PXD003854

PXD003854 is an original dataset announced via ProteomeXchange.

Title	Proteomic and Phosphoproteomic Analyses of Yeast Reveal the Global Cellular Response to Sphingolipid Depletion
Description	Sphingolipids are essential components of eukaryotic cells with important functions in membrane biology and cellular signaling. Their levels are tightly controlled and coordinated with the abundance of other membrane lipids. How sphingolipid homeostasis is achieved is not yet well understood. Studies performed primarily in yeast showed that the phosphorylation states of several enzymes and regulators of sphingolipid synthesis are important, although a global understanding for such regulation is lacking. Here, we used high-resolution mass-spectrometry-based proteomics and phosphoproteomics, in combination with data from a chemical genetic screen, to analyze the cellular response to sphingolipid synthesis inhibition. Our dataset reveals that changes in protein phosphorylation, rather than protein abundance, dominate the response to blocking sphingolipid synthesis. We identified Ypk1 signaling as a major pathway that is activated under these conditions, and we confirmed and identified Ypk1 targets. We also revealed key aspects of the cellular response to sphingolipid deprivation, including nodes that intersect with sterol metabolism and modification of lipid transport. Our data provide a rich resource for on-going mechanistic studies of key elements of the cellular response to the depletion of sphingolipid levels and the maintenance of sphingolipid homeostasis.
HostingRepository	PRIDE
AnnounceDate	2017-10-24
AnnouncementXML	Submission_2017-10-24_03:38:17.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	romain christiano
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	phosphorylated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2016-03-24 00:30:06	ID requested
1	2017-01-03 03:11:45	announced
⏵ 2	2017-10-24 03:38:18	announced	Updated project metadata.

Fr, ö, hlich F, Olson DK, Christiano R, Farese RV, Walther TC, Proteomic and phosphoproteomic analyses of yeast reveal the global cellular response to sphingolipid depletion. Proteomics, 16(21):2759-2763(2016) [pubmed]

curator keyword: Biological

submitter keyword: yeast, sphingolipid depletion, phosphoproteomics, QExactive HF

Tobias C Walther
contact affiliation	Tobias C. Walther Department of Genetics and Complex Diseases Harvard School of Public Health 655 Huntington Avenue Boston, MA 02115 AFFILIATION: 1 Department of Genetics and Complex Diseases, Harvard T.H. Chan School of Public Health, Boston, MA, USA 2 Department of Cell Biology, Harvard Medical School, Boston, MA, USA 3Broad Institute of MIT and Harvard, Cambridge, MA, USA 4 Howard Hughes Medical Institute, Boston, MA, USA
contact email	twalther@hsph.harvard.edu
lab head
romain christiano
contact affiliation	Harvard School of Public Health
contact email	rchrist@hsph.harvard.edu
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/2016/12/PXD003854

PRIDE project URI

• PRIDE
  1. PXD003854
     1. Label: PRIDE project
     2. Name: Proteomic and Phosphoproteomic Analyses of Yeast Reveal the Global Cellular Response to Sphingolipid Depletion