Aptamer-based Fluorescence Probe for Bioanalysis and Bioimaging
- Corresponding author: QIU Liping, qiuliping@hnu.edu.cn
Citation:
HUANG Zike, LIU Chao, FU Qiangqiang, LI Jin, ZOU Jianmei, XIE Sitao, QIU Liping. Aptamer-based Fluorescence Probe for Bioanalysis and Bioimaging[J]. Chinese Journal of Applied Chemistry,
;2018, 35(1): 28-39.
doi:
10.11944/j.issn.1000-0518.2018.01.170363
And Y L, Breaker R R. Kinetics of RNA Degradation by Specific Base Catalysis of Transesterification Involving the 2-Hydroxyl Group[J]. J Am Chem Soc, 1999,121(23):5364-5372. doi: 10.1021/ja990592p
Watson J D, Crick F H. Molecular Structure of Nucleic Acids[J]. Nature, 1953,171(4356):737-738. doi: 10.1038/171737a0
Chargaff E. Preface to a Grammar of Biology[J]. Science, 1971,172(3984):637-642. doi: 10.1126/science.172.3984.637
Rich A, Zhang S. Z-DNA:The Long Road to Biological Function[J]. Nat Rev Gene, 2003,4(7):566-572. doi: 10.1038/nrg1115
Darzynkiewicz Z. Nucleic Acid Analysis[J]. Anal Chem, 2017,71(18):425-438.
Ryoo S R, Lee J, Yeo J. Quantitative and Multiplexed Micro RNA Sensing in Living Cells Based on Peptide Nucleic Acid and Nano Graphene Oxide(Pango)[J]. ACS Nano, 2013,7(7):5882-5891. doi: 10.1021/nn401183s
Frauenfelder H, Petsko G A, Tsernoglou D. Temperature-Dependent X-ray Diffraction as a Probe of Protein Structural Dynamics[J]. Nature, 1979,280(5723):558-563. doi: 10.1038/280558a0
Žoldák G, Rief M. Force as a Single Molecule Probe of Multidimensional Protein Energy Landscapes[J]. Curr Opin Struct Biol, 2013,23(1):48-57. doi: 10.1016/j.sbi.2012.11.007
Zhou J, Rossi J. Aptamers as Targeted Therapeutics:Current Potential and Challenges[J]. Nat Rev Drug Discovery, 2017,16(3):181-202. doi: 10.1038/nrd.2016.199
Ma H, Liu J, Ali M M. Nucleic Acid Aptamers in Cancer Research, Diagnosis and Therapy[J]. Chem Soc Rev, 2015,44(5):1240-1256. doi: 10.1039/C4CS00357H
Park J, Song M, Jang W. Peptide Nucleic Acid Probe-Based Fluorescence Melting Curve Analysis for Rapid Screening of Common JAK2, MPL, and CALR Mutations[J]. Clin Chim Acta, 2017,465:82-90. doi: 10.1016/j.cca.2016.12.002
Liu J, Cao Z, Lu Y. Functional Nucleic Acid Sensors[J]. Chem Rev, 2009,109(5):1962-1968.
Li J J, Fang X, Schuster S M. Molecular Beacons:A Novel Approach to Detect Protein-DNA Interactions[J]. Angew Chem, 2000,39(6):1049-1052. doi: 10.1002/(ISSN)1521-3773
Hamaguchi N, Ellington A, Stanton M. Aptamer Beacons for the Direct Detection of Proteins[J]. Anal Biochem, 2001,294(2):126-131. doi: 10.1006/abio.2001.5169
Stojanovic M N, De P P, Landry D W. Aptamer-based Folding Fluorescent Sensor for Cocaine[J]. J Am Chem Soc, 2001,123(21):4928-4931. doi: 10.1021/ja0038171
Yang C J, Jockusch S, Vicens M. Light-Switching Excimer Probes for Rapid Protein Monitoring in Complex Biological Fluids[J]. Proc Natl Acad Sci USA, 2005,102(48):17278-17283. doi: 10.1073/pnas.0508821102
Yamamoto R, Baba T, Kumar P K. Molecular Beacon Aptamer Fluoresces in the Presence of Tat Protein of HIV-1[J]. Genes Cells, 2000,5(5):389-396. doi: 10.1046/j.1365-2443.2000.00331.x
Stojanovic M N, And P D P, Landry D W. Fluorescent Sensors Based on Aptamer Self-Assembly[J]. J Am Chem Soc, 2000,122(46):11547-11548. doi: 10.1021/ja0022223
Nutiu R, Li Y. Structure-Switching Signaling Aptamers[J]. J Am Chem Soc, 2003,125(16):4771-4778. doi: 10.1021/ja028962o
Nutiu R, Li Y. A DNA-protein Nanoengine for "On-Demand" Release and Precise Delivery of Molecules[J]. Angew Chem, 2005,44(34):5464-5467. doi: 10.1002/(ISSN)1521-3773
Nutiu R, Li Y. Structure-Switching Signaling Aptamers:Transducing Molecular Recognition into Fluorescence Signaling[J]. Chem-Eur J, 2004,10(8):1868-1876. doi: 10.1002/(ISSN)1521-3765
Nutiu R, Li Y. Aptamers with Fluorescence-Signaling Properties[J]. Methods, 2005,37(1):16-25.
Nutiu R, Li Y. In vitro Selection of Structure-Switching Signaling Aptamers[J]. Angew Chem, 2005,44(7):1061-1065. doi: 10.1002/(ISSN)1521-3773
Nutiu R, Mei S, Liu Z. Engineering DNA Aptamers and DNA Enzymes with Fluorescence-Signaling Properties[J]. Pure Appl Chem, 2004,76(7/8):1547-1561.
Hartig J S, Najafishoushtari S H, Grüne I. Protein-Dependent Ribozymes Report Molecular Interactions in Realtime[J]. Nat Biotechnol, 2002,20(7):717-722. doi: 10.1038/nbt0702-717
Liang C P, Ma P Q, Liu H. Rational Engineering of Dynamic, Entropy-Driven DNA Nanomachine for Intracellular MicroRNA Imaging[J]. Angew Chem, 2017,56(31):9077-9081. doi: 10.1002/anie.201704147
Peng H, Li X F, Zhang H. A MicroRNA-initiated DNAzyme Motor Operating in Living Cells[J]. Nat Commun, 2017,8:14378-14390. doi: 10.1038/ncomms14378
Farka Z, Juřík T, Kovář D. Nanoparticle-Based Immunochemical Biosensors and Assays:Recent Advances and Challenges[J]. Chem Rev, 2017,117(15):9973-10042. doi: 10.1021/acs.chemrev.7b00037
Błaszkiewicz P, Kotkowiak M, Dudkowiak A. Fluorescence Quenching and Energy Transfer in a System of Hybrid Laser Dye and Functionalized Gold Nanoparticles[J]. J Lumin, 2017,183:303-310. doi: 10.1016/j.jlumin.2016.11.023
Rajendran M, Ellington A D. In vitro Selection of Molecular Beacons[J]. Nucl Acids Res, 2003,31(19):5700-5713. doi: 10.1093/nar/gkg764
Calzada V, Moreno M, Newton J. Development of new PTK7-targeting Aptamer-fluorescent and Radiolabelled Probes for Evaluation as Molecular Imaging Agents:Lymphoma and Melanoma in vivo Proof of Concept[J]. Bioorg Med Chem, 2017,25(3):1163-1171. doi: 10.1016/j.bmc.2016.12.026
Nair B G, Nagaoka Y, Morimoto H. Aptamer Conjugated Magnetic Nanoparticles as Nanosurgeons[J]. Nanotechnology, 2010,21(45):455102-455107. doi: 10.1088/0957-4484/21/45/455102
Bagalkot V, Zhang L, Levy N E. Quantum Dot-Aptamer Conjugates for Synchronous Cancer Imaging, Therapy, and Sensing of Drug Delivery Based on Bi-Fluorescence Resonance Energy Transfer[J]. Nano Lett, 2007,7(10):3065-3070. doi: 10.1021/nl071546n
Fang X, Tan W. Aptamers Generated from Cell-selex for Molecular Medicine:A Chemical Biology Approach[J]. Acc Chem Res, 2010,43(1):48-57. doi: 10.1021/ar900101s
Jin C, Qiu L, Li J. Cancer Biomarker Discovery Using DNA Aptamers[J]. Analyst, 2016,141(2):461-466. doi: 10.1039/C5AN01918D
Wu X, Zhao Z, Bai H. DNA Aptamer Selected Against Pancreatic Ductal Adenocarcinoma for in vivo Imaging and Clinical Tissue Recognition[J]. Theranostics, 2015,5(9):985-994. doi: 10.7150/thno.11938
Song Y, Zhu Z, An Y. Selection of DNA Aptamers Against Epithelial Cell Adhesion Molecule for Cancer Cell Imaging and Circulating Tumor Cell Capture[J]. Anal Chem, 2013,85(8):4141-4149. doi: 10.1021/ac400366b
Zhang N, Bing T, Shen L. Intercellular Connections Related to Cell-Cell Crosstalk Specifically Recognized by an Aptamer[J]. Angew Chem, 2016,55(12):3914-3918. doi: 10.1002/anie.201510786
Shi H, He X, Wang K. Activatable Aptamer Probe for Contrast-Enhanced in vivo Cancer Imaging Based on Cell Membrane Protein-Triggered Conformation Alteration[J]. Proc Natl Acad Sci USA, 2011,108(10):3900-3905. doi: 10.1073/pnas.1016197108
Sun Y, Chen C S, Fu J. Forcing Stem Cells to Behave:A Biophysical Perspective of the Cellular Microenvironment[J]. Annu Rev Biophys, 2012,41(1):519-542. doi: 10.1146/annurev-biophys-042910-155306
Wang H, Leinwand L A, Anseth K S. Cardiac Valve Cells and Their Microenvironment-Insights from in vitro Studies[J]. Nat Rev Cardiol, 2014,11(12):715-727. doi: 10.1038/nrcardio.2014.162
Zhao W, Schafer S, Choi J. Cell-Surface Sensors for Real-Time Probing of Cellular Environments[J]. Nat Nanotechnol, 2011,6(8):524-531. doi: 10.1038/nnano.2011.101
Watt F M, Huck W T S. Role of the Extracellular Matrix in Regulating Stem Cell Fate[J]. Nat Rev Mol Cell Biol, 2013,14(8):467-473. doi: 10.1038/nrm3620
Choudhary C, Mann M. Decoding Signalling Networks by Mass Spectrometry-Based Proteomics[J]. Nat Rev Mol Cell Biol, 2010,11(6):427-439. doi: 10.1038/nrm2900
Rissin D M, Kan C W, Campbell T G. Single-molecule Enzyme-Linked Immunosorbent Assay Detects Serum Proteins at Subfemtomolar Concentrations[J]. Nat Biotechnol, 2010,28(6):595-599. doi: 10.1038/nbt.1641
Ali M M, Kang D K, Tsang K. Cell-Surface Sensors:Lighting the Cellular Environment[J]. Wires Nanomed Nanobotechnol, 2012,4(5):547-561. doi: 10.1002/wnan.v4.5
Tokunaga T, Namiki S, Yamada K. Cell Surface-Anchored Fluorescent Aptamer Sensor Enables Imaging of Chemical Transmitter Dynamics[J]. J Am Chem Soc, 2012,134(23):9561-9564. doi: 10.1021/ja302551p
You M, Lyu Y, Han D. DNA Probes for Monitoring Dynamic and Transient Molecular Encounters on Live Cell Membranes[J]. Nat Nanotechnol, 2017,12(5):453-459. doi: 10.1038/nnano.2017.23
Johnston D S. The Intracellular Localization of Messenger RNAs[J]. Cell, 1995,81(2):161-170. doi: 10.1016/0092-8674(95)90324-0
Bao G, Rhee W J, Tsourkas A. Fluorescent Probes for Live-Cell RNA Detection[J]. Annu Rev Biomed Eng, 2009,11(1):25-47. doi: 10.1146/annurev-bioeng-061008-124920
Boussif O, Lezoualc'h F, Zanta M A. A Versatile Vector for Gene and Oligonucleotide Transfer into Cells in Culture and in vivo:Polyethylenimine[J]. Proc Natl Acad Sci USA, 1995,92(16):7297-7301. doi: 10.1073/pnas.92.16.7297
Qiu L, Wu C, You M. A Targeted, Self-delivered and Photocontrolled Molecular Beacon for mRNA Detection in Living Cells[J]. J Am Chem Soc, 2013,135(35):12952-12955. doi: 10.1021/ja406252w
Wang Y, Li Z, Hu D. Aptamer/Graphene Oxide Nanocomplex for in situ Molecular Probing in Living Cells[J]. J Am Chem Soc, 2010,132(27):9274-9276. doi: 10.1021/ja103169v
Wu C, Chen T, Han D. Engineering of Switchable Aptamer Micelle Flares for Molecular Imaging in Living Cells[J]. ACS Nano, 2013,7(7):5724-5731. doi: 10.1021/nn402517v
Tan Y, Shi Y, Wu X. DNA Aptamers that Target Human Glioblastoma Multiforme Cells Overexpressing Epidermal Growth Factor Receptor Variant Ⅲ in vitro[J]. Acta Pharmacol Sin, 2013,34(12):1491-1498. doi: 10.1038/aps.2013.137
Ambudkar S V, Kimchisarfaty C, Sauna Z E. P-glycoprotein:From Genomics to Mechanism[J]. Oncogene, 2003,22(47):7468-7485. doi: 10.1038/sj.onc.1206948
Qiu L, Chen T, Oçsoy I. A Cell-Targeted, Size-Photocontrollable, Nuclear-Uptake Nanodrug Delivery System for Drug-Resistant Cancer Therapy[J]. Nano Lett, 2015,15(1):457-463. doi: 10.1021/nl503777s
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Qilong Fang , Yiqi Li , Jiangyihui Sheng , Quan Yuan , Jie Tan . Magical Pesticide Residue Detection Test Strips: Aptamer-based Lateral Flow Test Strips for Organophosphorus Pesticide Detection. University Chemistry, 2024, 39(5): 80-89. doi: 10.3866/PKU.DXHX202310004
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Aptamer sensors that bind to signalling molecules are covalently attached to the surface of cells. Signalling molecules secreted by niche cells are detected by the sensor cells, and the fluorescent signal generated is measured