RNAP II CTD tyrosine 1 performs diverse functions in vertebrate cells

eLife

Volumn 2014, Issue 3, 2014, Pages

  Hsin, Jing Ping ^a   Li, Wencheng ^b   Hoque, Mainul ^b   Tian, Bin ^b   Manley, James L ^a  

^a Och Spine at New York Presbyterian Hospitals   (United States)

^b RUTGERS NEW JERSEY MEDICAL SCHOOL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEMENTARY RNA; MESSENGER RNA; PROTEASOME; RNA POLYMERASE II; SERINE; TYROSINE;

ANIMAL CELL; ARTICLE; CARBOXY TERMINAL SEQUENCE; CELL CLONING; CELL FRACTIONATION; CHROMATIN IMMUNOPRECIPITATION; CONSENSUS SEQUENCE; CONTROLLED STUDY; DNA FLANKING REGION; EXOSOME; GENE; GENE EXPRESSION; GENETIC COMPLEMENTATION; HUMAN; HUMAN CELL; IMMUNOPRECIPITATION; NONHUMAN; NUCLEOTIDE REPEAT; PROTEIN FUNCTION; PROTEIN PHOSPHORYLATION; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA PROCESSING; SEQUENCE ANALYSIS; WESTERN BLOTTING; ANIMAL; CELL LINE; CHEMISTRY; CHICKEN; METABOLISM; PHOSPHORYLATION;

ANIMALS; CELL LINE; CHICKENS; PHOSPHORYLATION; RNA POLYMERASE II; TYROSINE;

EID: 84900486090     PISSN: None     EISSN: 2050084X     Source Type: Journal    
DOI: 10.7554/eLife.02112     Document Type: Article

References (33)

1. S. Egloff, M. Dienstbier, S. Murphy, Updating the RNA polymerase CTD code: adding gene256 specific layers. Trends Genet 28, 333-341 (2012); published online EpubJul (10.1016/j. tig.2012.03.007).
2. J. P. Hsin, J. L. Manley, The RNA polymerase II CTD coordinates transcription and RNA processing. Genes Dev 26, 2119-2137 (2012); published online EpubOct 1 (10.1101/gad.200303.112).
3. M. Heidemann, C. Hintermair, K. Voss, D. Eick, Dynamic phosphorylation patterns of RNA polymerase II CTD during transcription. Biochim Biophys Acta 1829, 55-62 (2013); published online EpubJan (10.1016/j. bbagrm.2012.08.013).
4. M. J. Munoz, M. de la Mata, A. R. Kornblihtt, The carboxy terminal domain of RNA polymerase II and alternative splicing. Trends in Biochemical Sciences 35, 497-504 (2010); published online EpubSep (10.1016/j. tibs.2010.03.010).
5. S. Buratowski, Progression through the RNA polymerase II CTD cycle. Mol Cell 36, 541-546 (2009); published online EpubNov 25 (10.1016/j. molcel.2009.10.019).
6. C. Fabrega, V. Shen, S. Shuman, C. D. Lima, Structure of an mRNA capping enzyme bound to the phosphorylated carboxy-terminal domain of RNA polymerase II. Mol Cell 11, 1549-1561 (2003)10.1016/s1097-2765(03)00187-4).
7. M. Kim, N. J. Krogen, L. Vasiljeva, O. J. Rando, E. Nedea, J. Greenblatt, S. Buratowski, The yeast Rat1 exonuclease promotes transcription termination by RNA polymerase II. Nature 432, 517-522 (2004).
8. S. Egloff, D. O'Reilly, R. D. Chapman, A. Taylor, K. Tanzhaus, L. Pitts, D. Eick, S. Murphy, Serine-7 of the RNA polymerase II CTD is specifically required for snRNA gene expression. Science 318, 1777-1779 (2007); published online EpubDec 14 (10.1126/science.1145989).
9. J. P. Hsin, A. Sheth, J. L. Manley, RNAP II CTD phosphorylated on threonine-4 is required for histone mRNA 3' end processing. Science 334, 683-686 (2011); published online EpubNov 4 (10.1126/science.1206034).
10. C. Hintermair, M. Heidemann, F. Koch, N. Descostes, M. Gut, I. Gut, R. Fenouil, P. Ferrier, A. Flatley, E. Kremmer, R. D. Chapman, J. C. Andrau, D. Eick, Threonine-4 of mammalian RNA polymerase II CTD is targeted by Polo-like kinase 3 and required for transcriptional elongation. The Embo Journal 31, 2784-2797 (2012); published online EpubMay 1 (10.1038/emboj.2012.123).
11. R. Baskaran, M. E. Dahmus, J. Y. J. Wang, Tyrosine phosphorylation of mammalian RNA polymerase II carboxyl-terminal domain. Proc Natl Acad Sci U S A 90, 11167-11171 (1993).
12. A. Mayer, M. Heidemann, M. Lidschreiber, A. Schreieck, M. Sun, C. Hintermair, E. Kremmer, D. Eick, P. Cramer, CTD tyrosine phosphorylation impairs termination factor recruitment to RNA polymerase II. Science 336, 1723-1725 (2012); published online EpubJun 29 (10.1126/science.1219651).
13. R. D. Chapman, M. Conrad, D. Eick, Role of the mammalian RNA polymerase II C-terminal domain (CTD) nonconsensus repeats in CTD stability and cell proliferation. Mol Cell Biol 25, 7665-7674 (2005); published online EpubSep (10.1128/MCB.25.17.7665-7674.2005).
14. M. L. West, J. L. Corden, Construction and analysis of yeast RNA polymerase II CTD deletion and substitution mutations. Genetics 140, 1223-1233 (1995).
15. B. Schwer, S. Shuman, Deciphering the RNA polymerase II CTD code in fission yeast. Mol Cell 43, 311-318 (2011); published online EpubJul 22 (10.1016/j. molcel.2011.05.024).
16. T. G. Gillette, F. Gonzalez, A. Delahodde, S. A. Johnston, T. Kodadek, Physical and functional association of RNA polymerase II and the proteasome. Proc Natl Acad Sci U S A 101, 5904-5909 (2004); published online EpubApr 20 (10.1073/pnas.0305411101).
17. R. J. Sheaff, J. D. Singer, J. Swanger, M. Smitherman, J. M. Roberts, B. E. Clurman, Proteasomal turnover of p21Cip1 does not require p21Cip1 ubiquitination. Mol Cell 5, 403-410 (2000).
18. G. K. Tofaris, R. Layfield, M. G. Spillantini, alpha-synuclein metabolism and aggregation is linked to ubiquitin-independent degradation by the proteasome. FEBS letters 509, 22-26 (2001).
19. A. Meinhart, T. Kamenski, S. Hoeppner, S. Baumli, umli, P. Cramer, A structural perspective of CTD function. Genes Dev 19, 1401-1415 (2005); published online EpubJun 15 (10.1101/gad.1318105).
20. M. Groll, M. Bajorek, A. Kohler, L. Moroder, D. M. Rubin, R. Huber, M. H. Glickman, D. Finley, A gated channel into the proteasome core particle. Nat Struct Biol 7, 1062-1067 (2000); published online EpubNov (10.1038/80992).
21. A. Forster, C. P. Hill, Proteasome degradation: enter the substrate. Trends Cell Biol 13, 550-553 (2003).
22. J. Duyster, R. Baskaran, J. Y. Wang, Src homology 2 domain as a specificity determinant in the c-Abl-mediated tyrosine phosphorylation of the RNA polymerase II carboxyl-terminal repeated domain. Proc Natl Acad Sci U S A 92, 1555-1559 (1995).
23. M. Hoque, Z. Ji, D. Zheng, W. Luo, W. Li, B. You, J. Y. Park, G. Yehia, B. Tian, Analysis of alternative cleavage and polyadenylation by 3' region extraction and deep sequencing. Nature methods 10, 133-139 (2013); published online EpubFeb (10.1038/nmeth.2288).
24. A. C. Seila, L. J. Core, J. T. Lis, P. A. Sharp, Divergent transcription: a new feature of active promoters. Cell Cycle 8, 2557-2564 (2009).
25. W. Wei, V. Pelechano, A. I. Jarvelin, L. M. Steinmetz, Functional consequences of bidirectional promoters. Trends Genet 27, 267-276 (2011); published online EpubJul (10.1016/j. tig.2011.04.002).
26. P. Preker, J. Nielsen, S. Kammler, S. Lykke-Andersen, M. S. Christensen, C. K. Mapendano, M. H. Schierup, T. H. Jensen, RNA exosome depletion reveals transcription upstream of active human promoters. Science 322, 1851-1854 (2008); published online EpubDec 19 (10.1126/science.1164096).
27. E. Ntini, A. I. Jarvelin, J. Bornholdt, Y. Chen, M. Boyd, M. Jorgensen, R. Andersson, I. Hoof, A. Schein, P. R. Andersen, P. K. Andersen, P. Preker, E. Valen, X. Zhao, V. Pelechano, L. M. Steinmetz, A. Sandelin, T. H. Jensen, Polyadenylation site-induced decay of upstream transcripts enforces promoter directionality. Nat Struct Mol Biol 20, 923-928 (2013); published online EpubJul 14 (10.1038/nsmb.2640).
28. N. Descostes, M. Heidemann, L. Spinelli, R. Schuller, M. A. Maqbool, R. Fenouil, F. Koch, C. Innocenti, M. Gut, I. Gut, D. Eick, J. C. Andrau, Tyrosine phosphorylation of RNA polymerase II CTD is associated with antisense promoter transcription and active enhancers in mammalian cells. Accompanying manuscript (2014).
29. R. Baskaran, S. R. Escobar, J. Y. J. Wang, Nuclear c-Abl is a COOH-terminal repeated domain (CTD)-tyrosine (CTD)-tyrosine kinase-specific for the mammalian RNA polymerase II: possible role in transcription elongation. Cell Growth & Differentiation 10, 387-396 (1999).
30. C. K. Mapendano, S. Lykke-Andersen, J. Kjems, E. Bertrand, T. H. Jensen, Crosstalk between mRNA 3' end processing and transcription initiation. Mol Cell 40, 410-422 (2010); published online EpubNov 12 (10.1016/j. molcel.2010.10.012).
31. G. Asher, P. Tsvetkov, C. Kahana, Y. Shaul, A mechanism of ubiquitin-independent proteasomal degradation of the tumor suppressors p53 and p73. Genes Dev 19, 316-321 (2005); published online EpubFeb 1 (10.1101/gad.319905).
32. S. Larochelle, J. Batliner, M. J. Gamble, N. M. Barboza, B. C. Kraybill, J. D. Blethrow, K. M. Shokat, R. P. Fisher, Dichotomous but stringent substrate selection by the dual-function Cdk7 complex revealed by chemical genetics. Nat Struct Mol Biol 13, 55-62 (2006); published online EpubJan (10.1038/nsmb1028).
33. J. P. Hsin, K. Xiang, J. L. Manley, Function and control of RNA polymerase II CTD phosphorylation in vertebrate transcription and RNA processing. Mol Cell Biol (2014); published online EpubApr 21 (10.1128/MCB.00181-14).