PXD054825

PXD054825 is an original dataset announced via ProteomeXchange.

Title	Elucidation of peptide screen for targeted identification of Yersinia pestis by nano-liquid chromatography tandem mass spectrometry.
Description	Yersinia pestis, a Gram-negative bacterium is the causative agent of the fatal communicable disease plague. The disease had a profound impact on human history. Plague bacteria are usually transmitted to humans through the bite of an infected rat flea. Earlier studies have indicated that Y. pestis can survive in environmental matrices e.g. water and soil. This study aimed to generate a peptide-based screen for identification of Y. pestis particularly from environmental matrices. We employed a shotgun proteomic approach using nano-liquid chromatography-tandem mass spectrometry (nLC-MS/MS) to discover Y. pestis-specific peptides. Firstly, pure cultures of Y. pestis, Y. pseudotuberculosis, and Y. enterocolitica were grown, and their total cellular proteins were analyzed via MS, followed by in silico analysis of the obtained data. Secondly, Y. pestis-specific plasmids were analyzed using the Uniprot database, along with chromosomal-associated virulence proteins identified through extensive literature mining. To validate this screen, various concentrations of Y. pestis were spiked into the garden soil; and Y. pestis could be identified in all samples except un-spiked negative control soil sample. This study offers a valuable method for the identification of Y. pestis, by tandem mass spectrometry which may be used in environmental and clinical matrices.
HostingRepository	PRIDE
AnnounceDate	2025-03-18
AnnouncementXML	Submission_2025-03-18_03:50:46.294.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Subodh Kumar
SpeciesList	scientific name: Yersinia pestis; NCBI TaxID: 632;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Exploris 240

Revision	Datetime	Status	ChangeLog Entry
0	2024-08-12 12:52:26	ID requested
⏵ 1	2025-03-18 03:50:47	announced

10.1038/s41598-024-81906-w;

Rani P, Alam SI, Singh S, Kumar S, Elucidation of peptide screen for targeted identification of Yersinia pestis by nano-liquid chromatography tandem mass spectrometry. Sci Rep, 15(1):1096(2025) [pubmed]

submitter keyword: nLC-MS/MS

Peptide-based screen

Soil

Yersinia pestis.

Dr. Subodh
contact affiliation	Defence Research & Development Establishment, Gwalior.
contact email	subodh.drde@gov.in
lab head
Subodh Kumar
contact affiliation	Defence Research & Development Establishment, Gwalior
contact email	subodh.drde@gov.in
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD054825
     1. Label: PRIDE project
     2. Name: Elucidation of peptide screen for targeted identification of Yersinia pestis by nano-liquid chromatography tandem mass spectrometry.