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Genomic 3D compartments emerge from unfolding mitotic chromosomes
Umeå University, Faculty of Science and Technology, Department of Physics.ORCID iD: 0000-0002-7268-9519
Umeå University, Faculty of Science and Technology, Department of Physics.
Umeå University, Faculty of Science and Technology, Department of Ecology and Environmental Sciences. Division of CBRN Security and Defence, FOI-Swedish Defence Research Agency, Umeå, Sweden.
2019 (English)In: Chromosoma, ISSN 0009-5915, E-ISSN 1432-0886, Vol. 128, no 1, p. 15-20Article in journal (Refereed) Published
Abstract [en]

The 3D organisation of the genome in interphase cells is not a randomly folded polymer. Rather, experiments show that chromosomes arrange into a network of 3D compartments that correlate with biological processes, such as transcription, chromatin modifications and protein binding. However, these compartments do not exist during cell division when the DNA is condensed, and it is unclear how and when they emerge. In this paper, we focus on the early stages after cell division as the chromosomes start to decondense. We use a simple polymer model to understand the types of 3D structures that emerge from local unfolding of a compact initial state. From simulations, we recover 3D compartments, such as TADs and A/B compartments that are consistently detected in chromosome capture experiments across cell types and organisms. This suggests that the large-scale 3D organisation is a result of an inflation process.

Place, publisher, year, edition, pages
Springer, 2019. Vol. 128, no 1, p. 15-20
Keywords [en]
Nuclear structure, Polymer simulation, Chromosome decondensation, Hi-C
National Category
Biochemistry and Molecular Biology
Identifiers
URN: urn:nbn:se:umu:diva-157199DOI: 10.1007/s00412-018-0684-7ISI: 000459275000003PubMedID: 30357462OAI: oai:DiVA.org:umu-157199DiVA, id: diva2:1303120
Available from: 2019-04-08 Created: 2019-04-08 Last updated: 2019-09-05Bibliographically approved

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Kumar, RajendraLizana, LudvigStenberg, Per

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