Global Patterns of Tissue-Specific Alternative Polyadenylation in Drosophila
| Autor: | Michael O. Duff, Eric C. Lai, Susan E. Celniker, Peter Cherbas, Joe Carlson, Pedro Miura, Justen Andrews, James B. Brown, Robert C. Eisman, Dayu Zhang, Solomon Shenker, Jakub Orzechowski Westholm, Peter Smibert, Gemma E. May, Brenton R. Graveley, Brian D. Eads, Thomas C. Kaufman |
|---|---|
| Rok vydání: | 2013 |
| Předmět: |
Male
0106 biological sciences Untranslated region Embryo Nonmammalian Polyadenylation Molecular Sequence Data Genes Insect RNA-binding protein Biology 01 natural sciences Article General Biochemistry Genetics and Molecular Biology 03 medical and health sciences 0302 clinical medicine Testis Gene expression Animals Protein Isoforms RNA Messenger Nucleotide Motifs lcsh:QH301-705.5 3' Untranslated Regions Gene Conserved Sequence In Situ Hybridization 030304 developmental biology Neurons Genetics 0303 health sciences Base Sequence Sequence Analysis RNA Three prime untranslated region Gene Expression Regulation Developmental Reproducibility of Results RNA Blotting Northern biology.organism_classification DNA-Binding Proteins Drosophila melanogaster lcsh:Biology (General) Organ Specificity Poly A Transcriptome 030217 neurology & neurosurgery 010606 plant biology & botany |
| Zdroj: | Cell Reports, Vol 1, Iss 3, Pp 277-289 (2012) Cell Reports, Vol 3, Iss 3, p 969 (2013) |
| ISSN: | 2211-1247 |
| DOI: | 10.1016/j.celrep.2013.03.022 |
| Popis: | SummaryWe 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. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|