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

Yoshihara M, Jiang L, Akatsuka S, Suyama M, Toyokuni S - DNA Res. (2014)

Bottom Line: 8-Oxoguanine (8-oxoG) is one of the most common DNA lesions generated by reactive oxygen species.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.

View Article: PubMed Central - PubMed

Affiliation: Medical Institute of Bioregulation, Kyushu University, Maidashi 3-1-1, Higashi-ku, Fukuoka 812-8582, Japan Department of Pathology and Biology of Diseases, Graduate School of Medicine, Kyoto University, Kyoto 606-8501, Japan.

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A representative genomic region showing 8-oxoG profile with gene annotation. The vertical axis corresponds to log2 intensity of the array data. The distribution profile of 8-oxoG was calculated by averaging the intensities over a 1 Mb sliding window. Gene structures are shown below the 8-oxoG profile. The directionality of the genes, i.e. forward and reverse orientation, is shown in green and red, respectively.
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DSU023F3: A representative genomic region showing 8-oxoG profile with gene annotation. The vertical axis corresponds to log2 intensity of the array data. The distribution profile of 8-oxoG was calculated by averaging the intensities over a 1 Mb sliding window. Gene structures are shown below the 8-oxoG profile. The directionality of the genes, i.e. forward and reverse orientation, is shown in green and red, respectively.

Mentions: To explore the distribution of 8-oxoG along the chromosomes in detail, we enlarged a part of the plot, together with its gene annotations, in an arbitrarily selected genomic region (Fig. 3). A negative correlation between the 8-oxoG levels and gene location was observed, showing that 8-oxoG levels were lower in gene-rich regions than in gene deserts.Figure 3.


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

Yoshihara M, Jiang L, Akatsuka S, Suyama M, Toyokuni S - DNA Res. (2014)

A representative genomic region showing 8-oxoG profile with gene annotation. The vertical axis corresponds to log2 intensity of the array data. The distribution profile of 8-oxoG was calculated by averaging the intensities over a 1 Mb sliding window. Gene structures are shown below the 8-oxoG profile. The directionality of the genes, i.e. forward and reverse orientation, is shown in green and red, respectively.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4263294&req=5

DSU023F3: A representative genomic region showing 8-oxoG profile with gene annotation. The vertical axis corresponds to log2 intensity of the array data. The distribution profile of 8-oxoG was calculated by averaging the intensities over a 1 Mb sliding window. Gene structures are shown below the 8-oxoG profile. The directionality of the genes, i.e. forward and reverse orientation, is shown in green and red, respectively.
Mentions: To explore the distribution of 8-oxoG along the chromosomes in detail, we enlarged a part of the plot, together with its gene annotations, in an arbitrarily selected genomic region (Fig. 3). A negative correlation between the 8-oxoG levels and gene location was observed, showing that 8-oxoG levels were lower in gene-rich regions than in gene deserts.Figure 3.

Bottom Line: 8-Oxoguanine (8-oxoG) is one of the most common DNA lesions generated by reactive oxygen species.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.

View Article: PubMed Central - PubMed

Affiliation: Medical Institute of Bioregulation, Kyushu University, Maidashi 3-1-1, Higashi-ku, Fukuoka 812-8582, Japan Department of Pathology and Biology of Diseases, Graduate School of Medicine, Kyoto University, Kyoto 606-8501, Japan.

Show MeSH
Related in: MedlinePlus