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| Status |
Public on May 19, 2014 |
| Title |
Analysis of the Epigenomic and Transcriptional Landscapes during mammalian spermatogenesis [ChIP-seq] |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Adult germline stem cells (AGSCs) are multifunctional - they must self renew, maintain genome pluripotency, and prepare for gametogenesis – which involves meiotic and chromatin repackaging phases. To better understand AGSCs and gametogenesis, we derived high-resolution profiles of transcription, DNA methylation, 5hmC, and multiple histone modifications at key stages. First, AGSCs display chromatin ‘poising’ of enhancers and promoters of genes utilized in embryo development. Second, the pluripotency network in AGSCs is remarkably distinct from ESCs - lacking Nanog, Sox2, or Prdm14 expression. Third, spermatogenesis involves stage-specific transcription and distinctive chromatin dynamics, but virtually no changes in DNAme. Surprisingly, we observe co-incidence of RNA polymerase II, high H3K4me3, and DNA methylation at 20-35% of genes transcribed during gametogenesis - including piRNA clusters - but often observe attendant promoter 5hmC. Our work reveals key differences between AGSCs and other germ/stem cells, and reveals both logical and unexpected chromatin-transcription relationships accompanying germline developmental transitions.
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| |
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| Overall design |
Examination of 7 different histone modifications and 5hMC in 4 different cell types
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| |
|
| Contributor(s) |
Low DH, Hammoud SS |
| Citation(s) |
24835570 |
| BioProject |
PRJNA213654 |
| Submission date |
Aug 07, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Diana HP Low |
| E-mail(s) |
dlow@imcb.a-star.edu.sg
|
| Organization name |
Institute of Molecular and Cell Biology
|
| Lab |
Chromatin, Epigenetics & Differentiation
|
| Street address |
#03-06, 61 Biopolis Drive, Proteos
|
| City |
Singapore |
| ZIP/Postal code |
138673 |
| Country |
Singapore |
| |
|
| Platforms (2) |
| GPL9250 |
Illumina Genome Analyzer II (Mus musculus) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
|
| Samples (20)
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| This SubSeries is part of SuperSeries: |
| GSE49624 |
Chromatin and Transcription Transitions of Mammalian Adult Germline Stem Cells and Spermatogenesis |
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| Relations |
| SRA |
SRP028576 |
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