DOI: 10.1016/j.aca.2019.02.059] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2018] [Revised: 01/11/2019] [Accepted: 02/27/2019] [Indexed: 10/27/2022]
Abstract
The sensitive detection of tumor proto-oncogenes is indispensable because the early diagnosis and accurate treatment of genetic diseases is the key guarantee of patients' health. In this study, we proposed a novel palindromic molecular beacon (PMB) that it bases on the signal amplification strategy for ultrasensitive detection of Kras gene codon 12. PMB is designed to have two palindromic fragments at its two ends, one of which is locked via folding into a hairpin structure and the other promotes the formation of PMB duplex via intermolecular self-hybridization. Target DNA can hybridize to the loop portion of PMB and release the palindromic fragment at the 3' end. Within the PMB duplex, the two palindromic fragments released hybridize with each other and serve as polymerization primer responsible for the strand-displacement amplification (SDA). Namely, hybridized target DNA can be displaced and initiates the next round of reactions, making the polymerization/displacement/hybridization process go forward circularly. As a result, a large number of polymerization products are produced, dramatically enhancing optical signal. Because primer hybridization and polymerization-based displacement occur within PMB duplex, the reaction process is called intramolecular strand-displacement amplification (ISDA). Via utilizing the newly-proposed PMB-based ISDA strategy, the target K-ras gene could be detected down to 10 pM with a wide response range of 1 × 10-11-1.5 × 10-7 M, and point mutations are easily distinguished, realizing the ultrasensitive, highly selective detection of K-ras gene. This impressive sensing paradigm demonstrates a new concept of signal amplification for the detection of disease-related genes only via using a simple way to efficiently amplify optical signal.
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Affiliation(s)
- Hongbo Li
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, 330022, PR China.
| | - Yongqiong Tang
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, 330022, PR China; Cancer Metastasis Alert and Prevention Center, Pharmaceutical Photocatalysis of State Key Laboratory of Photocatalysis on Energy and Environment, Fujian Provincial Key Laboratory of Cancer Metastasis Chemoprevention and Chemotherapy, College of Chemistry, Fuzhou University, Fuzhou, 350002, PR China
| | - Weihua Zhao
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, 330022, PR China
| | - Zaisheng Wu
- Cancer Metastasis Alert and Prevention Center, Pharmaceutical Photocatalysis of State Key Laboratory of Photocatalysis on Energy and Environment, Fujian Provincial Key Laboratory of Cancer Metastasis Chemoprevention and Chemotherapy, College of Chemistry, Fuzhou University, Fuzhou, 350002, PR China.
| | - Suqin Wang
- Key Laboratory of Functional Small Organic Molecule, Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, 330022, PR China.
| | - Ruqin Yu
- State Key Laboratory for Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering Hunan University, Changsha, 410082, PR China
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117
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Gong X, Wei J, Liu J, Li R, Liu X, Wang F. Programmable intracellular DNA biocomputing circuits for reliable cell recognitions. Chem Sci 2019; 10:2989-2997. [PMID: 30996878 PMCID: PMC6427941 DOI: 10.1039/c8sc05217d] [Citation(s) in RCA: 69] [Impact Index Per Article: 13.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2018] [Accepted: 01/15/2019] [Indexed: 12/14/2022] Open
Abstract
Dynamic nucleic acid-based biocircuits have spurred substantial research efforts for diagnosis or biomedical applications at the molecular level; nevertheless, it still remains a challenge to design programmable molecular circuit devices for autonomous and accurate diagnosis of low abundance biomolecules in a complex intracellular environment. Herein, a reconfigurable hybridization-based chain reaction is introduced to assemble modular biocomputing circuits that include a general sensing module and a versatile processing module. By modular sensing module design, we realized multiple endogenous miRNA-initiated biocomputing operations, including binary logic gates (OR, AND, INHIBIT and XOR), and more advanced concatenated logic circuits (XOR-AND, XOR-INHIBIT, and XOR-OR) in different living cells. The sensing module transduces the primary miRNA sensing event into an intermediate trigger for activating the processing module that further transduces the specific analyte recognition pattern into an amplified fluorescence readout. Based on an appropriate selection of multiple miRNA analytes, various miRNA expression patterns could be utilized for sensitive and selective cell discriminations. The inherent synergistically accelerated recognition and hybridization features of our biocomputing systems contribute to the amplified detection of multiplex endogenous miRNAs in living cells, thus providing an efficient toolbox for more accurate diagnosis and programmable therapeutics.
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Affiliation(s)
- Xue Gong
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
| | - Jie Wei
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
| | - Jing Liu
- Department of Gastroenterology , Wuhan University Zhongnan Hospital , China
| | - Ruomeng Li
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
| | - Xiaoqing Liu
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
| | - Fuan Wang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
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118
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Chen Z, Wang C, Hao L, Gao R, Li F, Liu S. Proximity recognition and polymerase-powered DNA walker for one-step and amplified electrochemical protein analysis. Biosens Bioelectron 2019; 128:104-112. [DOI: 10.1016/j.bios.2018.12.053] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2018] [Revised: 12/27/2018] [Accepted: 12/28/2018] [Indexed: 12/20/2022]
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119
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Ding W, Song C, Li T, Ma H, Yao Y, Yao C. TiO 2 nanowires as an effective sensing platform for rapid fluorescence detection of single-stranded DNA and double-stranded DNA. Talanta 2019; 199:442-448. [PMID: 30952281 DOI: 10.1016/j.talanta.2019.02.002] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2018] [Revised: 01/24/2019] [Accepted: 02/01/2019] [Indexed: 11/28/2022]
Abstract
Numerous nanomaterials have been utilized for novel biosensors with sensitivity and selectivity in the last decades due to their intrinsic unique properties. Herein, a facile fluorescence method for nucleic acid detection was developed by employing TiO2 nanowires (NWs) as the sensing platform. The quenching effect of TiO2 NWs to fluorophore-labelled single-stranded DNA (ssDNA) was found to be more significant than that to fluorophore-labelled double-stranded DNA (dsDNA) or triplex DNA probes. More importantly, the whole quenching process was also fast since it just took about ten minutes to reach the equilibrium. Based on the different affinities of TiO2 NWs to ssDNA, dsDNA and triplex DNA probes, the sequence-specific nucleic acids were detected with sensitivity and specificity. Further investigation has demonstrated that the quenching efficiency of TiO2 NWs to long ssDNA was apparently superior than that to short ssDNA. Moreover, the fluorescence from various ssDNA probes labelled with a wide spectrum of fluorescent dyes could also be quenched by TiO2 NWs. These inspiring results reveal that TiO2 NWs could be an excellent universal nanoquencher used in the next-generation biosensors.
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Affiliation(s)
- Wei Ding
- School of Chemistry and Molecular Engineering, Nanjing Tech University, Nanjing 211816, China
| | - Chan Song
- School of Chemistry and Molecular Engineering, Nanjing Tech University, Nanjing 211816, China.
| | - Tianle Li
- School of Chemistry and Molecular Engineering, Nanjing Tech University, Nanjing 211816, China
| | - Haoran Ma
- School of Chemistry and Molecular Engineering, Nanjing Tech University, Nanjing 211816, China
| | - Yuewei Yao
- School of Chemistry and Molecular Engineering, Nanjing Tech University, Nanjing 211816, China
| | - Cheng Yao
- School of Chemistry and Molecular Engineering, Nanjing Tech University, Nanjing 211816, China.
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120
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Liu S, Ding J, Qin W. Dual-Analyte Chronopotentiometric Aptasensing Platform Based on a G-Quadruplex/Hemin DNAzyme and Logic Gate Operations. Anal Chem 2019; 91:3170-3176. [PMID: 30648390 DOI: 10.1021/acs.analchem.8b05971] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
Conventional potentiometric ion sensors that rely on a specific ion carrier in a polymeric membrane can hardly achieve multianalyte detection. Inspired by the remarkable ability of built-in logic gate sensors for multianalyte detection, herein we report a potentiometric aptasensing platform based on a G-quadruplex/hemin DNAzyme and logic gate operations for determination of two analytes using a single membrane electrode. A bifunctional probe with two aptamer units and a signal reporter oligonucleotide with a DNAzyme sequence are assembled on the magnetic beads to form a DNA hybrid structure. The "OR" and "INHIBIT" logic functions can be performed by using the two aptamers and their targets as inputs, and using the chronopotentiometric response based on the G-quadruplex/hemin DNAzyme-H2O2-mediated oxidation of 3,3',5,5'-tetramethylbenzidine as output. Kanamycin and oxytetracycline, as commonly used antibiotics, have been employed as the models and successfully measured.
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Affiliation(s)
- Shuwen Liu
- Key Laboratory of Coastal Environmental Processes and Ecological Remediation and Shandong Provincial Key Laboratory of Coastal Environmental Processes , Yantai Institute of Coastal Zone Research (YIC), Chinese Academy of Sciences (CAS) , Yantai , Shandong 264003 , P. R. China.,University of the Chinese Academy of Sciences , Beijing 100049 , P. R. China
| | - Jiawang Ding
- Key Laboratory of Coastal Environmental Processes and Ecological Remediation and Shandong Provincial Key Laboratory of Coastal Environmental Processes , Yantai Institute of Coastal Zone Research (YIC), Chinese Academy of Sciences (CAS) , Yantai , Shandong 264003 , P. R. China.,Laboratory for Marine Biology and Biotechnology , Qingdao National Laboratory for Marine Science and Technology , Qingdao 266200 , P. R. China
| | - Wei Qin
- Key Laboratory of Coastal Environmental Processes and Ecological Remediation and Shandong Provincial Key Laboratory of Coastal Environmental Processes , Yantai Institute of Coastal Zone Research (YIC), Chinese Academy of Sciences (CAS) , Yantai , Shandong 264003 , P. R. China.,Laboratory for Marine Biology and Biotechnology , Qingdao National Laboratory for Marine Science and Technology , Qingdao 266200 , P. R. China
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121
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Zhang K, Yang XJ, Zhang TT, Li XL, Chen HY, Xu JJ. RNA chaperone assisted intramolecular annealing reaction towards oligouridylated RNA detection in cancer cells. Analyst 2019; 144:186-190. [PMID: 30393796 DOI: 10.1039/c8an01662c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Proximity induced intramolecular nucleotide strand displacement, which can be simply performed in a single tube or in a complex cellular environment, is one of the key mechanisms for the detection of biological targets, especially for significant genetic molecules. The host factor for RNA phage Qb replication (Hfq), with two distinct single stranded RNA binding sites, has excellent properties as an affinity ligand in a proximity induced reaction. In this research, a versatile RNA chaperone-Hfq assisted RNA annealing strategy for the sensitive detection of the intermediate product, oligouridylated RNA, in a genetic regulation process was developed. Benefiting from the high binding affinity of Hfq for the probe and the target, the sensitive determination of oligouridylated RNA in cell lysis and human cervical cancer (HeLa) cells was successfully achieved. This study has also revealed that the Hfq assisted RNA annealing strategy can be further extended and applied in specific microRNA analysis, and RNA related tumorigenicity and disease diagnosis.
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Affiliation(s)
- Kai Zhang
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China. and Key Laboratory of Nuclear Medicine, Ministry of Health, Jiangsu Key Laboratory of Molecular Nuclear Medicine, Jiangsu Institute of Nuclear Medicine, Wuxi, Jiangsu 214063, China
| | - Xue-Jiao Yang
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.
| | - Ting-Ting Zhang
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.
| | - Xiang-Ling Li
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.
| | - Hong-Yuan Chen
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.
| | - Jing-Juan Xu
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.
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122
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Nucleic acid aptamers improving fluorescence anisotropy and fluorescence polarization assays for small molecules. Trends Analyt Chem 2019. [DOI: 10.1016/j.trac.2018.11.018] [Citation(s) in RCA: 31] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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123
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Li X, Gao L, Li F, Hou X, Wu P. Universal and label-free photosensitization colorimetric assays enabled by target-induced termini transformation of dsDNA resistant to Exo III digestion. Chem Commun (Camb) 2019; 55:7211-7214. [DOI: 10.1039/c9cc03551f] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A label-free and universal colorimetric assay was developed via the combination of CHA, Exo III digestion, and photosensitization colorimetry.
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Affiliation(s)
- Xianming Li
- Analytical & Testing Center
- Sichuan University
- Chengdu 610064
- China
| | - Lu Gao
- College of Chemistry
- Sichuan University
- Chengdu 610064
- China
| | - Feng Li
- College of Chemistry
- Sichuan University
- Chengdu 610064
- China
- Department of Chemistry
| | - Xiandeng Hou
- Analytical & Testing Center
- Sichuan University
- Chengdu 610064
- China
- College of Chemistry
| | - Peng Wu
- Analytical & Testing Center
- Sichuan University
- Chengdu 610064
- China
- College of Chemistry
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124
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Wang Y, Wu N, Guo F, Gao R, Yang T, Wang J. g-C3N4 nanosheet-based ratiometric fluorescent probes for the amplification and imaging of miRNA in living cells. J Mater Chem B 2019; 7:7566-7573. [DOI: 10.1039/c9tb02021g] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
By using BCNNS as a nanocarrier, a fluorescence quencher and an interior label, and using CuNC-labeled hairpin DNA for dual-signal output, a dual-emission ratiometric fluorescent probe was fabricated for the measurement of intracellular miRNA.
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Affiliation(s)
- Yiting Wang
- Research Center for Analytical Sciences
- Department of Chemistry
- College of Sciences
- Northeastern University
- Shenyang 110819
| | - Na Wu
- Research Center for Analytical Sciences
- Department of Chemistry
- College of Sciences
- Northeastern University
- Shenyang 110819
| | - Fengna Guo
- Research Center for Analytical Sciences
- Department of Chemistry
- College of Sciences
- Northeastern University
- Shenyang 110819
| | - Ruixue Gao
- Research Center for Analytical Sciences
- Department of Chemistry
- College of Sciences
- Northeastern University
- Shenyang 110819
| | - Ting Yang
- Research Center for Analytical Sciences
- Department of Chemistry
- College of Sciences
- Northeastern University
- Shenyang 110819
| | - Jianhua Wang
- Research Center for Analytical Sciences
- Department of Chemistry
- College of Sciences
- Northeastern University
- Shenyang 110819
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125
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Wang M, Tang Y, Chen Y, Cao Y, Chen G. Catalytic hairpin assembly-programmed formation of clickable nucleic acids for electrochemical detection of liver cancer related short gene. Anal Chim Acta 2019; 1045:77-84. [DOI: 10.1016/j.aca.2018.08.057] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2018] [Revised: 08/27/2018] [Accepted: 08/28/2018] [Indexed: 10/28/2022]
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126
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Pan J, Li Q, Zhou D, Chen J. Label-free and highly sensitive fluorescence detection of lead(ii) based on DNAzyme and exonuclease III-assisted cascade signal amplification. NEW J CHEM 2019. [DOI: 10.1039/c8nj06522e] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
A Pb2+ biosensor has been constructed based on Exo III-assisted cascade signal amplification using 2-amino-5,6,7-trimethyl-1,8-naphthyridine as the signal indicator.
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Affiliation(s)
- Jiafeng Pan
- Guangdong Key Laboratory of Integrated Agro-Environmental Pollution Control and Management
- Guangdong Institute of Eco-Environmental Science & Technology
- Guangzhou 510650
- China
| | - Qiong Li
- Guangdong Key Laboratory of Integrated Agro-Environmental Pollution Control and Management
- Guangdong Institute of Eco-Environmental Science & Technology
- Guangzhou 510650
- China
- College of Bioscience and Biotechnology
| | - Danhua Zhou
- Guangdong Key Laboratory of Integrated Agro-Environmental Pollution Control and Management
- Guangdong Institute of Eco-Environmental Science & Technology
- Guangzhou 510650
- China
- College of Natural Resources and Environment
| | - Junhua Chen
- Guangdong Key Laboratory of Integrated Agro-Environmental Pollution Control and Management
- Guangdong Institute of Eco-Environmental Science & Technology
- Guangzhou 510650
- China
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127
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Xu L, Zhang H, Yan X, Peng H, Wang Z, Zhang Q, Li P, Zhang Z, Le XC. Binding-Induced DNA Dissociation Assay for Small Molecules: Sensing Aflatoxin B1. ACS Sens 2018; 3:2590-2596. [PMID: 30430837 DOI: 10.1021/acssensors.8b00975] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
We describe a new fluorescence turn-on sensor for homogeneous detection of aflatoxin B1 (AFB1), a potent low molecular weight mycotoxin. A key innovation is the binding-induced intramolecular interaction involving the following two sets of probes: (1) a gold nanoparticle (AuNP) immobilized with hundreds of assistant oligonucleotides (AO) and dozens of anti-AFB1 monoclonal antibodies, and (2) the AFB1-BSA (BSA = bovine serum albumin) antigen conjugated with fluorophore-labeled signal oligonucleotides (SO) that contained a short sequence complementary to AO. Specific binding of AFB1-BSA to the antibody brought the fluorophore very close to the surface of the AuNP through a stable intramolecular hybridization between AO and SO, resulting in efficient quenching of fluorescence. The improved fluorescence quenching substantially reduced the background, due to the binding-induced intramolecular hybridization, and improved the signal-to-background ratio by 390%. In the presence of AFB1 in a sample, competitive binding of AFB1 in the sample to the antibodies immobilized on the AuNP caused the release of the fluorophore-labeled AFB1-BSA from the AuNP, turning on fluorescence. A detection limit of 2.3 nM was achieved, which meets the requirement for AFB1 detection at regulatory levels. Analyses of rice samples using this assay showed recoveries of 86-102%. Incorporating appropriate antibody probes could extend the assay to the detection of other small molecules.
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Affiliation(s)
- Lin Xu
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Key Laboratory of Detection for Mycotoxins, Laboratory of Risk Assessment for Oilseeds Products (Wuhan), Ministry of Agriculture, and National Reference Laboratory for Biotoxin Test, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan 430062, P. R. China
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, Faculty of Medicine & Dentistry, University of Alberta, Edmonton, Alberta T6G 2G3, Canada
| | - Hongquan Zhang
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, Faculty of Medicine & Dentistry, University of Alberta, Edmonton, Alberta T6G 2G3, Canada
| | - Xiaowen Yan
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, Faculty of Medicine & Dentistry, University of Alberta, Edmonton, Alberta T6G 2G3, Canada
| | - Hanyong Peng
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, Faculty of Medicine & Dentistry, University of Alberta, Edmonton, Alberta T6G 2G3, Canada
| | - Zhixin Wang
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, Faculty of Medicine & Dentistry, University of Alberta, Edmonton, Alberta T6G 2G3, Canada
| | - Qi Zhang
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Key Laboratory of Detection for Mycotoxins, Laboratory of Risk Assessment for Oilseeds Products (Wuhan), Ministry of Agriculture, and National Reference Laboratory for Biotoxin Test, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan 430062, P. R. China
| | - Peiwu Li
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Key Laboratory of Detection for Mycotoxins, Laboratory of Risk Assessment for Oilseeds Products (Wuhan), Ministry of Agriculture, and National Reference Laboratory for Biotoxin Test, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan 430062, P. R. China
| | - Zhaowei Zhang
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Key Laboratory of Detection for Mycotoxins, Laboratory of Risk Assessment for Oilseeds Products (Wuhan), Ministry of Agriculture, and National Reference Laboratory for Biotoxin Test, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan 430062, P. R. China
| | - X. Chris Le
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, Faculty of Medicine & Dentistry, University of Alberta, Edmonton, Alberta T6G 2G3, Canada
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128
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Affiliation(s)
- Simona Ranallo
- Department of Chemical Sciences and Technologies , University of Rome Tor Vergata , Via della Ricerca Scientifica 1 , 00133 Rome , Italy
| | - Alessandro Porchetta
- Department of Chemical Sciences and Technologies , University of Rome Tor Vergata , Via della Ricerca Scientifica 1 , 00133 Rome , Italy
| | - Francesco Ricci
- Department of Chemical Sciences and Technologies , University of Rome Tor Vergata , Via della Ricerca Scientifica 1 , 00133 Rome , Italy
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129
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Pan M, Liang M, Sun J, Liu X, Wang F. Lighting Up Fluorescent Silver Clusters via Target-Catalyzed Hairpin Assembly for Amplified Biosensing. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2018; 34:14851-14857. [PMID: 30044098 DOI: 10.1021/acs.langmuir.8b01576] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Isothermal enzyme-free nucleic acid circuits have been developed for carrying out diverse functions ranging from dictate biocomputing to amplified biosensing. Catalytic hairpin assembly (CHA), the catalyzed cross-opening of two hairpin substrates by an initiator, has attracted increasing attention because of its facile design and high amplification capacity. The complex labeling and frequent photobleaching of a conventional fluorescent CHA biosensor still remains a challenge that needs to be solved. Herein, we constructed a new label-free and enzyme-free isothermal CHA lighting up AgNCs strategy for amplified nucleic acid assay by integrating the interfacially and spatially sensitive feature of DNA-templated fluorescent silver nanoclusters (DNA-AgNCs) and the high signal amplification capability of the CHA circuit. In this strategy, one polyguanine-grafted hairpin and the other AgNCs-capturing hairpin were engineered as assembly constitutes, which were kinetically impeded from cross-hybridizations without target. However, in the presence of target, the CHA-catalyzed assembly of two functional hairpins was successively progressed and concomitantly accompanied by an efficient accommodation of AgNCs to the polyguanine-elongated dsDNA product, leading to highly efficient AgNCs-lighting up and to the generation of an amplified fluorescence signal. As a simple mix-and-detect strategy, the isothermal enzyme-free CHA-mediated lighting up AgNCs (CHA-AgNCs) system provided a facile visualization way for amplified detection of DNA with a detection limit of 20 pM, which was comparable to or even better than some enzyme-involved amplification methods. The homogeneous CHA-AgNCs system can be used as a general sensing platform and be easily adapted for analyzing other biologically important analytes, for example, microRNA (miRNA), by introducing the sensing module consisting of an auxiliary hairpin through an easy-to-integrate procedure. By taking advantage of the signal amplification features of CHA and the robust AgNCs-lighting up procedure, we anticipate that the CHA-lighting up AgNCs system can provide an important tool for biomedicine and bioimaging applications and thus should hold great promise in clinical diagnoses and treatment fields.
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Affiliation(s)
- Min Pan
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , Hubei 430072 , P. R. China
| | - Meijuan Liang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , Hubei 430072 , P. R. China
| | - Junlin Sun
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , Hubei 430072 , P. R. China
| | - Xiaoqing Liu
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , Hubei 430072 , P. R. China
| | - Fuan Wang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , Hubei 430072 , P. R. China
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130
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Zhang Y, Huang X, Luo F, Lei Y, Chen L, Weng Z, Guo L, Lin Z. Highly sensitive electrochemical immunosensor for golgi protein 73 based on proximity ligation assay and enzyme-powered recycling amplification. Anal Chim Acta 2018; 1040:150-157. [DOI: 10.1016/j.aca.2018.08.021] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2018] [Revised: 07/26/2018] [Accepted: 08/09/2018] [Indexed: 10/28/2022]
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131
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Zhang Z, Liu J. An engineered one-site aptamer with higher sensitivity for label-free detection of adenosine on graphene oxide. CAN J CHEM 2018. [DOI: 10.1139/cjc-2017-0601] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
The 27-nucleotide DNA aptamer for adenosine and ATP, originally selected by the Szostak lab in 1995, has been a very popular model system for biosensor development. This unique aptamer has two target binding sites, and we recently showed that it is possible to remove either site while the other one still retains binding. From an analytical perspective, tuning the number of binding sites has important implications in modulating sensitivity of the resulting biosensors. In this work, we report that the engineered one-site aptamer showed excellent signaling properties with a 2.6-fold stronger signal intensity and also a 4.2-fold increased detection limit compared with the wild-type two-site aptamer. The aptamer has a hairpin structure, and the length of the hairpin stem was systematically varied for the one-site aptamers. Isothermal titration calorimetry and a label-free fluorescence signaling method with graphene oxide and SYBR Green I were respectively used to evaluate binding and sensor performance. Although longer stemmed aptamers produced better adenosine binding affinity, the signaling was quite independent of the stem length as long as more than three base pairs were left. This was explained by the higher affinity of binding to GO by the longer aptamers, cancelling out the higher affinity for adenosine binding. This work further confirms the analytical applications of such one-site adenosine aptamers, which are potentially useful for improved ATP imaging and for developing new biosensors.
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Affiliation(s)
- Zijie Zhang
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON N2L 3G1, Canada
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON N2L 3G1, Canada
| | - Juewen Liu
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON N2L 3G1, Canada
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON N2L 3G1, Canada
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132
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Jie G, Zhou Q, Jie G. Graphene quantum dots-based electrochemiluminescence detection of DNA using multiple cycling amplification strategy. Talanta 2018; 194:658-663. [PMID: 30609587 DOI: 10.1016/j.talanta.2018.10.098] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2018] [Revised: 10/22/2018] [Accepted: 10/29/2018] [Indexed: 10/28/2022]
Abstract
In this study, a novel strategy for amplified electrochemiluminescence (ECL) detection of DNA was proposed based on excellent ECL activity of graphene quantum dots (GQDs) coupled with multiple cycling amplification technique. A new type of graphene QDs with well ECL property and uniform size were firstly synthesized, then the graphene QDs were assembled on the electrode by poly (diallyldimethylammonium chloride) (PDDA)-graphene oxide (GO) nanocomposites, which could greatly improve ECL signal and stability of QDs. A novel signal-on ECL biosensor for DNA analysis was designed by using ECL quenching of gold nanoparticles (NPs) to graphene QDs combined with endonuclease-aided cyclic amplification strategy. As a result, the proposed strategy can be conveniently expanded to other biosensing application, especially in clinical diagnoses.
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Affiliation(s)
- Guitao Jie
- Haemal Internal Medicine, Linyi Central Hospital, Yishui County, Linyi, Shandong 276400, PR China
| | - Qian Zhou
- Haemal Internal Medicine, Linyi Central Hospital, Yishui County, Linyi, Shandong 276400, PR China
| | - Guifen Jie
- Key Laboratory of Optic-electric Sensing and Analytical Chemistry for Life Science, MOE; Shandong Key Laboratory of Biochemical Analysis; Key Laboratory of Analytical Chemistry for Life Science in Universities of Shandong; College of Chemistry and Molecular Engineering. Qingdao University of Science and Technology, Qingdao 266042, PR China.
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133
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Hansen-Bruhn M, Nielsen LDF, Gothelf KV. Rapid Detection of Drugs in Human Plasma Using a Small-Molecule-Linked Hybridization Chain Reaction. ACS Sens 2018; 3:1706-1711. [PMID: 30105911 DOI: 10.1021/acssensors.8b00439] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Rapid detection and quantification of pharmaceutical drugs directly in human plasma is of major importance for the development of relevant point-of-care testing devices. Here, we report a method for detection and quantification of small molecules in human plasma. An assay employing a small molecule-linked hybridization chain reaction (HCR) has been devised for the detection of the pharmaceutically relevant drugs digoxin (Dig) and methotrexate (MTX). Double modification by small molecule ligands on the initiator strand act as sites to control the rate of the HCR. Upon protein binding to the modified initiator strand, the HCR is greatly inhibited. If the protein is preincubated with a sample containing the small molecule analyte, the protein binding site is occupied by the analyte and the initiator strand will initiate the HCR. This enables efficient detection and quantification of small-molecule analytes in nanomolar concentration even in 50% human plasma within 4 min. Thus, the rapidity and simplicity of this assay has potential for point-of-care testing.
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Affiliation(s)
- Malthe Hansen-Bruhn
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and Department of Chemistry, Aarhus University, DK-8000 Aarhus C, Denmark
| | - Line D. F. Nielsen
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and Department of Chemistry, Aarhus University, DK-8000 Aarhus C, Denmark
| | - Kurt V. Gothelf
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and Department of Chemistry, Aarhus University, DK-8000 Aarhus C, Denmark
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134
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Zhang J, Li Z, Zhao S, Lu Y. Size-dependent modulation of graphene oxide-aptamer interactions for an amplified fluorescence-based detection of aflatoxin B1 with a tunable dynamic range. Analyst 2018; 141:4029-34. [PMID: 27137348 DOI: 10.1039/c6an00368k] [Citation(s) in RCA: 62] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Aflatoxin B1 (AFB1) is a common toxin found in many foods. While AFB1 sensors have been reported, few studies have shown amplified detection with tunable dynamic ranges. We herein report a simple and highly sensitive amplified aptamer-based fluorescent sensor for AFB1, which relies on the ability of nano-graphene oxide (GO) to protect aptamers from nuclease cleavage for amplified detection and on the nanometer size effect of GO to tune the dynamic range and sensitivity. The assay was performed by simply mixing the carboxyl-X-rhodamine (ROX)-labeled AFB1 aptamer, the GO, the nuclease, and the AFB1 samples. Modulating the size of the GO nanosheet resulted in three dynamic ranges, i.e., 12.5 to 312.5 ng mL(-1), 1.0 to 100 ng mL(-1), and 5.0 to 50 ng mL(-1), with corresponding limits of detection of 10.0 ng mL(-1), 0.35 ng mL(-1) and 15.0 ng mL(-1), respectively. The sensor was highly selective against other aflatoxins and common molecules in foods, and its performance was verified in corn samples spiked with known concentration of AFB1.
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Affiliation(s)
- JingJing Zhang
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.
| | - Zengmei Li
- Institute of Agricultural Quality Standards and Testing Technology Research, Shandong Academy of Agricultural Sciences, Jinan, 250100, People's Republic of China and Department of Chemistry, Key laboratory of Test Technology on Food Quality and Safety of Shandong Province, Jinan, 250100, People's Republic of China
| | - Shancang Zhao
- Institute of Agricultural Quality Standards and Testing Technology Research, Shandong Academy of Agricultural Sciences, Jinan, 250100, People's Republic of China and Department of Chemistry, Key laboratory of Test Technology on Food Quality and Safety of Shandong Province, Jinan, 250100, People's Republic of China
| | - Yi Lu
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.
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135
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Liu X, Liu M, Chen J, Li Z, Yuan Q. Rational design and biomedical applications of DNA-functionalized upconversion nanoparticles. CHINESE CHEM LETT 2018. [DOI: 10.1016/j.cclet.2018.03.004] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
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136
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Yan X, Le XC, Zhang H. Antibody-Bridged Beacon for Homogeneous Detection of Small Molecules. Anal Chem 2018; 90:9667-9672. [DOI: 10.1021/acs.analchem.8b02510] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Xiaowen Yan
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, University of Alberta, Edmonton, Alberta T6G 2G3, Canada
| | - X. Chris Le
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, University of Alberta, Edmonton, Alberta T6G 2G3, Canada
| | - Hongquan Zhang
- Division of Analytical and Environmental Toxicology, Department of Laboratory Medicine and Pathology, University of Alberta, Edmonton, Alberta T6G 2G3, Canada
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137
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Li J, Zhou W, Yuan R, Xiang Y. Aptamer proximity recognition-dependent strand translocation for enzyme-free and amplified fluorescent detection of thrombin via catalytic hairpin assembly. Anal Chim Acta 2018; 1038:126-131. [PMID: 30278894 DOI: 10.1016/j.aca.2018.07.011] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2018] [Revised: 07/03/2018] [Accepted: 07/04/2018] [Indexed: 01/12/2023]
Abstract
By coupling a new aptamer proximity recognition-dependent strand translocation strategy with catalytic hairpin assembly (CHA) signal amplification, we have developed a simple and sensitive method for detecting thrombin in human serums. Simultaneous binding of two engineered aptamer probes to the thrombin target significantly increases the local concentrations of the two probes and facilitates the translocation of a ssDNA strand from one of the probes to the other through toehold mediated strand displacement. Such a strand translocation leads to the generation of a ssDNA tail in the aptamer sequence for subsequent initiation of the assembly of two fluorescently quenched hairpins into many DNA duplexes via CHA. The formation of the DNA duplexes thus results in significant fluorescence recovery for amplified detection of thrombin down to 8.3 pM. The developed method is highly selective to the thrombin target against other interference proteins due to the dual recognition mode, and can be employed to monitor thrombin in human serum samples. With the advantage of simplicity, sensitivity and selectivity, this method can be a universal non-enzymatic and nanomaterial-free amplified sensing platform for detecting different protein molecules.
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Affiliation(s)
- Jing Li
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Wenjiao Zhou
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Ruo Yuan
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China
| | - Yun Xiang
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry, Ministry of Education, School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, PR China.
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138
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Song W, Guo X, Sun W, Yin W, He P, Yang X, Zhang X. Target-triggering multiple-cycle signal amplification strategy for ultrasensitive detection of DNA based on QCM and SPR. Anal Biochem 2018; 553:57-61. [DOI: 10.1016/j.ab.2018.04.020] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2018] [Revised: 04/20/2018] [Accepted: 04/20/2018] [Indexed: 11/26/2022]
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139
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You M, Yang S, Tang W, Zhang F, He P. Molecularly imprinted polymers-based electrochemical DNA biosensor for the determination of BRCA-1 amplified by SiO2@Ag. Biosens Bioelectron 2018; 112:72-78. [DOI: 10.1016/j.bios.2018.04.038] [Citation(s) in RCA: 38] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2017] [Revised: 04/14/2018] [Accepted: 04/17/2018] [Indexed: 11/26/2022]
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140
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Chang Y, Li M, Wu Z, Zhuo Y, Chai Y, Xiao Q, Yuan R. Homogeneous Entropy Catalytic-Driven DNA Hydrogel as Strong Signal Blocker for Highly Sensitive Electrochemical Detection of Platelet-Derived Growth Factor. Anal Chem 2018; 90:8241-8247. [DOI: 10.1021/acs.analchem.8b01766] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Yuanyuan Chang
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, P. R. China
| | - Mengyao Li
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, P. R. China
| | - Zhongyu Wu
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, P. R. China
| | - Ying Zhuo
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, P. R. China
| | - Yaqin Chai
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, P. R. China
| | - Qi Xiao
- College of Chemistry and Materials Science, Guangxi Teachers Education University, Nanning 530001, P. R. China
| | - Ruo Yuan
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, P. R. China
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141
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Wang H, Li C, Liu X, Zhou X, Wang F. Construction of an enzyme-free concatenated DNA circuit for signal amplification and intracellular imaging. Chem Sci 2018; 9:5842-5849. [PMID: 30079197 PMCID: PMC6050587 DOI: 10.1039/c8sc01981a] [Citation(s) in RCA: 133] [Impact Index Per Article: 22.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2018] [Accepted: 06/05/2018] [Indexed: 12/22/2022] Open
Abstract
A rationally and modularly engineered two-layered CHA–HCR circuit was constructed for amplified biosensing and bioimaging with high performance.
Nucleic acid circuits have shown promising potential for amplified detection of biomarkers with interest in biologically important engineering applications. In this work, by properly integrating two signal amplification approaches, catalytic hairpin assembly (CHA) and hybridization chain reaction (HCR), a concatenated CHA–HCR system was established as an isothermal enzyme-free amplification strategy for highly sensitive and selective nucleic acid assay. The target catalyzes the self-assembly of CHA hairpin substrates into dsDNA products, where the split segments of HCR trigger are successively connected to drive the subsequent autonomous cross-opening of HCR hairpins, leading to the construction of HCR tandem copolymeric dsDNA nanowires. The resulting HCR copolymer brings a fluorophore donor/acceptor pair into close proximity that allows an efficient generation of FRET readout signal. Moreover, the optimized CHA–HCR circuit, upon the incorporation of an auxiliary sensing module, can be converted into a universal sensing platform for detecting cancerous biomarkers (e.g., a well-known oncogene miR-21) through a convenient easy-to-integrate procedure. The concatenated CHA–HCR amplifier enables accurate intracellular miRNA imaging in living cells, which is especially suitable for in situ amplified detection of lowly expressed endogenous analytes. The inherent synergistically accelerated recognition and hybridization features of CHA–HCR circuit contribute to the amplified detection of endogenous RNAs in living cells. The flexible and programmable nature of the homogeneous CHA–HCR system provides a versatile and robust toolbox for a wide range of research fields, such as in vivo bioimaging, clinical diagnosis and environmental monitoring.
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Affiliation(s)
- Huimin Wang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
| | - Chunxiao Li
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
| | - Xiaoqing Liu
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
| | - Xiang Zhou
- Key Laboratory of Biomedical Polymers-Ministry of Education , College of Chemistry and Molecular Sciences , Wuhan University , 430072 Wuhan , China
| | - Fuan Wang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education) , College of Chemistry and Molecular Sciences , Wuhan University , Wuhan , P. R. China .
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142
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Chen T, Ren L, Liu X, Zhou M, Li L, Xu J, Zhu X. DNA Nanotechnology for Cancer Diagnosis and Therapy. Int J Mol Sci 2018; 19:ijms19061671. [PMID: 29874867 PMCID: PMC6032219 DOI: 10.3390/ijms19061671] [Citation(s) in RCA: 46] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2018] [Revised: 05/27/2018] [Accepted: 06/01/2018] [Indexed: 01/03/2023] Open
Abstract
Cancer is one of the leading causes of mortality worldwide, because of the lack of accurate diagnostic tools for the early stages of cancer. Thus, early diagnosis, which provides important information for a timely therapy of cancer, is of great significance for controlling the development of the disease and the proliferation of cancer cells and for improving the survival rates of patients. To achieve the goals of early diagnosis and timely therapy of cancer, DNA nanotechnology may be effective, since it has emerged as a valid technique for the fabrication of various nanoscale structures and devices. The resultant DNA-based nanoscale structures and devices show extraordinary performance in cancer diagnosis, owing to their predictable secondary structures, small sizes, and high biocompatibility and programmability. In particular, the rapid development of DNA nanotechnologies, such as molecular assembly technologies, endows DNA-based nanomaterials with more functionalization and intellectualization. Here, we summarize recent progress made in the development of DNA nanotechnology for the fabrication of functional and intelligent nanomaterials and highlight the prospects of this technology in cancer diagnosis and therapy.
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Affiliation(s)
- Tianshu Chen
- Center for Molecular Recognition and Biosensing, School of Life Sciences, Shanghai University, Shanghai 200444, China.
- Institute of Biomedical Engineering, School of Communication and Information Engineering, Shanghai University, Shanghai 200444, China.
| | - Lingjie Ren
- Center for Molecular Recognition and Biosensing, School of Life Sciences, Shanghai University, Shanghai 200444, China.
| | - Xiaohao Liu
- Center for Molecular Recognition and Biosensing, School of Life Sciences, Shanghai University, Shanghai 200444, China.
| | - Mengru Zhou
- Center for Molecular Recognition and Biosensing, School of Life Sciences, Shanghai University, Shanghai 200444, China.
| | - Lingling Li
- Center for Molecular Recognition and Biosensing, School of Life Sciences, Shanghai University, Shanghai 200444, China.
| | - Jingjing Xu
- Center for Molecular Recognition and Biosensing, School of Life Sciences, Shanghai University, Shanghai 200444, China.
- Institute of Biomedical Engineering, School of Communication and Information Engineering, Shanghai University, Shanghai 200444, China.
| | - Xiaoli Zhu
- Center for Molecular Recognition and Biosensing, School of Life Sciences, Shanghai University, Shanghai 200444, China.
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143
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Li T, Wu X, Tao G, Yin H, Zhang J, Liu F, Li N. A simple and non-amplification platform for femtomolar DNA and microRNA detection by combining automatic gold nanoparticle enumeration with target-induced strand-displacement. Biosens Bioelectron 2018; 105:137-142. [DOI: 10.1016/j.bios.2018.01.034] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2017] [Revised: 01/15/2018] [Accepted: 01/16/2018] [Indexed: 12/11/2022]
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144
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Liu X, Xu N, Gai P, Li F. Triplex DNA formation-mediated strand displacement reaction for highly sensitive fluorescent detection of melamine. Talanta 2018; 185:352-358. [PMID: 29759211 DOI: 10.1016/j.talanta.2018.03.094] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2017] [Revised: 02/11/2018] [Accepted: 03/29/2018] [Indexed: 12/15/2022]
Abstract
Since melamine is a strong hazard to human health, the development of new methods for highly sensitive detection of melamine is highly desirable. Herein, a novel fluorescent biosensing strategy was designed for sensitive and selective melamine assay based on the recognition ability of abasic (AP) site in triplex towards melamine and signal amplification by Mg2+-dependent DNAzyme. In this strategy, the melamine-induced formation of triplex DNA was employed to trigger the strand displacement reaction (SDR). The SDR process converted the specific target recognition into the release and activation of Mg2+-dependent DNAzyme, which could catalyze the cleavage of fluorophore/quencher labeled DNA substrate (FQ), resulting in a significantly increased fluorescent signal. Under the optimal conditions, the fluorescent signal has a linear relationship with the logarithm of the melamine concentration in a wide range of 0.005-50 μM. The detection limit was estimated to be 0.9 nM (0.1ppb), which is sufficiently sensitive for practical application. Furthermore, this strategy exhibits high selectivity against other potential interfering substances, and the practical application of this strategy for milk samples reveals that the proposed strategy works well for melamine assay in real samples. Therefore, this strategy presents a new method for the sensitive melamine assay and holds great promise for sensing applications in the environment and the food safety field.
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Affiliation(s)
- Xiaojuan Liu
- College of Chemistry and Pharmaceutical Sciences, Qingdao Agricultural University, Qingdao 266109, People's Republic of China
| | - Ningning Xu
- College of Chemistry and Pharmaceutical Sciences, Qingdao Agricultural University, Qingdao 266109, People's Republic of China
| | - Panpan Gai
- College of Chemistry and Pharmaceutical Sciences, Qingdao Agricultural University, Qingdao 266109, People's Republic of China
| | - Feng Li
- College of Chemistry and Pharmaceutical Sciences, Qingdao Agricultural University, Qingdao 266109, People's Republic of China; Key Laboratory of Applied Mycology of Shandong Province, Qingdao Agricultural University, Qingdao, Shandong 266109, People's Republic of China.
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145
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DNase I enzyme-aided fluorescence signal amplification based on graphene oxide-DNA aptamer interactions for colorectal cancer exosome detection. Talanta 2018; 184:219-226. [PMID: 29674035 DOI: 10.1016/j.talanta.2018.02.083] [Citation(s) in RCA: 87] [Impact Index Per Article: 14.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2017] [Revised: 02/12/2018] [Accepted: 02/20/2018] [Indexed: 12/16/2022]
Abstract
Exosomes have proved to be an effective cancer biomarker with significant potential, and several cell-specific molecules have been found in colorectal cancer (CRC) exosomes. Nevertheless, it is challenging to use exosomes in clinical lab diagnostics due to their nanoscale and the lack of a convenient and effective detection platform. Here, we developed a DNase I enzyme-aided fluorescence amplification method for CRC exosome detection, based on graphene oxide (GO)-DNA aptamer (CD63 and EpCAM aptamers) interactions. The fluorescence of fluorophore-labeled aptamers quenched by GO, recovered after incubation with samples containing CRC exosomes. The DNase I enzyme digested the single-stranded DNA aptamers on the exosome surface and the exosomes were able to interact with more fluorescent aptamer probes, resulting in an increase of signal amplification. The limit of detection for CRC exosomes is 2.1 × 104 particles/μl. Consequently, a rapid and effective method with high sensitivity was established. The method was verified in 19 clinical blood serum samples to distinguish healthy and CRC patients, showing significant diagnostic power. Moreover, it can be expanded to other kinds of cancer exosomes, in addition to CRC.
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146
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Harroun SG, Prévost-Tremblay C, Lauzon D, Desrosiers A, Wang X, Pedro L, Vallée-Bélisle A. Programmable DNA switches and their applications. NANOSCALE 2018; 10:4607-4641. [PMID: 29465723 DOI: 10.1039/c7nr07348h] [Citation(s) in RCA: 80] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/11/2023]
Abstract
DNA switches are ideally suited for numerous nanotechnological applications, and increasing efforts are being directed toward their engineering. In this review, we discuss how to engineer these switches starting from the selection of a specific DNA-based recognition element, to its adaptation and optimisation into a switch, with applications ranging from sensing to drug delivery, smart materials, molecular transporters, logic gates and others. We provide many examples showcasing their high programmability and recent advances towards their real life applications. We conclude with a short perspective on this exciting emerging field.
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Affiliation(s)
- Scott G Harroun
- Laboratory of Biosensors & Nanomachines, Département de Chimie, Université de Montréal, Montréal, Québec H3C 3J7, Canada.
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147
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Kjelstrup MV, Nielsen LDF, Hansen-Bruhn M, Gothelf KV. A DNA-Based Assay for Digoxin Detection. BIOSENSORS 2018; 8:bios8010019. [PMID: 29509662 PMCID: PMC5872067 DOI: 10.3390/bios8010019] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/06/2018] [Revised: 02/27/2018] [Accepted: 03/01/2018] [Indexed: 11/16/2022]
Abstract
The most common method for quantifying small-molecule drugs in blood samples is by liquid chromatography in combination with mass spectrometry. Few immuno-based assays are available for the detection of small-molecule drugs in blood. Here we report on a homogeneous assay that enables detection of the concentration of digoxin spiked into in a plasma sample. The assay is based on a shift in the equilibrium of a DNA strand displacement competition reaction, and can be performed in 30 min for concentrations above 10 nM. The equilibrium shift occurs upon binding of anti-digoxigenin antibody. As a model, the assay provides a potential alternative to current small-molecule detection methods used for therapeutic drug monitoring.
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Affiliation(s)
- Michael V Kjelstrup
- Interdisciplinary Nanoscience Center (iNANO) and Department of Chemistry, Aarhus University, Gustav Wieds Vej 14, 8000 Aarhus C, Denmark.
| | - Line D F Nielsen
- Interdisciplinary Nanoscience Center (iNANO) and Department of Chemistry, Aarhus University, Gustav Wieds Vej 14, 8000 Aarhus C, Denmark.
| | - Malthe Hansen-Bruhn
- Interdisciplinary Nanoscience Center (iNANO) and Department of Chemistry, Aarhus University, Gustav Wieds Vej 14, 8000 Aarhus C, Denmark.
| | - Kurt V Gothelf
- Interdisciplinary Nanoscience Center (iNANO) and Department of Chemistry, Aarhus University, Gustav Wieds Vej 14, 8000 Aarhus C, Denmark.
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148
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149
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Huang Y, Zheng W, Li X. Detection of protein targets with a single binding epitope using DNA-templated photo-crosslinking and strand displacement. Anal Biochem 2018; 545:84-90. [DOI: 10.1016/j.ab.2018.01.010] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2017] [Revised: 01/10/2018] [Accepted: 01/12/2018] [Indexed: 12/17/2022]
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Zhang K, Yang L, Lu F, Wu X, Zhu JJ. A Universal Upconversion Sensing Platform for the Sensitive Detection of Tumour-Related ncRNA through an Exo III-Assisted Cycling Amplification Strategy. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2018; 14:1703858. [PMID: 29377586 DOI: 10.1002/smll.201703858] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/06/2017] [Revised: 12/03/2017] [Indexed: 06/07/2023]
Abstract
Here, a sensitive and universal noncoding RNA (ncRNA) upconversion sensing nanoplatform is developed. Gold nanoparticles bearing one hairpin DNA (Hp) molecule are conjugated to the linker DNA modified NaYF4 :Yb, Er@NaYF4 upconversion nanoparticles by DNA hybridization, leading to quenching of the upconversion emission through fluorescence resonance energy transfer. A signal DNA (SDNA) sequence is designed to open Hp, recovering the upconversion emission. To achieve universality and high sensitivity of the nanoprobe, an exonuclease III (Exo III)-assisted cycling amplification strategy is introduced. A multifunctional hairpin DNA (mHp) containing ncRNA recognition sequence and SDNA sequence is designed to recognize ncRNA and trigger Exo III as a biocatalyst to stepwise disintegrate itself, releasing both ncRNA and SDNA. The released ncRNA can be reused to release more SDNA, which greatly improves the sensing sensitivity. By changing the recognition portion of mHp, various ncRNA can be detected. The sensitive detection of both homeobox (HOX) transcript antisense RNA segment and miR-21 is achieved with this novel strategy, even in human serum, indicating the universality and sensitivity of the proposed strategy. Additionally, the expression level of miR-21 in human breast cancer cell (MCF-7) lysate is successfully measured, suggesting its potential in clinical diagnosis.
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Affiliation(s)
- Keying Zhang
- State Key Laboratory of Analytical Chemistry for Life Science, Key Laboratory of Mesoscopic Chemistry of MOE, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, China
- Anhui Key Laboratory of Spin Electron and Nanomaterials (Cultivating Base), School of Chemistry and Chemical Engineering, Suzhou University, Suzhou, Anhui, 234000, China
| | - Lin Yang
- State Key Laboratory of Analytical Chemistry for Life Science, Key Laboratory of Mesoscopic Chemistry of MOE, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, China
| | - Feng Lu
- Key Laboratory for Organic Electronics and Information Displays, Institute of Advanced Materials (IAM), Nanjing University of Posts and Telecommunications, Nanjing, 210023, China
| | - Xingcai Wu
- State Key Laboratory of Analytical Chemistry for Life Science, Key Laboratory of Mesoscopic Chemistry of MOE, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, China
| | - Jun-Jie Zhu
- State Key Laboratory of Analytical Chemistry for Life Science, Key Laboratory of Mesoscopic Chemistry of MOE, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, China
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