The hematopoietic cells from a genetically predisposed donor shape a distinct microbiome. (A) Overview of the experimental design is illustrated. WT mice were born and kept in SPF facilities. Stool samples were collected before irradiation with 2 doses of 6 Gy to eradicate the BM. Bone marrow transplantation (BMT) was carried out using Pax5^+/– and WT mice as donors. Mice were monitored after transplantation, and stool samples were collected at the indicated time points. (B) BM from Pax5^+/– mice (blue lines) was transplanted into 12 WT mice housed in 4 cages in SPF facilities. As a control, WT BM (green lines) was transplanted into 8 mice housed in 3 cages in SPF facilities. Samples were collected before BMT and at 2, 4, 6, and 8 weeks after BMT. (C) Pairwise PERMANOVA tests were applied (as described in Figure 1C-F) to test for differences in beta diversity by mouse genotype. Unweighted UniFrac distances between samples of the same donor genotype (ie, intragroup distances [Pax5^+/–, blue; WT, green]) and distances across donor genotypes (mustard, intergroup) are shown as box plots. The box shows the quartiles of the dataset, while the whiskers (error bars) show the rest of the distribution, except for points that are determined to be outliers, using 1.5-fold of the interquartile range. Six weeks after transplantation, strong significant differences dependent on the specific donor genotype were detectable. P value is from the PERMANOVA test.