A Versatile Framework for Simulating the Dynamic Mechanical Structure of Cytoskeletal Networks
A Versatile Framework for Simulating the Dynamic Mechanical Structure of Cytoskeletal Networks
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DOI：
10.1016/j.bpj.2017.06.003
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发表时间：
2017-07-25
影响因子：
3.4
通讯作者：
Dinner, Aaron R.
中科院分区：
文献类型：
--
作者：
Freedman, Simon L.;Banerjee, Shiladitya;Dinner, Aaron R.
计算机模拟可以帮助理解简单成分之间的相互作用如何产生集体材料属性。在这里，我们介绍了一个粗粒度的模型，使模拟网络的肌动蛋白丝，肌球蛋白马达，交联蛋白在生物相关的时间和长度尺度。我们证明，该模型定性和定量地捕捉实验观察到的一套趋势，包括长丝波动的统计数据，剪切，电机运动和网络重排的机械响应。我们使用模拟来预测交联肌动蛋白网络的粘弹性标度行为，在肌球蛋白运动分析中表征肌动蛋白的轨迹，并开发顺序参数来测量模拟肌动蛋白网络的收缩性。因此，该模型可以作为一个平台的解释和设计的细胞骨架材料的实验，以及进一步发展的模拟纳入活性元素。
Computer simulations can aid in understanding how collective materials properties emerge from interactions between simple constituents. Here, we introduce a coarse-grained model that enables simulation of networks of actin filaments, myosin motors, and cross-linking proteins at biologically relevant time and length scales. We demonstrate that the model qualitatively and quantitatively captures a suite of trends observed experimentally, including the statistics of filament fluctuations, and mechanical responses to shear, motor motilities, and network rearrangements. We use the simulation to predict the viscoelastic scaling behavior of cross-linked actin networks, characterize the trajectories of actin in a myosin motility assay, and develop order parameters to measure contractility of a simulated actin network. The model can thus serve as a platform for interpretation and design of cytoskeletal materials experiments, as well as for further development of simulations incorporating active elements.