SSB Binding to Single-stranded DNA Probed Using Solid-state Nanopore Sensors
File(s)Journal of Physical Chemistry B_accepted_2014.pdf (805.32 KB)
Accepted version
Author(s)
Type
Journal Article
Abstract
Single-stranded DNA (ssDNA) binding protein plays an important role in the DNA replication process in a wide range of organisms. It binds to ssDNA to prevent premature reannealing and to protect it from degradation. Current understanding of SSB/ssDNA interaction points to a complex mechanism, including SSB motion along the DNA strand. We report on the first characterization of this interaction at the single-molecule level using solid-state nanopore sensors, namely without any labeling or surface immobilization. Our results show that the presence of SSB on the ssDNA can control the speed of nanopore translocation, presumably due to strong interactions between SSB and the nanopore surface. This enables nanopore-based detection of ssDNA fragments as short as 37 nt, which is normally very difficult with solid-state nanopore sensors, due to constraints in noise and bandwidth. Notably, this fragment is considerably shorter than the 65 nt binding motif, typically required for SSB binding at high salt concentrations. The nonspecificity of SSB binding to ssDNA further suggests that this approach could be used for fragment sizing of short ssDNA.
Date Issued
2014-09-15
Date Acceptance
2014-09-15
Citation
Journal of Physical Chemistry B, 2014, 118 (40), pp.11605-11612
ISSN
1520-6106
Publisher
American Chemical Society
Start Page
11605
End Page
11612
Journal / Book Title
Journal of Physical Chemistry B
Volume
118
Issue
40
Copyright Statement
© 2014 American Chemical Society. This document is the Accepted Manuscript version of a Published Work that appeared in final form in Journal of Physical Chemistry B, copyright © American Chemical Society after peer review and technical editing by the publisher. To access the final edited and published work see https://dx.doi.org/10.1021/jp506832u
Identifier
http://pubs.acs.org/doi/abs/10.1021/jp506832u
Publication Status
Published
Publisher URL