PXD002645

PXD002645 is an original dataset announced via ProteomeXchange.

Title	Proteomic profiling of ubiquitylated proteins in urinary exosomes
Description	Exosomes, derived from multivesicular bodies (MVBs), contain proteins and genetic materials from their cell of origin and are secreted from various cells types, including kidney epithelial cells. In general, it is thought that protein cargo is ubiquitylated, but that ubiquitin is cleaved by specific deubiquitylases during the process of cargo incorporation into MVBs. Here, we provide direct evidence that in vivo, deubiquitylation is not essential. Ubiquitin was detected within human MVBs and urinary exosomes by electron microscopy. Protein mass spectrometry identified >6000 proteins in human urinary exosomes, 15% of which were ubiquitylated with various topologies (K63>K48> K11>K6>K29>K33>K27). Ubiquitylated proteins involved in transcriptional regulation or solute transport were significantly enriched. Non-biased analysis of over-represented motifs uncovered a significant preference for basic amino acids upstream of the ubiquitylation site. The current studies demonstrate that in human epithelial cells, deubiquitylation of protein cargo is not necessary for MVB formation and exosome secretion and highlight that urinary exosomes are an enriched source for studying ubiquitin modifications in physiological or disease states.
HostingRepository	PRIDE
AnnounceDate	2017-10-24
AnnouncementXML	Submission_2017-10-24_00:50:20.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Trairak Pisitkun
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	ubiquitinylated lysine; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2015-07-31 03:57:12	ID requested
1	2016-02-22 03:43:05	announced
2	2017-06-21 00:31:12	announced	Updated project metadata.
⏵ 3	2017-10-24 00:50:21	announced	Updated project metadata.

Huebner AR, Cheng L, Somparn P, Knepper MA, Fenton RA, Pisitkun T, Deubiquitylation of Protein Cargo Is Not an Essential Step in Exosome Formation. Mol Cell Proteomics, 15(5):1556-71(2016) [pubmed]

curator keyword: Biomedical

submitter keyword: Human, Urine, Exosomes, Ubiquitylated proteins

Trairak Pisitkun
contact affiliation	Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand
contact email	trairak@gmail.com
lab head
Trairak Pisitkun
contact affiliation	Chulalongkorn University
contact email	trairak@gmail.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/2016/02/PXD002645

PRIDE project URI

• PRIDE
  1. PXD002645
     1. Label: PRIDE project
     2. Name: Proteomic profiling of ubiquitylated proteins in urinary exosomes