PXD071534

PXD071534 is an original dataset announced via ProteomeXchange.

Title	Replication stress primes a trophectoderm fate in embryonic stem cells
Description	Early embryogenesis is marked by extremely rapid cell cycles that generate significant replication stress (RS), but how this stress influences cell-fate potential is not fully understood. Using mouse embryonic stem cells as a model of the inner cell mass, we show that RS quickly and persistently activates trophectoderm (TE) regulators. Quantitative chromatin proteomics reveals a characteristic RS-induced remodeling: nucleosomes and condensin are displaced, while DNA repair proteins and ATR cofactors become enriched on chromatin. This proteomic signature indicates a highly accessible, checkpoint-responsive chromatin state that enables lineage reprogramming. Together, these results define an ATR- and JNK/c-JUN-driven stress pathway that can shift embryonic cell identity toward TE and, when aberrantly re-engaged in adult cells, may promote maladaptive fate changes relevant to cancer development.
HostingRepository	PRIDE
AnnounceDate	2026-09-09
AnnouncementXML	Submission_2026-09-09_01:52:00.749.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Giorgia Parodi
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: NEWT:10090;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2025-12-03 08:02:01	ID requested
⏵ 1	2026-09-09 01:52:01	announced

10.1038/s41420-026-03169-w;

Gnocchi A, El Kai C, Castellan C, Santorelli L, Arghavanifard N, Bachi A, Costanzo V, Replication stress primes a trophectoderm fate in embryonic stem cells. Cell Death Discov, 12(1):(2026) [pubmed]

submitter keyword: DNA replication stress, Trophectoderm (TE),Embryogenesis, Chromatin proteomics, Mass spectrometry (MS), Cancer development

Angela Bachi
contact affiliation	IFOM
contact email	angela.bachi@ifom.eu
lab head
Giorgia Parodi
contact affiliation	Cogentech
contact email	giorgia.parodi@cogentech.it
dataset submitter

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://ftp.pride.ebi.ac.uk/pride/data/archive/2026/09/PXD071534

PRIDE project URI

• PRIDE
  1. PXD071534
     1. Label: PRIDE project
     2. Name: Replication stress primes a trophectoderm fate in embryonic stem cells