Quantifying the mobility of chromatin during embryogenesis: Nuclear size matters

TL;DR

This study demonstrates that nuclear size significantly influences chromatin mobility during embryogenesis, using a novel quantification method and polymer physics modeling to elucidate the underlying mechanisms.

Contribution

We developed a method to quantify intrinsic chromatin motion and showed nuclear size as a key factor, supported by a polymer physics model.

Findings

Chromatin mobility decreases with nuclear size during embryogenesis.

A new method isolates intrinsic chromatin motion from nuclear movement.

Polymer physics models accurately describe the size-mobility relationship.

Abstract

Chromatin moves dynamically inside the cell nucleus, and its motion is often correlated with gene functions such as DNA recombination and transcription. A recent study has shown that during early embryogenesis of the nematode, Caenorhabiditis elegans, the chromatin motion markedly decreases. However, the underlying mechanism for this transition has yet to be elucidated. We systematically investigated the impact of nuclear size to demonstrate that it is indeed a decisive factor in chromatin mobility. To this end, we established a method to quantify chromatin motion inside the nucleus, while excluding the contribution of the movement of the nucleus itself, which allowed us to extract the intrinsic mean-squared displacement (iMSD) of individual chromosomal loci in moving nuclei from the correlated motion of two loci. We show that a simple theoretical description, which takes into account the topological constraints of chromatin polymers, can quantitatively describe the relationship between the nucleus size and the chromatin motion in vivo. Our results emphasize a regulatory role of nuclear size in restricting chromatin motion, and a generic polymer physics model plays a guiding role in capturing this essential feature.