(A) Representative flow cytometric gating strategy using jejunum LPLs taken on POD1544 from Pt2 small bowel resection. Lin−:CD3−CD5−CD14−CD19−. The percentage of CD34+ cells among DAPI−CD45+/dimLin− LPLs (B) and the percentage of each cell type of donor vs recipient origin (C). DAPI−Lin−CD45+/dimCD34+ cells, HSC, MPP, LMPP, CLP, MP and CD56+ progenitors in gut LPLs were collected from different patients during stoma revision/closure or small bowel removal at multiple time points post-Tx (POD28–1606). (D) Composition by percentage of HSC, MPP, LMPP, CLP, and MP among donor or recipient DAPI−Lin−CD45+/dimCD34+ LPLs in different patients at multiple time points post-Tx (refer to Figure 7A). Percentage of HSCs (E) and MPs (F) among donor or recipient Lin−CD45+/dimCD34+ LPLs isolated from patients’ intestinal mucosa after 100 days post-Tx shown in box-and-whisker plots (the line inside the box indicates the median). A two-tailed unpaired student t test was used to compare the donor and recipient compartments. (G) Percentages of donor T cells in peripheral blood (left panel) and donor HSCs in gut (right panel) up to 2000 days post-Tx. (H) Percentage of donor HSCs in the gut and the percentage of donor T cells in the blood at a similar timepoint (POD>100) for individual specimens from patients (circles for MVTx, squares for LITx, and triangles for iITx) who underwent stoma revision/closure or small bowel removal at various time points post-Tx. Chi-square test was performed with a cut-off for donor chimerism of 0.2% in peripheral blood (for T cells) or intestinal allograft (for HSCs). See also Figure S1 and Table S1, S2.