GF (Germ-free) and SPF (Specific Pathogen-Free) mice multi-organ multi-omics project

The gut microbiota influences host immunity and metabolism, and changes in its composition and function have been implicated in several non-communicable diseases. Here, comparing germ-free (GF) and specific pathogen-free (SPF) mice using spatial transcriptomics, single-cell RNA sequencing, and targeted bile acid metabolomics across multiple organs. This design aims to further elucidate how the absence of microbiota disturbs organ morphology, cell composition and function, key cytokines expression, enterohepatic axis circulation of bile acid, and lipid metabolism. Thus, our study provides a valuable reference map for exploring crosstalk between microbiota and host.