Global patterns of tissue-specific alternative polyadenylation in Drosophila Journal Article

Authors: 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.
Article Title: Global patterns of tissue-specific alternative polyadenylation in Drosophila
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. © 2012 The Authors.
Keywords: controlled study; nonhuman; protein motif; microrna; gene expression; rna binding protein; in situ hybridization; transcription regulation; binding site; 3' untranslated region; drosophila melanogaster; rna sequence; northern blotting; tissue specificity; polyadenylation; alternative cleavage and polyadenylation
Journal Title: Cell Reports
Volume: 1
Issue: 3
ISSN: 2211-1247
Publisher: Cell Press  
Date Published: 2012-02-01
Start Page: 277
End Page: 289
Language: English
DOI: 10.1016/j.celrep.2012.01.001
PROVIDER: scopus
PMCID: PMC3368434
PUBMED: 22685694
Notes: --- - "Export Date: 4 June 2012" - "Source: Scopus"
Citation Impact
MSK Authors
  1. Eric C Lai
    141 Lai
  2. Peter Smibert
    16 Smibert
  3. Pedro Edward Taiyo Miura
    6 Miura