Introduction: The within-subject association between day-to-day energy availability (EA) and next-night nocturnal heart rate variability (HRV) remains insufficiently characterized. Low EA (LEA, <30 kcal·kg⁻¹ fat free mass·day⁻¹) is the underlying mechanism of Relative Energy Deficiency in Sport (RED-S), yet its acute autonomic correlates are not well resolved at the day-to-day level. We quantified the within-person association between daily EA and next-night nocturnal HRV in 22 physically active individuals (BUT CGM dataset) who experienced both LEA and adequate EA ( ≥45 kcal·kg⁻¹ fat free mass·day⁻¹) days during 8–10 days of free-living monitoring (123 person-day observations; 71 LEA, 52 adequate EA). Methods: Daily EA was computed as (energy intake − exercise energy expenditure) / fat-free mass. Exercise energy expenditure was estimated using a cardiopulmonary exercise testing (CPET) calibrated zone-based model with individual ventilatory thresholds and respiratory exchange ratio–derived caloric equivalents. Nocturnal HRV was extracted from single-lead ECG during sleep windows, computed on 5-minute segments using time-domain and Welch frequency-domain methods, and averaged across the night; each night was paired with the preceding day's EA. Results: Within-person adequate EA − Low EA contrasts were estimated using linear mixed-effects models with random intercepts for participants. Eight of ten HRV parameters were significantly elevated on adequate EA versus LEA days: pNN50, HF power, RMSSD, standard deviation of heart rate (SDHR), SDNN, LF power, lnRMSSD, and RR intervals. Heart rate and LF/HF ratio did not differ.
Conclusion: These findings characterize the within-subject association between day-to-day EA and nocturnal HRV under free-living conditions, indicating that vagal-mediated and overall variability indices are systematically reduced on LEA days. Nocturnal HRV may thus serve as a sensitive, non-invasive marker of short-term physiological status in physically active individuals; however, observed changes in HRV may reflect multiple influences, with LEA representing one of the potential contributing factors.