bovine gut 16s amplicon Raw sequence reads. bovine gut metagenome

We performed scRNA-seq to build a comprehensive single-cell compendium across 13 bovine tissue types at newborn (NB) and adult (AD) stages, and delineated the multi-tissue patterns of cell stemness plasticity. We also integrated the epithelial microbiome, metabolome, and single-cell transcriptome to explore the role of microbiota in the cell stemness plasticity of the forestomach. The further cross-species comparison based on single-cell transcriptomic data assists in revealing the cattle-specific novel cell types contributing to the maintenance of cell stemness in postnatal ruminating maturity.