PXD064236

PXD064236 is an original dataset announced via ProteomeXchange.

Title	DLX2-FLAG IP-MS in embryonic bodies (EBs): Protein complexes identification
Description	The ectomesenchyme generates much of the craniofacial skeleton, sutures, and diverse connective tissues in the mammalian head, yet its derivation from embryonic stem cells (ESCs) and the underlying molecular drivers remain poorly defined. Here, we identified Dlx2 as a key regulator that efficiently directed murine ESCs towards Msx1+ ectomesenchyme, recapitulating the developmental trajectory. These Msx1+ progenitors expressed classical craniofacial markers and retained robust osteochondral bipotency in vitro and in vivo. To unravel the molecular machinery, we performed immunoprecipitation mass spectrometry (IP-MS) of DLX2-Flag in ectomesenchymal progenitors, revealing LAP2α as a critical interactor. Mechanistically, DLX2 utilized a lamina-associated polypeptide 2 (LAP2)-dependent nuclear chaperoning system, wherein its 38-amino-acid homeodomain motif directly bound LAP2α. This interaction facilitated nucleosome engagement, chromatin remodeling, and activation of the craniofacial ectomesenchymal gene network. Functional validation showed that disrupting the DLX2-LAP2α interface (via domain deletion or competitive peptides) or silencing Dlx2 targets abolished ectomesenchymal differentiation. Our findings establish DLX2 as a pioneer factor in ectomesenchyme specification, with the DLX2-LAP2α axis serving as a linchpin for chromatin accessibility and lineage commitment, offering insights into craniofacial development and stem cell engineering.
HostingRepository	PRIDE
AnnounceDate	2025-11-06
AnnouncementXML	Submission_2025-11-05_19:48:41.223.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	xu zhiheng
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: NEWT:10090;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2025-05-23 05:47:59	ID requested
⏵ 1	2025-11-05 19:48:41	announced

Dataset with its publication pending

submitter keyword: embryonic bodies, IP-MS,DLX2-FLAG

Zhonghan Li
contact affiliation	Center of Growth Metabolism and Aging, College of Life Sciences, Sichuan University, Chengdu, China.
contact email	Zhonghan.Li@outlook.com
lab head
xu zhiheng
contact affiliation	Sichuan University
contact email	834621044@qq.com
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/2025/11/PXD064236

PRIDE project URI

• PRIDE
  1. PXD064236
     1. Label: PRIDE project
     2. Name: DLX2-FLAG IP-MS in embryonic bodies (EBs): Protein complexes identification