PXD000165

PXD000165 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Analysis of botrytis cinerea mycelium proteins
Description	Comparison of Botrytis cinerea wild-type B.05.10 and T4 strains using label-free nUPLC-MSE and 2-DE approaches. B. cinerea strain mycelium were grown in synthetic minimal medium-modified Czapeck-Dox. Protein extracts were obtained from pulverized mycelium using TCA-phenol method. Acquired spectra were internally calibrated with peptides from trypsin 180 autolysis (M+H+=842.509,M+H+=2211.104) with an m/z precision of ±20 ppm. A combined search (PMF and MS/MS) was performed with GPS ExplorerTM software v3.5 (Applied Biosystems) over non-redundant NCBI databases using the MASCOT search engine. The database search utilized the following parameters: taxonomy restrictions to Fungi (06.17.2011), one missed cleavage sites, 100 ppm mass tolerance in MS and 0.5 Da for MS/MS data, cysteine carbamidomethylation as a fixed modification, and methionine oxidation as a variable modification. The confidence in the peptide mass fingerprinting matches (p<0.05) was based on the MOWSE score.
HostingRepository	PRIDE
AnnounceDate	2013-05-02
AnnouncementXML	Submission_2013-05-02_03:17:30.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Kerman Aloria
SpeciesList	scientific name: Botryotinia fuckeliana (strain B05.10) (Noble rot fungus) (Botrytis cinerea); NCBI TaxID: 332648; scientific name: Botryotinia fuckeliana (strain T4) (Noble rot fungus) (Botrytis cinerea); NCBI TaxID: 999810;
ModificationList	acetylated residue; iodoacetamide derivatized residue; deamidated residue; monohydroxylated residue
Instrument	4800 Proteomics Analyzer; Synapt MS

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2013-02-28 04:23:43	ID requested
1	2013-05-02 02:44:02	announced
1	2014-07-25 00:56:06	announced
⏵ 2	2013-05-02 03:17:30	announced	Add reference

Publication List

Gonzalez-Fernandez R, Aloria K, Arizmendi JM, Jorrin-Novo JV, Application of label-free shotgun nUPLC-MS(E) and 2-DE approaches in the study of Botrytis cinerea mycelium. J Proteome Res, 12(6):3042-56(2013) [pubmed]

Gonzalez-Fernandez R, Aloria K, Arizmendi JM, Jorrin-Novo JV, Application of label-free shotgun nUPLC-MS(E) and 2-DE approaches in the study of Botrytis cinerea mycelium. J Proteome Res, 12(6):3042-56(2013) [pubmed]

Keyword List

submitter keyword: Botrytis cinerea, 2DE, MSE, quantification

submitter keyword: Botrytis cinerea, 2DE, MSE, quantification

Contact List

Kerman Aloria
contact affiliation	Proteomics Core Facility
contact email	kerman.aloria@ehu.es

Full Dataset Link List

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/2013/05/PXD000165

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/2013/05/PXD000165