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Citation
Smibert, P., Miura, P., Westholm, J.O., Shenker, S., May, G., Duff, M.O., Zhang, D., Eads, B.D., Carlson, J., Brown, J.B., Eisman, R.C., Andrews, J., Kaufman, T., Cherbas, P., Celniker, S.E., Graveley, B.R., Lai, E.C. (2012). Global Patterns of Tissue-Specific Alternative Polyadenylation in Drosophila.  Cell Rep. 1(3): 277--289.
FlyBase ID
FBrf0218523
Publication Type
Research paper
Abstract
We analyzed the usage and consequences of alternative cleavage and polyadenylation (APA) in Drosophila melanogaster by using >1 billion reads of stranded mRNA-seq across a variety of dissected tissues. Beyond demonstrating that a majority of fly transcripts are subject to APA, we observed broad trends for 3' untranslated region (UTR) shortening in the testis and lengthening in the central nervous system (CNS); the latter included hundreds of unannotated extensions ranging up to 18 kb. Extensive northern analyses validated the accumulation of full-length neural extended transcripts, and in situ hybridization indicated their spatial restriction to the CNS. Genes encoding RNA binding proteins (RBPs) and transcription factors were preferentially subject to 3' UTR extensions. Motif analysis indicated enrichment of miRNA and RBP sites in the neural extensions, and their termini were enriched in canonical cis elements that promote cleavage and polyadenylation. Altogether, we reveal broad tissue-specific patterns of APA in Drosophila and transcripts with unprecedented 3' UTR length in the nervous system.
Graphical Abstract
Obtained with permission from Cell Press.
PubMed ID
PubMed Central ID
PMC3368434 (PMC) (EuropePMC)
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    Language of Publication
    English
    Additional Languages of Abstract
    Parent Publication
    Publication Type
    Journal
    Abbreviation
    Cell Rep.
    Title
    Cell reports
    ISBN/ISSN
    2211-1247
    Data From Reference
    Genes (35)
    Cell Lines (1)