PXD002971-1

PXD002971 is an original dataset announced via ProteomeXchange.

Title	LC-MS/MS identification of Mycolactone protein targets
Description	Mycolactone is a diffusible macrolide produced by the skin pathogen Mycobacterium ulcerans that suppresses the development of protective immunity against Buruli ulcer disease. In this proteomics study we aimed to identify proteins of which the expression levels changed upon mycolactone treatment. Jurkat T cells were labeled light or heavy by stable isotope labeling by amino acids in cell culture (SILAC), then treated with mycolactone (light) or vehicle (heavy) for 1h prior to activation with PMA/IO for 6h. After mixing light- and heavy-labeled cultures, cells were lysed and extracted proteins were digested with trypsin. The resulting peptide mixture was analyzed by LC-MS/MS and proteins were identified by the MaxQuant software and quantified based on the intensity of the light and heavy signals in the MS spectra of their peptides. The analysis was repeated with reversed labeling, leading to a total of 4,636 proteins that were quantified in both analyses. Interestingly, 52 proteins were down-regulated in mycolactone-treated cells (mycolactone/control ratio < 1.4), while only two proteins were up-regulated (mycolactone/control ratio > 1.4). Gene ontology analysis further revealed that the down-regulated proteins were significantly enriched in proteins located in the plasma membrane and endoplasmic reticulum and we could show that this enrichment was not due to a bias in protein extraction, since the distribution of all identified proteins across different subcellular compartments was similar to those of all human proteins. Analysis of SP-PIR Family-Domains keywords in the UniProt database confirmed this observation and showed an additional enrichment in glycoproteins, proteins with an immunoglobulin domain and proteins involved in immune responses. Furthermore, we observed that the down-regulated proteins were significantly enriched in single-pass type I/II membrane proteins. In contrast, the fraction of multi-pass membrane proteins was comparable among the down-regulated and all identified proteins, suggesting that multi-pass membrane proteins may at least partially resist mycolactone-mediated down-regulation.
HostingRepository	PRIDE
AnnounceDate	2016-11-04
AnnouncementXML	Submission_2016-11-04_07:59:34.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Francis Impens
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2015-09-25 01:07:17	ID requested
⏵ 1	2016-11-04 07:59:35	announced
2	2018-06-26 08:30:41	announced	Updated publication reference for PubMed record(s): 29915147.

Dataset with its publication pending

curator keyword: Biomedical

submitter keyword: Mycolactone, SILAC, Jurkat T-cells

Caroline Demangel
contact affiliation	Unité d’Immunobiologie de l’Infection, Institut Pasteur, Paris, France
contact email	caroline.demangel@pasteur.fr
lab head
Francis Impens
contact affiliation	Institut Pasteur
contact email	francis.impens@pasteur.fr
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/2016/11/PXD002971

PRIDE project URI

• PRIDE
  1. PXD002971
     1. Label: PRIDE project
     2. Name: LC-MS/MS identification of Mycolactone protein targets