Protected DNA strand displacement for enhanced single nucleotide discrimination in double-stranded DNA

Scientific Reports
Dmitriy A KhodakovAmanda V Ellis

Abstract

Single nucleotide polymorphisms (SNPs) are a prime source of genetic diversity. Discriminating between different SNPs provides an enormous leap towards the better understanding of the uniqueness of biological systems. Here we report on a new approach for SNP discrimination using toehold-mediated DNA strand displacement. The distinctiveness of the approach is based on the combination of both 3- and 4-way branch migration mechanisms, which allows for reliable discrimination of SNPs within double-stranded DNA generated from real-life human mitochondrial DNA samples. Aside from the potential diagnostic value, the current study represents an additional way to control the strand displacement reaction rate without altering other reaction parameters and provides new insights into the influence of single nucleotide substitutions on 3- and 4-way branch migration efficiency and kinetics.

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Citations

Oct 21, 2015·Journal of the American Chemical Society·Dongbao YaoHaojun Liang
Apr 21, 2017·Chemical Communications : Chem Comm·Nanami Kikuchi, Dmitry M Kolpashchikov
Jul 16, 2019·Analytical and Bioanalytical Chemistry·Xingwei ZhaiKun Han
Sep 11, 2019·Proceedings of the National Academy of Sciences of the United States of America·Taylor D CanadyBrian T Cunningham
Jun 28, 2018·Journal of Materials Chemistry. B, Materials for Biology and Medicine·Mengqi ZouYun Xiang
Nov 3, 2016·Chembiochem : a European Journal of Chemical Biology·Amanda J CoxDmitry M Kolpashchikov
Jan 14, 2017·Analytica Chimica Acta·Renzo A FenatiAmanda V Ellis
Feb 5, 2019·Chemical Reviews·Friedrich C SimmelHari R Singh

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Methods Mentioned

BETA
genotyping
PCR

Software Mentioned

OriginPro

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