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Dynamic properties of independent chromatin domains measured by correlation spectroscopy in living cells

Wachsmuth, Malte ; Knoch, Tobias A. ; Rippe, Karsten

In: Epigenetics & Chromatin, 9 (2016), Nr. 57. pp. 1-20. ISSN 1756-8935

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Download (2MB) | Lizenz: Creative Commons LizenzvertragDynamic properties of independent chromatin domains measured by correlation spectroscopy in living cells by Wachsmuth, Malte ; Knoch, Tobias A. ; Rippe, Karsten underlies the terms of Creative Commons Attribution 3.0 Germany

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Abstract

Background: Genome organization into subchromosomal topologically associating domains (TADs) is linked to cell-type-specific gene expression programs. However, dynamic properties of such domains remain elusive, and it is unclear how domain plasticity modulates genomic accessibility for soluble factors. Results: Here, we combine and compare a high-resolution topology analysis of interacting chromatin loci with fluorescence correlation spectroscopy measurements of domain dynamics in single living cells. We identify topologically and dynamically independent chromatin domains of ~1 Mb in size that are best described by a loop-cluster polymer model. Hydrodynamic relaxation times and gyration radii of domains are larger for open (161 ± 15 ms, 297 ± 9 nm) than for dense chromatin (88 ± 7 ms, 243 ± 6 nm) and increase globally upon chromatin hyperacetylation or ATP depletion. Conclusions: Based on the domain structure and dynamics measurements, we propose a loop-cluster model for chromatin domains. It suggests that the regulation of chromatin accessibility for soluble factors displays a significantly stronger dependence on factor concentration than search processes within a static network.

Item Type: Article
Journal or Publication Title: Epigenetics & Chromatin
Volume: 9
Number: 57
Publisher: BioMed Central
Place of Publication: London
Date Deposited: 04 Jan 2017 13:23
Date: 2016
ISSN: 1756-8935
Page Range: pp. 1-20
Faculties / Institutes: Service facilities > Bioquant
Service facilities > Cluster of Excellence Cellular Networks
Service facilities > German Cancer Research Center (DKFZ)
Service facilities > European Molecular Biology Laboratory (EMBL)
Subjects: 610 Medical sciences Medicine
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