Fig. 1

The expanded set of microbial genomes and species from the gut microbiomes of NHPs. a Phylogenetic tree of the primate species considered in this study (adapted from [44]), reporting the dataset and number of samples per species. b Microbial phylogeny of the 4930 species-level genome bins (SGBs, using single representative genomes, see the “Methods” section) and the 1009 SGBs that are specific to NHPs and newly retrieved in this study. c Overlap between the sets of SGBs reconstructed from NHP metagenomes and at least 1 reference microbial genome (kSGBs), between SGBs reconstructed both from NHP and human metagenomes but lacking a reference genome (uSGBs), and identification of newly assembled SGBs from NHPs metagenomes only (pSGBs). d Fraction of MAGs assigned to clades at different taxonomic levels; samples unassigned at the species level (kSGB or uSGB) could be assigned to known genus-level genome bins (GGBs) or family-level genome bins (FGBs), or remained unassigned at the family level (not assigned at FGB level). e Statistics of NHP metagenomic read mappability before and after the addition of MAGs from human and NHP metagenomes. We observed an average increase of 612% with respect to the reference genomes alone and 206% with respect to the catalog of human MAGs