Calderon Christopher P, Chen Wei-Hung, Lin Kuan-Jiuh, Harris Nolan C, Kiang Ching-Hwa
Department of Computational and Applied Mathematics, Rice University, Houston, TX, USA.
J Phys Condens Matter. 2009 Jan 21;21(3):34114. doi: 10.1088/0953-8984/21/3/034114.
We stretched a DNA molecule using atomic force microscope and quantified the mechanical properties associated with B and S forms of double-stranded DNA (dsDNA), molten DNA, and single-stranded DNA (ssDNA). We also fit overdamped diffusion models to the AFM time series and used these models to extract additional kinetic information about the system. Our analysis provides additional evidence supporting the view that S-DNA is a stable intermediate encountered during dsDNA melting by mechanical force. In addition, we demonstrated that the estimated diffusion models can detect dynamical signatures of conformational degrees of freedom not directly observed in experiments.
我们使用原子力显微镜拉伸了一个DNA分子，并对与双链DNA（dsDNA）的B型和S型、熔解态DNA以及单链DNA（ssDNA）相关的力学性质进行了量化。我们还将过阻尼扩散模型拟合到原子力显微镜的时间序列上，并使用这些模型提取有关该系统的额外动力学信息。我们的分析提供了更多证据，支持了S-DNA是双链DNA在机械力作用下熔解过程中遇到的一种稳定中间体的观点。此外，我们证明了估计的扩散模型能够检测到实验中未直接观察到的构象自由度的动力学特征。
