Birth by Cesarean Section Remodels Neonatal Brain Barriers and Associated Immune and Metabolic Pathways in Mice

Turpin, V.; Morael, J. N. S.; Cergneux, A. J. C.; Blair, H. J.; Ratsika, A.; Guzzetta, K. E.; Morales, L.; Knox, E. G.; Ventura-Silva, A. P.; Majumdar, A.; Cintado, E.; Tessier, C.; Shearer, J.; Loftus, N. J.; Armitage, E. G.; Barnes, A.; Clarke, G.; Swann, J. R.; Cryan, J. F.; Aburto, M. R.

doi:10.64898/2026.01.06.696394

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bioRxiv · 10.64898/2026.01.06.696394

Birth by Cesarean Section Remodels Neonatal Brain Barriers and Associated Immune and Metabolic Pathways in Mice

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Abstract

Delivery mode shapes early-life physiology through multiple pathways, including stress and hormonal signalling, neonatal oxygenation, and exposure to maternal microbes. Cesarean section (CS) bypasses several of these processes and has been associated with altered immune maturation and neurodevelopmental outcomes in humans and animal models. Given that CS is known to disrupt gut barrier integrity and that gut and brain barriers operate as a coordinated network, we investigated whether CS affects early postnatal brain barriers. Using a mouse model, we compared CS-delivered pups to vaginally born (VB) controls at postnatal days 8-9. Brain barrier permeability and structure were assessed using tracer extravasation and vascular and tight junction analyses, choroid plexus immune populations were profiled, and metabolomics was performed in cortex and plasma. The blood-brain barrier in the medial prefrontal cortex was mostly preserved. In contrast, the blood-cerebrospinal fluid barrier (BCSFB) exhibited structural alterations in vascular and epithelial tight junction compartments. These changes were accompanied by immune remodelling, including expansion of antigen-presenting border-associated macrophages and reduced parenchymal microglia density. CS delivery increased brain tracer accumulation, consistent with altered barrier function during this developmental window. Metabolomic analyses revealed lower levels of key brain metabolites, including N-acetylaspartate, a marker of neuronal metabolic state. Together, these findings demonstrate that CS delivery induces early alterations in brain barrier function, BCSFB structure, the immune landscape, and metabolic profiles in mice. This identifies delivery mode as a key perinatal variable shaping neonatal brain physiology and establishes a framework for dissecting how birth context may influence long-term neurodevelopmental trajectories. HIGHLIGHTSO_LICesarean section (CS) reveals the neonatal BCSFB as a vulnerable interface shaped by birth mode C_LIO_LICS increases brain tracer accumulation despite largely preserved BBB structural markers at the mPFC C_LIO_LICS induces region-specific vascular, epithelial, and immune remodeling in the choroid plexus C_LIO_LICesarean birth increases the proportion of antigen-presenting choroid plexus macrophages C_LIO_LICS shifts mPFC metabolic profiles, including reduced N-acetylaspartate and malate C_LI

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Turpin, V., Morael, J. N. S., Cergneux, A. J. C., Blair, H. J., Ratsika, A., Guzzetta, K. E., Morales, L., Knox, E. G., Ventura-Silva, A. P., Majumdar, A., Cintado, E., Tessier, C., Shearer, J., Loftus, N. J., Armitage, E. G., Barnes, A., Clarke, G., Swann, J. R., Cryan, J. F., Aburto, M. R.. 2026-01-07. Birth by Cesarean Section Remodels Neonatal Brain Barriers and Associated Immune and Metabolic Pathways in Mice. https://doi.org/10.64898/2026.01.06.696394

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