Mixed confinement regimes during equilibrium confinement spectroscopy of DNA
Mixed confinement regimes during equilibrium confinement spectroscopy of DNA
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DOI：
10.1063/1.4879515
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发表时间：
2014-06-07
影响因子：
4.4
通讯作者：
Reisner, Walter
中科院分区：
文献类型：
--
作者：
Gupta, Damini;Sheats, Julian;Reisner, Walter
我们结合荧光显微镜实验和一个离散虫状链模型的Pruned富集Rosenbluth方法模拟来测量λ - dna在100 nm深的纳米通道中的平均延伸和平均延伸的方差，宽度从100 nm到1000 nm，以离散的100 nm步长。平均扩展仅受通道宽高比的微弱影响。相反，具有相同横截面积的矩形沟道和方形沟道由于在矩形沟道中“混合”了不同的约束制度，因此链延伸的波动在质量上有所不同。实验结果与仿真结果吻合较好，并以插补扩展作为唯一可调参数。(C) 2014 AIP出版有限责任公司
We have used a combination of fluorescence microscopy experiments and Pruned Enriched Rosenbluth Method simulations of a discrete wormlike chain model to measure the mean extension and the variance in the mean extension of lambda-DNA in 100 nm deep nanochannels with widths ranging from 100 nm to 1000 nm in discrete 100 nm steps. The mean extension is only weakly affected by the channel aspect ratio. In contrast, the fluctuations of the chain extension qualitatively differ between rectangular channels and square channels with the same cross-sectional area, owing to the "mixing" of different confinement regimes in the rectangular channels. The agreement between experiment and simulation is very good, using the extension due to intercalation as the only adjustable parameter. (C) 2014 AIP Publishing LLC.