DNA Supercoiling Drives a Transition between Collective Modes of Gene Synthesis.
DNA Supercoiling Drives a Transition between Collective Modes of Gene Synthesis.
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DOI：
10.1103/physrevlett.127.218101
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发表时间：
2021-11-19
影响因子：
8.6
通讯作者：
Kim, Sangjin
中科院分区：
文献类型：
--
作者：
Chatterjee, Purba;Goldenfeld, Nigel;Kim, Sangjin
基因的转录可以受到生物化学和机械因素的影响。最近的实验表明，机械应力与转录诱导的DNA超螺旋是负责从合作的过渡到拮抗组动态的RNA聚合酶（RNAP）启动子阻遏。为了支持这种剧烈转变背后的机制，我们开发了一个连续体确定性模型，用于扭转下的转录。在我们的模型中，RNAP的速度受到局部DNA超螺旋以及两个全局因素的影响：（i）基因上RNAP的数量影响单个RNAP所经历的扭转应力，以及（ii）阻止DNA超螺旋扩散的转录因子。我们的最小模型可以成功地再现实验结果，并有助于阐明参与基因表达的分子机器的集体动力学中机械和生物因素的相互作用。
Transcription of genes can be affected by both biochemical and mechanical factors. Recent experiments suggested that the mechanical stress associated with transcription-induced DNA supercoiling is responsible for the transition from cooperative to antagonistic group dynamics of RNA polymerases (RNAPs) upon promoter repression. To underpin the mechanism behind this drastic transition, we developed a continuum deterministic model for transcription under torsion. In our model, the speed of an RNAP is affected by the local DNA supercoiling, as well as two global factors: (i) the number of RNAPs on the gene affecting the torsional stress experienced by individual RNAPs and (ii) transcription factors blocking the diffusion of DNA supercoils. Our minimal model can successfully reproduce the experimental findings and helps elucidate the interplay of mechanical and biological factors in the collective dynamics of molecular machines involved in gene expression.