Abstract
Remarkable advances have been made in schizophrenia (SCZ) GWAS, but gleaning biological insight from these loci is challenging. Genetic influences on gene expression (e.g., eQTLs) are cell type-specific, but most studies that attempt to clarify GWAS loci’s influence on gene expression have employed tissues with mixed cell compositions that can obscure cell-specific effects. Furthermore, enriched SCZ heritability in the fetal brain underscores the need to study the impact of SCZ risk loci in specific developing neurons. MGE-derived cortical interneurons (cINs) are consistently affected in SCZ brains and show enriched SCZ heritability in human fetal brains. We identified SCZ GWAS risk genes that are dysregulated in iPSC-derived homogeneous populations of developing SCZ cINs. These SCZ GWAS loci differential expression (DE) genes converge on the PKC pathway. Their disruption results in PKC hyperactivity in developing cINs, leading to arborization deficits. We show that the fine-mapped GWAS locus in the ATP2A2 gene of the PKC pathway harbors enhancer marks by ATACseq and ChIPseq, and regulates ATP2A2 expression. We also generated developing glutamatergic neurons (GNs), another population with enriched SCZ heritability, and confirmed their functionality after transplantation into the mouse brain. Then, we identified SCZ GWAS risk genes that are dysregulated in developing SCZ GNs. GN-specific SCZ GWAS loci DE genes converge on the ion transporter pathway, distinct from those for cINs. Disruption of the pathway gene CACNA1D resulted in deficits of Ca2+ currents in developing GNs, suggesting compromised neuronal function by GWAS loci pathway deficits during development. This study allows us to identify cell type-specific and developmental stage-specific mechanisms of SCZ risk gene function, and may aid in identifying mechanism-based novel therapeutic targets.
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Acknowledgements
We thank Karen F. Berman, MD and Jose Apud, MD Ph.D. at the National Institute of Mental Health for their contribution in providing patient fibroblast samples. We thank Daniel R. Weinberger, M.D. at the Lieber Institute for Brain Development for supplying patient fibroblast samples and for critical review of the manuscript.
Funding
This study was supported by MH125246 (PR), MH116442 (PR), MH118339 (J-HC). DP2MH122403 (HW), MH107884 (SC), NS121541 (SC) and NYSTEM C32607GG (SC).
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DL, AZ, AM, HN, G-HP, YQ, JB, JFF, PR, XZ, PS, J-HC and SC designed the experiments. DL, AZ, AM, HN, G-HP, YQ and JMP differentiated cortical interneurons and analyzed them by qPCR and immunocytochemistry. DL, JSP and FS performed arborization analysis. DL, AZ and JF performed synapse analysis. DL, AZ, OO and CA did Western blot analysis. JTC reviewed data interpretation and manuscript contents. ES provided SCZ GWAS fine mapping data. JB, JFF, PR and HW did ATAC-seq analysis. J-HC did patch clamp analysis in brain slices. XZ and PS did patch clamp analysis in culture. CY and WH did RNA-seq and ChiP-seq analysis. H-YK performed statistical analysis. DL, JB, JFF, PR, XZ, PKS, HW, J-HC and SC wrote the manuscript. PR, J-HC, HW and SC supported this study financially.
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Liu, D., Zinski, A., Mishra, A. et al. Impact of schizophrenia GWAS loci converge onto distinct pathways in cortical interneurons vs glutamatergic neurons during development. Mol Psychiatry 27, 4218–4233 (2022). https://doi.org/10.1038/s41380-022-01654-z
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DOI: https://doi.org/10.1038/s41380-022-01654-z
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