SAMHD1 Knockout iPSC model enables high lenti-viral transduction in myeloid cell types

Li, H.; Afroze, M.; Arora, G.; Federman, S.; Shevade, K.; Yang, Y. A.; Nguyen, P.; Esanov, R.; Przybyla, L.; Litterman, A.; Shafer, S.

doi:10.1101/2025.02.04.636295

bioRxiv · 10.1101/2025.02.04.636295

SAMHD1 Knockout iPSC model enables high lenti-viral transduction in myeloid cell types

Li, H.·Afroze, M.·Arora, G.·Federman, S.·Shevade, K.·Yang, Y. A.·Nguyen, P.·Esanov, R.·Przybyla, L.·Litterman, A.·Shafer, S.

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Abstract

Recent advances in functional genomics tools have ushered in a new era of genetic editing to identify molecular pathways relevant to developmental and disease biology. However, limited model systems are available that adequately mimic cell states and phenotypes associated with human disease pathways. Here, we quantitatively analyzed the founder population bottleneck effect and demonstrated how the population changes from induced pluripotent stem cells (iPSCs) to hematopoietic stem cells and to the final induced macrophage population. We then engineered SAMHD1 knockout (KO) iPSC and characterized the iPSC line with RNA Seq, and induced macrophages from two distinct protocols with functional analysis. We then generated SAMHD1 KO CRISPR-dCAS9 KRAB iPSC through lenti-viral transduction aiming to increase the efficiency of lentiviral mediated gene transfer. We demonstrated increased lenti-viral transduction efficiency in induced macrophage, as well as microglia induced with two distinct protocols. This model allows for efficient gene knock down, as well as large-scale functional genomics screens in mature iPSC-derived macrophages or microglia with applications in innate immunity and chronic inflammatory disease biology. These experiments highlight the broad applicability of this platform for disease-relevant target identification and may improve our ability to run large-scale screens in iPSC-derived myeloid model systems.

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Li, H., Afroze, M., Arora, G., Federman, S., Shevade, K., Yang, Y. A., Nguyen, P., Esanov, R., Przybyla, L., Litterman, A., Shafer, S.. 2025-02-05. SAMHD1 Knockout iPSC model enables high lenti-viral transduction in myeloid cell types. https://doi.org/10.1101/2025.02.04.636295

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