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PXD013979

PXD013979 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleRapid and culture free identification of Francisella in hare carcasses by high-resolution mass spectrometry
DescriptionZoonotic pathogens that can be transmitted via food to humans have a high potential for large-scale emergencies, comprising severe effects on public health, critical infrastructures, and the economy. In this context, the development of laboratory methods to rapidly detect zoonotic bacteria in the food supply chain, including high-resolution mass spectrometry are needed. In this work, an optimized sample preparation method for liquid chromatography-mass spectrometry (LC-MS) based proteome profiling was established for Francisella isolates and a cluster analysis, as well as a phylogenetic tree, was calculated to shed light on evolutionary relationships. Furthermore, this method was applied to tissues of infected hare carcasses from Germany. Even though the non-informative data outnumbered by a manifold the information of the zoonotic pathogen in the resulting proteome profiles, the standardized evaluation of MS data within an established automated analysis pipeline identified F. tularensis and thus is in principle an applicable method to monitor food supply chains.
HostingRepositoryPRIDE
AnnounceDate2020-06-30
AnnouncementXMLSubmission_2020-06-30_04:29:01.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterNatalie Witt
SpeciesList scientific name: Francisella hispaniensis; NCBI TaxID: 622488; scientific name: Francisella tularensis subsp. mediasiatica; NCBI TaxID: 135248; scientific name: Francisella philomiragia; NCBI TaxID: 28110; scientific name: Francisella tularensis subsp. holarctica; NCBI TaxID: 119857; scientific name: Francisella tularensis subsp. tularensis; NCBI TaxID: 119856; scientific name: Francisella tularensis subsp. novicida; NCBI TaxID: 264; scientific name: Lepus europaeus; NCBI TaxID: 9983;
ModificationListNo PTMs are included in the dataset
InstrumentQ Exactive HF
Dataset History
RevisionDatetimeStatusChangeLog Entry
02019-05-23 03:09:32ID requested
12020-06-30 04:29:01announced
Publication List
Dataset with its publication pending
Keyword List
curator keyword: Biomedical
submitter keyword: Francisella tularensis, high-resolution mass spectrometry, proteome profiling, detection of pathogens, phylogenetic analysis
Contact List
David Meierhofer
contact affiliationMax Planck Institute for Molecular Genetics, Mass Spectrometry Facility
contact emailMeierhof@molgen.mpg.de
lab head
Natalie Witt
contact affiliationMax Planck Institute for Molecular Genetics
contact emailwitt_n@molgen.mpg.de
dataset submitter
Full Dataset Link List
Dataset FTP location
PRIDE project URI
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