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PXD000126

PXD000126 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitlePrototheca zopfii genotype proteomics analysis
DescriptionThe present study was initiated to evaluate the quantitative proteomic profiling of Protothecazopfiigenotypes. The cells (P.zopfii genotype 1 –noninfectious and genotype 2 -infectious) were cultured in triplicates until the mid-logarithmic growth phase; the proteins were extracted after sonication on ice, followed by 2D DIGE separation as recommended by the manufacturer (GE Healthcare). The differentially expressed proteins spots were identified using Decodon software analysis (Delta 2D version 4.0 software). Protein identification was carried out by MALDI TOF MS/MS (Ultraflex III TOF/TOF, Bruker Daltonics, Bremen, Germany). The spectra was acquired using the automated option (AutoXecute ) of the Flex Analysis software version 3.3 (Bruker Daltonics, Leipzig, Germany), processed using Flex analysis software version 3.3 (Bruker Daltonics, Leipzig, Germany) and the database search was conducted using the MS/MS ion search (MASCOT, http://www.matrixscience.com) against all entries of NCBInr (GenBank)/Swissprot with subsequent parameters: trypsin digestion, up to one missed cleavage, fixed modifications: carbamidomethyl and with the following variable modifications: oxidation (M), peptide tol.: +- 1.2 Da, MS/MS tol.: +- 0.6 Da, peptide charge: +1. The results were assessed using MOWSE score, p- and E values and those possess positive hits with cRAP database were eliminated from the list.
HostingRepositoryPRIDE
AnnounceDate2013-07-22
AnnouncementXMLSubmission_2013-07-22_06:29:44.xml
DigitalObjectIdentifierhttps://dx.doi.org/10.6019/PXD000126
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterJayaseelan Murugaiyan
SpeciesList scientific name: Chlorella-like algae; NCBI TaxID: 3168; scientific name: Prototheca zopfii; NCBI TaxID: 3112;
ModificationListiodoacetamide derivatized residue; monohydroxylated residue; neutral loss: 63.998285
Instrumentultraflex TOF/TOF
Dataset History
RevisionDatetimeStatusChangeLog Entry
02013-01-18 05:45:21ID requested
12013-07-22 06:25:17announced
12014-07-28 00:28:04announced
22013-07-22 06:29:44announcedAdd reference
Publication List
Murugaiyan J, Weise C, von Bergen M, Roesler U, Two-dimensional proteome reference map of Prototheca zopfii revealed reduced metabolism and enhanced signal transduction as adaptation to an infectious life style. Proteomics, 13(17):2664-9(2013) [pubmed]
Keyword List
submitter keyword: Prototheca, infectious algae, bovine mastitis, 2D-DIGE, MALDI TOF MS
Contact List
Jayaseelan Murugaiyan
contact affiliationFreie Universität -Berlin, Institut für Tier-und Umwelthygiene, Germany
contact emailjayaseelan.murugaiyan@fu-berlin.de
Full Dataset Link List
Dataset FTP location
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Repository Record List
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