Aptamer-based Fluorescence Probe for Bioanalysis and Bioimaging

doi:10.11944/j.issn.1000-0518.2018.01.170363

Chinese Journal of Applied Chemistry ›› 2018, Vol. 35 ›› Issue (1): 28-39.DOI: 10.11944/j.issn.1000-0518.2018.01.170363

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Aptamer-based Fluorescence Probe for Bioanalysis and Bioimaging

HUANG Zike,LIU Chao,FU Qiangqiang,LI Jin,ZOU Jianmei,XIE Sitao,QIU Liping()

State Key Laboratory of Chemo/Bio-Sensing and Chemometrics,Hunan University,Changsha 410082,China

Received:2017-10-13 Accepted:2017-11-24 Published:2018-01-03 Online:2018-01-03
Contact: QIU Liping
Supported by:
Supported by the National Natural Science Foundation of China(No.21505039)

Abstract

Abstract:

Aptamers are oligonucleotides selected through an in vitro method known as systematic evolution of ligands by exponential enrichment(SELEX), which can recognize target with high specificity and high affinity. Aptamers have attracted wide attention because of their intrinsic advantages including simple synthesis, low molecular mass, high chemical stability, easy biochemical modification and so on. Aptamers can fold into specific two-dimensional or three-dimensional configurations and specifically bind with their targets. With appropriate signal transduction mechanism, aptamers can provide ideal molecular recognition and detection probes for biological research. Fluorescence is a type of detection technology that has several superiorities of high sensitivity, high resolution and easy multiplex detection. With the combination of the molecular recognition capability of aptamers and the outstanding detection performance of fluorescence technology, the aptamer-based fluorescence probes have been widely used in the study of life science. This review highlights the major progress of aptamer-based fluorescence probes in both bioanalysis and bioimaging area, and discusses the current limitations of aptamer probe for applications.

Key words: aptamer, fluorescence probe, bioanalysis, bioimaging

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.

References

[1]	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.
[2]	Watson J D,Crick F H. Molecular Structure of Nucleic Acids[J]. Nature,1953,171(4356): 737-738.
[3]	Chargaff E. Preface to a Grammar of Biology[J]. Science,1971,172(3984):637-642.
[4]	Rich A,Zhang S. Z-DNA:The Long Road to Biological Function[J]. Nat Rev Gene,2003,4(7): 566-572.
[5]	Darzynkiewicz Z. Nucleic Acid Analysis[J]. Anal Chem,2017,71(18):425-438.
[6]	Ryoo S R,Lee J,Yeo J,et al.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.
[7]	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.
[8]	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.
[9]	Zhou J,Rossi J. Aptamers as Targeted Therapeutics:Current Potential and Challenges[J]. Nat Rev Drug Discovery,2017,16(3):181-202.
[10]	Ma H,Liu J,Ali M M,et al.Nucleic Acid Aptamers in Cancer Research, Diagnosis and Therapy[J]. Chem Soc Rev,2015,44(5):1240-1256.
[11]	Park J,Song M,Jang W,et al.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.
[12]	Liu J,Cao Z,Lu Y. Functional Nucleic Acid Sensors[J]. Chem Rev,2009,109(5):1962-1968.
[13]	Li J J,Fang X,Schuster S M,et al.Molecular Beacons:A Novel Approach to Detect Protein-DNA Interactions[J]. Angew Chem,2000,39(6):1049-1052.
[14]	Hamaguchi N,Ellington A,Stanton M. Aptamer Beacons for the Direct Detection of Proteins[J]. Anal Biochem,2001,294(2):126-131.
[15]	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.
[16]	Yang C J,Jockusch S,Vicens M,et al.Light-Switching Excimer Probes for Rapid Protein Monitoring in Complex Biological Fluids[J]. Proc Natl Acad Sci USA,2005,102(48):17278-17283.
[17]	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.
[18]	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.
[19]	Nutiu R,Li Y. Structure-Switching Signaling Aptamers[J].J Am Chem Soc,2003,125(16):4771-4778.
[20]	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.
[21]	Nutiu R,Li Y. Structure-Switching Signaling Aptamers:Transducing Molecular Recognition into Fluorescence Signaling[J]. Chem-Eur J,2004,10(8):1868-1876.
[22]	Nutiu R,Li Y. Aptamers with Fluorescence-Signaling Properties[J]. Methods,2005,37(1):16-25.
[23]	Nutiu R,Li Y. In vitro Selection of Structure-Switching Signaling Aptamers[J]. Angew Chem,2005,44(7):1061-1065.
[24]	Nutiu R,Mei S,Liu Z,et al.Engineering DNA Aptamers and DNA Enzymes with Fluorescence-Signaling Properties[J]. Pure Appl Chem,2004,76(7/8):1547-1561.
[25]	Hartig J S,Najafishoushtari S H,Grüne I,et al.Protein-Dependent Ribozymes Report Molecular Interactions in Realtime[J]. Nat Biotechnol,2002,20(7):717-722.
[26]	Liang C P,Ma P Q,Liu H,et al.Rational Engineering of Dynamic, Entropy-Driven DNA Nanomachine for Intracellular MicroRNA Imaging[J]. Angew Chem,2017,56(31):9077-9081.
[27]	Peng H,Li X F,Zhang H,et al.A MicroRNA-initiated DNAzyme Motor Operating in Living Cells[J]. Nat Commun,2017,8:14378-14390.
[28]	Farka Z, Juřík T, Kovář D,et al. Nanoparticle-Based Immunochemical Biosensors and Assays:Recent Advances and Challenges[J]. Chem Rev,2017,117:9973-10042.
[29]	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.
[30]	Rajendran M,Ellington A D. In vitro Selection of Molecular Beacons[J]. Nucl Acids Res,2003,31(19):5700-5713.
[31]	Calzada V,Moreno M,Newton J,et al.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.
[32]	Nair B G,Nagaoka Y,Morimoto H,et al.Aptamer Conjugated Magnetic Nanoparticles as Nanosurgeons[J]. Nanotechnology,2010,21(45):455102-455107.
[33]	Bagalkot V,Zhang L,Levy N E,et al.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.
[34]	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.
[35]	Jin C,Qiu L,Li J,et al.Cancer Biomarker Discovery Using DNA Aptamers[J]. Analyst,2016,141(2):461-466.
[36]	Wu X,Zhao Z,Bai H,et al.DNA Aptamer Selected Against Pancreatic Ductal Adenocarcinoma for in vivo Imaging and Clinical Tissue Recognition[J]. Theranostics,2015,5(9):985-994.
[37]	Song Y,Zhu Z,An Y,et al.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.
[38]	Zhang N,Bing T,Shen L,et al.Intercellular Connections Related to Cell-Cell Crosstalk Specifically Recognized by an Aptamer[J]. Angew Chem,2016,55(12):3914-3918.
[39]	Shi H,He X,Wang K,et al.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.
[40]	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.
[41]	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.
[42]	Zhao W,Schafer S,Choi J,et al.Cell-Surface Sensors for Real-Time Probing of Cellular Environments[J]. Nat Nanotechnol,2011,6(8):524-531.
[43]	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.
[44]	Choudhary C,Mann M. Decoding Signalling Networks by Mass Spectrometry-Based Proteomics[J]. Nat Rev Mol Cell Biol,2010,11(6):427-439.
[45]	Rissin D M,Kan C W,Campbell T G,et al.Single-molecule Enzyme-Linked Immunosorbent Assay Detects Serum Proteins at Subfemtomolar Concentrations[J]. Nat Biotechnol,2010,28(6):595-599.
[46]	Ali M M,Kang D K,Tsang K,et al.Cell-Surface Sensors:Lighting the Cellular Environment[J]. Wires Nanomed Nanobotechnol,2012,4(5):547-561.
[47]	Tokunaga T,Namiki S,Yamada K,et al.Cell Surface-Anchored Fluorescent Aptamer Sensor Enables Imaging of Chemical Transmitter Dynamics[J]. J Am Chem Soc,2012,134(23):9561-9564.
[48]	You M,Lyu Y,Han D,et al.DNA Probes for Monitoring Dynamic and Transient Molecular Encounters on Live Cell Membranes[J]. Nat Nanotechnol,2017,12(5):453-459.
[49]	Johnston D S. The Intracellular Localization of Messenger RNAs[J]. Cell,1995,81(2):161-170.
[50]	Bao G,Rhee W J,Tsourkas A. Fluorescent Probes for Live-Cell RNA Detection[J]. Annu Rev Biomed Eng,2009,11(1):25-47.
[51]	Boussif O,Lezoualc'h F,Zanta M A,et al. 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.
[52]	Qiu L,Wu C,You M,et al.A Targeted, Self-delivered and Photocontrolled Molecular Beacon for mRNA Detection in Living Cells[J]. J Am Chem Soc,2013,135(35):12952-12955.
[53]	Wang Y,Li Z,Hu D,et al.Aptamer/Graphene Oxide Nanocomplex for in situ Molecular Probing in Living Cells[J]. J Am Chem Soc,2010,132(27):9274-9276.
[54]	Wu C,Chen T,Han D,et al.Engineering of Switchable Aptamer Micelle Flares for Molecular Imaging in Living Cells[J]. ACS Nano,2013,7(7):5724-5731.
[55]	Tan Y,Shi Y,Wu X,et al.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.
[56]	Ambudkar S V,Kimchisarfaty C,Sauna Z E,et al.P-glycoprotein:From Genomics to Mechanism[J]. Oncogene,2003,22(47):7468-7485.
[57]	Qiu L,Chen T,Oçsoy I,et al.A Cell-Targeted, Size-Photocontrollable, Nuclear-Uptake Nanodrug Delivery System for Drug-Resistant Cancer Therapy[J]. Nano Lett,2015,15(1):457-463.

Aptamer-based Fluorescence Probe for Bioanalysis and Bioimaging

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