IMPORTANCE
Schizophrenia candidate genes participate in common molecular pathways that are regulated by activity-dependent changes in neurons. One important next step is to further our understanding on the role of activity-dependent changes of genes expression in the etiopathogenesis of schizophrenia.
OBJECTIVE
To examine whether neuronal activity-dependent changes of gene expression is dysregulated in schizophrenia.
DESIGN, SETTING, AND PARTICIPANTS
Neurons differentiated from human induced pluripotent stem cells (hiPSCs) derived from 4 cases with schizophrenia and 4 unaffected controls were depolarized using potassium chloride. RNA was extracted followed by genome-wide profiling of the transcriptome.
MAIN OUTCOMES AND MEASURES
We performed differential expression analysis and gene co-expression analysis to identify activity-dependent or disease-specific changes of the transcriptome. Gene expression differences were assessed with linear models. Further, we used gene set analyses to identify co-expressed modules that are enriched for schizophrenia risk genes.
RESULTS
We identified 1,669 genes that are significantly different in schizophrenia-associated vs. control hiPSC-derived neurons and 1,199 genes that are altered in these cells in response to depolarization (linear models at false discovery rate ≤ 0.05). We show that the effect of activity-dependent changes of gene expression in schizophrenia-associated neurons (59 significant genes at false discovery rate ≤ 0.05) is attenuated compared to controls (594 significant genes at false discovery rate ≤ 0.05). Using gene co-expression analysis, we identified 2 modules (turquoise and brown) that are associated with diagnosis status and 2 modules (yellow and green) that are associated with depolarization at false discovery rate ≤ 0.05. For 3 out of the 4 modules we found enrichment with schizophrenia-associated variants: brown (Fisher’s P = 0.002), turquoise (Fisher’s P = 0.044) and yellow (Fisher’s P = 0.018).
CONCLUSIONS AND RELEVANCE
Our results show that schizophrenia candidate genes cluster within gene networks that are associated with a blunted effect of activity-dependent changes of gene expression in schizophrenia-associated neurons. Overall, these findings link schizophrenia candidate genes with specific molecular functions in neurons, which could be utilized to examine underlying mechanisms and therapeutic interventions related to schizophrenia.