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Series GSE43247 Query DataSets for GSE43247
Status Public on Dec 06, 2013
Title ChIP-seq analysis of PHF20 and Wdr5 binding sites in ESCs
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Although reprogramming of somatic cells to generate inducible pluripotent stem cells (iPSCs) is associated with remarkable epigenetic changes, the role and mechanisms of epigenetic factors in this process remains poorly understood. Here we describe identification of Jmjd3 as a potent negative regulator of reprogramming. Jmjd3-deficient MEFs produced significantly more iPSC colonies than did wild-type cells, while ectopic expression of Jmjd3 markedly inhibited reprogramming. We further show that the inhibitory effects of Jmjd3 are produced through both histone demethylase-dependent and -independent pathways acting in concert. The latter pathway is entirely novel and involved Jmjd3 targeting of PHF20 for ubiquitination and degradation by recruiting an E3 ligase Trim26. Importantly, PHF20-deficient MEFs could not be converted to fully reprogrammed iPSCs, even with knockdown of Jmjd3, Ink4a or p21, indicating dominant effects of this protein on reprogramming. Our findings identify a previously unrecognized role of Jmjd3 in reprogramming and provide molecular insight into the mechanisms by which the Jmjd3-PHF20 axis controls the reprogramming process.
Overall design This study was an examination of phf20 and wdr5 binding patterns in embryonic stem cells, using a ChIP-Sequencing methodology with antibodies for each of these factors in the cell lines indicated.
Contributor(s) Wang R, Zhao W, Ayers S
Citation(s) 23452852
Submission date Jan 02, 2013
Last update date May 15, 2019
Contact name Stephen D Ayers
Phone 713-441-8693
Fax 713-793-7162
Organization name Methodist Hospital Research Institute
Department Genomic Medicine
Lab Genomic Medicine
Street address 6565 Fannin Street F8-060
City Houston
State/province Texas
ZIP/Postal code 77030
Country USA
Platforms (1)
GPL16417 Illumina MiSeq (Mus musculus)
Samples (8)
GSM1059171 control sample rep1
GSM1059172 phf20 chipseq rep1
GSM1059173 wdr5 chipseq rep1
BioProject PRJNA185142
SRA SRP017726

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Supplementary file Size Download File type/resource
GSE43247_RAW.tar 263.0 Mb (http)(custom) TAR (of BED)
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Raw data are available in SRA
Processed data provided as supplementary file

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