Multi-Omics Analysis Reveals Age-Dependent Metabolic Remodeling and Immune Maturation in the Cecum of Liangshan Yanying Chickens.

Liangshan Yanying chicken is a valuable plateau-adapted indigenous poultry breed in China. The poultry cecum modulates nutrient metabolism, gut microbial colonization and intestinal immune barrier establishment, while the molecular mechanisms driving its age-dependent development during the brooding stage remain unclear. Here, integrated transcriptomic and metabolomic profiling coupled with bioinformatics correlation analysis were conducted on cecal samples collected from chickens at post-hatching days 1, 14 and 28. Significant temporal changes were observed in cecal gene expression and metabolite abundance, and day 14 was identified as a critical window for cecal functional maturation and microbial colonization. In total, 2424 metabolites were annotated, including 600 differentially accumulated metabolites. The cecum exhibited phase-specific metabolic patterns: endogenous energy metabolism dominated at 1-14 d, while lipid biosynthesis prevailed at 14-28 d. The intestinal IgA immune network was verified as the core pathway maintaining cecal immune homeostasis in young chicks. Multi-omics conjoint analysis yielded 53 overlapping KEGG pathways, 14 core pathways, 3 pivotal metabolites and 5 hub genes, based on which three interactive regulatory networks were constructed. Transcriptomic data were validated via qRT-PCR. This study reveals cecal metabolic remodeling and regulatory characteristics during the brooding period, supplementing gut developmental research on plateau indigenous chickens. Notably, these results reflect age-related cecal developmental changes rather than breed-specific high-altitude adaptation mechanisms. Further independent verification is required for metabolomic data and predicted regulatory networks. This finding provides a theoretical basis for scientific breeding and feeding management of Liangshan Yanying chickens.