HAL will be down for maintenance from Friday, June 10 at 4pm through Monday, June 13 at 9am. More information
Skip to Main content Skip to Navigation
Preprints, Working Papers, ...

A Genome-Wide Evolutionary Simulation of the Transcription-Supercoiling Coupling: extended version

Théotime Grohens 1, 2 Sam Meyer 3 Guillaume Beslon 1, 2
1 BEAGLE - Artificial Evolution and Computational Biology
LIRIS - Laboratoire d'InfoRmatique en Image et Systèmes d'information, Inria Grenoble - Rhône-Alpes, LBBE - Laboratoire de Biométrie et Biologie Evolutive - UMR 5558
2 BEAGLE - Artificial Evolution and Computational Biology
LIRIS - Laboratoire d'InfoRmatique en Image et Systèmes d'information, Inria Lyon
3 CRP - Chromatine et Régulation de la Pathogénie bactérienne
MAP - Microbiologie, adaptation et pathogénie
Abstract : DNA supercoiling, the level of under-or overwinding of the DNA polymer around itself, is widely recognized as an ancestral regulation mechanism of gene expression in bacteria. Higher levels of negative supercoiling facilitate the opening of the DNA double helix at gene promoters, and thereby increase gene transcription rates. Different levels of supercoiling have been measured in bacteria exposed to different environments, leading to the hypothesis that variations in supercoiling could be a response to changes in the environment. Moreover, DNA transcription has been shown to generate local variations in the supercoiling level, and therefore to impact the transcription rate of neighboring genes. In this work, we study the coupled dynamics of DNA supercoiling and transcription at the genome scale. We implement a genome-wide model of gene expression based on the transcription-supercoiling coupling. We show that, in this model, a simple change in global DNA supercoiling is sufficient to trigger differentiated responses in gene expression levels via the transcription-supercoiling coupling. Then, studying our model in the light of evolution, we demonstrate that this non-linear response to different environments, mediated by the transcription-supercoiling coupling, can serve as the basis for the evolution of specialized phenotypes.
Document type :
Preprints, Working Papers, ...
Complete list of metadata

https://hal.archives-ouvertes.fr/hal-03667822
Contributor : Théotime Grohens Connect in order to contact the contributor
Submitted on : Friday, May 13, 2022 - 4:16:41 PM
Last modification on : Tuesday, May 17, 2022 - 3:54:23 PM

File

GROHENS.pdf
Files produced by the author(s)

Identifiers

  • HAL Id : hal-03667822, version 1

Citation

Théotime Grohens, Sam Meyer, Guillaume Beslon. A Genome-Wide Evolutionary Simulation of the Transcription-Supercoiling Coupling: extended version. 2022. ⟨hal-03667822⟩

Share

Metrics

Record views

0

Files downloads

0