PXD011489

PXD011489 is an original dataset announced via ProteomeXchange.

Title	Quantitative Phosphoproteomic and System-Level Analysis of TOR Inhibition Unravel Distinct Organellar Acclimation in Chlamydomonas reinhardtii
Description	Rapamycin is an inhibitor of the evolutionary conserved Target of Rapamycin (TOR) kinase which promotes and coordinates translation with cell growth and division. In heterotrophic organisms, TOR regulation is based on intra- and extracellular stimuli such as amino acids level and insulin perception. However, how plant TOR pathways have evolved to integrate plastid endosymbiosis is a remaining question. Despite the close association of the TOR signaling with the coordination between protein turn-over and growth, proteome and phosphoproteome acclimation to a rapamycin treatment have not yet been thoroughly investigated in Chlamydomonas reinhardtii. In this study, we have used in vivo label-free phospho-proteomic analysis to profile both protein and phosphorylation changes at 0, 24, and 48 h in Chlamydomonas cells treated with rapamycin. Using multivariate statistics we highlight the impact of TOR inhibition on both the proteome and the phosphoproteome. Two-way ANOVA distinguished differential levels of proteins and phosphoproteins in response either to culture duration and rapamycin treatment or combined effects. Finally, protein– protein interaction networks and functional enrichment analysis underlined the relation between plastid and mitochondrial metabolism. Prominent changes of proteins involved in sulfur, cysteine, and methionine as well as nucleotide metabolism on the one hand, and changes in the TCA cycle on the other highlight the interplay of chloroplast and mitochondria metabolism. Furthermore, TOR inhibition revealed changes in the endomembrane trafficking system. Phosphoproteomics data, on the other hand, highlighted specific differentially regulated phosphorylation sites for calcium-regulated protein kinases as well as ATG7, S6K, and PP2C. To conclude we provide a first combined Chlamydomonas proteomics and phosphoproteomics dataset in response to TOR inhibition, which will support further investigations.
HostingRepository	PRIDE
AnnounceDate	2018-12-19
AnnouncementXML	Submission_2018-12-21_03:15:19.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Valentin Roustan
SpeciesList	scientific name: Chlamydomonas reinhardtii; NCBI TaxID: 3055;
ModificationList	phosphorylated residue; monohydroxylated residue; acetylated residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2018-10-29 02:32:54	ID requested
1	2018-12-19 04:35:20	announced
⏵ 2	2018-12-21 03:15:20	announced	Updated publication reference for PubMed record(s): 30546371.

Roustan V, Weckwerth W, . Front Plant Sci, 9():1590(2018) [pubmed]

curator keyword: Biological

submitter keyword: TOR, rapamycin, proteomics, phosphoproteomics, energy signaling, plant systems biology, biofuelsx

Prof. Dr. Wolfram Weckwerth
contact affiliation	Department of Ecogenomics and Systems Biology, University of Vienna, Vienna, Austria.
contact email	wolfram.weckwerth@univie.ac.at
lab head
Valentin Roustan
contact affiliation	University of Vienna
contact email	valentin.roustan@univie.ac.at
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD011489
     1. Label: PRIDE project
     2. Name: Quantitative Phosphoproteomic and System-Level Analysis of TOR Inhibition Unravel Distinct Organellar Acclimation in Chlamydomonas reinhardtii