title: A new application of the phase-field method for understanding the mechanisms of nuclear architecture reorganization.
abstract: Specific features of nuclear architecture are important for the functional organization of the nucleus, and chromatin consists of two forms, heterochromatin and euchromatin. Conventional nuclear architecture is observed when heterochromatin is enriched at nuclear periphery, and it represents the primary structure in the majority of eukaryotic cells, including the rod cells of diurnal mammals. In contrast to this, inverted nuclear architecture is observed when the heterochromatin is distributed at the center of the nucleus, which occurs in the rod cells of nocturnal mammals. The inverted architecture found in the rod cells of the adult mouse is formed through the reorganization of conventional architecture during terminal differentiation. Although a previous experimental approach has demonstrated the relationship between these two nuclear architecture types at the molecular level, the mechanisms underlying long-range reorganization processes remain unknown. The details of nuclear structures and their spatial and temporal dynamics remain to be elucidated. Therefore, a comprehensive approach, using mathematical modeling, is required, in order to address these questions. Here, we propose a new mathematical approach to the understanding of nuclear architecture dynamics using the phase-field method. We successfully recreated the process of nuclear architecture reorganization, and showed that it is robustly induced by physical features, independent of a specific genotype. Our study demonstrates the potential of phase-field method application in the life science fields.
authors.affiliation: Department of Mathematical and Life Sciences, Hiroshima University, Kagamiyama 1-3-1, Higashi-Hiroshima, 739-8530, Japan. seirin@hiroshima-u.ac.jp.
authors.forename: S Seirin
authors.initials: SS
authors.lastname: Lee
authors.affiliation: Research Institute for Radiation Biology and Medicine, Hiroshima University, Kasumi 1-2-3, Hiroshima, 734-8553, Japan.|Research Center for the Mathematics on Chromatin Live Dynamics, Hiroshima University, Kagamiyama 1-3-1, Higashi-Hiroshima, 739-8530, Japan.
authors.forename: S
authors.initials: S
authors.lastname: Tashiro
authors.affiliation: Department of Mathematical and Life Sciences and Research Center for the Mathematics on Chromatin Live Dynamics, Hiroshima University, Kagamiyama 1-3-1, Higashi-Hiroshima, 739-8530, Japan.
authors.forename: A
authors.initials: A
authors.lastname: Awazu
authors.affiliation: Department of Mathematical and Life Sciences and Research Center for the Mathematics on Chromatin Live Dynamics, Hiroshima University, Kagamiyama 1-3-1, Higashi-Hiroshima, 739-8530, Japan.
authors.forename: R
authors.initials: R
authors.lastname: Kobayashi
mesh_terms: D000818:Animals; D002467:Cell Nucleus; D022041:Euchromatin / Q000378:metabolism; D006570:Heterochromatin / Q000378:metabolism; D051379:Mice; D008954:Models, Biological; D017948:Retinal Rod Photoreceptor Cells / Q000166:cytology / Q000378:metabolism
chemical_list: D022041:Euchromatin; D006570:Heterochromatin
keywords: Chromatin dynamics; Pattern formation; Phase-field method