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| Status |
Public on Apr 10, 2023 |
| Title |
Experimental gene expression of developmentally downregulated Crmp1, Crmp4, and Crmp5 promotes axon regeneration and retinal ganglion cell survival after optic nerve injury [bulk RNA-seq] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Collapsin response mediator proteins (Crmps) play roles in neuronal development and axon growth. However, neuronal-specific roles of Crmp1, Crmp4, and Crmp5 in regeneration of injured central nervous system (CNS) axons in vivo are unclear. Here, we analyzed developmental and subtype-specific expression of Crmp genes in retinal ganglion cells (RGCs), tested whether overexpressing Crmp1, Crmp4, or Crmp5 in RGCs through localized intralocular AAV2 delivery promotes axon regeneration after optic nerve injury in vivo, and characterized developmental co-regulation of gene-concept networks associated with Crmps. We found that all Crmp genes are developmentally downregulated in RGCs during maturation. However, while Crmp1, Crmp2, and Crmp4 were expressed to a varying degree in most RGC subtypes, Crmp3 and Crmp5 were expressed only in a small subset of RGC subtypes. We then found that after optic nerve injury, Crmp1, Crmp4, and Crmp5 promote RGC axon regeneration to varying extents, with Crmp4 promoting the most axon regeneration and also localizing to axons. We also found that Crmp1 and Crmp4, but not Crmp5, promote RGC survival. Finally, we found that Crmp1, Crmp2, Crmp4, and Crmp5's ability to promote axon regeneration is associated with neurodevelopmental mechanisms, which control RGC’s intrinsic axon growth capacity.
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| Overall design |
Bulk-mRNA-seq samples from different age RGCs were purified by immunopanning for Thy1 (after immunopanning depletion of macrophages and amacrine cells), cDNA libraries prepared using polyA-selected RNA (TruSeq RNA Library Prep Kit, Illumina), paired reads sequenced 100 bp from each end on HiSeq 2000 Sequencer (Illumina), passed QC filters, mapped to the mm10 genome and transcriptome by Hisat2, and analyzed by Cufflinks/CuffDiff, as we previously described.
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| Web link |
https://www.sciencedirect.com/science/article/pii/S0006899323001397?via%3Dihub
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| Contributor(s) |
Theune WC, Xing J, Trakhtenberg EF |
| Citation(s) |
37059258 |
| Submission date |
Mar 29, 2023 |
| Last update date |
Jul 10, 2023 |
| Contact name |
Ephraim F Trakhtenberg |
| E-mail(s) |
trakhtenberg@uchc.edu
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| Organization name |
University of Connecticut School of Medicine
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| Department |
Neuroscience
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| Street address |
263 Farmington Ave. RM L4005
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| City |
Farmington |
| State/province |
CT |
| ZIP/Postal code |
06030 |
| Country |
USA |
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| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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| Samples (6)
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| This SubSeries is part of SuperSeries: |
| GSE228487 |
Experimental gene expression of developmentally downregulated Crmp1, Crmp4, and Crmp5 promotes axon regeneration and retinal ganglion cell survival after optic nerve injury. |
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| Relations |
| BioProject |
PRJNA950035 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE228485_Crmp_isoform_fpkm.csv.gz |
2.0 Kb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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