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The hierarchical packing of euchromatin domains can be described as multiplicative cascades

Noa, Amra 1,2; Kuan, Hui-Shun; Aschmann, Vera 3; Zaburdaev, Vasily; Hilbert, Lennart ORCID iD icon 1,2,4
1 Institut für Technik der Informationsverarbeitung (ITIV), Karlsruher Institut für Technologie (KIT)
2 Institut für Biologische und Chemische Systeme (IBCS), Karlsruher Institut für Technologie (KIT)
3 Fakultät für Chemie und Biowissenschaften (CHEM-BIO), Karlsruher Institut für Technologie (KIT)
4 Zoologisches Institut (ZOO), Karlsruher Institut für Technologie (KIT)

Abstract:

The genome is packed into the cell nucleus in the form of chromatin. Biochemical approaches have revealed that chromatin is packed within domains, which group into larger domains, and so forth. Such hierarchical packing is equally visible in super-resolution microscopy images of large-scale chromatin organization. While previous work has suggested that chromatin is partitioned into distinct domains via microphase separation, it is unclear how these domains organize into this hierarchical packing. A particular challenge is to find an image analysis approach that fully incorporates such hierarchical packing, so that hypothetical governing mechanisms of euchromatin packing can be compared against the results of such an analysis. Here, we obtain 3D STED super-resolution images from pluripotent zebrafish embryos labeled with improved DNA fluorescence stains, and demonstrate how the hierarchical packing of euchromatin in these images can be described as multiplicative cascades. Multiplicative cascades are an established theoretical concept to describe the placement of ever-smaller structures within bigger structures. Importantly, these cascades can generate artificial image data by applying a single rule again and again, and can be fully specified using only four parameters. ... mehr


Verlagsausgabe §
DOI: 10.5445/IR/1000132414/pub
Veröffentlicht am 23.08.2022
Postprint §
DOI: 10.5445/IR/1000132414
Veröffentlicht am 06.05.2021
Originalveröffentlichung
DOI: 10.1371/journal.pcbi.1008974
Scopus
Zitationen: 3
Web of Science
Zitationen: 3
Dimensions
Zitationen: 4
Cover der Publikation
Zugehörige Institution(en) am KIT Institut für Biologische und Chemische Systeme (IBCS)
Zoologisches Institut (ZOO)
Publikationstyp Zeitschriftenaufsatz
Publikationsjahr 2021
Sprache Englisch
Identifikator ISSN: 1553-7358
KITopen-ID: 1000132414
HGF-Programm 47.14.02 (POF IV, LK 01) Information Storage and Processing in the Cell Nucleus
Erschienen in PLoS Computational Biology
Verlag Public Library of Science (PLoS)
Band 17
Heft 5
Seiten e1008974
Bemerkung zur Veröffentlichung Gefördert durch den KIT-Publikationsfonds
Vorab online veröffentlicht am 05.05.2021
Nachgewiesen in Scopus
Dimensions
Web of Science
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