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PXD054825

PXD054825 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleElucidation of peptide screen for targeted identification of Yersinia pestis by nano-liquid chromatography tandem mass spectrometry.
DescriptionYersinia 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.
HostingRepositoryPRIDE
AnnounceDate2025-03-18
AnnouncementXMLSubmission_2025-03-18_03:50:46.294.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterSubodh Kumar
SpeciesList scientific name: Yersinia pestis; NCBI TaxID: 632;
ModificationListacetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
InstrumentOrbitrap Exploris 240
Dataset History
RevisionDatetimeStatusChangeLog Entry
02024-08-12 12:52:26ID requested
12025-03-18 03:50:47announced
Publication List
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]
Keyword List
submitter keyword: nLC-MS/MS
Peptide-based screen
Soil
Yersinia pestis.
Contact List
Dr. Subodh
contact affiliationDefence Research & Development Establishment, Gwalior.
contact emailsubodh.drde@gov.in
lab head
Subodh Kumar
contact affiliationDefence Research & Development Establishment, Gwalior
contact emailsubodh.drde@gov.in
dataset submitter
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Dataset FTP location
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