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The role of Insulators and transcription in 3D chromatin organisation of flies

Chathoth, Keerthi and Mikheeva, Liudmila and Crevel, Gilles and Wolfe, Jareth and Hunter, Ioni and Beckett-Doyle, Saskia and Cotterill, Sue and Dai, Hongsheng and Harrison, Andrew and Zabet, Nicolae (2022) 'The role of Insulators and transcription in 3D chromatin organisation of flies.' Genome Research, 32 (4). pp. 682-698. ISSN 1054-9803 (In Press)

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Abstract

The DNA in many organisms, including humans, is shown to be organised in topologically associating domains (TADs). In Drosophila, several architectural proteins are enriched at TAD borders, but it is still unclear whether these proteins play a functional role in the formation and maintenance of TADs. Here, we show that depletion of BEAF-32, Cp190, Chro and Dref leads to changes in TAD organisation and chromatin loops. Their depletion predominantly affects TAD borders located in regions moderately enriched in repressive modifications and depleted in active ones, while TAD borders located in euchromatin are resilient to these knockdowns. Furthermore, transcriptomic data has revealed hundreds of genes displaying differential expression in these knockdowns and showed that the majority of differentially expressed genes are located within reorganised TADs. Our work identifies a novel and functional role for architectural proteins at TAD borders in Drosophila and a link between TAD reorganisation and subsequent changes in gene expression.

Item Type: Article
Additional Information: supplementary material available at https://genome.cshlp.org/content/early/2022/03/30/gr.275809.121/suppl/DC1
Uncontrolled Keywords: Chromosomes; Chromatin; Animals; Drosophila; Drosophila melanogaster; Microtubule-Associated Proteins; DNA-Binding Proteins; Eye Proteins; Drosophila Proteins; Nuclear Proteins; Transcription Factors
Divisions: Faculty of Science and Health
Faculty of Science and Health > Mathematical Sciences, Department of
SWORD Depositor: Elements
Depositing User: Elements
Date Deposited: 01 Apr 2022 10:11
Last Modified: 22 Apr 2022 23:33
URI: http://repository.essex.ac.uk/id/eprint/32655

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