PXD041323

PXD041323 is an original dataset announced via ProteomeXchange.

Title	Multiomic Approach Characterises the Neuroprotective Role of Retromer in Regulating Lysosomal Health
Description	Retromer controls cellular homeostasis through regulating integral membrane protein sorting and transport and by controlling late-stage maturation of the endo-lysosomal network. Retromer dysfunction, which is linked to neurodegenerative disorders including Parkinson’s and Alzheimer’s diseases, manifests in complex cellular phenotypes, though the precise nature of this dysfunction, and its relation to neurodegeneration, remain unclear. Here, we perform the first integrated multiomics approach to provide precise insight into the impact of Retromer dysfunction on endo-lysosomal health and homeostasis within a human neuroglioma cell model. We quantify profound changes to the lysosomal proteome, indicative of broad lysosomal dysfunction and inefficient autophagic lysosome reformation, coupled with a reconfigured cell surface proteome and secretome reflective of increased lysosomal exocytosis. Through this global proteomic approach and parallel transcriptomic analysis, we provide an unprecedented integrated view of Retromer function in regulating lysosomal homeostasis and emphasise its role in neuroprotection.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_09:03:49.358.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	James Daly
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT; acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2023-04-04 04:35:45	ID requested
1	2023-07-20 12:19:12	announced
⏵ 2	2023-11-14 09:03:58	announced	2023-11-14: Updated project metadata.

Daly JL, Danson CM, Lewis PA, Zhao L, Riccardo S, Di Filippo L, Cacchiarelli D, Lee D, Cross SJ, Heesom KJ, Xiong WC, Ballabio A, Edgar JR, Cullen PJ, Multi-omic approach characterises the neuroprotective role of retromer in regulating lysosomal health. Nat Commun, 14(1):3086(2023) [pubmed]

submitter keyword: Human, LysoIP, Neuroglioma, Whole Cell Proteome, H4, Retromer, Secretome, Cell Surface Proteome, LC-MS/MS

Peter J. Cullen
contact affiliation	School of Biochemistry, Biomedical Sciences Building, University Walk, University of Bristol, BS8 1TD, U.K.
contact email	pete.cullen@bristol.ac.uk
lab head
James Daly
contact affiliation	King's College London
contact email	james.l.daly@kcl.ac.uk
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/2023/07/PXD041323

PRIDE project URI

• PRIDE
  1. PXD041323
     1. Label: PRIDE project
     2. Name: Multiomic Approach Characterises the Neuroprotective Role of Retromer in Regulating Lysosomal Health