Wild mouse gut microbiome protects laboratory mice against lethal influenza virus infection and colorectal cancer

Mouse models are paramount for understanding basic immunological mechanisms, but can be limited in recapitulating human diseases. The microbiome has been identified as a main factor influencing host physiology as illustrated by many studies that disrupt or modify host-microbe interactions in laboratory mice. Differences in the gut microbiome contribute to the variability of research results obtained with genetically identical animals from different vendors. In an effort to identify an external reference that better recapitulates physiologically important interactions found in a natural habitat, we asked how far removed the gut microbiome of laboratory mice is from that of their outbred, wild-living relative. Through genetic analysis we identify the closest wild relatives to classical laboratory strains among 21 distinct populations from Europe, Asia and the Americas. We establish that their gut microbiome differs significantly from that of C57BL/6 mice from the leading breeders worldwide, and that it can be transferred and maintained over several generations under vivarium conditions. Offspring of pregnant germ-free C57BL/6 mice reconstituted with the gut microbiome of wild mice exhibit a significantly reduced inflammatory response and increased survival following influenza A virus infection. This restoration of the natural ‘microbial identity’ of laboratory mice also improved their resistance against mutagen- and inflammation-induced colorectal cancer. Collectively, these data show the beneficial effects of the wild mouse microbiome in two diseases of global relevance. They also illustrate a novel approach towards developing animal models of greater biological relevance and translational research value.