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Series GSE41172 Query DataSets for GSE41172
Status Public on Apr 26, 2013
Title The histone demethylase Jarid1b ensures faithful mouse development by protecting developmental genes from aberrant H3K4me3 [ChIP-Seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Embryonic development is tightly regulated by transcription factors and chromatin-associated proteins. H3K4me3 is associated with active transcription and H3K27me3 with gene repression, while the combination of both keeps genes required for development in a plastic state. Here we show that deletion of the H3K4me2/3 histone demethylase Jarid1b (Kdm5b/Plu1) results in major neonatal lethality due to respiratory failure. Jarid1b knockout embryos have several neural defects including disorganized cranial nerves, defects in eye development and increased incidences of exencephaly. Moreover, in line with an overlap of Jarid1b and Polycomb targets genes, Jarid1b knockout embryos display homeotic skeletal transformations typical for Polycomb mutants. Genome-wide analysis demonstrated that normally inactive genes encoding developmental regulators acquire aberrant H3K4me3 in early Jarid1b knockout embryos. H3K4me3 accumulates as embryonic development proceeds, leading to increased expression of neural master regulators in knockouts. Taken together, these results suggest that Jarid1b contributes to mouse development by protecting developmental genes from inappropriate acquisition of active histone modifications.
* Lack of Jarid1b leads to major neonatal lethality and defects in neural systems
* Jarid1b mutants display homeotic skeletal transformations
* H3K4me3 is increased at inactive transcriptional regulators in Jarid1b-/- embryos
* Chromatin changes are accompanied by elevated levels of key neural transcription factors
 
Overall design Determining H3K4me3 and H3K27me3 in early (E8.5) mouse embryos
 
Contributor(s) Albert M, Schmitz SU
Citation(s) 23637629
Submission date Sep 26, 2012
Last update date May 15, 2019
Contact name Sandra Ursula Schmitz
E-mail(s) sandra.schmitz@bric.ku.dk
Organization name Biotech Research and Innovation Centre
Street address Ole Maal√łes Vej 5
City Copenhagen
ZIP/Postal code 2200
Country Denmark
 
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (5)
GSM1009928 H_het_K4me3
GSM1009929 H_het_K27me3
GSM1009930 H_het_IgG
This SubSeries is part of SuperSeries:
GSE41174 The histone demethylase Jarid1b ensures faithful mouse development by protecting developmental genes from aberrant H3K4me3
Relations
BioProject PRJNA176031
SRA SRP015906

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
GSE41172_RAW.tar 2.5 Gb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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