Alternative RNA Splicing Associated With Mammalian Neuronal Differentiation
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TLDR
Describing the global differences of AS events between the 2 cell types by deep sequencing revealed cell type-specific AS in NPCs and neurons that are important for distinct functions pertinent to the corresponding cell type.Abstract:
Alternative pre-mRNA splicing (AS) produces multiple isoforms of mRNAs and proteins from a single gene. It is most prevalent in the mammalian brain and is thought to contribute to the formation and/or maintenance of functional complexity of the brain. Increasing evidence has documented the significant changes of AS between different regions or different developmental stages of the brain, however, the dynamics of AS and the possible function of it during neural progenitor cell (NPC) differentiation is less well known. Here, using purified NPCs and their progeny neurons isolated from the embryonic mouse cerebral cortex, we characterized the global differences of AS events between the 2 cell types by deep sequencing. The sequencing results revealed cell type-specific AS in NPCs and neurons that are important for distinct functions pertinent to the corresponding cell type. Our data may serve as a resource useful for further understanding how AS contributes to molecular regulations in NPCs and neurons during cortical development.read more
Citations
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Journal ArticleDOI
Coverage-dependent bias creates the appearance of binary splicing in single cells.
TL;DR: It is shown that accounting for the true amount of information recovered can produce biologically meaningful measurements of splicing in single cells, and that low gene expression and low capture efficiency distort the observed distribution of isoforms.
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Coverage-dependent bias creates the appearance of binary splicing in single cells
TL;DR: This work analyzed single cell alternative splicing in human and mouse single cell RNA-seq datasets, and modeled them with a probablistic simulator, and showed that accounting for the true amount of information recovered can produce biologically meaningful measurements ofsplicing in single cells.
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Gisele Giannocco,Marina M. L. Kizys,Rui M. B. Maciel,Janaina Sena de Souza,Janaina Sena de Souza +4 more
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STRAP regulates alternative splicing fidelity during lineage commitment of mouse embryonic stem cells
Lin Jin,Lin Jin,Yunjia Chen,David K. Crossman,Arunima Datta,Arunima Datta,Trung Vu,Trung Vu,James A. Mobley,Malay Kumar Basu,Mariangela Scarduzio,Hengbin Wang,Chenbei Chang,Pran K. Datta,Pran K. Datta +14 more
TL;DR: Global mapping of STRAP-RNA binding in mouse embryos by enhanced-CLIP sequencing reveals that STRAP preferably targets transcripts for nervous system development and regulates AS through preferred binding positions, as demonstrated for two neuronal-specific genes, Nnat and Mark3.
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Rhythmic Behavior Is Controlled by the SRm160 Splicing Factor in Drosophila melanogaster.
Esteban J. Beckwith,Carlos Esteban Hernando,Sofía Polcowñuk,Agustina P Bertolin,Estefania Mancini,M. Fernanda Ceriani,Marcelo J. Yanovsky +6 more
TL;DR: It is shown that SRm160 affects gene expression in pacemaker neurons of the Drosophila brain to ensure proper oscillations of the molecular clock and highlights the significant effect of alternative splicing on the nervous system and particularly on brain function in an in vivo model.
References
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An RNA-Sequencing Transcriptome and Splicing Database of Glia, Neurons, and Vascular Cells of the Cerebral Cortex
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Neuregulin-ERBB Signaling in the Nervous System and Neuropsychiatric Diseases
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Dynamics of 5-Hydroxymethylcytosine and Chromatin Marks in Mammalian Neurogenesis
Maria A. Hahn,Runxiang Qiu,Xiwei Wu,Arthur X. Li,Heying Zhang,Jun Wang,Jonathan Jui,Seung-Gi Jin,Yong Jiang,Gerd P. Pfeifer,Qiang Lu +10 more
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