When deoxyribonucleic (DNA), held at a fixed tension, is subjected to torsional deformations, it responds by forming plectonemic supercoils accompanied by a reduction in its end-to-end extension. This transition from the extended state to the supercoiled state is marked by an abrupt buckling of the DNA accompanied by a rapid “hopping” of the DNA between the extended and supercoiled states. This transition is studied by means of Brownian dynamics simulations using a discrete wormlike-chain (dWLC) model of DNA. The simulations reveal, among other things, the distinct regimes that occur during DNA supercoiling and the probabilities of states within the buckling transition regime.
Modeling the Abrupt Buckling Transition in dsDNA During Supercoiling
Contributed by the Design Engineering Division of ASME for publication in the JOURNAL OF COMPUTATIONAL AND NONLINEAR DYNAMICS. Manuscript received September 30, 2015; final manuscript received May 16, 2016; published online June 22, 2016. Assoc. Editor: Firdaus Udwadia.
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Ivenso, I. D. (June 22, 2016). "Modeling the Abrupt Buckling Transition in dsDNA During Supercoiling." ASME. J. Comput. Nonlinear Dynam. November 2016; 11(6): 061003. https://doi.org/10.1115/1.4033308
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