PXD071466

PXD071466 is an original dataset announced via ProteomeXchange.

Title	A multi-omics atlas of the plant nuclear envelope
Description	The nuclear envelope (NE) proteins play a pivotal role in maintaining nuclear integrity and orchestrating nucleocytoplasmic communication. Increasing evidence suggests that NE proteins interact with a wide array of other proteins, implying functions far beyond membrane compartmentalization. However, the full composition and functional landscape of plant NE proteins remain largely uncharted. Here, we used proximity-labeling proteomics to generate a comprehensive map of the Arabidopsis NE proteome, identifying nearly 700 unique integral and associated NE proteins. Compositional analyses revealed that the NE not only functions as a hub for chromatin organization and transcriptional regulation but also tied to mRNA processing, membrane trafficking, and lipid metabolism. By integrating these proteomic data with single-cell and single-nucleus RNA sequencing, we uncovered a range of NE-associated functional modules exhibiting specificity across tissues, cell types, and developmental stages. Together, our results highlight the fundamental and multifaceted roles of the plant NE and provide new insights into its conserved and lineage-specific functions across eukaryotic evolution.
HostingRepository	PRIDE
AnnounceDate	2026-03-06
AnnouncementXML	Submission_2026-03-06_14:10:48.149.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yiling Fang
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: NEWT:3702;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Eclipse

Revision	Datetime	Status	ChangeLog Entry
0	2025-12-02 03:51:42	ID requested
⏵ 1	2026-03-06 14:10:48	announced

Dataset with its publication pending

submitter keyword: Proximity labeling,Arabidopsis, Nuclear envelope, Nucleus

Yangnan Gu
contact affiliation	Department of Plant and Microbial Biology, University of California, Berkeley
contact email	guyangnan@berkeley.edu
lab head
Yiling Fang
contact affiliation	UC Berkeley
contact email	yiling_fang@berkeley.edu
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/PXD071466

PRIDE project URI

• PRIDE
  1. PXD071466
     1. Label: PRIDE project
     2. Name: A multi-omics atlas of the plant nuclear envelope