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| Status |
Public on Jul 19, 2020 |
| Title |
Dnmt1 binds and represses genomic retroelements via DNA methylation in mouse early embryos (RNA-seq) |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Genome-wide passive DNA demethylation in cleavage-stage mouse embryos is related to the cytoplasmic localization of the maintenance methyltransferase DNMT1. However, recent studies provided evidence of the nuclear localization of DNMT1 and its contribution to the maintenance of methylation levels of imprinted regions and other genomic loci in early embryos. Using the DNA-adenine methylase identification (DamID) method, we identified Dnmt1-binding regions in 4-cell and 8-cell embryos. The unbiased distribution of Dnmt1 peaks in the genic regions (promoters and CpG islands) as well as the absence of a correlation between the Dnmt1 peaks and the expression levels of the peak-associated genes refute the active participation of Dnmt1 in the transcriptional regulation of genes in the early developmental period. Instead, Dnmt1 was found to associate with genomic retroelements in a greatly biased fashion, particularly with the long interspersed nuclear elements (LINE1) and endogenous retrovirus type-K (ERVK) sequences. Transcriptomic analysis revealed that the transcripts of the Dnmt1-enriched retroelements were overrepresented in Dnmt1 knockdown embryos. Finally, methyl-CpG-binding-domain sequencing proved that the Dnmt1-enriched retroelements, which were densely methylated in wild-type embryos, became demethylated in the Dnmt1-depleted embryos. Our results indicate that Dnmt1 is involved in the repression of retroelements through DNA methylation in early mouse development.
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| Overall design |
For RNA-seq, 20 of each siDnmt1- or scrambled siRNA-injected mouse embryos were harvested at 4~8 stage, and RNA-seq libraries were prepared using their poly-A tailed mRNAs.
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| Contributor(s) |
Min B, Kang YK |
| Citation missing |
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| Submission date |
Feb 28, 2018 |
| Last update date |
Jul 19, 2020 |
| Contact name |
Byungkuk Min |
| E-mail(s) |
mbk0asis@gmail.com
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| Organization name |
KRIBB
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| Department |
Development and Differentiation Research Center
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| Street address |
125 Gwahak-ro, Yuseong-gu
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| City |
Daejeon |
| ZIP/Postal code |
34141 |
| Country |
South Korea |
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| Platforms (1) |
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| Samples (2) |
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| This SubSeries is part of SuperSeries: |
| GSE111266 |
Dnmt1 binds and represses genomic retroelements via DNA methylation in mouse early embryos |
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| Relations |
| BioProject |
PRJNA436387 |
| SRA |
SRP133681 |
