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Temporal Multi-Omic Analysis Uncovers Sex-Biased Molecular Programs Underlying Skeletal Muscle Adaptation to Endurance Training.

Publication ,  Journal Article
Many, GM; Jin, C; Day, N; Iyer, G; Smith, G; Sanford, J; Bareja, A; Jimenez-Morales, D; Voos, K; Leach, D; Sagendorf, T; Li, X; Gaffrey, M ...
Published in: bioRxiv
December 27, 2025

BACKGROUND: Exercise training is known to benefit health and reduce disease risk. While skeletal muscle adaptations are fundamental to many of the health benefits of exercise training, the common and sex-specific molecular regulators that mediate these adaptations remain to be fully elucidated. METHODS: To this end, we leveraged skeletal muscle multi-omics data generated by the Molecular Transducers of Physical Activity Consortium (MoTrPAC), where 6 month-old male and female rats endurance trained for 1, 2, 4, or 8 weeks. Our objective was to identify shared and sex-specific multi-omic molecular responses to endurance training in skeletal muscle, and relate them to phenotypic adaptations. RESULTS: We identified largely sexually-conserved transcriptomic and proteomic pathway enrichments in the gastrocnemius , which correlated with skeletal muscle responses from a published exercise study in humans. We uncovered sex-consistent post-translational modifications, including decreased oxidation of MYH2 and deacetylation of the β-oxidation enzyme HADHA. Pathway enrichment analyses revealed sex-specific remodeling across the acetylome, redox proteome, and phosphoproteome; females decreased mitochondrial protein cysteine oxidation and increased mitochondrial cristae proteins, indicative of enhanced redox buffering and mitochondrial efficiency. Despite decreases in cysteine oxidation of key mitochondrial proteins, females displayed increases in the cysteine oxidation of proteins involved in glucose catabolism relative to males after 8 weeks of training, suggestive of sex-biased subcellular reactive oxygen species generation. Males demonstrated earlier induction of mitochondrial transcripts and predicted activation of mTOR. Although the increase in mitochondrial protein abundance was more modest in males, there was greater oxidation of mitochondrial proteins in response to training compared to females. CONCLUSIONS: This work shows a large portion of the adaptive response to endurance training in skeletal muscle is shared between females and males, while there are distinct and nuanced sex-specific adaptations that are evident, particularly at the level of post-translational regulation.

Duke Scholars

Published In

bioRxiv

DOI

EISSN

2692-8205

Publication Date

December 27, 2025

Location

United States
 

Citation

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Many, G. M., Jin, C., Day, N., Iyer, G., Smith, G., Sanford, J., … MoTrPAC study group. (2025). Temporal Multi-Omic Analysis Uncovers Sex-Biased Molecular Programs Underlying Skeletal Muscle Adaptation to Endurance Training. BioRxiv. https://doi.org/10.64898/2025.12.26.696612
Many, Gina M., Christopher Jin, Nicholas Day, Gayatri Iyer, Gergory Smith, James Sanford, Akshay Bareja, et al. “Temporal Multi-Omic Analysis Uncovers Sex-Biased Molecular Programs Underlying Skeletal Muscle Adaptation to Endurance Training.BioRxiv, December 27, 2025. https://doi.org/10.64898/2025.12.26.696612.
Many, Gina M., et al. “Temporal Multi-Omic Analysis Uncovers Sex-Biased Molecular Programs Underlying Skeletal Muscle Adaptation to Endurance Training.BioRxiv, Dec. 2025. Pubmed, doi:10.64898/2025.12.26.696612.
Many GM, Jin C, Day N, Iyer G, Smith G, Sanford J, Bareja A, Jimenez-Morales D, Voos K, Leach D, Sagendorf T, Li X, Gaffrey M, Attah I, Mitchell H, Viggars M, Gaul D, Huffman KM, Férnandez F, Snyder MP, Ortlund E, Kohrt W, Wheeler MT, Kraus WE, Esser KA, Goodpaster B, Burant CF, Newgard CB, Hevener A, Bodine SC, Qian W-J, Schenk S, Adkins J, Lindholm ME, MoTrPAC study group. Temporal Multi-Omic Analysis Uncovers Sex-Biased Molecular Programs Underlying Skeletal Muscle Adaptation to Endurance Training. bioRxiv. 2025 Dec 27;

Published In

bioRxiv

DOI

EISSN

2692-8205

Publication Date

December 27, 2025

Location

United States