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Phosphoproteomics of yeast strains undergoing nitrogen or phosphate starvation

ABSTRACT: In the project «Phosphoproteomics of yeast strains undergoing nitrogen or phosphate starvation» phosphoproteomics and expression proteomics were performed. In biological triplicates label-free quantification of different S. cerevisiae strains was performed. Five strains were used:(a) Ctrl WT, (b) WT, (c) deltaAtg13, (d) deltaPho81, (e) deltaAtg13, deltaPho81 (DKO)

INSTRUMENT(S):

ORGANISM(S): Saccharomyces Cerevisiae (baker's Yeast)

SUBMITTER: Joern Dengjel

LAB HEAD: Joern Dengjel

PROVIDER: PXD045932 | Pride | 2023-12-15

REPOSITORIES: Pride

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			Action	DRS
	20230708_MS_PP2321_FT_S01.raw	Raw
	20230708_MS_PP2321_FT_S02.raw	Raw
	20230708_MS_PP2321_FT_S03.raw	Raw
	20230708_MS_PP2321_FT_S04.raw	Raw
	20230708_MS_PP2321_FT_S05.raw	Raw

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Project description:The trimeric thrombospondin homologs, TSP1 and TSP2, are both components of bone tissue and contribute in redundant and distinct ways to skeletal physiology. The functional effects of combined TSP1 and TSP2 deficiency remain to be elucidated. Here, we examined the spectrum of detergent soluble proteins in diaphyseal cortical bone of growing (6-week old) male and female mice deficient in both thrombospondins (double knockout (DKO)). Equal amounts of detergent soluble cortical bone protein were subject to Tandem Mass Tags (TMT) quantitative proteomics. 3,429 proteins met the selection criteria (FDR≤ 1% and 2 peptide spectral matches). 181 proteins were differentially abundant in both male and female DKO bones (≥1.95 fold or ≤0.55 fold compared to wild-type). Physiologically relevant annotation terms identified by Ingenuity Pathway Analysis included “ECM degradation” and “Quantity of Monocytes.” Manual inspection revealed that a number of proteins with shared expression among osteoclasts and osteocytes were reduced in DKO bones. To associate changes in protein content with phenotype, we examined 12-week old male DKO and WT mice. DKO mice were smaller than WT. DKO femora had reduced cross-sectional area with a flattened, less circular cross-section. DKO bones were less stiff in bending, but this reduction was disproportionate to the decreases in bending moment of inertia on nanoCT leading to a modest increase in predicted modulus (stiffness/bending moment). DKO displayed a lower ultimate load along with increases in both ultimate displacement and yield displacement. The ratio of ultimate displacement to yield displacement was actually higher in DKO, suggesting that decreased yield displacement does not account entirely for the reduction in ultimate displacement. Together, these mechanical attributes suggest compensation for small bone size through mechanisms that are not explained by nanoCT structural analysis. DKO mice also exhibited reductions in trabecular bone mass, which were surprisingly associated with increased osteoblast numbers and osteoid surface. Marrow-derived colony forming unit-fibroblastic was reduced in DKO mice. Together our data suggest that when both TSP1 and TSP2 are absent, a unique bone phenotype not predicted by the single knockouts, is manifested

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Phosphoproteomics of yeast strains undergoing nitrogen or phosphate starvation

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