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Nucleic Acids Res. 2018 Nov 20. doi: 10.1093/nar/gky1152. [Epub ahead of print]

Genome-wide mapping of 8-oxo-7,8-dihydro-2'-deoxyguanosine reveals accumulation of oxidatively-generated damage at DNA replication origins within transcribed long genes of mammalian cells.

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Department of Molecular Medicine and Medical Biotechnologies, University of Naples 'Federico II', Naples, Italy.
Interuniversity Consortium for Super Computing CINECA, Rome, Italy.
Department of Chemical Sciences, University of Naples 'Federico II', Naples, Italy.
CEINGE Biotecnologie Avanzate, Naples, Italy.
Masonic Cancer Center, University of Minnesota, Minneapolis, Minnesota, USA.
Department of Experimental Oncology, European Institute of Oncology, Milan, Italy.
Department of Oncology and Hemato-oncology, University of Milano, Milan, Italy.
Department of Biology, University of Naples 'Federico II', Naples, Italy.


8-Oxo-7,8-dihydro-2'-deoxyguanosine (8-oxodG) is one of the major DNA modifications and a potent pre-mutagenic lesion prone to mispair with 2'-deoxyadenosine (dA). Several thousand residues of 8-oxodG are constitutively generated in the genome of mammalian cells, but their genomic distribution has not yet been fully characterized. Here, by using OxiDIP-Seq, a highly sensitive methodology that uses immuno-precipitation with efficient anti-8-oxodG antibodies combined with high-throughput sequencing, we report the genome-wide distribution of 8-oxodG in human non-tumorigenic epithelial breast cells (MCF10A), and mouse embryonic fibroblasts (MEFs). OxiDIP-Seq revealed sites of 8-oxodG accumulation overlapping with ╬│H2AX ChIP-Seq signals within the gene body of transcribed long genes, particularly at the DNA replication origins contained therein. We propose that the presence of persistent single-stranded DNA, as a consequence of transcription-replication clashes at these sites, determines local vulnerability to DNA oxidation and/or its slow repair. This oxidatively-generated damage, likely in combination with other kinds of lesion, might contribute to the formation of DNA double strand breaks and activation of DNA damage response.


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