Nucleosome spacing can fine-tune higher-order chromatin assembly.
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| Formato: | Artículo científico |
| Lenguaje: | en |
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Nature communications
2025
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| author | Chen, Lifeng Maristany, M Julia Farr, Stephen E Luo, Jinyue Gibson, Bryan A Doolittle, Lynda K Espinosa, Jorge R Huertas, Jan Redding, Sy Collepardo-Guevara, Rosana Rosen, Michael K |
| author_facet | Chen, Lifeng Maristany, M Julia Farr, Stephen E Luo, Jinyue Gibson, Bryan A Doolittle, Lynda K Espinosa, Jorge R Huertas, Jan Redding, Sy Collepardo-Guevara, Rosana Rosen, Michael K Chen, Lifeng Maristany, M Julia Farr, Stephen E Luo, Jinyue Gibson, Bryan A Doolittle, Lynda K Espinosa, Jorge R Huertas, Jan Redding, Sy Collepardo-Guevara, Rosana Rosen, Michael K |
| collection | PubMed - marine biology |
| contents | Nucleosome spacing can fine-tune higher-order chromatin assembly. Chen, Lifeng Maristany, M Julia Farr, Stephen E Luo, Jinyue Gibson, Bryan A Doolittle, Lynda K Espinosa, Jorge R Huertas, Jan Redding, Sy Collepardo-Guevara, Rosana Rosen, Michael K Nucleosomes Chromatin Assembly and Disassembly Molecular Dynamics Simulation Chromatin DNA Thermodynamics Cellular chromatin displays heterogeneous structure and dynamics, properties that control diverse nuclear processes. Models invoke phase separation of conformational ensembles of chromatin fibers as a mechanism regulating chromatin organization in vivo. Here we combine biochemistry and molecular dynamics simulations to examine, at single base-pair resolution, how nucleosome spacing controls chromatin phase separation. We show that as DNA linkers extend from 25 bp to 30 bp, as exemplars of 10 N + 5 and 10 N (integer N) bp lengths, chromatin condensates become less thermodynamically stable and nucleosome mobility increases. Simulations reveal that this is due to trade-offs between inter- and intramolecular nucleosome stacking, favored by rigid 10 N + 5 and 10 N bp linkers, respectively. A remodeler can induce or inhibit phase separation by moving nucleosomes, changing the balance between intra- and intermolecular stacking. The intrinsic phase separation capacity of chromatin enables fine tuning of compaction and dynamics, likely contributing to heterogeneous chromatin organization in vivo. |
| format | Artículo científico |
| id | pubmed_40628730 |
| institution | PubMed |
| language | en |
| publishDate | 2025 |
| publisher | Nature communications |
| record_format | pubmed |
| spellingShingle | Nucleosome spacing can fine-tune higher-order chromatin assembly. Chen, Lifeng Maristany, M Julia Farr, Stephen E Luo, Jinyue Gibson, Bryan A Doolittle, Lynda K Espinosa, Jorge R Huertas, Jan Redding, Sy Collepardo-Guevara, Rosana Rosen, Michael K Nucleosomes Chromatin Assembly and Disassembly Molecular Dynamics Simulation Chromatin DNA Thermodynamics Nucleosome spacing can fine-tune higher-order chromatin assembly. Chen, Lifeng Maristany, M Julia Farr, Stephen E Luo, Jinyue Gibson, Bryan A Doolittle, Lynda K Espinosa, Jorge R Huertas, Jan Redding, Sy Collepardo-Guevara, Rosana Rosen, Michael K Nucleosomes Chromatin Assembly and Disassembly Molecular Dynamics Simulation Chromatin DNA Thermodynamics Cellular chromatin displays heterogeneous structure and dynamics, properties that control diverse nuclear processes. Models invoke phase separation of conformational ensembles of chromatin fibers as a mechanism regulating chromatin organization in vivo. Here we combine biochemistry and molecular dynamics simulations to examine, at single base-pair resolution, how nucleosome spacing controls chromatin phase separation. We show that as DNA linkers extend from 25 bp to 30 bp, as exemplars of 10 N + 5 and 10 N (integer N) bp lengths, chromatin condensates become less thermodynamically stable and nucleosome mobility increases. Simulations reveal that this is due to trade-offs between inter- and intramolecular nucleosome stacking, favored by rigid 10 N + 5 and 10 N bp linkers, respectively. A remodeler can induce or inhibit phase separation by moving nucleosomes, changing the balance between intra- and intermolecular stacking. The intrinsic phase separation capacity of chromatin enables fine tuning of compaction and dynamics, likely contributing to heterogeneous chromatin organization in vivo. |
| title | Nucleosome spacing can fine-tune higher-order chromatin assembly. |
| topic | Nucleosomes Chromatin Assembly and Disassembly Molecular Dynamics Simulation Chromatin DNA Thermodynamics |
| url | https://pubmed.ncbi.nlm.nih.gov/40628730/ |