PXD059923

PXD059923 is an original dataset announced via ProteomeXchange.

Title	Precise Mycobacterial Species and Subspecies Identification Using the PEP-TORCH Peptidome Algorithm
Description	Mycobacterial infections pose a significant global health concern, requiring precise identification for effective treatment. However, diagnosing them is challenging due to inaccurate identifications and prolonged times. In this study, we aimed to develop a novel peptidome-based method using mycobacterial growth indicator tube (MGIT) cultures for faster and more accurate identification. We created the Peptide Taxonomy/Organism CHecking (PEP-TORCH), an algorithm that analyzes tryptic-peptide identified by mass spectrometry to diagnose species and subspecies with predominance scores. PEP-TORCH demonstrated 100% accuracy in identifying mycobacterial species, subspecies, and co-infections in 62 individuals suspected of mycobacterial infections, eliminating the need for a sub-solid culture procedure, the gold standard in clinical practice. A notable strength of PEP-TORCH is its ability to provide information on species and subspecies simultaneously, a process conventionally achieved sequentially. This capability significantly expedites pathogen identification. Furthermore, a targeted proteomics method was validated in 43 clinical samples using the taxa-specific peptides selected by PEP-TORCH, making them suitable as biomarkers in more clinically friendly settings. This comprehensive identification approach holds promise for streamlining treatment strategies in clinical practice.
HostingRepository	PRIDE
AnnounceDate	2025-02-09
AnnouncementXML	Submission_2025-02-08_20:33:28.413.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Duran Bao
SpeciesList	scientific name: Mycobacteriaceae; NCBI TaxID: 1762;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2025-01-17 09:25:20	ID requested
⏵ 1	2025-02-08 20:33:28	announced

Dataset with its publication pending

submitter keyword: Algorithm / LC-MS / Non-tuberculosis Mycobacterium / Peptidome / Subspecies

Duran Bao
contact affiliation	School of Medicine, Tulane University
contact email	dbao@tulane.edu
lab head
Duran Bao
contact affiliation	Tulane University
contact email	dbao@tulane.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/2025/02/PXD059923

PRIDE project URI

• PRIDE
  1. PXD059923
     1. Label: PRIDE project
     2. Name: Precise Mycobacterial Species and Subspecies Identification Using the PEP-TORCH Peptidome Algorithm