High-resolution characterization of CPD hotspot formation in human fibroblasts

Anamaria G Zavala; Robert T Morris; John J Wyrick; Michael J Smerdon

doi:10.1093/nar/gkt912

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High-resolution characterization of CPD hotspot formation in human fibroblasts

Journal article

Open access

Peer reviewed

High-resolution characterization of CPD hotspot formation in human fibroblasts

Anamaria G Zavala, Robert T Morris, John J Wyrick and Michael J Smerdon

Nucleic acids research, Vol.42(2), pp.893-905

01/2014

DOI: https://doi.org/10.1093/nar/gkt912

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https://hdl.handle.net/2376/107723

PMCID: PMC3902913

PMID: 24137003

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Abstract

Genome Integrity, Repair and

Repair of DNA lesions must occur within the chromatin landscape and is associated with alterations in histone modifications and nucleosome rearrangement. To directly associate these chromatin features with DNA damage and repair, it is necessary to be able to map DNA adducts. We have developed a cyclobutane pyrimidine dimer (CPD)-specific immunoprecipitation method and mapped ultraviolet damage hotspots across human chromosomes 1 and 6. CPD hotspots occur almost equally in genic and intergenic regions. However, these hotspots are significantly more prevalent adjacent to repeat elements, especially Alu repeats. Nucleosome mapping studies indicate that nucleosomes are consistently positioned at Alu elements where CPD hotspots form, but by 2 h post-irradiation, these same regions are significantly depleted of nucleosomes. These results indicate that nucleosomes associated with hotspots of CPD formation are readily rearranged, potentially making them accessible to DNA repair machinery. Our results represent the first chromosome scale map of ultraviolet-induced DNA lesions in the human genome, and reveal the sequence features and dynamic chromatin changes associated with CPD hotspots.

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Title: High-resolution characterization of CPD hotspot formation in human fibroblasts
Creators: Anamaria G Zavala - Biochemistry and Biophysics, School of Molecular Biosciences, Washington State University, Pullman, Washington 99164-7520, USA
Robert T Morris - Biochemistry and Biophysics, School of Molecular Biosciences, Washington State University, Pullman, Washington 99164-7520, USA
John J Wyrick - Biochemistry and Biophysics, School of Molecular Biosciences, Washington State University, Pullman, Washington 99164-7520, USA
Michael J Smerdon - Biochemistry and Biophysics, School of Molecular Biosciences, Washington State University, Pullman, Washington 99164-7520, USA
Publication Details: Nucleic acids research, Vol.42(2), pp.893-905
Academic Unit: Molecular Biosciences, School of
Publisher: Oxford University Press
Identifiers: 99900546940101842
Language: English
Resource Type: Journal article