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Updated: Jan 13, 2026

Monitoring Cell-autonomous Circadian Clock Rhythms of Gene Expression Using Luciferase Bioluminescence Reporters

Monitoring Cell-autonomous Circadian Clock Rhythms of Gene Expression Using Luciferase Bioluminescence Reporters

Published on: September 27, 2012

A mouse circadian proteome atlas.

Yuta Otobe¹, Norie Deki-Arima², Shao Xinyan³

¹Circadian Clock Project, Tokyo Metropolitan Institute of Medical Science, Kamikitazawa 2-1-6, Setagaya-ku, Tokyo 156-8506, Japan.

|January 10, 2026

Summary

Scientists created a comprehensive mouse circadian proteome atlas by analyzing 32 tissues. This resource reveals protein expression patterns across time and space, aiding the study of daily biological rhythms.

Keywords:

circadian clock circadian rhythm mass spectrometry nuclear localization phosphorylation proteome analysis

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Area of Science:

Chronobiology
Proteomics
Genomics

Background:

The circadian clock regulates daily gene expression and physiological processes.
Next-generation sequencing advanced RNA expression studies, but protein-level functional data remains limited.
Understanding protein dynamics is crucial for deciphering circadian biology.

Purpose of the Study:

To generate a comprehensive mouse circadian proteome atlas across multiple tissues.
To investigate the spatiotemporal expression profiles of proteins.
To analyze circadian changes in protein quantity and quality in the liver.

Main Methods:

Utilized next-generation mass spectrometry (Orbitrap Astral) for proteomic analysis.
Performed data-independent acquisition on 584 samples, including developmental tissues.
Analyzed whole-cell and nuclear proteins from 32 tissues, including the suprachiasmatic nucleus (SCN).

Main Results:

Generated a mouse circadian proteome atlas detailing approximately 19,000 proteins.
Revealed spatiotemporal expression patterns of proteins across 32 tissues.
Identified circadian changes in protein quantity and quality, and alterations in a familial advanced sleep phase (FASP) mouse model.

Conclusions:

The multi-tissue circadian proteome atlas is a foundational resource for understanding protein expression and function.
Provides insights into the temporal and spatial regulation of the proteome.
Facilitates research into circadian rhythms and related human diseases like FASP.