Effect of sequence-dependent rigidity on plectoneme localization in dsDNA

Shlomi Medalion, Yitzhak Rabin

Research output: Contribution to journalArticlepeer-review

4 Scopus citations

Abstract

We use Monte-Carlo simulations to study the effect of variable rigidity on plectoneme formation and localization in supercoiled double-stranded DNA. We show that the presence of soft sequences increases the number of plectoneme branches and that the edges of the branches tend to be localized at these sequences. We propose an experimental approach to test our results in vitro, and discuss the possible role played by plectoneme localization in the search process of transcription factors for their targets (promoter regions) on the bacterial genome.

Original languageEnglish
Article number135101
JournalJournal of Chemical Physics
Volume144
Issue number13
DOIs
StatePublished - 7 Apr 2016

Bibliographical note

Publisher Copyright:
© 2016 AIP Publishing LLC.

Funding

This work was supported by the ICORE Program of the Planning and Budgeting committee and the Israel Science Foundation and by the US-Israel Binational Science Foundation.

FundersFunder number
United States-Israel Binational Science Foundation
Israel Science Foundation

    Fingerprint

    Dive into the research topics of 'Effect of sequence-dependent rigidity on plectoneme localization in dsDNA'. Together they form a unique fingerprint.

    Cite this