Metabolomic, lipidomic and transcriptomic reveal meat quality differences among hybrid, indigenous and commercial broiler

With the improvement in living standards, breeders need to improve meat quality to meet consumers' demands. Hybrid (HB), indigenous (IB), and commercial broiler (CB) are the most essential components in consumer market. However, the difference in meat quality and underlying mechanism remains unclear. Our study found that HB showed significant differences in meat-quality performance compared with IB and CB, especially in breast muscle's shear force and meat color. Furthermore, metabolomic, lipidomic, and RNA-seq were performed to screen the critical molecular networks contributing to the performance difference. Most differentially expressed metabolites (DEMs) were significantly associated with shear force and a∗value and enriched in lipid metabolism-related pathways. The lipidomic analysis detected many differentially expressed lipids (DELs), especially between HB and CB. Most showed a positive association with a∗ and b∗ value and a negative association with shear force. RNA-seq analysis screened 275 and 497 differentially expressed genes (DEGs) in HB compared with IB and CB, and they were also highly associated with metabolism pathways and meat-quality performance. Finally, integrative analysis was conducted to screen the core DEMs, DELs and DEGs contributing to meat-quality performance. Our findings provided knowledge for molecular markers to facilitate the selection of chicken meat quality. • This work aims to analyze meat quality between hybrid broiler and pure lines. • Phenotype, metabolomics, lipidomics and RNA-seq analysis are performed. • Hybrid broiler shows unique meat quality features compared with pure lines. • Meat-quality associated metabolites, lipids and gene networks were constructed. • Provide valuable knowledge for the selection of meat quality in broiler breeding.