Genome-wide profiling of 8-oxoguanine reveals its association with spatial positioning in nucleus

Minako Yoshihara, Li Jiang, Shinya Akatsuka, Mikita Suyama, Shinya Toyokuni

    Research output: Contribution to journalArticle

    17 Citations (Scopus)

    Abstract

    8-Oxoguanine (8-oxoG) is one of the most common DNA lesions generated by reactive oxygen species. In this study, we analysed the genome-wide distribution profile of 8-oxoG by combining immunoprecipitation by antibodies specific for the DNA fragments containing 8-oxoG with a microarray that covers rat genome. Genome-wide mapping of 8-oxoG in normal rat kidney revealed that 8-oxoG is preferentially located at gene deserts. We did not observe differences in 8-oxoG levels between groups of genes with high and low expression, possibly because of the generally low 8-oxoG levels in genic regions compared with gene deserts. The distribution of 8-oxoG and lamina-associated domains (LADs) were strongly correlated, suggesting that the spatial location of genomic DNA in the nucleus determines the susceptibility to oxidative modifications. One possible explanation for high 8-oxoG levels in LADs is that the nuclear periphery is more susceptible to the oxidative damage caused by the extra-nuclear factors. Moreover, LADs have a rather compact conformation, which may limit the recruitment of repair components to the modified bases.

    Original languageEnglish
    Pages (from-to)603-612
    Number of pages10
    JournalDNA Research
    Volume21
    Issue number6
    DOIs
    Publication statusPublished - Dec 1 2014

    Fingerprint

    Genome
    DNA
    Genes
    Chromosome Mapping
    Immunoprecipitation
    Reactive Oxygen Species
    Kidney
    Antibodies
    8-hydroxyguanine

    All Science Journal Classification (ASJC) codes

    • Molecular Biology
    • Genetics

    Cite this

    Genome-wide profiling of 8-oxoguanine reveals its association with spatial positioning in nucleus. / Yoshihara, Minako; Jiang, Li; Akatsuka, Shinya; Suyama, Mikita; Toyokuni, Shinya.

    In: DNA Research, Vol. 21, No. 6, 01.12.2014, p. 603-612.

    Research output: Contribution to journalArticle

    Yoshihara, Minako ; Jiang, Li ; Akatsuka, Shinya ; Suyama, Mikita ; Toyokuni, Shinya. / Genome-wide profiling of 8-oxoguanine reveals its association with spatial positioning in nucleus. In: DNA Research. 2014 ; Vol. 21, No. 6. pp. 603-612.
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