<<< Full experiment listing

PXD053371

PXD053371 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleHistone H3.3 lysine 9 and 27 control repressive chromatin states at cryptic cis-regulatory elements and bivalent promoters in mouse embryonic stem cells
DescriptionHistone modifications are associated with distinct transcriptional states, but it is unclear whether they instruct gene expression. To investigate this, we mutated histone H3.3 K9 and K27 residues in mouse embryonic stem cells (mESCs). Here, we find that H3.3K9 is essential for controlling specific distal intergenic regions and for proper H3K27me3 deposition at promoters. The H3.3K9A mutation resulted in decreased H3K9me3 at regions encompassing endogenous retroviruses and induced a gain of H3K27ac and nascent transcription. These changes in the chromatin environment unleashed cryptic enhancers, resulting in the activation of distinctive transcriptional programs and culminating in protein expression normally restricted to specialized immune cell types. The H3.3K27A mutant disrupted deposition and spreading of the repressive H3K27me3 mark, particularly impacting bivalent genes with higher basal level of H3.3 at promoters. Therefore, H3.3K9 and K27 crucially orchestrate repressive chromatin states at cis-regulatory elements and bivalent promoters, respectively, and instruct proper transcription in mESCs.
HostingRepositoryMassIVE
AnnounceDate2024-09-01
AnnouncementXMLSubmission_2024-09-01_09:05:11.685.xml
DigitalObjectIdentifier
ReviewLevelNon peer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterMatteo Trovato
SpeciesList scientific name: Mus musculus; common name: house mouse; NCBI TaxID: 10090;
ModificationListAcetyl; Methyl; Dimethyl; Trimethyl
InstrumentOrbitrap Fusion
Dataset History
RevisionDatetimeStatusChangeLog Entry
02024-06-24 13:03:51ID requested
12024-09-01 09:05:12announced
Publication List
no publication
Keyword List
submitter keyword: H3.3, histone modifications, chromatin, transcriptional regulation, endogenous retroviruses, mouse embryonic stem cells
Contact List
Matteo Trovato
contact affiliationEuropean Molecular Biology Laboratory (EMBL)
contact emailmatteo.trovato@embl.de
lab head
Kyung-Min Noh
contact affiliationEuropean Molecular Biology Laboratory (EMBL)
contact emailkyung.min.noh@embl.de
lab head
Matteo Trovato
contact affiliationEMBL
contact emailmatteo.trovato@embl.de
dataset submitter
Full Dataset Link List
MassIVE dataset URI
Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://massive.ucsd.edu/v08/MSV000095134/