How Well Can DNA Rupture DNA? Shearing and Unzipping Forces inside DNA Nanostructures

ACS Omega
Shern Ren Tee, Zhisong Wang

Abstract

A purely DNA nanomachine must support internal stresses across short DNA segments with finite rigidity, producing effects that can be qualitatively very different from experimental observations of isolated DNA in fixed-force ensembles. In this article, computational simulations are used to study how well the rigidity of a driving DNA duplex can rupture a double-stranded DNA target into single-stranded segments and how well this stress can discriminate between unzipping or shearing geometries. This discrimination is found to be maximized at an optimal length but deteriorates as the driving duplex is either lengthened or shortened. This differs markedly from a fixed-force ensemble and has implications for the design parameters and limitations of dynamic DNA nanomachines.

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Citations

Jul 10, 2019·Physical Review Letters·Jiyoun Jeong, Harold D Kim
Dec 5, 2019·Nucleic Acids Research·Ze Shi, Gaurav Arya
Aug 29, 2019·ACS Omega·Ruizheng HouZhisong Wang

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Methods Mentioned

BETA
DNA shearing

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