Repository logo
 

Kinetics of toehold-mediated DNA strand displacement depend on FeII4L4 tetrahedron concentration

Published version
Peer-reviewed

Change log

Authors

Bošković, Filip 
Nguyen, Bao-Nguyen 

Abstract

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.

Description

Keywords

Journal Title

Nano Letters: a journal dedicated to nanoscience and nanotechnology

Conference Name

Journal ISSN

1530-6984

Volume Title

Publisher

American Chemical Society
Sponsorship
Engineering and Physical Sciences Research Council (EP/M008258/1)
European Research Council (647144)