PXD013789

PXD013789 is an original dataset announced via ProteomeXchange.

Title	Novel interconnections of HOG signaling revealed by combined use of two proteomic software packages
Description	Modern quantitative mass spectrometry (MS)-based proteomics enables researchers to unravel signaling networks by monitoring proteome-wide cellular responses to different stimuli. MS-based analysis of signaling systems usually requires an integration of multiple quantitative MS experiments, which remains challenging, given that the overlap between these datasets is not necessarily comprehensive. In a previous study we analyzed the impact of the yeast mitogen-activated protein kinase (MAPK) Hog1 on the hyperosmotic stress-affected phosphorylome. Using a combination of a series of hyperosmotic stress and kinase inhibition experiments, we identified a broad range of direct and indirect substrates of the MAPK. Here we re-evaluate this extensive MS dataset and demonstrate that a combined analysis based on two software packages, MaxQuant and Proteome Discoverer, increases the coverage of Hog1 target proteins by 30%. Using protein-protein proximity assays we show that the majority of new targets gained by this analysis are indeed Hog1 interactors. Additionally, kinetic profiles indicate clear-cut and differential trends of Hog1-dependent versus Hog1-independent phosphorylation sites. Our findings highlight a previously unrecognized interconnection between Hog1 signaling and the RAM signaling network, as well as sphingolipid homeostasis.
HostingRepository	PanoramaPublic
AnnounceDate	2019-06-23
AnnouncementXML	Submission_2019-06-23_17:04:48.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Wolfgang Reiter
SpeciesList	scientific name: Saccharomyces cerevisiae; NCBI TaxID: 4932;
ModificationList	Phospho; Carbamidomethyl; Oxidation
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2019-05-09 14:52:42	ID requested
⏵ 1	2019-06-23 17:04:49	announced

Janschitz M, Romanov N, Varnavides G, Hollenstein DM, G, é, recov, á G, Ammerer G, Hartl M, Reiter W, Novel interconnections of HOG signaling revealed by combined use of two proteomic software packages. Cell Commun Signal, 17(1):66(2019) [pubmed]

submitter keyword: Proteome Discoverer, MaxQuant, Proteomics, Mitogen-activated protein kinase (MAPK), Hyperosmotic stress response, High-osmolarity glycerol (HOG), Hog1, Kic1, Orm2, ORMDL, p38

Wolfgang Reiter
contact affiliation	Mass Spectrometry Facility, Max F. Perutz Laboratories, University of Vienna, Vienna BioCenter
contact email	wolfgang.l.reiter@univie.ac.at
lab head
Wolfgang Reiter
contact affiliation	Mass Spectrometry Facility, Max F. Perutz Laboratories, University of Vienna, Vienna BioCenter
contact email	wolfgang.l.reiter@univie.ac.at
dataset submitter

Panorama Public dataset URI