CRISPR-mediated transcriptional activation as a mutation-independent therapeutic strategy for SYNGAP1-related intellectual disability

Sichlinger, L.; Reilly, M.; Arora, S.; Zhang, S.; Marotta, N.; Rodriguez-Acevedo, K. L.; Hooks, M.; Czarnecki, K. S.; Winter, J. J.; Waxman, E. A.; Dungan, L. V.; Hong, I.; Araki, Y.; Johnson, R.; Huganir, R. L.; Pavani, G.; French, D. L.; Davidson, B. L.; Prosser, B. L.; Heller, E. A.

doi:10.1101/2025.10.28.685100

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bioRxiv · 10.1101/2025.10.28.685100

CRISPR-mediated transcriptional activation as a mutation-independent therapeutic strategy for SYNGAP1-related intellectual disability

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Abstract

Synaptic Ras GTPase-activating protein (SynGAP) regulates synaptic strength and neuronal signaling, with essential roles in cortical development and synaptic plasticity. Heterozygous loss-of-function variants in SYNGAP1 cause SYNGAP1-related intellectual disability (SRID), a severe neurodevelopmental disorder characterized by epilepsy, developmental delay, and autism. SYNGAP1 mutations often result in haploinsufficiency, providing a strong rationale for gene-targeted therapies. However, no treatment currently addresses the underlying genetic cause of SRID. Here, we developed a CRISPR-mediated transcriptional activation (CRISPRa) approach to upregulate the functional Syngap1 allele in a SRID mouse model. CRISPRa activated Syngap1, normalized SynGAP protein expression and downstream signaling, and rescued working memory deficits. We validated the translational potential of this strategy in human induced pluripotent stem cell (hiPSC)-derived excitatory cortical neurons. CRISPRa rescued SYNGAP1 in two distinct loss-of-function variant lines. Together, these findings demonstrate the feasibility of mutation-independent transcriptional activation as a therapeutic approach for SRID and its broader applicability to haploinsufficiency disorders.

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Sichlinger, L., Reilly, M., Arora, S., Zhang, S., Marotta, N., Rodriguez-Acevedo, K. L., Hooks, M., Czarnecki, K. S., Winter, J. J., Waxman, E. A., Dungan, L. V., Hong, I., Araki, Y., Johnson, R., Huganir, R. L., Pavani, G., French, D. L., Davidson, B. L., Prosser, B. L., Heller, E. A.. 2025-10-29. CRISPR-mediated transcriptional activation as a mutation-independent therapeutic strategy for SYNGAP1-related intellectual disability. https://doi.org/10.1101/2025.10.28.685100

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