PXD000546

PXD000546 is an original dataset announced via ProteomeXchange.

Title	Deciphering thylakoid microdomains using a mass spectrometry-based approach
Description	In photosynthetic eukaryotes, photosynthesis occurs in the chloroplast, and more specifically in the thylakoid membranes. The thylakoids consist of two main domains: the grana, which are piles of membranes gathered together by stacking forces, and the stroma-lamellae, which are unstacked thylakoids connecting the grana. The major photosynthetic complexes are unevenly distributed, within these compartments, due to steric and electrostatic constraints and to their role in the photosynthetic process. To gain information on the sub-thylakoid distribution of these proteins (i.e. in the grana and in the stroma-lamellae) we combined experimental approaches to perform a complete survey of the protein composition of these thylakoid sub-compartments using i) thylakoid membrane fractionations to improve the dynamic range detection of minor thylakoid proteins and ii) a quantitative proteomic approach coupled to a dedicated data analysis pipeline and manual annotation to differentiate genuine grana and stroma-lamellae proteins from possible contaminants. Besides confirming previous information on the localization of photosynthetic proteins, these experiments provide some unexpected results, and allow revisiting the composition of the thylakoid micro-domains.
HostingRepository	PRIDE
AnnounceDate	2015-09-23
AnnouncementXML	Submission_2015-09-23_07:18:27.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD000546
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Hesse Anne-Marie
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2013-10-28 04:39:41	ID requested
⏵ 1	2015-09-23 07:18:28	announced

Tomizioli M, Lazar C, Brugi, è, re S, Burger T, Salvi D, Gatto L, Moyet L, Breckels LM, Hesse AM, Lilley KS, Seigneurin-Berny D, Finazzi G, Rolland N, Ferro M, Deciphering thylakoid sub-compartments using a mass spectrometry-based approach. Mol Cell Proteomics, 13(8):2147-67(2014) [pubmed]

submitter keyword: chloroplast, thylakoid, grana, stroma-lamellae, label-free quantitation, statistical analysis, clustering, subcellular localization

Myriam Ferro
contact affiliation	Exploring the Dynamics of Proteomes laboratory; UGA/CEA/Inserm U1038, CEA/Grenoble, 17 Avenue des Martyrs, F-38054 Grenoble
contact email	myriam.ferro@cea.fr
lab head
Hesse Anne-Marie
contact affiliation	Laboratoire d'Etude de la Dynamique des Proteomes
contact email	anne-marie.hesse@cea.fr
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD000546
     1. Label: PRIDE project
     2. Name: Deciphering thylakoid microdomains using a mass spectrometry-based approach