Plasmonic selection of ssDNA aptamers against fibroblast growth factor receptor

Kurt, Hasan and Eyüpoğlu, Alp Ertunga and Sütlü, Tolga and Budak, Hikmet and Yüce, Meral (2019) Plasmonic selection of ssDNA aptamers against fibroblast growth factor receptor. ACS Combinatorial Science, 21 (8). pp. 578-587. ISSN 2156-8952 (Print) 2156-8944 (Online)

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In this work, we describe the selection of ssDNA aptamers targeting fibroblast growth factor receptor binding protein 3 K650E, which has roles in cell division, growth, and differentiation through the kinase cascade. The selection process was based on the label-free, real-time monitoring of binding interactions by surface plasmon resonance, allowing for convenient manipulation of the selection rounds. Next generation sequencing data provided four major motif families from which nine individual sequences were selected based on their abundance levels. Electrophoretic mobility shift assays revealed binding of the selected aptamers to the target protein without significant interference from fibroblast growth factor receptor binding protein 2, indicating the selectivity of the aptamers. The dissociation constant at equilibrium for the best aptamer candidate, SU-3, was found to be (28.2 ± 19.6) × 10–9 M (n = 5) using a single-cycle kinetic analysis method. Advantages of the experimental setup and potential applications of the selected aptamers are discussed.
Item Type: Article
Uncontrolled Keywords: aptamer; next generation sequencing; SELEX; ssDNA; surface plasmon resonance
Subjects: Q Science > Q Science (General)
Divisions: Sabancı University Nanotechnology Research and Application Center
Faculty of Engineering and Natural Sciences
Depositing User: Meral Yüce
Date Deposited: 24 Aug 2019 23:38
Last Modified: 26 Jul 2023 11:59

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