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DNA methylation and hydroxymethylation analyses of the active LINE-1 subfamilies in mice
- Source :
- Scientific Reports, Vol 7, Iss 1, Pp 1-8 (2017), Scientific Reports
- Publication Year :
- 2017
- Publisher :
- Nature Publishing Group, 2017.
-
Abstract
- Retrotransposon long interspersed nuclear element-1 (LINE-1) occupies a large proportion of the mammalian genome, comprising approximately 100,000 genomic copies in mice. Epigenetic status of the 5′ untranslated region (5′-UTR) of LINE-1 is critical for its promoter activity. DNA methylation levels in the 5′-UTR of human active LINE-1 subfamily can be measured by well-established methods, such as a pyrosequencing-based assay. However, because of the considerable sequence and structural diversity in LINE-1 among species, methods for such assays should be adapted for the species of interest. Here we developed pyrosequencing-based assays to examine methylcytosine (mC) and hydroxymethylcytosine (hmC) levels of the three active LINE-1 subfamilies in mice (TfI, A, and GfII). Using these assays, we quantified mC and hmC levels in four brain regions and four nonbrain tissues including tail, heart, testis, and ovary. We observed tissue- and subfamily-specific mC and hmC differences. We also found that mC levels were strongly correlated among different brain regions, but mC levels of the testis showed a poor correlation with those of other tissues. Interestingly, mC levels in the A and GfII subfamilies were highly correlated, possibly reflecting their close evolutionary relationship. Our assays will be useful for exploring the epigenetic regulation of the active LINE-1 subfamilies in mice.
- Subjects :
- Male
0301 basic medicine
Untranslated region
Subfamily
Sequence analysis
lcsh:Medicine
Retrotransposon
Biology
Article
Mice
03 medical and health sciences
chemistry.chemical_compound
0302 clinical medicine
Testis
Animals
Epigenetics
lcsh:Science
Multidisciplinary
Base Sequence
Myocardium
Ovary
lcsh:R
Brain
Sequence Analysis, DNA
DNA Methylation
Molecular biology
Mice, Inbred C57BL
Long Interspersed Nucleotide Elements
030104 developmental biology
chemistry
030220 oncology & carcinogenesis
DNA methylation
5-Methylcytosine
Pyrosequencing
Female
lcsh:Q
5' Untranslated Regions
DNA
Subjects
Details
- Language :
- English
- ISSN :
- 20452322
- Volume :
- 7
- Issue :
- 1
- Database :
- OpenAIRE
- Journal :
- Scientific Reports
- Accession number :
- edsair.doi.dedup.....ae810d91c6cfd471c1b1f6f646f0d03f