Alternative polyadenylation coupled to transcription initiation: Insights from ELAV-mediated 3̕ UTR extension

RNA Biology

Volumn 12, Issue 9, 2015, Pages 918-921

  Hilgers, Valérie ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

3 UTR extension; Alternative polyadenylation; Cleavage and polyadenylation; Drosophila; ELAV; Nervous system; Pol II pausing; Promoter; Transcription initiation

Indexed keywords

RNA BINDING PROTEIN; RNA POLYMERASE II; 3' UNTRANSLATED REGION; ELAV PROTEIN; POLYADENYLIC ACID;

3' UNTRANSLATED REGION; ARTICLE; DROSOPHILA; GENE CONTROL; HUMAN; MOLECULAR MECHANICS; NONHUMAN; POLYADENYLATION; PROMOTER REGION; TRANSCRIPTION INITIATION; ANIMAL; GENE EXPRESSION REGULATION; METABOLISM; NERVE CELL; TRANSCRIPTION ELONGATION;

3' UNTRANSLATED REGIONS; ANIMALS; ELAV PROTEINS; GENE EXPRESSION REGULATION; HUMANS; NEURONS; POLY A; POLYADENYLATION; PROMOTER REGIONS, GENETIC; RNA POLYMERASE II; TRANSCRIPTION ELONGATION, GENETIC; TRANSCRIPTION INITIATION, GENETIC;

EID: 84949790117     PISSN: 15476286     EISSN: 15558584     Source Type: Journal    
DOI: 10.1080/15476286.2015.1060393     Document Type: Article

References (22)

1. Sandberg R, Neilson JR, Sarma A, Sharp PA, Burge CB. Proliferating cells express mRNAs with shortened 30 untranslated regions and fewer microRNA target sites. Science 2008; 320: 1643-7; PMID: 18566288; http://dx. doi. org/10. 1126/science. 1155390.
2. Ji Z, Lee JY, Pan Z, Jiang B, Tian B. Progressive lengthening of 30 untranslated regions of mRNAs by alternative polyadenylation during mouse embryonic development. Proc Natl Acad Sci U S A 2009; 106: 7028-33; PMID: 19372383; http://dx. doi. org/10. 1073/pnas. 0900028106.
3. Elkon R, Ugalde AP, Agami R. Alternative cleavage and polyadenylation: extent, regulation and function. Nat Rev Genet 2013; 14: 496-506; PMID: 23774734; http://dx. doi. org/10. 1038/nrg3482.
4. Tian B, Manley JL. Alternative cleavage and polyadenylation: the long and short of it. Trends Biochem Sci 2013; 38: 312-20; PMID: 23632313; http://dx. doi. org/10. 1016/j. tibs. 2013. 03. 005.
5. Hilgers V, Perry MW, Hendrix D, Stark A, Levine M, Haley B. Neural-specific elongation of 30 UTRs during Drosophila development. Proc Natl Acad Sci 2011; 108: 15864-9; PMID: NOT_FOUND; http://dx. doi. org/10. 1073/pnas. 1112672108.
6. Ulitsky I, Shkumatava A, Jan CH, Subtelny AO, Koppstein D, Bell GW, Sive H, Bartel DP. Extensive alternative polyadenylation during zebrafish development. Genome Res 2012; 22: 2054-66; PMID: 22722342; http://dx. doi. org/10. 1101/gr. 139733. 112.
7. Miura P, Shenker S, Andreu-Agullo C, Westholm JO, Lai EC. Widespread and extensive lengthening of 30 UTRs in the mammalian brain. Genome Res 2013; 23: 812-25; PMID: 23520388; http://dx. doi. org/10. 1101/gr. 146886. 112.
8. Hilgers V, Lemke SB, Levine M. ELAV mediates 30 UTR extension in the Drosophila nervous system. Genes Dev 2012; 26: 2259-64; PMID: 23019123; http://dx. doi. org/10. 1101/gad. 199653. 112.
9. Oktaba K, Zhang W, Lotz TS, Jun DJ, Lemke SB, Ng SP, Esposito E, Levine M, Hilgers V. ELAV links paused Pol II to alternative polyadenylation in the Drosophila nervous system. Mol Cell 2015; 57: 341-8; PMID: 25544561; http://dx. doi. org/10. 1016/j. molcel. 2014. 11. 024.
10. Mansfield KD, Keene JD. Neuron-specific ELAV/Hu proteins suppress HuR mRNA during neuronal differentiation by alternative polyadenylation. Nucleic Acids Res 2012; 40: 2734-46; PMID: 22139917; http://dx. doi. org/10. 1093/nar/gkr1114.
11. Smibert P, Miura P, Westholm JO, Shenker S, May G, Duff MO, Zhang D, Eads BD, Carlson J, Brown JB, et al. Global patterns of tissue-specific alternative polyadenylation in Drosophila. Cell Rep 2012; 1: 277-89; PMID: 22685694; http://dx. doi. org/10. 1016/j. celrep. 2012. 01. 001.
12. Li J, Gilmour DS. Distinct mechanisms of transcriptional pausing orchestrated by GAGA factor and M1BP, a novel transcription factor. EMBO J 2013; 32: 1829-41; PMID: 23708796; http://dx. doi. org/10. 1038/emboj. 2013. 111.
13. Boettiger AN, Levine M. Synchronous and stochastic patterns of gene activation in the Drosophila embryo. Science 2009; 325: 471-3; PMID: 19628867; http://dx. doi. org/10. 1126/science. 1173976.
14. Adelman K, Lis JT. Promoter-proximal pausing of RNA polymerase II: emerging roles in metazoans. Nat Rev Genet 2012; 13: 720-31; PMID: 22986266; http://dx. doi. org/10. 1038/nrg3293.
15. O'Sullivan JM, Tan-Wong SM, Morillon A, Lee B, Coles J, Mellor J, Proudfoot NJ. Gene loops juxtapose promoters and terminators in yeast. Nat Genet 2004; 36: 1014-8; PMID: 15314641; http://dx. doi. org/10. 1038/ng1411.
16. Lisbin MJ, Qiu J, White K. The neuron-specific RNAbinding protein ELAV regulates neuroglian alternative splicing in neurons and binds directly to its pre-mRNA. Genes Dev 2001; 15: 2546-61; PMID: 11581160; http://dx. doi. org/10. 1101/gad. 903101.
17. Andersen PK, Jensen TH, Lykke-Andersen S. Making ends meet: coordination between RNA 30-end processing and transcription initiation. Wiley Interdiscip Rev RNA 2013; 4: 233-46; PMID: 23450686; http://dx. doi. org/10. 1002/wrna. 1156.
18. Calvo O, Manley JL. Strange bedfellows: polyadenylation factors at the promoter. Gen Dev 2003; 17: 1321-7; PMID: 12782649; http://dx. doi. org/10. 1101/gad. 1093603.
19. Chathoth KT, Barrass JD, Webb S, Beggs JD. A splicing-dependent transcriptional checkpoint associated with prespliceosome formation. Mol Cell 2014; 53: 779-90; PMID: 24560925; http://dx. doi. org/10. 1016/j. molcel. 2014. 01. 017.
20. Carrillo Oesterreich F, Preibisch S, Neugebauer KM. Global analysis of nascent RNA reveals transcriptional pausing in terminal exons. Mol Cell 2010; 40: 571-81; PMID: 21095587; http://dx. doi. org/10. 1016/j. molcel. 2010. 11. 004.
21. Kuehner JN, Pearson EL, Moore C. Unravelling the means to an end: RNA polymerase II transcription termination. Nat Rev Mol Cell Biol 2011; 12: 283-94; PMID: 21487437; http://dx. doi. org/10. 1038/nrm3098.
22. Laitem C, Zaborowska J, Isa NF, Kufs J, Dienstbier M, Murphy S. CDK9 inhibitors define elongation checkpoints at both ends of RNA polymerase II-transcribed genes. Nat Struct Mol Biol 2015; 22: 396-403; PMID: 25849141.