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Introduction: Many current healthcare challenges including cancer and infectious diseases are controlled by the evolutionary dynamics of heterogenous cell populations. In cancer, evidence shows that intratumoral heterogeneity is a contributor to chemoresistance and metastasis driven by rare mutations and epigenetic changes. High-diversity DNA barcode libraries stably integrated into cells have been used to track these populations over time. However, uncovering these lineage dynamics has been a primarily destructive process. Recently, our lab has developed a lineage-tracing platform, Control of Lineage by Barcode Enabled Recombinant Transcription (COLBERT), to precisely monitor heterogenous subpopulations within a tumor. Importantly, this platform also affords us the ability to isolate specific subpopulations through activation of a lineage specific gene expression circuit. Here we demonstrate successful isolation of subpopulations within MDA-MB-231 breast carcinoma cells treated with doxorubicin.