Non-equilibrium phase transition in a model for supercoiling-dependent DNA transcription

Soft Matter. 2018 May 9;14(18):3632-3639. doi: 10.1039/c7sm02452e.

Abstract

We study a variant of a recently proposed non-equilibrium stochastic model for supercoiling-dependent transcription in DNA. In the case of a circular DNA molecule with overall positive supercoiling, we find a non-equilibrium phase transition between an absorbing phase, where all genes are switched off due to the supercoiling, and an active phase with a non-zero transcription rate. Mean field theory predicts that the transition should be continuous at a critical value of the background supercoiling, and we focus our analysis on this case. Our simulations suggest that the switch between the transcribed and silent phases may actually be a fluctuation-induced discontinuous transition, where the jump in the transcription rate decreases with the number of genes in the system.

MeSH terms

  • DNA, Superhelical / chemistry*
  • DNA, Superhelical / genetics*
  • Models, Genetic*
  • Phase Transition
  • Transcription, Genetic*

Substances

  • DNA, Superhelical