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An Atlas of Proteome and Phosphoproteome Turnover Across Mouse Tissues and Brain Regions

ABSTRACT: Understanding how different mammalian tissues are regulated is central to biology. Since the same proteins often appear in multiple tissues, protein abundance, turnover, and post-translational modifications, like phosphorylation, are key factors that determine tissue-specific proteome properties. However, these properties are challenging to study comprehensively across tissues and remain poorly understood. Here, we present Turnover-PPT, a comprehensive resource mapping the abundance and lifetime of 11,000 proteins and 40,000 phosphosites across eight mouse tissues and various brain regions, using advanced proteomics and stable isotope labeling. We identified tissue-specific short- and long-lived proteins, revealing strong correlations between interacting protein lifetimes and differences between unmodified/phosphorylated peptide pairs. Notably, we discovered that peroxisomes are regulated by protein turnover across tissues, and that phosphorylation impacts the stability of key proteins in the brain such as Tau and α-synuclein. Turnover-PPT provides new fundamental insights into protein stability, tissue dynamics, and the role of protein phosphorylation.

INSTRUMENT(S): Orbitrap Fusion Lumos, Q Exactive

ORGANISM(S): Mus Musculus (mouse)

TISSUE(S): Spleen, Heart, Brain, Blood Plasma, Liver, Lung, Kidney

SUBMITTER: Wenxue Li

LAB HEAD: yansheng liu

PROVIDER: PXD055942 | Pride | 2025-03-11

REPOSITORIES: Pride

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			Action	DRS
	20210709_JM_pSIL_phos_Amygdala_0d_1.raw	Raw
	20210709_JM_pSIL_phos_Amygdala_0d_2.raw	Raw
	20210709_JM_pSIL_phos_Amygdala_32d_1.raw	Raw
	20210709_JM_pSIL_phos_Amygdala_32d_2.raw	Raw
	20210709_JM_pSIL_phos_Amygdala_8d_1.raw	Raw

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