PXD061994

PXD061994 is an original dataset announced via ProteomeXchange.

Title	Tryptic shaving of Staphylococcus aureus
Description	Surface proteins of Gram-positive bacteria are critical for adherence to host tissues, evasion of the immune system, and interaction with the environment. They can be utilized as biomarkers in diagnostics, for vaccine development, and as therapeutic targets due to their accessibility and role in pathogenicity. If utilized as diagnostic targets, surface biomarkers should be highly conserved across different strains of the pathogen, unique to the species to avoid cross-reactivity, abundantly expressed on the bacterial surface, and accessible to antibodies or detection reagents. Mass spectrometry-based proteomics methods has advanced the studies of surface proteins, often in combination with selective enrichment strategies such as tryptic “shaving”. In this study, 11 clinical strains of Staphylococcus aureus underwent tryptic shaving to identify common surface proteins. Further bioinformatics analysis confirmed that these proteins are encoded in the core genome of numerous S. aureus strains and contained species-specific peptides. In silico analysis identified 26 k-mer peptides in 15 surface proteins, with structural accessibility to detection agents, making them the ideal targets for molecular diagnostics or as linear epitope targets for vaccine development or therapeutics
HostingRepository	PRIDE
AnnounceDate	2025-09-15
AnnouncementXML	Submission_2025-09-14_16:20:14.607.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ema Svetlicic
SpeciesList	scientific name: Bacteria; NCBI TaxID: NCBITaxon:2; scientific name: Staphylococcus aureus; NCBI TaxID: 1280;
ModificationList	monohydroxylated residue
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2025-03-18 11:41:10	ID requested
⏵ 1	2025-09-14 16:20:15	announced

10.1021/acs.jproteome.5c00321;

Svetlicic E, Alarcon LA, Karlsson R, Jers C, Mijakovic I, Clinical Strains: Identification of Promising k-mer Targets for Diagnostics. J Proteome Res, 24(9):4575-4585(2025) [pubmed]

submitter keyword: Diagnostic peptides, Surface proteins, Staphylococcus aureus,Tryptic shaving, Proteomics

Ivan Mijakovic
contact affiliation	Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Denmark Department of Biology and Biological Engineering, Division of Systems and Synthetic Biology, Chalmers University of Technology, Sweden
contact email	ivan.mijakovic@chalmers.se
lab head
Ema Svetlicic
contact affiliation	Technical University of Denmark
contact email	emasve@dtu.dk
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/PXD061994

PRIDE project URI

• PRIDE
  1. PXD061994
     1. Label: PRIDE project
     2. Name: Tryptic shaving of Staphylococcus aureus