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dc.contributor.authorHesselberth, Jay R.
dc.contributor.authorRansom, Monica
dc.contributor.authorAdane, Biniam
dc.contributor.authorYork, Kerri
dc.contributor.authorBryan, Debra Suzi
dc.coverage.spatialAurora, (Colo.)
dc.date2014-07-11
dc.date.accessioned2007-01-03T07:03:45Z
dc.date.available2007-01-03T07:03:45Z
dc.identifierCUHSLOAP_M102.pdf
dc.identifier.citationBryan, Debra Suzi ; Ransom, Monica ; Adane, Biniam ; York, Kerri ; Hesselberth, Jay R., High resolution mapping of modified DNA nucleobases using excision repair enzymes. Genome Research. Cold Spring Harbor Laboratory Press. doi:10.1101/gr.174052.114
dc.identifier.urihttp://hdl.handle.net/10968/636
dc.identifier.urihttp://dx.doi.org/doi:10.1101/gr.174052.114
dc.descriptionThe incorporation and creation of modified nucleobases in DNA have profound effects on genome function. We describe methods for mapping positions and local content of modified DNA nucleobases in genomic DNA. We combined in vitro nucleobase excision with massively parallel DNA sequencing (Excision-seq) to determine the locations of modified nucleobases in genomic DNA. We applied the Excision-seq method to map uracil in E. coli and budding yeast, and discovered significant variation in uracil content wherein uracil is exluded from the earliest and latest replication regions of the genome, possibly driven by changes in nucleotide pool composition. We also used Excision-seq to identify sites of pyrimidine dimer formation induced by UV light exposure, where the method could distinguish between sites of cyclobutane and 6-4 photoproduct formation. These UV mapping data enabled analysis of local sequence bias around pyrimidine dimers and suggested a preference for an adenosine downstream of 6-4 photoproducts. The Excision-seq method is broadly applicable for high precision, genome-wide mapping of modified nucleobases with cognate repair enzymes.
dc.languageEnglish
dc.language.isoeng
dc.publisherUniversity of Colorado Anschutz Medical Campus. Strauss Health Sciences Library
dc.relation.isformatofPrint #M102. High resolution mapping of modified DNA nucleobases using excision repair enzymes. 11 July 2014
dc.relation.ispartofHealth Sciences Library Photograph Collection and Special Collections, University of Colorado Anschutz Medical Campus; Publications.
dc.rightsCopyright of the original work is retained by the author(s). This article was created with the support of the Open Access Fund Program, formerly available through the Strauss Health Sciences Library, an initiative that helped to finance the author processing fees of OA journals.
dc.rightsThis manuscript is Open Access. This article, published in Genome Research, is available under a Creative Commons License (Attribution 4.0 International license), as described at https://creativecommons.org/licenses/by/4.0/.
dc.subject.meshDNA Damage
dc.subject.meshDNA Repair
dc.titleHigh resolution mapping of modified DNA nucleobases using excision repair enzymes
dc.typeArticle
dc.publisher.originalGenome Research. Cold Spring Harbor Laboratory Press


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