Non-coding RNAs associated with Prader–Willi syndrome regulate transcription of neurodevelopmental genes in human induced pluripotent stem cells
Open Access
- 9 September 2022
- journal article
- research article
- Published by Oxford University Press (OUP) in Human Molecular Genetics
- Vol. 32 (4), 608-620
- https://doi.org/10.1093/hmg/ddac228
Abstract
Mutations and aberrant gene expression during cellular differentiation lead to neurodevelopmental disorders, such as Prader–Willi syndrome (PWS), which results from the deletion of an imprinted locus on paternally inherited chromosome 15. We analyzed chromatin-associated RNA in human induced pluripotent cells (iPSCs) upon depletion of hybrid small nucleolar long non-coding RNAs (sno-lncRNAs) and 5’ snoRNA capped and polyadenylated long non-coding RNAs (SPA-lncRNAs) transcribed from the locus deleted in PWS. We found that rapid ablation of these lncRNAs affects transcription of specific gene classes. Downregulated genes contribute to neurodevelopment and neuronal maintenance, while upregulated genes are predominantly involved in the negative regulation of cellular metabolism and apoptotic processes. Our data reveal the importance of SPA-lncRNAs and sno-lncRNAs in controlling gene expression in iPSCs and provide a platform for synthetic experimental approaches in PWS studies. We conclude that ncRNAs transcribed from the PWS locus are critical regulators of a transcriptional signature, which is important for neuronal differentiation and development.Funding Information
- Wellcome Trust and the Royal Society (200473/Z/16/Z)
- Wellcome Trust and the Royal Society (218537/Z/19/Z)
- Royal Embassy of Saudi Arabia Cultural Bureau and Saudi Arabia Ministry of Higher Education
- BBSRC (BB/M01116X/1)
- BBSRC (BB/M017982/1, BB/L006340/1)
- EPSRC (EP/T002794/1)
- Foundation for Prader-Willi Research
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