ZIP editors for efficient and versatile CRISPR-Cas9 precise genome editing

Thibault, C.; Rosier, J.; Riandiere, M.; Marin, V.; Fayet, S.; Berges, C.; Espasa, R.; Lamrissi-Garcia, I.; Trian, T.; Bui, S.; Dabernat, S.; Boutin, J.; Moreau-Gaudry, F.; Bedel, A.

doi:10.1101/2025.03.13.642982

bioRxiv · 10.1101/2025.03.13.642982

ZIP editors for efficient and versatile CRISPR-Cas9 precise genome editing

Thibault, C.·Rosier, J.·Riandiere, M.·Marin, V.·Fayet, S.·Berges, C.·Espasa, R.·Lamrissi-Garcia, I.·Trian, T.·Bui, S.·Dabernat, S.·Boutin, J.·Moreau-Gaudry, F.·Bedel, A.

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Abstract

Precise genome editing technologies create the potential for genetic studies and innovative gene therapies. Here we present new CRISPR-Cas9 tools, named ZIP CRISPR, loaded with a single-stranded oligodeoxynucleotide (ssODN) template on the Cas ribonucleoprotein complex. The ssODN template is annealed to an extended guide RNA (gRNA) allowing its nuclear delivery at the right place, i.e. the targeted DNA cut, and at the right time. This new template import system is easy-to-design, easy-to-use, inexpensive and versatile. It increases homology-directed repair (HDR) editing efficiency using Cas9 nuclease up to 12-fold with a mean increase of 5-fold as demonstrated at many loci in many cell types. Based on a heteroduplex gRNA-ssODN, it can also be used with the Cas9 nickase, resulting in HDR editing with minimal InDels, and preventing double-strand break (DSB)-mediated genotoxicity. ZIP CRISPR is a non-viral platform adaptable to targeted DSB (higher HDR editing efficiency) or nick (higher safety) to precisely model and correct a wide range of edits. It is suitable for many biological applications and could be considered for HDR-based gene therapies.

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Thibault, C., Rosier, J., Riandiere, M., Marin, V., Fayet, S., Berges, C., Espasa, R., Lamrissi-Garcia, I., Trian, T., Bui, S., Dabernat, S., Boutin, J., Moreau-Gaudry, F., Bedel, A.. 2025-03-15. ZIP editors for efficient and versatile CRISPR-Cas9 precise genome editing. https://doi.org/10.1101/2025.03.13.642982

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