PXD066668-1

PXD066668 is an original dataset announced via ProteomeXchange.

Title	Isolation and mass spectrometry analysis of ATG9A vesicles from HAP1 cells.
Description	Autophagy is a conserved cellular degradation pathway involving the formation of double-membrane autophagosomes that engulf cytoplasmic material for delivery to the lysosome. Autophagy-related (ATG) proteins orchestrate the steps of autophagosome formation and maturation, among which ATG9A is unique as the only integral membrane protein essential for autophagy progression. ATG9A localizes to Golgi-derived vesicles/compartments that constitute a seed for membrane nucleation. In this dataset we show proteomics analysis of mammalian ATG9A vesicles. To isolate and characterize native mammalian ATG9A-containing compartments, we generated a CRISPR/Cas9-engineered HAP1 knock-in cell line expressing ATG9A endogenously tagged ATG9A with a C-terminal GFP and FLAG tag. The FLAG-tag enabled the purification of native ATG9A vesicles via FLAG-based affinity isolation, while GFP-tag was used to submit the vesicles for mass spectrometry analysis. Both WT and ATG9A-GFP-FLAG expressing HAP1 cell lines were cultured under nutrient-rich conditions to prevent the induction of starvation-mediated autophagy.
HostingRepository	PRIDE
AnnounceDate	2026-08-04
AnnouncementXML	Submission_2026-08-04_00:50:37.040.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Markus Hartl
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Eclipse; Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2025-07-28 10:07:41	ID requested
⏵ 1	2026-08-04 00:50:37	announced

Dataset with its publication pending

submitter keyword: Human, HAP1 cells, ATG9A vesicles

Sascha Martens
contact affiliation	Max Perutz Labs, Department of Biochemistry and Cell Biology, University of Vienna, Vienna BioCenter, Austria
contact email	sascha.martens@univie.ac.at
lab head
Markus Hartl
contact affiliation	Max Perutz Labs, Mass Spectrometry Facility, Vienna Biocenter Campus (VBC), Dr. Bohr-Gasse 9, Vienna, Austria
contact email	proteomics@maxperutzlabs.ac.at
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/2026/08/PXD066668

PRIDE project URI

• PRIDE
  1. PXD066668
     1. Label: PRIDE project
     2. Name: Isolation and mass spectrometry analysis of ATG9A vesicles from HAP1 cells.