PXD000500-2

PXD000500 is an original dataset announced via ProteomeXchange.

Title	Arabidopsis mitochondrial proteome during a diurnal cycle
Description	We surveyed the heterogeneity of the mitochondrial proteome and its function during a typical night and day cycle in Arabidopsis shoots. This used a staged, quantitative analysis of the proteome across 10 time points covering 24 h of the life of 3-week-old Arabidopsis shoots grown under 12-h dark and 12-h light conditions. Results were queried against an in-house Arabidopsis database comprising ATH1.pep (release 7) from The Arabidopsis Information Resource and the Arabidopsis mitochondrial and plastid protein sets (the combined database contained a total of 30,700 protein sequences with 12,656,682 residues) using the Mascot search engine version 2.2 and utilizing error tolerances of +-1.2 Da for MS and +-0.6 Da for MS/MS, 'enzyme' set to trypsin, 'maximum missed cleavages' set to 1, variable modifications of oxidation (Met) and carbamidomethyl (Cys), instrument set to ESI-TRAP, and peptide charge set at 2+ and 3+. ATH1.pep is a non-redundant database with systematically named protein sequences based on Arabidopsis genome sequencing and annotation. PRIDE XML files with accession numbers 10471–10525 and without peptide/protein identifications have already been made public.
HostingRepository	PRIDE
AnnounceDate	2014-07-28
AnnouncementXML	Submission_2014-07-28_00:49:45.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD000500
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Chun Pong Lee
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationList	monohydroxylated residue; iodoacetic acid derivatized residue; iodoacetamide derivatized residue
Instrument	instrument model: IonTrap XCT Ultra

Revision	Datetime	Status	ChangeLog Entry
0	2013-10-07 07:49:32	ID requested
1	2013-10-09 02:10:48	announced
1	2013-10-09 02:41:19	announced
⏵ 2	2014-07-28 00:49:46	announced	Updated project metadata.
3	2024-10-07 09:10:02	announced	2024-10-07: Updated project metadata.

Lee CP, Eubel H, Millar AH, Diurnal changes in mitochondrial function reveal daily optimization of light and dark respiratory metabolism in Arabidopsis. Mol Cell Proteomics, 9(10):2125-39(2010) [pubmed]

submitter keyword: Arabidopsis, plant, mitochondria, diurnal cycle, LC-MS/MS

Chun Pong Lee
contact affiliation	Department of Plant Sciences, University of Oxford
contact email	chun.lee@plants.ox.ac.uk
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/2013/10/PXD000500

PRIDE project URI

• PRIDE
  1. PXD000500
     1. Label: PRIDE project
     2. Name: Arabidopsis mitochondrial proteome during a diurnal cycle