XB-ART-41528Dev Dyn June 1, 2010; 239 (6): 1838-48.
Identification of germ plasm-associated transcripts by microarray analysis of Xenopus vegetal cortex RNA.
RNA localization is a common mechanism for regulating cell structure and function. Localized RNAs in Xenopus oocytes are critical for early development, including germline specification by the germ plasm. Despite the importance of these localized RNAs, only approximately 25 have been identified and fewer are functionally characterized. Using microarrays, we identified a large set of localized RNAs from the vegetal cortex. Overall, our results indicate a minimum of 275 localized RNAs in oocytes, or 2-3% of maternal transcripts, which are in general agreement with previous findings. We further validated vegetal localization for 24 candidates and further characterized three genes expressed in the germ plasm. We identified novel germ plasm expression for reticulon 3.1, exd2 (a novel exonuclease-domain encoding gene), and a putative noncoding RNA. Further analysis of these and other localized RNAs will likely identify new functions of germ plasm and facilitate the identification of cis-acting RNA localization elements.
PubMed ID: 20503379
PMC ID: PMC3065113
Article link: Dev Dyn
Species referenced: Xenopus
Genes referenced: acsbg2 acsl1 actl6a adipor2 arl8b atp2a3 bicc1 btrc cab39 ccni ces3.4 dazl ddx25 ddx59 dgat2 dnd1 efnb1 exd2 gdf1 grip2 igf1r ldlrap1 mfge8 midn nanos1 nif nrf1 nucks1 otx1 pc.1 pced1a pes1 pgam1 pgat plin2 rbpms2 rtn3 sesn2 trim36 trim69.1 triobp vegt wnt11b XB5765006 [provisional:trim25] zbtb8a.1 zfand3 zfand4 zfp36l2
GEO Series: GSE17713: NCBI
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References [+] :
Andken, 3'-UTR SIRF: a database for identifying clusters of whort interspersed repeats in 3' untranslated regions. 2007, Pubmed, Xenbase