标题： 超螺旋RNA的粗粒化建模 显示英文标题

标题： Coarse-grained modelling of supercoiled RNA

摘要： 我们使用oxRNA，一种最近开发的RNA粗粒化模型，研究双链RNA在扭转和张力下的行为。 将显式的盐依赖性引入模型，使我们能够直接将我们的结果与近期单分子实验的数据进行比较。 该模型能够再现伸展曲线作为扭转和拉伸力的函数，包括屈曲转变和螺旋结构的行为。 对于负超螺旋，我们预测在螺旋末端环中形成变性泡，这表明螺旋结构更倾向于出现在弱碱基序列中。 oxRNA表现出正的扭转-拉伸耦合常数，这与最近的实验观察结果一致。 显示英文摘要

摘要： We study the behaviour of double-stranded RNA under twist and tension using oxRNA, a recently developed coarse-grained model of RNA. Introducing explicit salt-dependence into the model allows us to directly compare our results to data from recent single-molecule experiments. The model reproduces extension curves as a function of twist and stretching force, including the buckling transition and the behaviour of plectoneme structures. For negative supercoiling, we predict denaturation bubble formation in plectoneme end-loops, suggesting preferential plectoneme localisation in weak base sequences. OxRNA exhibits a positive twist-stretch coupling constant, in agreement with recent experimental observations.