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24 April 2024 |
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Nanoconfined circular and linear DNA - equilibrium conformations and unfolding kinetics | | M. Alizadehheidari
; E. Werner
; C. Noble
; M. Reiter-Schad
; L. K. Nyberg
; J. Fritzsche
; B. Mehlig
; J. O. Tegenfeldt
; T. Ambjörnsson
; F. Persson
; F. Westerlund
; | | Date: |
3 May 2016 | | Abstract: | Studies of circular DNA confined to nanofluidic channels are relevant both
from a fundamental polymer-physics perspective and due to the importance of
circular DNA molecules in vivo. We here observe the unfolding of DNA from the
circular to linear configuration as a light-induced double strand break occurs,
characterize the dynamics, and compare the equilibrium conformational
statistics of linear and circular configurations. This is important because it
allows us to determine to which extent existing statistical theories describe
the extension of confined circular DNA. We find that the ratio of the
extensions of confined linear and circular DNA configurations increases as the
buffer concentration decreases. The experimental results fall between
theoretical predictions for the extended de Gennes regime at weaker confinement
and the Odijk regime at stronger confinement. We show that it is possible to
directly distinguish between circular and linear DNA molecules by measuring the
emission intensity from the DNA. Finally, we determine the rate of unfolding
and show that this rate is larger for more confined DNA, possibly reflecting
the corresponding larger difference in entropy between the circular and linear
configurations. | | Source: | arXiv, 1605.0886 | | Services: | Forum | Review | PDF | Favorites | |
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