GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE87872 Query DataSets for GSE87872
Status Public on Jun 12, 2017
Title Gene resistance to transcriptional reprogramming following nuclear transfer is directly mediated by multiple chromatin repressive pathways
Organisms Xenopus laevis; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Understanding the mechanism of resistance of certain genes to reactivation will help improving the success of nuclear reprogramming. Here, in a Xenopus oocyte nuclear transfer assay we identify mouse genes that are resistant to reprogramming by oocyte factors. By using MEF nuclei with WT or reduced DNA methylation in combination with chromatin modifiers able to erase H3K9me3, H3K27me3, and H2Aub from transplanted nuclei, we reveal the basis for resistance to transcriptional reprogramming. We observe a complex relationship between loss of resistance and chromatin modifiers treatment as a majority of gene is affected by more than one type of treatment, suggesting that resistance requires simultaneous repression through multiple epigenetic mechanisms. Existence of synergistic as well as adverse mechanism of action of chromatin modifiers on removal of resistance is revealed by the classification of resistant genes according to their sensitivity to chromatin modifiers treatments. We further demonstrate that removal of H2Aub from transplanted chromatin explain loss of resistance upon USP21 expression. Finally, we provide evidence that H2A ubiquitylation is also contributing to resistance to transcriptional reprogramming in mouse nuclear transfer embryos.
Overall design 36 samples, single-ended RNA-seq libraries from MEF or mES nuclei transplanted to Xenopus oocytes; 8 samples, single-ended RNA-seq libraries from mES cloned two-cell stage embryos; 4 samples single-ended ChIP-seq librarys (H2Aub antibody) from MEF transplanted to Xenopus oocytes.
Contributor(s) Jullien J, Vodnala M, Allen GE, Bradshaw CR, Pasque V, Beaujean N, Wang S, Koseki H, Sartorelli V, Gurdon JB
Citation(s) 28257702
Submission date Oct 12, 2016
Last update date May 15, 2019
Contact name Charles Bradshaw
Organization name University of Cambridge
Department Gurdon Institute
Street address Tennis Court Road
City Cambridge
ZIP/Postal code CB2 1QN
Country United Kingdom
Platforms (2)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL22553 Illumina HiSeq 2000 (Mus musculus; Xenopus laevis)
Samples (48)
GSM2342126 MEF_NT_No_BrUTP_1
GSM2342127 MEF_NT_No_BrUTP_2
GSM2342128 ES_NT_ BrUTP_1
BioProject PRJNA347982
SRA SRP091439

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE87872_RAW.tar 83.9 Mb (http)(custom) TAR (of BW, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap