Journal article
Low- and High-Resolution Mapping of DNA Damage at Specific Sites
Methods (San Diego, Calif.), Vol.22(2), pp.170-179
10/2000
Handle:
https://hdl.handle.net/2376/107998
PMID: 11020332
Abstract
Measurement of DNA damage and repair at the nucleotide level in intact cells has provided compelling evidence for the molecular details of these events as they occur in intact organisms. Furthermore, these measurements give the most accurate picture of the rates of repair in different structural domains of DNA in chromatin. In this report, we describe two methods currently used in our laboratories to map DNA lesions at (or near) nucleotide resolution in yeast cells. The low-resolution method couples damage-specific strand breaks in DNA with indirect end-labeling to measure DNA lesions over a span of 1.5 to 2 kb of DNA sequence. The resolution of this method is limited by the resolution of DNA length measurements on alkaline agarose gels (about ±20 bp on average). The high-resolution method uses streptavidin magnetic beads and special biotinylated oligonucleotides to facilitate end-labeling of DNA fragments specifically cleaved at damage sites. The latter method maps DNA damage sites at nucleotide resolution over a shorter distance (<500 bp), and is constrained to the length of DNA resolvable on DNA sequencing gels. These methods are used in tandem for answering questions regarding DNA damage and repair in different chromatin domains and states of gene expression.
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Details
- Title
- Low- and High-Resolution Mapping of DNA Damage at Specific Sites
- Creators
- Shisheng Li - Biochemistry and Biophysics, School of Molecular Biosciences, Washington State University, Pullman, Washington, 99164-4660Raymond Waters - Molecular Biology Group, School of Biological Sciences, University of Wales Swansea, Swansea, SA2 8PP, United KingdomMichael J Smerdon - Biochemistry and Biophysics, School of Molecular Biosciences, Washington State University, Pullman, Washington, 99164-4660
- Publication Details
- Methods (San Diego, Calif.), Vol.22(2), pp.170-179
- Academic Unit
- Molecular Biosciences, School of
- Publisher
- Elsevier Inc
- Identifiers
- 99900547750701842
- Language
- English
- Resource Type
- Journal article