Bahtiyar Yılmaz, Isabel Baertschi, Karin Meier, Constance Le Gac, Sebastian Bruno Ulrich Jordi, Caitlin Black, Jiaqi Li, Anna K. Lindholm, Pinar Ciftci, Julian Evans, Bruce Boatman, Sarah C. L. Knowles, Eveliina Hanski, John F. Baines, Peter J. Cowan, Fabio Grassi, S. Maffei, Marcelo T. Bozza, Vinícius Mendes Vidal, Arthur Kaser, Lorraine M. Holland, Raffaella Gozzelino, Sílvia Cardoso, Pilar Martı́n, Cécile Fremond, Patricia Lopes, Rui Costa, Ana Mafalda Vicente, Yuuki Obata, Vassilis Pachnis, Ali Altıntaş, Lewin Small, Ali Adnan, Mathias Heikenwälder, Sandra Offner, Didier Trono, Sinem Karaman, Myrto Denaxa, Omar Mossad, Marco Prinz, Thomas Blank, Mirko Trajkovski, Dorothée Rigo, Andy Wullaert, Lars Vereecke, Wendy S. Garrett, Sena Bae, Viktória Jeney, Sofia Lamas, Bruno Silva‐Santos, Natacha Gonçalves‐Sousa, İlker Karacan, Sebastian Weis, Daniel Kariuki, Ewoud N. Speksnijder, Iqbal Hamza, María Rescigno, Michela Lizier, Andrea Cerutti, Emilie K. Grasset, Fiona Powrie, Claire Pearson, Lilian H. Lam, Jerzy Kotlinowski, Sin‐Hyeog Im, Hiroshi Ohno, Takashi Kanaya, George Birchenough, Stéphanie Claudinot, P. L. P. Van Loo, Marco Cassano, Zuri A. Sullivan, Sven Pettersson, Kwang S. Kim, Aikaterini Nanou, Hai Li, Barbara König, Uwe Sauer, Jörg Stelling, Andrew J. Macpherson
Host-microbiota mutualism is rooted in the exchange of dietary and metabolic molecules. Microbial diversity broadens the metabolite pool, with each taxon contributing distinct compounds in varying proportions. In the human microbiome, high variability in consortial composition is largely compensated by similar metabolic functions across different taxa. However, the extent of compensation in lower diversity mouse models, and whether vivaria are metabolically equivalent, is unknown. We provide a searchable resource of microbiome composition variability across 51 murine vivaria and 12 wild mouse colonies worldwide, with vivarium-specific variants mapped according to predicted 3D structures for each microbial species. Our matched metabolomics data show that realized metabolic potential has relatively low variability, providing functional evidence for metabolic compensation. Additionally, variability is related to taxonomic composition rather than vivarium, revealing taxa-metabolite associations that are potentially relevant to phenotypic differences between vivaria. Collectively, this resource offers tools to strengthen microbiome studies and collaborative science.