Integrating transcription kinetics with alternative polyadenylation and cell cycle control

Nucleus

Volumn 2, Issue 6, 2011, Pages 556-561

  Moreira, Alexandra ^a  

^a UNIVERSITY OF PORTO   (Portugal)

Author keywords

Alternative polyadenylation; Cell cycle; Cell proliferation; Drosophila melanogaster; Gene expression; Metamorphosis; Polo; RNA polymerase II kinetics

Indexed keywords

MESSENGER RNA; POLO LIKE KINASE; RNA POLYMERASE II;

3' UNTRANSLATED REGION; ALTERNATIVE POLYADENYLATION; ALTERNATIVE RNA SPLICING; ARTICLE; CARBOXY TERMINAL SEQUENCE; CELL CYCLE G2 PHASE; CELL CYCLE REGULATION; CELL NUCLEUS; MESSENGER RNA SYNTHESIS; METAMORPHOSIS; MITOSIS; POLYADENYLATION; RNA TRANSCRIPTION; TRANSCRIPTION ELONGATION; TRANSCRIPTION REGULATION;

DROSOPHILA MELANOGASTER;

EID: 84856848421     PISSN: 19491034     EISSN: 19491042     Source Type: Journal    
DOI: 10.4161/nucl.2.6.18064     Document Type: Article

References (50)

1. Moore MJ, Proudfoot NJ. Pre-mRNA processing reaches back to transcription and ahead to translation. Cell 2009; 136:688-700 PMID:19239889; http://dx.doi.org/10.1016/j.cell.2009.02.001
2. Hager GL, McNally JG, Misteli T. Transcription dynamics. Mol Cell 2009; 35:741-53 PMID:19782025; http://dx.doi.org/10.1016/j.molcel.2009.09.005
3. Proudfoot NJ. Ending the message: poly(A) signals then and now. Genes Dev 2011; 25:1770-82 PMID: 21896654; http://dx.doi.org/10.1101/gad.17268411
4. Proudfoot NJ, Furger A, Dye MJ. Integrating mRNA processing with transcription. Cell 2002; 108:501-12. PMID:11909521; http://dx.doi.org/10.1016/S0092-8674(02)00617-7
5. Li J, Gilmour DS. Promoter proximal pausing and the control of gene expression. Curr Opin Genet Dev 2011; 21:231-5PMID:21324670; http://dx.doi.org/10.1016/j.gde.2011.01.010
6. Mapendano CK, Lykke-Andersen S, Kjems J, Bertrand E, Jensen TH. Crosstalk between mRNA 3' end processing and transcription initiation. Mol Cell 2010; 40:410-22 PMID:21070967; http://dx.doi.org/10.1016/j.molcel.2010.10.012
7. Egloff S, Murphy S. Cracking the RNA polymerase II CTD code. Trends Genet 2008; 24:280-8. PMID: 18457900; http://dx.doi.org/10.1016/j.tig.2008.03.008
8. Bentley DL. Rules of engagement: co-transcriptional recruitment of pre-mRNA processing factors. Curr Opin Cell Biol 2005; 17:251-6PMID:15901493; http://dx.doi.org/10.1016/j.ceb.2005.04.006
9. Buratowski S. Progression through the RNA polymerase II CTD cycle. Mol Cell 2009; 36:541-6.PMID:19941815; http://dx.doi.org/10.1016/j.molcel.2009.10.019
10. Neugebauer KM. On the importance of being cotranscriptional. J Cell Sci 2002; 115:3865-71PMID: 12244124; http://dx.doi.org/10.1242/jcs.00073
11. Fuda NJ, Ardehali MB, Lis JT. Defining mechanisms that regulate RNA polymerase II transcription in vivo. Nature 2009; 461:186-92PMID:19741698; http://dx.doi.org/10.1038/nature08449
12. de la Mata M, Alonso CR, Kadener S, Fededa JP, Blaustein M, Pelisch F, et al. A slow RNA polymerase II affects alternative splicing in vivo. Mol Cell 2003; 12:525-32PMID:14536091; http://dx.doi.org/10.1016/j.molcel.2003.08.001
13. Coulter DE, Greenleaf AL. A mutation in the largest subunit of RNA polymerase II alters RNA chain elongation in vitro. J Biol Chem 1985; 260:13190-8.PMID:2414275
14. Chen Y, Chafin D, Price DH, Greenleaf AL. Drosophila RNA polymerase II mutants that affect transcription elongation. J Biol Chem 1996; 271:5993-9PMID:8626382; http://dx.doi.org/10.1074/jbc.271.11.5993
15. Luco RF, Allo M, Schor IE, Kornblihtt AR, Misteli T. Epigenetics in alternative pre-mRNA splicing. Cell 2011; 144:16-26PMID:21215366; http://dx.doi.org/10.1016/j.cell.2010.11.056
16. Lutz CS. Alternative polyadenylation: a twist on mRNA 3' end formation. ACS Chem Biol 2008; 3:609-17PMID:18817380; http://dx.doi.org/10.1021/cb800138w
17. Lutz CS, Moreira A. Alternative mRNA polyadenylation in eukaryotes: an effective regulator of gene expression. Wiley Interdiscip Rev RNA 2011; 2:23-31.PMID:21278855
18. Di Giammartino DC, Nishida K, Manley JL. Mechanisms and consequences of alternative polyadenylation. Mol Cell 2011; 43:853-66.PMID:21925375; http://dx.doi.org/10.1016/j.molcel.2011.08.017
19. Pinto PA, Henriques T, Freitas MO, Martins T, Domingues RG, Wyrzykowska PS, et al. RNA polymerase II kinetics in polo polyadenylation signal selection. EMBO J 2011; 30:2431-44PMID:21602789; http://dx.doi.org/10.1038/emboj.2011.156
20. Takagaki Y, Seipelt RL, Peterson ML, Manley JL. The polyadenylation factor CstF-64 regulates alternative processing of IgM heavy chain pre-mRNA during B cell differentiation. Cell 1996; 87:941-52.PMID: 8945520; http://dx.doi.org/10.1016/S0092-8674(00)82000-0
21. Martincic K, Alkan SA, Cheatle A, Borghesi L, Milcarek C. Transcription elongation factor ELL2 directs immunoglobulin secretion in plasma cells by stimulating altered RNA processing. Nat Immunol 2009; 10:1102-9PMID:19749764; http://dx.doi.org/10.1038/ni.1786
22. Moore MJ. From birth to death: the complex lives of eukaryotic mRNAs. Science 2005; 309:1514-8.PMID: 16141059; http://dx.doi.org/10.1126/science.1111443
23. Ji Z, Lee JY, Pan Z, Jiang B, Tian B. Progressive lengthening of 3' untranslated regions of mRNAs by alternative polyadenylation during mouse embryonic development. Proc Natl Acad Sci USA 2009; 106: 7028-33PMID:19372383; http://dx.doi.org/10.1073/pnas.0900028106
24. Sandberg R, Neilson J, Sarma A, Sharp P, Burge C. Proliferating cells express mRNAs with shortened 3' untranslated regions and fewer microRNA target sites. Science 2008; 320:1643-7PMID:18566288; http://dx.doi.org/10.1126/science.1155390
25. Mayr C, Bartel DP. Widespread shortening of 3'UTRs by alternative cleavage and polyadenylation activates oncogenes in cancer cells. Cell 2009; 138:673-84.PMID:19703394; http://dx.doi.org/10.1016/j.cell.2009.06.016
26. Archambault V, Glover DM. Polo-like kinases: conservation and divergence in their functions and regulation. Nat Rev Mol Cell Biol 2009; 10:265-75.PMID:19305416; http://dx.doi.org/10.1038/nrm2653
27. Llamazares S, Moreira A, Tavares A, Girdham C, Spruce B, Gonzalez C, et al. Polo encodes a protein kinase homolog required for mitosis in Drosophila. Genes Dev 1991; 5:2153-65PMID:1660828; http://dx.doi.org/10.1101/gad.5.12a.2153
28. Hayashi S, Hirose S, Metcalfe T, Shirras AD. Control of imaginal cell development by the escargot gene of Drosophila. Development 1993; 118:105-15PMID: 8375329
29. Curtiss J, Heilig JS. Establishment of Drosophila imaginal precursor cells is controlled by the Arrowhead gene. Development 1995; 121:3819-28PMID:8582291
30. McClure KD, Schubiger G. Transdetermination: Drosophila imaginal disc cells exhibit stem cell-like potency. Int J Biochem Cell Biol 2007; 39:1105-18.PMID:17317270; http://dx.doi.org/10.1016/j.biocel.2007.01.007
31. Roseland CR, Schneiderman HA. Regulation and metamorphosis of the abdominal histoblasts of Drosophila melanogaster. Rouxs Arch Dev Biol 1979;186:235-65.http://dx.doi.org/10.1007/BF00848591
32. Madhavan MM, Madhavan K. Morphogenesis of the epidermis of adult abdomen of Drosophila. J Embryol Exp Morphol 1980; 60:1-31.PMID:6796636
33. Ninov N, Manjón C, Martín-Blanco E. Dynamic control of cell cycle and growth coupling by ecdysone, EGFR and PI3K signaling in Drosophila histoblasts. PLoS Biol 2009; 7:e100007PMID:19355788; http://dx.doi.org/10.1371/journal.pbio.1000079
34. Ninov N, Chiarelli DA, Martín-Blanco E. Extrinsic and intrinsic mechanisms directing epithelial cell sheet replacement during Drosophila metamorphosis. Development 2007; 134:367-79PMID:17166923; http://dx.doi.org/10.1242/dev.02728
35. Ninov N, Menezes-Cabral S, Prat-Rojo C, Manjón C, Weiss A, Pyrowolakis G, et al. Dpp signaling directs cell motility and invasiveness during epithelial morphogenesis. Curr Biol 2010; 20:513-20PMID:20226662; http://dx.doi.org/10.1016/j.cub.2010.01.063
36. Thomsen S, Azzam G, Kaschula R, Williams LS, Alonso CR. Developmental RNA processing of 3'UTRs in Hox mRNAs as a context-dependent mechanism modulating visibility to microRNAs. Development 2010; 137:2951-60PMID:20667912; http://dx.doi.org/10.1242/dev.047324
37. Millevoi S, Vagner S. Molecular mechanisms of eukaryotic pre-mRNA 3' end processing regulation. Nucleic Acids Res 2010; 38:2757-74PMID: 20044349; http://dx.doi.org/10.1093/nar/gkp1176
38. Spies N, Nielsen CB, Padgett RA, Burge CB. Biased chromatin signatures around polyadenylation sites and exons. Mol Cell 2009; 36:245-54 PMID:19854133; http://dx.doi.org/10.1016/j.molcel.2009.10.008
39. Wood AJ, Schulz R, Woodfine K, Koltowska K, Beechey C, Peters J, et al. Regulation of alternative polyadenylation by genomic imprinting. Genes Dev 2008; 22:1141-6 PMID:18451104; http://dx.doi.org/10.1101/gad.473408
40. Danckwardt S, Kaufmann I, Gentzel M, Foerstner KU, Gantzert AS, Gehring NH, et al. Splicing factors stimulate polyadenylation via USEs at non-canonical 3' end formation signals. EMBO J 2007; 26:2658-69. PMID:17464285; http://dx.doi.org/10.1038/sj.emboj.7601699
41. Danckwardt S, Gantzert AS, Macher-Goeppinger S, Probst HC, Gentzel M, Wilm M, et al. p38 MAPK controls prothrombin expression by regulated RNA 3' end processing. Mol Cell 2011; 41:298-310.PMID: 21292162; http://dx.doi.org/10.1016/j.molcel.2010.12.032
42. Moreira A, Pinto P, Sunkel C, Carmo A. Upstream sequence elements are required for mRNA 3'-end formation of the Drosophila melanogaster cell cycle POLO kinase. FASEB J 2005; 19(Suppl):A876-7.
43. Gawande B, Robida MD, Rahn A, Singh R. Drosophila Sex-lethal protein mediates polyadenylation switching in the female germline. EMBO J 2006; 25:1263-72PMID:16511567; http://dx.doi.org/10.1038/sj.emboj.7601022
44. Juge F, Audibert A, Benoit B, Simonelig M. Tissuespecific autoregulation of Drosophila suppressor of forked by alternative poly(A) site utilization leads to accumulation of the suppressor of forked protein in mitotically active cells. RNA 2000; 6:1529-38PMID:11105753; http://dx.doi.org/10.1017/S1355838200001266
45. Kim HS, Li H, Cevher M, Parmelee A, Fonseca D, Kleiman FE, et al. DNA damage-induced BARD1 phosphorylation is critical for the inhibition of messenger RNA processing by BRCA1/BARD1 complex. Cancer Res 2006; 66:4561-5PMID:16651405; http://dx.doi.org/10.1158/0008-5472.CAN-05-3629
46. Colgan DF, Murthy KG, Zhao W, Prives C, Manley JL. Inhibition of poly(A) polymerase requires p34cdc2/cyclin B phosphorylation of multiple consensus and nonconsensus sites. EMBO J 1998; 17:1053-62PMID: 9463383; http://dx.doi.org/10.1093/emboj/17.4.1053
47. Dermody JL, Dreyfuss JM, Villén J, Ogundipe B, Gygi SP, Park PJ, et al. Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation. PLoS ONE 2008; 3:e3273PMID:18818768; http://dx.doi.org/10.1371/journal.pone.0003273
48. Ryan K, Bauer DL. Finishing touches: post-translational modification of protein factors involved in mammalian pre-mRNA 3' end formation. Int J Biochem Cell Biol 2008; 40:2384-96PMID:18468939; http://dx.doi.org/10.1016/j.biocel.2008.03.016
49. Lowery DM, Clauser KR, Hjerrild M, Lim D, Alexander J, Kishi K, et al. Proteomic screen defines the Polo-box domain interactome and identifies Rock2 as a Plk1 substrate. EMBO J 2007; 26:2262-73PMID:17446864; http://dx.doi.org/10.1038/sj.emboj.7601683
50. Singh P, Alley TL, Wright SM, Kamdar S, Schott W, Wilpan RY, et al. Global changes in processing of mRNA 3' untranslated regions characterize clinically distinct cancer subtypes. Cancer Res 2009; 69:9422-30.PMID:19934316; http://dx.doi.org/10.1158/0008-5472.CAN-09-2236.