Coincident development and synchronization of sleep-dependent delta in the cortex and medulla

In early development, active sleep is the predominant sleep state before it is supplanted by quiet sleep. In rats, the developmental increase in quiet sleep is accompanied by the sudden emergence of the cortical delta rhythm (0.5-4 Hz) around postnatal day 12 (P12). We sought to explain the emergence of cortical delta by assessing developmental changes in the activity of the parafacial zone (PZ), a medullary structure thought to regulate quiet sleep in adults. We recorded from PZ in P10 and P12 rats and predicted an age-related increase in neural activity during increasing periods of delta-rich cortical activity. Instead, during quiet sleep we discovered sleep-dependent rhythmic spiking activity—with intervening periods of total silence—phase-locked to a local delta rhythm. Moreover, PZ and cortical delta were coherent at P12, but not at P10. PZ delta was also phase-locked to respiration, suggesting sleep-dependent modulation of PZ activity by respiratory pacemakers in the ventral medul..., These files consist of all data required to recreate main figures and analyses from the manuscript, including: electrophysiological spiking and LFP data, respiratory data, as well as behavioral states. Electrophysioloical data were collected from a TDT Neural Data Acquisition System using NeuroNexus electrodes.
Briefly, to analyze LFPs from PZ and cortex, raw neural activity was downsampled to ~1000 Hz, smoothed using a .005 s moving Gaussian kernel, and converted to binary files. For unit activity in PZ, raw neural activity was bandpass filtered (300-5000 Hz) and converted to binary files. Putative units were acquired from templates extracted using Kilosort and visualized and confirmed using Phy2. Waveforms and waveform autocorrelations were used to identify single units and multi-units. Sorted units, LFPs, movement data, and respiratory waveforms were imported into Spike2 (Cambridge Electronic Design, Cambridge, UK) or MATLAB for analysis., , # COINCIDENT DEVELOPMENT AND SYNCHRONIZATION OF SLEEP-DEPENDENT DELTA IN THE CORTEX AND MEDULLA

[https://doi.org/10.5061/dryad.x69p8czsr](https://doi.org/10.5061/dryad.x69p8czsr)

Below are descriptions of all MATLAB structures (i.e., \"databases\") in this Dryad repository.

## Data organization and file structure

All files are MATLAB structures that are labelled as \"age_ID_preproc.mat\". Generally, files are divided by two rat ages: Postnatal day (P) 10 and P12. Each subject has its own ID (e.g., 7M2) and its own .mat data file. Each  datafile has a \"preproc\" structure which has multiple fields/variables containing all the recorded data from that subject. The description on all variables is as follows:

slTime = sleep state time information for extracting/parsing, as determined by subject's behavior.

tSpace = respiratory signal time values

sResp = respiratory signal amplitude

pzlfp = Parafacial zone (PZ) local field potential values

m1lfp = cortical local field potential values

p...