Sleep is an essential process observed throughout the animal kingdom, and it is important for memory consolidation. Coordinated neuronal activity occurs during sleep, characterized by distinct events across different sleep states. Non-rapid eye movement (NREM) sleep features slow oscillations, delta waves, thalamocortical spindles and hippocampal sharp waves-ripples, while REM sleep is dominated by hippocampal theta oscillations and ponto-geniculo-occipital (PGO) waves, or pontine waves (“P-waves”) in rodents. Even though their origin from mesopontine cholinergic and glutamatergic nuclei is known, it is still unclear how P-waves interact with other brain-wide neural events.Recently, we reported that P-waves are functionally coupled with hippocampal sharp wave-ripples during NREM sleep and hippocampal theta oscillations during REM sleep. Here we test the hypothesis that P-waves influence neural ensembles across the brain in a sleep state-dependent fashion. To this end, we monitored P-waves across sleep-wake cycles while simultaneously examining neuronal activity across multiple brain regions using Neuropixels probes in mice. We found P-wave related changes in neuronal activity across visual, retrosplenial and prefrontal cortical areas, hippocampal formation, as well as striatal, thalamic and midbrain nuclei. In NREM sleep, cell activity across most of the recorded areas was diminished with P-waves onset, while in REM sleep their peak activity was often aligned with P-waves.Our results indicate that there is a sleep state-specific difference in the functional coupling of P-waves and brain-wide neuronal activity, highlighting the importance of P-waves in brain function, and suggesting possible different roles and mechanisms of P-waves in NREM and REM sleep.