PXD000126

PXD000126 is an original dataset announced via ProteomeXchange.

Title	Prototheca zopfii genotype proteomics analysis
Description	The 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.
HostingRepository	PRIDE
AnnounceDate	2024-10-07
AnnouncementXML	Submission_2024-10-07_08:47:44.032.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD000126
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Jayaseelan Murugaiyan
SpeciesList	scientific name: Prototheca zopfii; NCBI TaxID: 3112; scientific name: Chlorella-like algae; NCBI TaxID: 3168;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	ultraflex; Bruker Daltonics flex series

Revision	Datetime	Status	ChangeLog Entry
0	2013-01-18 05:45:21	ID requested
1	2013-07-22 06:25:17	announced
1	2014-07-28 00:28:04	announced
2	2013-07-22 06:29:44	announced	Add reference
⏵ 3	2024-10-07 08:47:44	announced	2024-10-07: Updated project metadata.

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]

10.1002/pmic.201300037;

10.6019/PXD000126;

submitter keyword: bovine mastitis, MALDI TOF MS,Prototheca, infectious algae, 2D-DIGE

Jayaseelan Murugaiyan
contact affiliation	Proteomics
contact email	jayaseelan.murugaiyan@ufz.de
lab head
Jayaseelan Murugaiyan
contact affiliation	Proteomics
contact email	jayaseelan.murugaiyan@ufz.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2013/07/PXD000126

PRIDE project URI

• PRIDE
  1. PXD000126
     1. Label: PRIDE project
     2. Name: Prototheca zopfii genotype proteomics analysis