ArticleNature communications2021
Chromatin network retards nucleoli coalescence.
Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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Who cites it
41 citing papers in PubMed.
- Computational rheometry for modeling viscoelasticity and mechanical responses of biomolecular condensates.Biophysical journal · 2026Article
- Investigating Phase Separation in Genome Folding via Multiscale Computational Modeling.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Review
- Mixing protocols determine liquid-liquid phase separation dynamics in polyelectrolyte complex coacervation.Nature communications · 2026Article
- Canine parvovirus infection affects host cell nucleolar organization and ribosome biogenesis.Communications biology · 2026Article
- Decoding the role of DNA sequence on protein-DNA co-condensation.PLoS computational biology · 2025Article
- Tuning nuclear rheology through transient chromatin cross-links.Physical review. E · 2025Article
- Hierarchical interactions between nucleolar and heterochromatin condensates are mediated by a dual-affinity protein.Nature cell biology · 2025Article
- Endocrine Examples of Phase Separation in Biology.Endocrinology · 2025Review
- Computational rheometry of viscoelastic networks: From random graphs to biomolecular condensates.bioRxiv : the preprint server for biology · 2025Article
- Understanding and Simulating the Dynamics of a Polymer-Like Chromatin.Methods in molecular biology (Clifton, N.J.) · 2025Review
- The Role of Lamins in Genome Organisation: A Modelling Perspective.Sub-cellular biochemistry · 2025Review
- In situ formation of biomolecular condensates as intracellular drug reservoirs for augmenting chemotherapy.Nature biomedical engineering · 2024Article
- Article
- Dan forms condensates in neuroblasts and regulates nuclear architecture and progenitor competence in vivo.Nature communications · 2024Article
- Anomalous coarsening of coalescing nucleoli in human cells.Biophysical journal · 2024Article
- Transient crosslinking controls the condensate formation pathway within chromatin networks.Physical review. E · 2024Article
- OpenNucleome for high resolution nuclear structural and dynamical modeling.bioRxiv : the preprint server for biology · 2024Article
- MDM2 provides TOP2 poison resistance by promoting proteolysis of TOP2βcc in a p53-independent manner.Cell death & disease · 2024Article
- Dynamical control enables the formation of demixed biomolecular condensates.Nature communications · 2023Article
- Liquid-liquid phase separation within fibrillar networks.Nature communications · 2023Article
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2 authors.
Funding
Abstract
Nuclear bodies are membraneless condensates that may form via liquid-liquid phase separation. The viscoelastic chromatin network could impact their stability and may hold the key for understanding experimental observations that defy predictions of classical theories. However, quantitative studies on the role of the chromatin network in phase separation have remained challenging. Using a diploid human genome model parameterized with chromosome conformation capture (Hi-C) data, we study the thermodynamics and kinetics of nucleoli formation. Dynamical simulations predict the formation of multiple droplets for nucleolar particles that experience specific interactions with nucleolus-associated domains (NADs). Coarsening dynamics, surface tension, and coalescence kinetics of the simulated droplets are all in quantitative agreement with experimental measurements for nucleoli. Free energy calculations further support that a two-droplet state, often observed for nucleoli in somatic cells, is metastable and separated from the single-droplet state with an entropic barrier. Our study suggests that nucleoli-chromatin interactions facilitate droplets' nucleation but hinder their coarsening due to the coupled motion between droplets and the chromatin network: as droplets coalesce, the chromatin network becomes increasingly constrained. Therefore, the chromatin network supports a nucleation and arrest mechanism to stabilize the multi-droplet state for nucleoli and possibly for other nuclear bodies.
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