Transcriptional Bursts in a Nonequilibrium Model for Gene Regulation by Supercoiling

Overview

Journal Biophys J

Publisher Cell Press

Specialty Biophysics

Date 2019 May 20

PMID 31103229

Citations 11

Authors

Marco Ancona

Alessandro Bentivoglio

Chris A Brackley

Giuseppe Gonnella

Davide Marenduzzo

Affiliations

Soon will be listed here.

Abstract

We analyze transcriptional bursting within a stochastic nonequilibrium model, which accounts for the coupling between the dynamics of DNA supercoiling and gene transcription. We find a clear signature of bursty transcription when there is a separation between the timescales of transcription initiation and supercoiling dissipation (the latter may either be diffusive or mediated by topological enzymes, such as type I or type II topoisomerases). In multigenic DNA domains, we observe either bursty transcription or transcription waves; the type of behavior can be selected for by controlling gene activity and orientation. In the bursty phase, the statistics of supercoiling fluctuations at the promoter are markedly non-Gaussian.

Citing Articles

Gene syntax defines supercoiling-mediated transcriptional feedback.

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DNA supercoiling modulates eukaryotic transcription in a gene-orientation dependent manner.

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A genetic circuit on a single DNA molecule as an autonomous dissipative nanodevice.

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DNA supercoiling in bacteria: state of play and challenges from a viewpoint of physics based modeling.

Junier I, Ghobadpour E, Espeli O, Everaers R Front Microbiol. 2023; 14:1192831.

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DNA supercoiling restricts the transcriptional bursting of neighboring eukaryotic genes.

Patel H, Coppola S, Pomp W, Aiello U, Brouwer I, Libri D Mol Cell. 2023; 83(10):1573-1587.e8.

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