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PXD023033

PXD023033 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleMass Spectrometry Proteotyping-Based Detection and Identification of Staphylococcus aureus, Escherichia coli and Candida albicans in Blood
DescriptionBloodstream infections (BSIs), the presence of microorganisms in blood, are potentially serious conditions that can quickly develop into sepsis and life-threatening situations. When assessing proper treatment, rapid diagnosis is the key; besides clinical judgement performed by attending physicians, supporting microbiological tests typically are performed, often requiring microbial isolation and culturing steps, which increases the time required for confirming positive cases of BSI. The additional waiting time forces physicians to prescribe broad-spectrum antibiotics and empiric treatment, before determining the precise cause of the disease. Thus, alternative and more rapid cultivation-independent methods are needed to improve clinical diagnostics, supporting prompt and accurate treatment and reducing the development of antibiotic resistance. In this study, a culture-independent workflow for pathogen detection and identification in blood samples was developed, using peptide biomarkers and applying bottom-up proteomics analyses, i.e., so-called ”proteotyping”. To demonstrate the feasibility of detection of blood infectious pathogens using proteotyping, Escherichia coli and Staphylococcus aureus were included in the study, as the most prominent bacterial causes of bacteremia and sepsis, as well as Candida albicans, one of the most prominent causes of fungemia. Model systems including spiked negative blood samples, as well as positive blood cultures, without further culturing steps, were investigated. Furthermore, an experiment designed to study the incubation time needed for correct identification of the infectious pathogens in blood cultures was performed. Compared to the MALDI-TOF MS-based approaches, shotgun proteotyping demonstrated higher sensitivity and accuracy, and required shorter incubation time before detection and identification of the correct pathogen could be accomplished.
HostingRepositoryPRIDE
AnnounceDate2021-07-20
AnnouncementXMLSubmission_2021-10-24_22:19:29.625.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterGelio Alves
SpeciesList scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: Candida albicans (Yeast); NCBI TaxID: 5476; scientific name: Staphylococcus aureus; NCBI TaxID: 1280;
ModificationListNo PTMs are included in the dataset
InstrumentQ Exactive HF
Dataset History
RevisionDatetimeStatusChangeLog Entry
02020-12-09 23:55:33ID requested
12021-07-19 21:41:26announced
22021-10-24 22:19:30announced2021-10-25: Updated publication reference for PubMed record(s): 34381737.
Publication List
Kondori N, Kurtovic A, Pi, ñ, eiro-Iglesias B, Salv, à, -Serra F, Ja, é, n-Luchoro D, Andersson B, Alves G, Ogurtsov A, Thorsell A, Fuchs J, Tunovic T, Kamenska N, Karlsson A, Yu YK, Moore ERB, Karlsson R, in Blood. Front Cell Infect Microbiol, 11():634215(2021) [pubmed]
Keyword List
submitter keyword: Proteotyping, Bloodstream infections, Pathogen Identification, LC-MS/MS
Contact List
Roger Karlsson
contact affiliationDepartment of Clinical Microbiology, Sahlgrenska University Hospital, Gothenburg, Sweden
contact emailroger.karlsson@vgregion.se
lab head
Gelio Alves
contact affiliationCBB
contact emailalves@ncbi.nlm.nih.gov
dataset submitter
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Dataset FTP location
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