Velocity of DNA during Trans location through a Solid-State Nanopore
Velocity of DNA during Trans location through a Solid-State Nanopore
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DOI：
10.1021/nl504375c
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发表时间：
2015-01-01
期刊：
影响因子：
10.8
通讯作者：
Dekker, Cees
中科院分区：
文献类型：
--
作者：
Plesa, Calin;van Loo, Nick;Dekker, Cees
虽然了解DNA通过固态纳米孔的移位对于开发其在单分子水平上的传感和测序潜力至关重要，但令人惊讶的是，人们对DNA通过纳米孔传播的动力学知之甚少。在这里，我们使用线性双链DNA分子，通过DNA折纸技术组装，在已知位置设置标记，以便第一次确定分子长度上不同片段的局部速度。我们观察到很大的分子内速度波动，可能与DNA斑点展开时阻力的变化有关。此外，我们观察到局部移位速度在移位过程接近结束时增加，这与由于DNA斑点最后一部分的展开而加速一致。我们使用速度分布来估计在给定其时间位置的情况下沿DNA确定特征位置的不确定性，并演示了假设移位速度恒定所引入的误差。
While understanding translocation of DNA through a solid-state nanopore is vital for exploiting its potential for sensing and sequencing at the single-molecule level, surprisingly little is known about the dynamics of the propagation of DNA through the nanopore. Here we use linear double-stranded DNA molecules, assembled by the DNA origami technique, with markers at known positions in order to determine for the first time the local velocity of different segments along the length of the molecule. We observe large intramolecular velocity fluctuations, likely related to changes in the drag force as the DNA blob unfolds. Furthermore, we observe an increase in the local translocation velocity toward the end of the translocation process, consistent with a speeding up due to unfolding of the last part of the DNA blob. We use the velocity profile to estimate the uncertainty in determining the position of a feature along the DNA given its temporal location and demonstrate the error introduced by assuming a constant translocation velocity.