Kinetics of Toehold-Mediated DNA Strand Displacement Depend on Fe<sup>II</sup><sub>4</sub>L<sub>4</sub> Tetrahedron Concentration.
American Chemical Society
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Zhu, J., Bošković, F., Nguyen, B. T., Nitschke, J., & Keyser, U. (2021). Kinetics of Toehold-Mediated DNA Strand Displacement Depend on Fe<sup>II</sup><sub>4</sub>L<sub>4</sub> Tetrahedron Concentration.. Nano letters, 21 (3), 1368-1374. https://doi.org/10.1021/acs.nanolett.0c04125
The toehold-mediated strand displacement reaction (SDR) is a powerful enzyme-free tool for molecular manipulation, DNA computing, signal amplification, etc. However, precise modulation of SDR kinetics without changing the original design remains a significant challenge. We introduce a new means of modulating SDR kinetics using an external stimulus: a water-soluble FeII4L4 tetrahedral cage. Our results show that the presence of a flexible phosphate group and a minimum toehold segment length are essential for FeII4L4 binding to DNA. SDRs mediated by toehold ends in different lengths (3-5) were investigated as a function of cage concentration. Their reaction rates all first increased and then decreased with increasing cage concentration. We infer that cage binding on the toehold end slows SDR, whereas the stabilization of intermediates that contain two overhangs accelerates SDR. The tetrahedral cage thus serves as a versatile tool for modulation of SDR kinetics.
George and Lilian Schiff Foundation Studentship; Winton Programme for the Physics of Sustainability; St. John’s Benefactors’ Scholarship
ECH2020 EUROPEAN RESEARCH COUNCIL (ERC) (647144)
European Commission Horizon 2020 (H2020) ERC (695009)
EPSRC (via University of Manchester) (EP/P027067/1)
External DOI: https://doi.org/10.1021/acs.nanolett.0c04125
This record's URL: https://www.repository.cam.ac.uk/handle/1810/319273
Attribution 4.0 International
Licence URL: https://creativecommons.org/licenses/by/4.0/