PXD037843

PXD037843 is an original dataset announced via ProteomeXchange.

Title	Immunopeptidomics reveals determinants of Mycobacterium tuberculosis antigen presentation on MHC class I (SureQuant data)
Description	CD8+ T cells contribute to protective immunity to Mycobacterium tuberculosis (Mtb), but the principles that govern presentation of Mtb peptides on MHC class I (MHC-I) on the surface of infected macrophages for CD8+ T cell recognition are incompletely understood. Here, we use internal standard parallel reaction monitoring (IS-PRM, also known as SureQuant) to rigorously validate identifications of Mtb-derived MHC-I peptides obtained in data-dependent MS analyses. We further use SureQuant to quantify presentation of Mtb peptides derived from the secreted effector proteins EsxA and EsxJ across multiple experimental conditions. We show that presentation of both EsxA- and EsxJ-derived peptides requires the activity of the mycobacterial ESX-1 type VII secretion system, possibly indicating that ESX-1-mediated phagosome membrane damage allows Mtb proteins to access MHC-I antigen processing pathways. We show that this requirement is independent of type I interferon signaling that occurs downstream of phagosome damage. Treatment with inhibitors of conventional proteolytic pathways involved in MHC-I antigen processing inhibits presentation of self peptides as expected, but does not inhibit presentation of Mtb peptides, implying an alternative or redundant mechanism of processing.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_06:57:26.568.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Owen Leddy
SpeciesList	scientific name: Mycobacterium tuberculosis H37Rv; NCBI TaxID: 83332; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2022-10-31 09:04:31	ID requested
1	2023-04-24 06:46:02	announced
⏵ 2	2023-11-14 06:57:27	announced	2023-11-14: Updated project metadata.

Leddy OK, White FM, Bryson BD, Leveraging Immunopeptidomics To Study and Combat Infectious Disease. mSystems, 6(4):e0031021(2021) [pubmed]

submitter keyword: macrophage,tuberculosis, mhc, immunopeptidomics, phagocyte, antigen presentation, tb

Forest White
contact affiliation	Massachusetts Institute of Technology
contact email	fwhite@mit.edu
lab head
Owen Leddy
contact affiliation	Massachusetts Institute of Technology
contact email	owenl@mit.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/2023/04/PXD037843

PRIDE project URI

• PRIDE
  1. PXD037843
     1. Label: PRIDE project
     2. Name: Immunopeptidomics reveals determinants of Mycobacterium tuberculosis antigen presentation on MHC class I (SureQuant data)