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Abstract Disruptions to circadian rhythms in mammals are associated with alterations in their physiological and mental states. Circadian rhythms are currently analyzed in the time domain using approaches such as actograms, thus failing to appreciate their time-localized characteristics, time-varying nature and multiscale dynamics. In this study, we apply time-resolved analysis to investigate behavioral rhythms in Per1/2/3 knockout (KO) mice and their changes following methamphetamine administration, focusing on circadian (around 24 h), low-frequency ultradian (around 7 h), high-frequency ultradian (around 30 min), and circabidian (around 48 h) oscillations. In the absence of methamphetamine, Per1/2/3 KO mice in constant darkness exhibited a dominant, ∼7 h oscillation. We demonstrate that methamphetamine exposure restores the circadian rhythm, although the frequency of the methamphetamine sensitive circadian oscillator varied considerably compared to the highly regular wild-type circadian rhythm. Additionally, methamphetamine increased multiscale activity and induced a circabidian oscillation in the Per1/2/3 KO mice. The information transfer between oscillatory modes, with frequencies around circadian, low-frequency ultradian and high-frequency ultradian activity, due to their mutual couplings, was also investigated. For Per1/2/3 KO mice in constant darkness, the most prevalent coupling was between low and high-frequency ultradian activity. Following methamphetamine administration, the coupling between the circadian and high-frequency ultradian activity became dominant. In each case, the direction of information transfer was between the corresponding phases from the slower to faster oscillations. The time-varying nature of the circadian rhythm exhibited in the absence of Per1/2/3 genes and following methamphetamine administration may have profound implications for health and disease. 

Circadian rhythms are internal processes repeating approximately every 24 hours in living organisms. The dominant circadian pacemaker is synchronized to the environmental light-dark cycle. Other circadian pacemakers, which can have noncanonical circadian mechanisms, are revealed by arousing stimuli, such as scheduled feeding, palatable meals and running wheel access, or methamphetamine administration. Organisms also have ultradian rhythms, which have periods shorter than circadian rhythms. However, the biological mechanism, origin, and functional significance of ultradian rhythms are not well-elucidated. The dominant circadian rhythm often masks ultradian rhythms; therefore, we disabled the canonical circadian clock of mice by knocking out Per1/2/3 genes, where Per1 and Per2 are essential components of the mammalian light-sensitive circadian mechanism. Furthermore, we recorded wheel-running activity every minute under constant darkness for 272 days. We then investigated rhythmic components in the absence of external influences, applying unique multiscale time-resolved methods to analyze the oscillatory dynamics with time-varying frequencies. We found four rhythmic components with periods of ∼17 h, ∼8 h, ∼4 h, and ∼20 min. When the ∼17-h rhythm was prominent, the ∼8-h rhythm was of low amplitude. This phenomenon occurred periodically approximately every 2-3 weeks. We found that the ∼4-h and ∼20-min rhythms were harmonics of the ∼8-h rhythm. Coupling analysis of the ridge-extracted instantaneous frequencies revealed strong and stable phase coupling from the slower oscillations (∼17, ∼8, and ∼4 h) to the faster oscillations (∼20 min), and weak and less stable phase coupling in the reverse direction and between the slower oscillations. Together, this study elucidated the relationship between the oscillators in the absence of the canonical circadian clock, which is critical for understanding their functional significance. These studies are essential as disruption of circadian rhythms contributes to diseases, such as cancer and obesity, as well as mood disorders.