PXD069054

PXD069054 is an original dataset announced via ProteomeXchange.

Title	A Simple Human Embryo Model Reveals V-ATPase Requirement in Mammalian Blastocyst Cavitation
Description	Human naïve pluripotent stem cells (nPSCs) can differentiate into trophectoderm (TE) and self-organize into embryo-like structures known as blastoids, typically requiring complex cocktails of signaling factors. Here, we demonstrate that dimethyl sulfoxide (DMSO) alone robustly induces TE differentiation and blastoid formation, recapitulating peri-implantation development, including amniotic cavity formation. Using this simplified system, we uncover that lysosomal pathways—particularly those involving the proton pump V-ATPase—are essential for blastoid cavitation. DMSO upregulates key V-ATPase subunits (ATP6V0A4 and ATP6V1B1), which are also upregulated in human embryo TE. Inhibition of V-ATPase in the DMSO model disrupted lysosomal acidification, blocked intracellular vacuole formation, and impaired blastoid cavitation. Furthermore, genetic and pharmacological disruption of V-ATPase function significantly impaired cavitation in mouse and human blastocysts. Thus, our simple DMSO model effectively recapitulates human blastocyst cavitation and reveals an essential, conserved mechanism involving V-ATPase-mediated lysosomal acidification during early embryogenesis
HostingRepository	PRIDE
AnnounceDate	2026-03-12
AnnouncementXML	Submission_2026-03-12_04:36:31.268.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Huoming Zhang
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF Pro 2

Revision	Datetime	Status	ChangeLog Entry
0	2025-10-01 15:28:21	ID requested
⏵ 1	2026-03-12 04:36:31	announced

10.1038/S41422-026-01239-3;

submitter keyword: Blastoids

trophectoderm differentiation

dimethyl sulfoxide

V-ATPase

lysosomal acidification

Huoming Zhang
contact affiliation	Analytical Chemistry Core Lab (ACL) – Proteomics Unit Building 2 east, Level 2, 2281-WS05 King Abdullah University of Science and Technology (KAUST) Thuwal, 23955-6900, Kingdom of Saudi Arabia
contact email	huoming.zhang@kaust.edu.sa
lab head
Huoming Zhang
contact affiliation	King Abdullah University of Science and Technology
contact email	huoming.zhang@kaust.edu.sa
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/2026/03/PXD069054

PRIDE project URI

• PRIDE
  1. PXD069054
     1. Label: PRIDE project
     2. Name: A Simple Human Embryo Model Reveals V-ATPase Requirement in Mammalian Blastocyst Cavitation