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Nucleosome remodeling at origins of global genome?nucleotide excision repair occurs at the boundaries of higher-order chromatin structure

van Eijk, Patrick, Nandi, Shuvro Prokash, Yu, Shirong, Bennett, Mark, Leadbitter, Matthew, Teng, Yumin and Reed, Simon H. 2018. Nucleosome remodeling at origins of global genome?nucleotide excision repair occurs at the boundaries of higher-order chromatin structure. Genome Research 29 (1) , pp. 74-84. 10.1101/gr.237198.118

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Abstract

Repair of UV-induced DNA damage requires chromatin remodeling. How repair is initiated in chromatin remains largely unknown. We recently demonstrated that global genome–nucleotide excision repair (GG-NER) in chromatin is organized into domains in relation to open reading frames. Here, we define these domains, identifying the genomic locations from which repair is initiated. By examining DNA damage–induced changes in the linear structure of nucleosomes at these sites, we demonstrate how chromatin remodeling is initiated during GG-NER. In undamaged cells, we show that the GG-NER complex occupies chromatin, establishing the nucleosome structure at these genomic locations, which we refer to as GG-NER complex binding sites (GCBSs). We demonstrate that these sites are frequently located at genomic boundaries that delineate chromosomally interacting domains (CIDs). These boundaries define domains of higher-order nucleosome–nucleosome interaction. We demonstrate that initiation of GG-NER in chromatin is accompanied by the disruption of dynamic nucleosomes that flank GCBSs by the GG-NER complex

Item Type: Article
Date Type: Published Online
Status: Published
Schools: Medicine
Advanced Research Computing @ Cardiff (ARCCA)
Publisher: Cold Spring Harbor Laboratory Press
ISSN: 1088-9051
Date of First Compliant Deposit: 14 January 2019
Date of Acceptance: 7 November 2018
Last Modified: 29 Nov 2019 01:11
URI: http://orca.cf.ac.uk/id/eprint/118369

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