Phase transitions in chromatin: mesoscopic and mean-field approaches
Fuente:
arXiv
Saved in:
| Main Authors: | , , |
|---|---|
| Format: | Preprint |
| Published: |
2024
|
| Subjects: | |
| Online Access: | |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1866909322092478464 |
|---|---|
| author | Tiani, Reda Jardat, Marie Dahirel, Vincent |
| author_facet | Tiani, Reda Jardat, Marie Dahirel, Vincent |
| contents | By means of a minimal physical model, we investigate the interplay of two phase transitions at play in chromatin organization: (1) liquid-liquid phase separation (LLPS) within the fluid solvating chromatin, resulting in the formation of biocondensates, and (2) the coil-globule crossover of the chromatin fiber, which drives the condensation or extension of the chain. In our model, a species representing a domain of chromatin is embedded in a binary fluid. This fluid phase separates to form a droplet rich in a macromolecule (B). Chromatin particles are trapped in a harmonic potential to reproduce the coil and globular phases of an isolated polymer chain. We investigate the role of the droplet material B on the radius of gyration of this polymer and find that this radius varies nonmonotonically with respect to the volume fraction of B. This behavior is reminiscent of a phenomenon known as $\textit{co-non-solvency}$: a polymer chain in good solvent (S) may collapse when a second good solvent (here B) is added in low quantity, and expand at higher B concentration. Additionally, the presence of finite-size effects on the coil-globule transition results in a qualitatively different impact of the droplet material on polymers of various sizes. In the context of genetic regulation, our results suggest that the size of chromatin domains and the quantity of condensate proteins are key parameters to control whether chromatin may respond to an increase of the quantity of chromatin-binding proteins by condensing or expanding. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2409_14270 |
| institution | arXiv |
| publishDate | 2024 |
| record_format | arxiv |
| spellingShingle | Phase transitions in chromatin: mesoscopic and mean-field approaches Tiani, Reda Jardat, Marie Dahirel, Vincent Biological Physics Soft Condensed Matter Statistical Mechanics Chemical Physics By means of a minimal physical model, we investigate the interplay of two phase transitions at play in chromatin organization: (1) liquid-liquid phase separation (LLPS) within the fluid solvating chromatin, resulting in the formation of biocondensates, and (2) the coil-globule crossover of the chromatin fiber, which drives the condensation or extension of the chain. In our model, a species representing a domain of chromatin is embedded in a binary fluid. This fluid phase separates to form a droplet rich in a macromolecule (B). Chromatin particles are trapped in a harmonic potential to reproduce the coil and globular phases of an isolated polymer chain. We investigate the role of the droplet material B on the radius of gyration of this polymer and find that this radius varies nonmonotonically with respect to the volume fraction of B. This behavior is reminiscent of a phenomenon known as $\textit{co-non-solvency}$: a polymer chain in good solvent (S) may collapse when a second good solvent (here B) is added in low quantity, and expand at higher B concentration. Additionally, the presence of finite-size effects on the coil-globule transition results in a qualitatively different impact of the droplet material on polymers of various sizes. In the context of genetic regulation, our results suggest that the size of chromatin domains and the quantity of condensate proteins are key parameters to control whether chromatin may respond to an increase of the quantity of chromatin-binding proteins by condensing or expanding. |
| title | Phase transitions in chromatin: mesoscopic and mean-field approaches |
| topic | Biological Physics Soft Condensed Matter Statistical Mechanics Chemical Physics |
| url | https://arxiv.org/abs/2409.14270 |