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Condensed but liquid-like domain organization of active chromatin regions in living human cells
In eukaryotes, higher-order chromatin organization is spatiotemporally regulated as domains, for various cellular functions. However, their physical nature in living cells remains unclear (e.g., condensed domains or extended fiber loops; liquid-like or solid-like). Using novel approaches combining g...
Autores principales: | , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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American Association for the Advancement of Science
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10075990/ https://www.ncbi.nlm.nih.gov/pubmed/37018405 http://dx.doi.org/10.1126/sciadv.adf1488 |
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author | Nozaki, Tadasu Shinkai, Soya Ide, Satoru Higashi, Koichi Tamura, Sachiko Shimazoe, Masa A. Nakagawa, Masaki Suzuki, Yutaka Okada, Yasushi Sasai, Masaki Onami, Shuichi Kurokawa, Ken Iida, Shiori Maeshima, Kazuhiro |
author_facet | Nozaki, Tadasu Shinkai, Soya Ide, Satoru Higashi, Koichi Tamura, Sachiko Shimazoe, Masa A. Nakagawa, Masaki Suzuki, Yutaka Okada, Yasushi Sasai, Masaki Onami, Shuichi Kurokawa, Ken Iida, Shiori Maeshima, Kazuhiro |
author_sort | Nozaki, Tadasu |
collection | PubMed |
description | In eukaryotes, higher-order chromatin organization is spatiotemporally regulated as domains, for various cellular functions. However, their physical nature in living cells remains unclear (e.g., condensed domains or extended fiber loops; liquid-like or solid-like). Using novel approaches combining genomics, single-nucleosome imaging, and computational modeling, we investigated the physical organization and behavior of early DNA replicated regions in human cells, which correspond to Hi-C contact domains with active chromatin marks. Motion correlation analysis of two neighbor nucleosomes shows that nucleosomes form physically condensed domains with ~150-nm diameters, even in active chromatin regions. The mean-square displacement analysis between two neighbor nucleosomes demonstrates that nucleosomes behave like a liquid in the condensed domain on the ~150 nm/~0.5 s spatiotemporal scale, which facilitates chromatin accessibility. Beyond the micrometers/minutes scale, chromatin seems solid-like, which may contribute to maintaining genome integrity. Our study reveals the viscoelastic principle of the chromatin polymer; chromatin is locally dynamic and reactive but globally stable. |
format | Online Article Text |
id | pubmed-10075990 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | American Association for the Advancement of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-100759902023-04-06 Condensed but liquid-like domain organization of active chromatin regions in living human cells Nozaki, Tadasu Shinkai, Soya Ide, Satoru Higashi, Koichi Tamura, Sachiko Shimazoe, Masa A. Nakagawa, Masaki Suzuki, Yutaka Okada, Yasushi Sasai, Masaki Onami, Shuichi Kurokawa, Ken Iida, Shiori Maeshima, Kazuhiro Sci Adv Biomedicine and Life Sciences In eukaryotes, higher-order chromatin organization is spatiotemporally regulated as domains, for various cellular functions. However, their physical nature in living cells remains unclear (e.g., condensed domains or extended fiber loops; liquid-like or solid-like). Using novel approaches combining genomics, single-nucleosome imaging, and computational modeling, we investigated the physical organization and behavior of early DNA replicated regions in human cells, which correspond to Hi-C contact domains with active chromatin marks. Motion correlation analysis of two neighbor nucleosomes shows that nucleosomes form physically condensed domains with ~150-nm diameters, even in active chromatin regions. The mean-square displacement analysis between two neighbor nucleosomes demonstrates that nucleosomes behave like a liquid in the condensed domain on the ~150 nm/~0.5 s spatiotemporal scale, which facilitates chromatin accessibility. Beyond the micrometers/minutes scale, chromatin seems solid-like, which may contribute to maintaining genome integrity. Our study reveals the viscoelastic principle of the chromatin polymer; chromatin is locally dynamic and reactive but globally stable. American Association for the Advancement of Science 2023-04-05 /pmc/articles/PMC10075990/ /pubmed/37018405 http://dx.doi.org/10.1126/sciadv.adf1488 Text en Copyright © 2023 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works. Distributed under a Creative Commons Attribution NonCommercial License 4.0 (CC BY-NC). https://creativecommons.org/licenses/by-nc/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial license (https://creativecommons.org/licenses/by-nc/4.0/) , which permits use, distribution, and reproduction in any medium, so long as the resultant use is not for commercial advantage and provided the original work is properly cited. |
spellingShingle | Biomedicine and Life Sciences Nozaki, Tadasu Shinkai, Soya Ide, Satoru Higashi, Koichi Tamura, Sachiko Shimazoe, Masa A. Nakagawa, Masaki Suzuki, Yutaka Okada, Yasushi Sasai, Masaki Onami, Shuichi Kurokawa, Ken Iida, Shiori Maeshima, Kazuhiro Condensed but liquid-like domain organization of active chromatin regions in living human cells |
title | Condensed but liquid-like domain organization of active chromatin regions in living human cells |
title_full | Condensed but liquid-like domain organization of active chromatin regions in living human cells |
title_fullStr | Condensed but liquid-like domain organization of active chromatin regions in living human cells |
title_full_unstemmed | Condensed but liquid-like domain organization of active chromatin regions in living human cells |
title_short | Condensed but liquid-like domain organization of active chromatin regions in living human cells |
title_sort | condensed but liquid-like domain organization of active chromatin regions in living human cells |
topic | Biomedicine and Life Sciences |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10075990/ https://www.ncbi.nlm.nih.gov/pubmed/37018405 http://dx.doi.org/10.1126/sciadv.adf1488 |
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