PXD014528-1

PXD014528 is an original dataset announced via ProteomeXchange.

Title	The translational landscape of naïve and primed state pluripotency
Description	Translational control plays a central role in regulation of gene expression and can lead to significant divergence between mRNA- and protein-abundance. The translational landscape of early mammalian development and its impact on cellular proteome, however, remains largely un-explored. Here we used genome-wide approaches combined with time-course analysis to measure the mRNA-abundance, mRNA-translation rate and protein expression during the transition of naïve into primed embryonic stem cells (ESCs). We found that the ground state ESCs cultured with GSK3- and MEK-inhibitors and LIF (2iL) display higher ribosome density on a selective set of mRNAs. These mRNAs show reduced translation during the exit from ground state pluripotency and transition to serum/LIF (SL) culture or upon commitment to primed epiblast-like stem cells (EpiLSCs). Strikingly, integrative analysis with cellular proteome indicate a strong translational buffering of this set of mRNAs in 2iL-ESCs leading to stable protein expression levels. Our data reveal that the global alteration of cellular proteome is largely accompanied by transcriptional rewiring. Furthermore, we identified a set of genes (including UHRF1 and KRAS) that undergo selective post-translational regulation during the transition of naïve into primed pluripotency and linked the observed changes to upstream GSK- and MEK/MAPK-signaling pathways using single inhibitor treated ESCs. Thus, we provide a comprehensive and detailed overview of the global changes in gene expression during the transition of naïve to primed pluripotency and dissect the relative contributions of RNA-transcription, translation and regulation of protein stability in controlling protein abundance.
HostingRepository	PRIDE
AnnounceDate	2020-04-03
AnnouncementXML	Submission_2020-04-03_00:56:05.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yaser Atlasi
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-07-09 02:49:29	ID requested
⏵ 1	2020-04-03 00:56:07	announced
2	2024-10-22 05:01:44	announced	2024-10-22: Updated project metadata.

Atlasi Y, Jafarnejad SM, Gkogkas CG, Vermeulen M, Sonenberg N, Stunnenberg HG, The translational landscape of ground state pluripotency. Nat Commun, 11(1):1617(2020) [pubmed]

submitter keyword: Embryonic stem cells, Translation, Ribosome profiling, Proteome, Ground state pluripotency

Henk Stunnenberg
contact affiliation	Radboud University Nijmegen The Netherlands
contact email	h.stunnenberg@ncmls.ru.nl
lab head
Yaser Atlasi
contact affiliation	Radboud University
contact email	yaser.atlasi@ncmls.ru.nl
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD014528
     1. Label: PRIDE project
     2. Name: The translational landscape of naïve and primed state pluripotency