Differential adhesion of microspheres mediated by DNA hybridization I: experiment

Biophysical Journal
Ying ZhangD A Hammer

Abstract

We have developed a novel method to study collective behavior of multiple hybridized DNA chains by measuring the adhesion of DNA-coated micron-scale beads under hydrodynamic flow. Beads coated with single-stranded DNA probes are linked to surfaces coated with single target strands through DNA hybridization, and hydrodynamic shear forces are used to discriminate between strongly and weakly bound beads. The adhesiveness of microspheres depends on the strength of interaction between DNA chains on the bead and substrate surfaces, which is a function of the degree of DNA chain overlap, the fidelity of the match between hybridizing pairs, and other factors that affect the hybridization energy, such as the salt concentration in the hybridization buffer. The force for bead detachment is linearly proportional to the degree of chain overlap. There is a detectable drop in adhesion strength when there is a single base mismatch in one of the hybridizing chains. The effect of single nucleotide mismatch was tested with two different strand chemistries, with mutations placed at several different locations. All mutations were detectable, but there was no comprehensive rule relating the drop in adhesive strength to the location of the defect. Si...Continue Reading

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Citations

Apr 23, 2011·BMC Bioinformatics·Shannon Zhang, Yaping Zong
Feb 25, 2017·Biomacromolecules·Ngozi A EzeValeria T Milam
Jun 28, 2007·Lab on a Chip·Lindsey K FiddesAaron R Wheeler
Jul 12, 2008·Chemistry : a European Journal·Bin Liu, Shudipto Konika Dishari
Nov 9, 2011·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Shikha Prakash, Yashwant Singh
Oct 2, 2020·Pancreas·Karolina Elżbieta Kaczor-UrbanowiczYong Kim
Aug 22, 2008·Biomacromolecules·Christopher K Tison, Valeria T Milam
Apr 11, 2021·Biophysical Journal·Christopher L PorterJohn C Crocker
Mar 17, 2015·ACS Nano·Surachate Kalasin, Maria M Santore
Jun 11, 2008·Journal of the American Chemical Society·Margaret H S ShyrPaul V Braun

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