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Series GSE47564 Query DataSets for GSE47564
Status Public on May 31, 2013
Title Ptbp2 represses adult-specific splicing to regulate the generation of neuronal precursors in the embryonic brain [HITS-CLIP]
Organism Mus musculus
Experiment type Other
Summary Two polypyrimidine tract RNA-binding proteins (PTBs), one near-ubiquitously expressed (Ptbp1) and another highly tissue-restricted (Ptbp2), regulate RNA in interrelated but incompletely understood ways. Ptbp1, a splicing regulator, is replaced in the brain and differentiated neuronal cell lines by Ptbp2. To define the roles of Ptbp2 in the nervous system, we generated two independent Ptbp2-null strains, unexpectedly revealing that Ptbp2 is expressed in neuronal progenitors and is essential for postnatal survival. A HITS-CLIP (high-throughput sequencing crosslinking immunoprecipitation)-generated map of reproducible Ptbp2–RNA interactions in the developing mouse neocortex, combined with results from splicing-sensitive microarrays, demonstrated that the major action of Ptbp2 is to inhibit adult-specific alternative exons by binding pyrimidine-rich sequences upstream of and/or within them. These regulated exons are present in mRNAs encoding proteins associated with control of cell fate, proliferation, and the actin cytoskeleton, suggesting a role for Ptbp2 in neurogenesis. Indeed, neuronal progenitors in the Ptbp2-null brain exhibited an aberrant polarity and were associated with regions of premature neurogenesis and reduced progenitor pools. Thus, Ptbp2 inhibition of a discrete set of adult neuronal exons underlies early brain development prior to neuronal differentiation and is essential for postnatal survival.
Overall design Eight Ptbp2 HITS-CLIP libraries generated from mouse embryonic brain (four libraries from each of two biologic replicates).
Contributor(s) Licatalosi DD, Darnell RB
Citation(s) 22802532
Submission date May 31, 2013
Last update date May 15, 2019
Contact name Donny D Licatalosi
Organization name Case Western Reserve University
Lab Licatalosi
Street address 10900 Euclid Ave
City Cleveland
State/province OH
ZIP/Postal code 44106
Country USA
Platforms (1)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
Samples (8)
GSM1152506 WT_1a1
GSM1152507 WT_1a2
GSM1152508 WT_1b1
This SubSeries is part of SuperSeries:
GSE47567 Ptbp2 represses adult-specific splicing to regulate the generation of neuronal precursors in the embryonic brain
BioProject PRJNA206086
SRA SRP023497

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Supplementary file Size Download File type/resource
GSE47564_Ptbp2_Cortex_CLIP.bed.gz 34.3 Mb (ftp)(http) BED
GSE47564_Ptbp2_Cortex_CLIP.wig.gz 17.4 Mb (ftp)(http) WIG
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Processed data are available on Series record

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