Effect of sequence-dependent rigidity on plectoneme localization in dsDNA,The Journal of Chemical Physics

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Effect of sequence-dependent rigidity on plectoneme localization in dsDNA
The Journal of Chemical Physics ( IF 3.1 ) Pub Date : 2016-04-04 14:11:43 , DOI: 10.1063/1.4945010
Shlomi Medalion ₁ , Yitzhak Rabin ₁

Affiliation

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.

中文翻译：

序列依赖性刚度对双链DNA中双侧翼琴定位的影响

我们使用蒙特卡洛模拟来研究变刚度对超音速双链DNA的plectoneme形成和定位的影响。我们表明，软序列的存在增加了plectoneme分支的数量，并且分支的边缘倾向于位于这些序列。我们提出了一种实验方法来在体外测试我们的结果，并讨论了拨菌素定位在细菌基因组上针对它们的靶标（启动子区域）的转录因子搜索过程中可能发挥的作用。

更新日期：2016-04-05

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