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PXD015649

PXD015649 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleTowards a better understanding the testicular proteome of domestic pig
DescriptionFor gaining additional insights into the composition of the testicular proteome of the domestic pig (Sus scrofa domestica), we conducted 2DE-MS. Two-dimensional SDS PAGE was run on testicular lysates of three boars, with three gels per boar. Upon matching across gels, we arbitrarily selected protein spots for mass spectrometry analysis. Excised slices were vacuum dried and soaked with digestion buffer containing trypsin (0.01 μg/μl), followed by overnight incubation at 37°C in the same buffer without trypsin. Subsequently, peptides were extracted in solvents of increasing acetonitrile content, by sonication. Upon vacuum-centrifugation, peptides were reconstituted in 0.1% formic acid (FA). Following this, peptides were fractionated by reversed phase liquid chromatography (C18; buffer A: 0.1% FA dissolved in HPLC-H2O; buffer B: 0.1% FA, dissolved in CAN; flow-rate: 0.4 µL/min; gradient: 2-30% in 30 minutes). Eluted peptides were injected via an electrospray ionization interface into a Q-TOF mass spectrometer (one boar, Q TOF Ultima, Micromass/Waters, Manchester, UK) and an ion-trap mass spectrometer (two other boars, XCT ion-trap, Agilent Technologies, Waldbronn, Germany). We used ProteomeDiscoverer 2.4 (Thermo Fisher Scientific, San Jose, USA) for peptide and protein identification. Using Sequest HT, we searched peak lists (*.mgf) against the Sus scrofa reference proteome database (UniProt Proteome ID: UP000008227, 49,793 proteins).
HostingRepositoryPRIDE
AnnounceDate2022-08-12
AnnouncementXMLSubmission_2022-08-12_00:00:50.626.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterMarcel Kwiatkowski
SpeciesList scientific name: Sus scrofa domesticus (domestic pig); NCBI TaxID: 9825;
ModificationListphosphorylated residue; acetylated residue; monohydroxylated residue
Instrument6340 Ion Trap LC/MS; Q-Tof Ultima
Dataset History
RevisionDatetimeStatusChangeLog Entry
02019-10-01 00:23:52ID requested
12022-08-12 00:00:52announced
Publication List
Kwiatkowski M, Hotze M, Schumacher J, Asif AR, Pittol JMR, Brenig B, Ramljak S, Zischler H, Herlyn H, Protein speciation is likely to increase the chance of proteins to be determined in 2-DE/MS. Electrophoresis, 43(11):1203-1214(2022) [pubmed]
Keyword List
submitter keyword: sus srofa, 2DE-MS, proteomics
Contact List
Holger Herlyn,
contact affiliationInstitute of Organismic and Molecular Evolution, Anthropology, Johannes Gutenberg University Mainz, Germany
contact emailhherlyn@uni-mainz.de
lab head
Marcel Kwiatkowski
contact affiliationUniversity of Innsbruck
contact emailmarcel.kwiatkowski@uibk.ac.at
dataset submitter
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