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Cell Rep. 2012 Mar 29;1(3):277-89.

Global patterns of tissue-specific alternative polyadenylation in Drosophila.

Author information

1
Department of Developmental Biology, Sloan-Kettering Institute, New York, NY 10065, USA.

Erratum in

  • Cell Rep. 2013 Mar 28;3(3):969.

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.

PMID:
22685694
PMCID:
PMC3368434
DOI:
10.1016/j.celrep.2012.01.001
[Indexed for MEDLINE]
Free PMC Article

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