Bacterial ASVs that distinguish species and tissue types
In the crop, 15 ASVs differed significantly between X. sonorinaand X. tabaniformis , 13 of which were classified asApilactobacillus (DESeq2 FDR <0.05, Supplementary Figure S5). In the gut, 59 ASVs differed between Xylocopaspecies, 15 of which were classified as Bifidobacteriaceae (mostlyBombiscardovia ), 27 as Lactobacillaceae (mostlyBombilactobacillus ), and 6 Orbaceae (Gilliamella ) (DESeq2 FDR <0.05, Supplementary Figure S5).
In addition ASVs also differentiated the crop and gut in X. sonorina and X. tabaniformis (Supplementary Figure S6). The crop was enriched in Apilactobacillus (X. sonorina only) and another undefined genus within the Lactobacillaceae (both species). In contrast, the gut of both species was enriched in many ASVs including from the genera Entomomonas , Bombiscardovia ,Bifidobacterium , Apibacter , with additional genera differentially abundant depending on the bee species considered, with more taxa enriched in the gut within X. sonorina .