PXD051227-1

PXD051227 is an original dataset announced via ProteomeXchange.

Title	Protein turnover in mouse and human induced presomitic mesoderm, iPSM, cells
Description	Human embryonic development is generally slower compared with mouse, and one of the model systems for such inter-species differences in developmental tempo is the segmentation clock. The oscillation period of the human segmentation clock, as measured in induced presomitic mesoderm (iPSM) cells, is 2-3 times longer than that of mouse. While the core clock gene HES7 is known to show slower protein degradation in human iPSM compared with mouse iPSM, it remains unclear, whether the concept of species-specific protein stability is generalizable to other genes. Here we systematically compared the protein degradation rates of approximately 5000 genes between human and mouse iPSM by using dynamic SILAC-based proteomics, demonstrating a pervasive trend of slower protein degradation in human cells. The inter-species difference was observed not only for proteasome-mediated but also for lysosome-mediated degradation. We further investigated the effect of metabolism on the protein stability profile. Treatment of mouse iPSM with a glycolysis inhibitor partially slowed down the segmentation clock, and the resulting protein stability profile was closer to that of human, despite less impact on the lysosome-mediated degradation. These results highlight the universality of slower protein degradation in human development compared with mouse, and suggest metabolism as one of the modulators.
HostingRepository	PRIDE
AnnounceDate	2026-08-15
AnnouncementXML	Submission_2026-08-14_18:34:00.320.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Henrik Hammaren
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606; scientific name: Mus musculus (Mouse); NCBI TaxID: NEWT:10090;
ModificationList	6x(13)C; 6x(13)C; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos; Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2024-04-05 17:42:47	ID requested
⏵ 1	2026-08-14 18:34:00	announced

10.1016/J.DEVCEL.2026.07.012;

submitter keyword: SILAC, protein turnover,allochrony

Mikhail M. Savitski
contact affiliation	Genome Biology Unit and Proteomics Core Facility, European Molecular Biology Laboratory, 69117 Heidelberg, Germany
contact email	mikhail.savitski@embl.de
lab head
Henrik Hammaren
contact affiliation	Cellzome GmbH, a GSK company
contact email	henrik.hammaren@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD051227
     1. Label: PRIDE project
     2. Name: Protein turnover in mouse and human induced presomitic mesoderm, iPSM, cells