PXD001162

PXD001162 is an original dataset announced via ProteomeXchange.

Title	Analysis low level Hsp90 proteome by SILAC in yeast
Description	Hsp90 is one of the most abundant and conserved proteins in the cell. Reduced levels or activity of Hsp90 causes defects in many cellular processes and also reveals genetic or non-genetic variation in populations. Despite information about Hsp90 protein-protein interactions, a global view of the Hsp90 regulated proteome in yeast is unavailable. To investigate the degree of dependency of individual yeast proteins on Hsp90, we used the SILAC method coupled with mass spectrometry (MS) to quantify around 4000 proteins in low-Hsp90 cells and observed that 904 proteins were changed in their abundance by more than 1.5 fold. When compared with the transcriptome of the same population of cells, two-thirds of the mis-regulated proteins were observed to be affected post-transcriptionally, of which the majority were down-regulated. Further analyses indicated that the down-regulated proteins are highly conserved and assume central roles in cellular networks with a high number of interacting partners, suggesting that Hsp90 buffers genetic or non-genetic variation through regulating protein network hubs. The down-regulated proteins were enriched for essential proteins previously unknown to be Hsp90-dependent. Finally, we observed that down-regulation of transcription factors and mating pathway components by attenuating Hsp90 function led to decreased target gene expression and pheromone response respectively, providing a direct link between observed proteome regulation and cellular phenotypes.
HostingRepository	PRIDE
AnnounceDate	2014-10-24
AnnouncementXML	Submission_2014-10-24_02:25:30.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD001162
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Scott Schuyler
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue; 6x(13)C labeled residue; deaminated residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2014-07-22 01:37:58	ID requested
⏵ 1	2014-10-24 02:25:31	announced

Gopinath RK, You ST, Chien KY, Swamy KB, Yu JS, Schuyler SC, Leu JY, The Hsp90-dependent proteome is conserved and enriched for hub proteins with high levels of protein-protein connectivity. Genome Biol Evol, 6(10):2851-65(2014) [pubmed]

curator keyword: Biological

submitter keyword: Yeast, Hsp90, Proteome, SILAC

Scott C. Schuyler
contact affiliation	Department of Biomedical Sciences, College of Medicine, Chang Gung University, Tao-Yuan Taiwan
contact email	schuyler@mail.cgu.edu.tw
lab head
Scott Schuyler
contact affiliation	Chang Gung University
contact email	schuyler@mail.cgu.edu.tw
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD001162
     1. Label: PRIDE project
     2. Name: Analysis low level Hsp90 proteome by SILAC in yeast