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Article

An RNA Switch of a Large Exon of Ninein Is Regulated by the Neural Stem Cell Specific-RNA Binding Protein, Qki5

Division of Neurobiology and Anatomy, Graduate School of Medical and Dental Sciences, Niigata University, 757, Ichibancho, Asahimachidori, Chuo-ku, Niigata, Niigata 951-8510, Japan
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Int. J. Mol. Sci. 2019, 20(5), 1010; https://doi.org/10.3390/ijms20051010
Received: 10 January 2019 / Revised: 20 February 2019 / Accepted: 21 February 2019 / Published: 26 February 2019
(This article belongs to the Special Issue Pre-mRNA Splicing 2018)
A set of tissue-specific splicing factors are thought to govern alternative splicing events during neural progenitor cell (NPC)-to-neuron transition by regulating neuron-specific exons. Here, we propose one such factor, RNA-binding protein Quaking 5 (Qki5), which is specifically expressed in the early embryonic neural stem cells. We performed mRNA-SEQ (Sequence) analysis using mRNAs obtained by developing cerebral cortices in Qk (Quaking) conditional knockout (cKO) mice. As expected, we found a large number of alternative splicing changes between control and conditional knockouts relative to changes in transcript levels. DAVID (The Database for Annotation, Visualization and Integrated Discovery) and Metascape analyses suggested that the affected spliced genes are involved in axon development and microtubule-based processes. Among these, the mRNA coding for the Ninein protein is listed as one of Qki protein-dependent alternative splicing targets. Interestingly, this exon encodes a very long polypeptide (2121 nt), and has been previously defined as a dynamic RNA switch during the NPC-to-neuron transition. Additionally, we validated that the regulation of this large exon is consistent with the Qki5-dependent alternative exon inclusion mode suggested by our previous Qki5 HITS-CLIP (high throughput sequencing-cross linking immunoprecipitation) analysis. Taken together, these data suggest that Qki5 is an important factor for alternative splicing in the NPC-to-neuron transition. View Full-Text
Keywords: Ninein; Quaking; RNA-binding protein; HITS-CLIP; neural development Ninein; Quaking; RNA-binding protein; HITS-CLIP; neural development
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MDPI and ACS Style

Hayakawa-Yano, Y.; Yano, M. An RNA Switch of a Large Exon of Ninein Is Regulated by the Neural Stem Cell Specific-RNA Binding Protein, Qki5. Int. J. Mol. Sci. 2019, 20, 1010. https://doi.org/10.3390/ijms20051010

AMA Style

Hayakawa-Yano Y, Yano M. An RNA Switch of a Large Exon of Ninein Is Regulated by the Neural Stem Cell Specific-RNA Binding Protein, Qki5. International Journal of Molecular Sciences. 2019; 20(5):1010. https://doi.org/10.3390/ijms20051010

Chicago/Turabian Style

Hayakawa-Yano, Yoshika, and Masato Yano. 2019. "An RNA Switch of a Large Exon of Ninein Is Regulated by the Neural Stem Cell Specific-RNA Binding Protein, Qki5" International Journal of Molecular Sciences 20, no. 5: 1010. https://doi.org/10.3390/ijms20051010

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