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Dev Biol 2017 Jun 15;4262:360-373. doi: 10.1016/j.ydbio.2016.06.003.
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Translational profiling of retinal ganglion cell optic nerve regeneration in Xenopus laevis.

Whitworth GB , Misaghi BC , Rosenthal DM , Mills EA , Heinen DJ , Watson AH , Ives CW , Ali SH , Bezold K , Marsh-Armstrong N , Watson FL .

Unlike adult mammals, adult frogs regrow their optic nerve following a crush injury, making Xenopus laevis a compelling model for studying the molecular mechanisms that underlie neuronal regeneration. Using Translational Ribosome Affinity Purification (TRAP), a method to isolate ribosome-associated mRNAs from a target cell population, we have generated a transcriptional profile by RNA-Seq for retinal ganglion cells (RGC) during the period of recovery following an optic nerve injury. Based on bioinformatic analysis using the Xenopus laevis 9.1 genome assembly, our results reveal a profound shift in the composition of ribosome-associated mRNAs during the early stages of RGC regeneration. As factors involved in cell signaling are rapidly down-regulated, those involved in protein biosynthesis are up-regulated alongside key initiators of axon development. Using the new genome assembly, we were also able to analyze gene expression profiles of homeologous gene pairs arising from a whole-genome duplication in the Xenopus lineage. Here we see evidence of divergence in regulatory control among a significant proportion of pairs. Our data should provide a valuable resource for identifying genes involved in the regeneration process to target for future functional studies, in both naturally regenerative and non-regenerative vertebrates.

PubMed ID: 27471010
PMC ID: PMC5897040
Article link: Dev Biol
Grant support: [+]

Species referenced: Xenopus laevis
Genes referenced: atf3 atf4 atf5 barhl2 cdkn1a ddit3 gap43 gng3 gng7 gng8 hmox1 il34 irx1 irx2 irx4 isl2 klf12 klf4 klf6 nfe2l2 pou4f2 pou4f3 pou4f4 rbpms2 rpl10a rpl22 sfpq snca sncg socs3 stat3.2 tubb2b tubb3 tubb6 uchl1
Antibodies: Casp3 Ab1 Sncg Ab1

GEO Series: GSE77724: Xenbase,  NCBI

Article Images: [+] show captions
References [+] :
Beaver, Continued neurogenesis is not a pre-requisite for regeneration of a topographic retino-tectal projection. 2001, Pubmed, Xenbase