Transcriptional Gene Silencing of the Autism-Associated Long Noncoding RNA MSNP1AS in Human Neural Progenitor Cells
Objectives: In this study, we hypothesize that MSNP1AS knockdown impacts global transcriptome levels.
Methods: We transfected the human neural progenitor cell line, SK-N-SH, with constructs that caused a 50% suppression of MSNP1AS expression. After 24 hours, cells were harvested for total RNA isolation. Strand-specific RNA-Seq analysis revealed changes in gene expression.
Results: RNA-Seq analysis indicated altered expression of 1,352 genes, including altered expression of 318 genes following correction for multiple comparisons. Expression of the OAS2 gene was increased >150-fold, a result that was validated by quantitative PCR. Gene ontology analysis of the 318 genes with altered expression following correction for multiple comparisons indicated that upregulated genes were significantly enriched for genes involved in immune response and downregulated genes were significantly enriched for genes involved in chromatin remodeling.
Conclusions: These data indicate multiple transcriptional and translational functions of MSNP1AS that impact ASD-relevant biological processes. Chromatin remodeling and immune response are biological process implicated by genes with rare mutations associated with ASD. Our data indicate that the functional elements implicated by association of common genetic variants impact the same biological processes, suggesting a shared common molecular pathway of ASD.