Extended Data Fig. 1: Isolation of mouse bladder urothelial and prostate epithelial cells for organoid culture and design/validation of a custom Mission Bio Tapestri single-cell DNA amplicon sequencing panel.

(a) Representative flow cytometry plot for the isolation of mouse bladder urothelial (top) and prostate epithelial (bottom) from dissociated tissues based on a Lin^-(CD45^-CD31^-Ter119^-) EpCAM⁺CD49f^high immunophenotype. (b) Images of organoid cultures of mouse bladder urothelial and prostate epithelial cells on day 1 and day 5 after seeding. (c) Table showing the amplicons represented in a custom Mission Bio Tapestri single-cell DNA amplicon sequencing panel. (d) Table showing results of a validation study where a defined mixture of 3T3 cells with an unlabeled population and others labeled with combinations of lentiviruses encoding distinct barcodes were analyzed using the Mission Bio Tapestri single-cell DNA amplicon sequencing panel to determine clonality. ~2,000 cells were analyzed. (e) Overview of experiments with infection of mouse prostate epithelial (mPE) cells with a diverse barcoded lentiviral library in organoid culture across a range of multiplicity-of-infection (MOI) and quantification of viral copy number per cell across the population by single-cell amplicon sequencing. Created with BioRender.com.