A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:26224020", "kind": "science-record", "revision": 7, "content_hash": "sha256:50542d75272603428b1542e6c3e891bfc6dcdbc6347584dd7ded94e76d0facd0", "created_at": "2026-11-01T15:40:09Z", "updated_at": "2026-11-01T21:58:34Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.", "doi": "10.1002/pmic.201500091", "pmid": "26224020", "authors": ["Maren Depke", "Stephan Michalik", "Alexander Rabe", "Kristin Surmann", "Lars Brinkmann", "Nico Jehmlich", "Jörg Bernhardt", "Michael Hecker", "Bernd Wollscheid", "Zhi Sun", "Robert L Moritz", "Uwe Völker", "Frank Schmidt"], "journal": "Proteomics", "year": 2015, "abstract": "Staphylococcus aureus is an opportunistic human pathogen, which can cause life-threatening disease. Proteome analyses of the bacterium can provide new insights into its pathophysiology and important facets of metabolic adaptation and, thus, aid the recognition of targets for intervention. However, the value of such proteome studies increases with their comprehensiveness. We present an MS-driven, proteome-wide characterization of the strain S. aureus HG001. Combining 144 high precision proteomic data sets, we identified 19 109 peptides from 2088 distinct S. aureus HG001 proteins, which account for 72% of the predicted ORFs. Peptides were further characterized concerning pI, GRAVY, and detectability scores in order to understand the low peptide coverage of 8.7% (19 109 out of 220 245 theoretical peptides). The high quality peptide-centric spectra have been organized into a comprehensive peptide fragmentation library (SpectraST) and used for identification of S. aureus-typic peptides in highly complex host-pathogen interaction experiments, which significantly improved the number of identified S. aureus proteins compared to a MASCOT search. This effort now allows the elucidation of crucial pathophysiological questions in S. aureus-specific host-pathogen interaction studies through comprehensive proteome analysis. The S. aureus-specific spectra resource developed here also represents an important spectral repository for SRM or for data-independent acquisition MS approaches. All MS data have been deposited in the ProteomeXchange with identifier PXD000702 (http://proteomecentral.proteomexchange.org/dataset/PXD000702).", "claims": [{"id": "claim-target-result", "statement": "The study used the Percolator score false discovery rate (FDR) to control identification quality, and its source data are accessible through the PRIDE Archive of ProteomeXchange under accession PXD000702. Headline result: 144 high-precision proteomic data sets yielded 19,109 peptides from 2,088 distinct S. aureus HG001 proteins, representing 72% of the predicted ORFs.", "kind": "quantitative", "target": {"value": 72.0, "unit": "per cent", "tolerance": null, "source": "Combining 144 high precision proteomic data sets, we identified 19 109 peptides from 2088 distinct S. aureus HG001 proteins, which account for 72% of the predicted ORFs."}, "evidence": [{"asset": "source:pmid:26224020", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Combining 144 high precision proteomic data sets, we identified 19 109 peptides from 2088 distinct S. aureus HG001 proteins, which account for 72% of the predicted ORFs."}, {"asset": "source:pmid:26224020", "locator": "sections[9] \"2.7 Data analysis\" paragraph 2", "quote": "Identification quality was further controlled via the Percolator score false discovery rate (FDR) [28]."}, {"asset": "source:pmid:26224020", "locator": "sections[9] \"2.7 Data analysis\" paragraph 2", "quote": "All data are available at the PRIDE Archive [29] (http://www.ebi.ac.uk/pride/archive/) of the ProteomeXchange Consortium [30] through accession number PXD000702."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "The study used the Percolator score false discovery rate (FDR) to control identification quality, and its source data are accessible through the PRIDE Archive of ProteomeXchange under accession PXD000702. 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