PXD041211

PXD041211 is an original dataset announced via ProteomeXchange.

Title	Tissue-resident memory T cells maintain identity after in vitro restimulation
Description	Resident memory T (TRM) cells have been recently established as an important subset of memory cells that provide early and essential protection against reinfection in the absence of circulating memory T cells. Recent findings showing that TRM expand in vivo after repeated antigenic stimulation indicate that these memory T cells are not terminally differentiated. This suggest an opportunity for in vitro TRM expansion to apply in an immunotherapy setting. However, it has also been shown that TRM may not maintain their identity and form circulating memory T cells after in vivo restimulation. Therefore, we set out to determine how TRM respond to antigenic activation in culture. Using Listeria monocytogenes and LCMV infection models, we found that TRM from the intraepithelial compartment of the small intestine expand in vitro after antigenic stimulation and subsequent resting in homeostatic cytokines. A large fraction of the expanded TRM retained their phenotype, including the expression of key TRM markers CD69 and CD103 (ITGAE). Optimal culture of TRM required low O2 pressure to maintain the expression of these and other TRM associated molecules. Expanded TRM retained their effector capacity to produce cytokines after restimulation, but did not acquire a highly glycolytic profile indicative of effector T cells. Proteomic analysis confirmed TRM profile retention, including expression of TRM-related transcription factors, tissue retention factors, adhesion molecules and enzymes involved in fatty acid metabolism. Collectively, our data indicate that limiting oxygen conditions support in vitro expansion of TRM cells that maintain their TRM phenotype, at least in part, suggesting an opportunity for therapeutic strategies that require in vitro expansion of TRM.
HostingRepository	PRIDE
AnnounceDate	2025-09-30
AnnouncementXML	Submission_2025-09-30_02:58:55.913.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Floris van Alphen
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Listeria monocytogenes; NCBI TaxID: NCBITaxon:1639;
ModificationList	acetylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2023-03-30 04:58:08	ID requested
⏵ 1	2025-09-30 02:58:56	announced

Beumer-Chuwonpad A, Behr FM, van Alphen FPJ, Kragten NAM, Hoogendijk AJ, van den Biggelaar M, van Gisbergen KPJM, Intestinal tissue-resident memory T cells maintain distinct identity from circulating memory T cells after in vitro restimulation. Eur J Immunol, 54(5):e2350873(2024) [pubmed]

10.1002/eji.202350873;

submitter keyword: CD8+ memory T cells, Tissue-resident memory T cells, T cell metabolism, Hypoxic T cell cultures

Klaas van Gisbergen
contact affiliation	Sanquin Research and Landsteiner Laboratory, University of Amsterdam, the Netherlands Department of Hematopoiesis Plesmanlaan 125 1066 CX Amsterdam The Netherlands
contact email	k.vangisbergen@sanquin.nl
lab head
Floris van Alphen
contact affiliation	Sanquin Research
contact email	f.vanalphen@sanquin.nl
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/2025/09/PXD041211

PRIDE project URI

• PRIDE
  1. PXD041211
     1. Label: PRIDE project
     2. Name: Tissue-resident memory T cells maintain identity after in vitro restimulation