Abstract
DNAzymes can be obtained by in vitro selection, when specific analytes such as porphyrins are used as targets. In this process, the immobilization of targets serving as a major step is not suitable for the selection of DNAzymes because small molecules like porphyrins lack active groups for immobilization. Here, we develop a gold nanoparticle (AuNPs)-assisted aptamer selection for the small molecule porphyrin Zinc(ii)-Protoporphyrin IX (ZnPPIX), which can realize the selection of DNAzyme without an immobilization step, and the detailed in vitro selection process in solution is described.
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References
Tuerk C, Gold L (1990) Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. Science 249:505–510
Stoltenburg R, Reinemann C, Strehlitz B (2007) SELEX—A (r)evolutionary method to generate high-affinity nucleic acid ligands. Biomol Eng 24:381–403
Li Y, Geyer R, Sen D (1996) Recognition of anionic porphyrins by DNA aptamers. Biochemistry 35:6911–6922
Travascio P, Li Y, Sen D (1998) DNA-enhanced peroxidase activity of a DNA aptamer-hemin complex. Chem Biol 5:505–517
Huizenga DE, Szostak JW (1995) A DNA aptamer that binds adenosine and ATP. Biochemistry 34:656–665
Ruscito A, DeRosa MC (2016) Small-molecule binding aptamers: selection strategies, characterization, and applications. Front Chem 4:14
Park J-W, Tatavarty R, Kim DW, Jung H-T, Gu MB (2012) Immobilization-free screening of aptamers assisted by graphene oxide. Chem Commun 48:2071–2073
Nguyen VT, Kwon YS, Kim JH, Gu MB (2014) Multiple GO-SELEX for efficient screening of flexible aptamers. Chem Commun 50:10513–10516
Gu H, Duan N, Wu S, Hao L, **a Y, Ma X, Wang Z (2016) Graphene oxide-assisted non-immobilized SELEX of okdaic acid aptamer and the analytical application of aptasensor. Sci Rep 6:21665
Liu J (2012) Adsorption of DNA onto gold nanoparticles and graphene oxide: surface science and applications. Phys Chem Chem Phys 14:10485–10496
Li H, Rothberg L (2004) Colorimetric detection of DNA sequences based on electrostatic interactions with unmodified gold nanoparticles. Proc Natl Acad Sci U S A 101:14036–14039
Yang C, Wang Y, Marty JL, Yang X (2011) Aptamer-based colorimetric biosensing of Ochratoxin A using unmodified gold nanoparticles indicator. Biosens Bioelectron 26:2724–2727
Peng Y, Li L, Mu X, Guo L (2013) Aptamer-gold nanoparticle-based colorimetric assay for the sensitive detection of thrombin. Sens Actuators B 177:818–825
Liu J, Bai W, Niu S, Zhu C, Yang S, Chen A (2014) Highly sensitive colorimetric detection of 17β-estradiol using split DNA aptamers immobilized on unmodified gold nanoparticles. Sci Rep 4:7571
Li W, Luo Y, Gao T, Yang L, Wang J, Pei R (2019) In vitro selection of DNA aptamers for a small-molecule porphyrin by Gold nanoparticle-based SELEX. J Mol Evol 87:231–239
Acknowledgments
This work was financially supported by the Natural Science Foundation of China (21575154, 21775160, 81801837, 31800685) and the Science Foundation of Jiangsu Province (BE2016680, BE2018665, BK20180250, BK20180258, BK20180261).
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Li, W., Cao, Y., Pei, R. (2022). A Protocol for Gold Nanoparticle-Assisted Aptamer Selection for a Small Molecule Porphyrin to Develop DNAzyme. In: Steger, G., Rosenbach, H., Span, I. (eds) DNAzymes. Methods in Molecular Biology, vol 2439. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-2047-2_1
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DOI: https://doi.org/10.1007/978-1-0716-2047-2_1
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