Mediator regulates non-coding RNA transcription at fission yeast centromeres

Epigenetics and Chromatin

Volumn 5, Issue 1, 2012, Pages

  Thorsen, Michael ^a   Hansen, Heidi ^a   Venturi, Michela ^a   Holmberg, Steen ^a   Thon, Genevieve ^a  

^a UNIVERSITY OF COPENHAGEN   (Denmark)

Author keywords

Centromere; Chromatin; Chromosome segregation; Mediator; RNA Pol II; S. pombe

Indexed keywords

RNA POLYMERASE II; SMALL INTERFERING RNA; UNTRANSLATED RNA;

ARTICLE; CENTROMERE; CHROMOSOME LOSS; CHROMOSOME SEGREGATION; CONTROLLED STUDY; GENE MUTATION; GENE SILENCING; HETEROCHROMATIN; METHYLATION; MITOSIS; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; REPORTER GENE; RNA TRANSCRIPTION; SCHIZOSACCHAROMYCES POMBE; STEADY STATE; TRANSCRIPTION REGULATION; YEAST;

SCHIZOSACCHAROMYCES POMBE; SCHIZOSACCHAROMYCETACEAE;

EID: 84869206832     PISSN: None     EISSN: 17568935     Source Type: Journal    
DOI: 10.1186/1756-8935-5-19     Document Type: Article

References (48)

1. Comparative genomics supports a deep evolutionary origin for the large, four-module transcriptional mediator complex. Bourbon HM, Nucleic Acids Res 2008 36 3993 4008 10.1093/nar/gkn349 18515835
2. A unified nomenclature for protein subunits of mediator complexes linking transcriptional regulators to RNA polymerase II. Bourbon HM, Aguilera A, Ansari AZ, Asturias FJ, Berk AJ, Bjorklund S, Blackwell TK, Borggrefe T, Carey M, Carlson M, Conaway JW, Conaway RC, Emmons SW, Fondell JD, Freedman LP, Fukasawa T, Gustafsson CM, Han M, He X, Herman PK, Hinnebusch AG, Holmberg S, Holstege FC, Jaehning JA, Kim YJ, Kuras L, Leutz A, Lis JT, Meisterernest M, Naar AM, et al. Mol Cell 2004 14 553 557 10.1016/j.molcel.2004.05.011 15175151
3. Structure of the yeast RNA polymerase II holoenzyme: Mediator conformation and polymerase interaction. Davis JA, Takagi Y, Kornberg RD, Asturias FA, Mol Cell 2002 10 409 415 10.1016/S1097-2765(02)00598-1 12191485
4. The cyclin-dependent kinase 8 module sterically blocks Mediator interactions with RNA polymerase II. Elmlund H, Baraznenok V, Lindahl M, Samuelsen CO, Koeck PJ, Holmberg S, Hebert H, Gustafsson CM, Proc Natl Acad Sci USA 2006 103 15788 15793 10.1073/pnas.0607483103 17043218
5. Structure and TBP binding of the Mediator head subcomplex Med8-Med18-Med20. Lariviere L, Geiger S, Hoeppner S, Rother S, Strasser K, Cramer P, Nat Struct Mol Biol 2006 13 895 901 10.1038/nsmb1143 16964259
6. Structure-system correlation identifies a gene regulatory Mediator submodule. Lariviere L, Seizl M, van Wageningen S, Rother S, van de Pasch L, Feldmann H, Strasser K, Hahn S, Holstege FC, Cramer P, Genes Dev 2008 22 872 877 10.1101/gad.465108 18381891
7. Two conserved modules of Schizosaccharomyces pombe Mediator regulate distinct cellular pathways. Linder T, Rasmussen NN, Samuelsen CO, Chatzidaki E, Baraznenok V, Beve J, Henriksen P, Gustafsson CM, Holmberg S, Nucleic Acids Res 2008 36 2489 2504 10.1093/nar/gkn070 18310102
8. Mediator head module structure and functional interactions. Cai G, Imasaki T, Yamada K, Cardelli F, Takagi Y, Asturias FJ, Nat Struct Mol Biol 2010 17 273 279 10.1038/nsmb.1757 20154708
9. Position effect variegation at fission yeast centromeres. Allshire RC, Javerzat JP, Redhead NJ, Cranston G, Cell 1994 76 157 169 10.1016/0092-8674(94) 90180-5 8287474
10. Regulation of heterochromatic silencing and histone H3 lysine-9 methylation by RNAi. Volpe TA, Kidner C, Hall IM, Teng G, Grewal SI, Martienssen RA, Science 2002 297 1833 1837 10.1126/science.1074973 12193640
11. Noncoding RNAs and gene silencing. Zaratiegui M, Irvine DV, Martienssen RA, Cell 2007 128 763 776 10.1016/j.cell.2007.02.016 17320512
12. RNAi-mediated targeting of heterochromatin by the RITS complex. Verdel A, Jia S, Gerber S, Sugiyama T, Gygi S, Grewal SI, Moazed D, Science 2004 303 672 676 10.1126/science.1093686 14704433
13. Two RNAi complexes, RITS and RDRC, physically interact and localize to noncoding centromeric RNAs. Motamedi MR, Verdel A, Colmenares SU, Gerber SA, Gygi SP, Moazed D, Cell 2004 119 789 802 10.1016/j.cell.2004.11.034 15607976
14. Two novel proteins, dos1 and dos2, interact with rik1 to regulate heterochromatic RNA interference and histone modification. Li F, Goto DB, Zaratiegui M, Tang X, Martienssen R, Cande WZ, Curr Biol 2005 15 1448 1457 10.1016/j.cub.2005.07.021 16040243
15. A Rik1-associated, cullin-dependent E3 ubiquitin ligase is essential for heterochromatin formation. Horn PJ, Bastie JN, Peterson CL, Genes Dev 2005 19 1705 1714 10.1101/gad.1328005 16024659
16. A cullin E3 ubiquitin ligase complex associates with Rik1 and the Clr4 histone H3-K9 methyltransferase and is required for RNAi-mediated heterochromatin formation. Hong EJ, Villen J, Gerace EL, Gygi SP, Moazed D, RNA Biol 2005 2 106 111 10.4161/rna.2.3.2131 17114925
17. The Clr7 and Clr8 directionality factors and the Pcu4 cullin mediate heterochromatin formation in the fission yeast Schizosaccharomyces pombe. Thon G, Hansen KR, Altes SP, Sidhu D, Singh G, Verhein-Hansen J, Bonaduce MJ, Klar AJ, Genetics 2005 171 1583 1595 10.1534/genetics.105.048298 16157682
18. Stc1: a critical link between RNAi and chromatin modification required for heterochromatin integrity. Bayne EH, White SA, Kagansky A, Bijos DA, Sanchez-Pulido L, Hoe KL, Kim DU, Park HO, Ponting CP, Rappsilber J, Allshire RC, Cell 2010 140 666 677 10.1016/j.cell.2010.01.038 20211136
19. Lid2 is required for coordinating H3K4 and H3K9 methylation of heterochromatin and euchromatin. Li F, Huarte M, Zaratiegui M, Vaughn MW, Shi Y, Martienssen R, Cande WZ, Cell 2008 135 272 283 10.1016/j.cell.2008.08.036 18957202
20. Common themes in siRNA-mediated epigenetic silencing pathways. Verdel A, Vavasseur A, Le Gorrec M, Touat-Todeschini L, Int J Dev Biol 2009 53 245 257 10.1387/ijdb.082691av 19412884
21. RITS-connecting transcription, RNA interference, and heterochromatin assembly in fission yeast. Creamer KM, Partridge JF, Wiley interdisciplinary reviews RNA 2011 2 632 646 10.1002/wrna.80 21823226
22. A chromodomain switch mediated by histone H3 Lys 4 acetylation regulates heterochromatin assembly. Xhemalce B, Kouzarides T, Genes Dev 2010 24 647 652 10.1101/gad.1881710 20299449
23. RNA interference guides histone modification during the S phase of chromosomal replication. Kloc A, Zaratiegui M, Nora E, Martienssen R, Curr Biol 2008 18 490 495 10.1016/j.cub.2008.03.016 18394897
24. Cell cycle control of centromeric repeat transcription and heterochromatin assembly. Chen ES, Zhang K, Nicolas E, Cam HP, Zofall M, Grewal SI, Nature 2008 451 734 737 10.1038/nature06561 18216783
25. RNA Pol II subunit Rpb7 promotes centromeric transcription and RNAi-directed chromatin silencing. Djupedal I, Portoso M, Spahr H, Bonilla C, Gustafsson CM, Allshire RC, Ekwall K, Genes Dev 2005 19 2301 2306 10.1101/gad.344205 16204182
26. Global effects on gene expression in fission yeast by silencing and RNA interference machineries. Hansen KR, Burns G, Mata J, Volpe TA, Martienssen RA, Bahler J, Thon G, Mol Cell Biol 2005 25 590 601 10.1128/MCB.25.2.590-601.2005 15632061
27. RNA polymerase II is required for RNAi-dependent heterochromatin assembly. Kato H, Goto DB, Martienssen RA, Urano T, Furukawa K, Murakami Y, Science 2005 309 467 469 10.1126/science.1114955 15947136
28. RNA-interference-directed chromatin modification coupled to RNA polymerase II transcription. Schramke V, Sheedy DM, Denli AM, Bonila C, Ekwall K, Hannon GJ, Allshire RC, Nature 2005 435 1275 1279 10.1038/nature03652 15965464
29. Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast. Roguev A, Bandyopadhyay S, Zofall M, Zhang K, Fischer T, Collins SR, Qu H, Shales M, Park HO, Hayles J, Hoe KL, Kim DU, Ideker T, Grewal SI, Weissman JS, Krogan NJ, Science 2008 322 405 410 10.1126/science.1162609 18818364
30. A chromatin-remodeling protein is a component of fission yeast mediator. Khorosjutina O, Wanrooij PH, Walfridsson J, Szilagyi Z, Zhu X, Baraznenok V, Ekwall K, Gustafsson CM, J Biol Chem 2010 285 29729 29737 10.1074/jbc.M110. 153858 20622008
31. MED19 and MED26 are synergistic functional targets of the RE1 silencing transcription factor in epigenetic silencing of neuronal gene expression. Ding N, Tomomori-Sato C, Sato S, Conaway RC, Conaway JW, Boyer TG, J Biol Chem 2009 284 2648 2656 19049968
32. Mediator links epigenetic silencing of neuronal gene expression with x-linked mental retardation. Ding N, Zhou H, Esteve PO, Chin HG, Kim S, Xu X, Joseph SM, Friez MJ, Schwartz CE, Pradhan S, Boyer TG, Mol Cell 2008 31 347 359 10.1016/j.molcel.2008.05.023 18691967
33. Mutations derepressing silent centromeric domains in fission yeast disrupt chromosome segregation. Allshire RC, Nimmo ER, Ekwall K, Javerzat JP, Cranston G, Genes Dev 1995 9 218 233 10.1101/gad.9.2.218 7851795
34. The Schizosaccharomyces pombe sep15+ gene encodes a protein homologous to the Med8 subunit of the Saccharomyces cerevisiae transcriptional mediator complex. Zilahi E, Miklos I, Sipiczki M, Curr Genet 2000 38 227 232 10.1007/s002940000158 11191205
35. RNAi promotes heterochromatic silencing through replication-coupled release of RNA Pol II. Zaratiegui M, Castel SE, Irvine DV, Kloc A, Ren J, Li F, de Castro E, Marin L, Chang AY, Goto D, Cande WZ, Antequera F, Arcangioli B, Martienssen RA, Nature 2011 479 135 138 10.1038/nature10501 22002604
36. The yeast Mediator complex and its regulation. Bjorklund S, Gustafsson CM, Trends Biochem Sci 2005 30 240 244 10.1016/j.tibs.2005.03.008 15896741
37. Genomic expression patterns in cell separation mutants of Schizosaccharomyces pombe defective in the genes sep10 (+) and sep15 (+) coding for the Mediator subunits Med31 and Med8. Miklos I, Szilagyi Z, Watt S, Zilahi E, Batta G, Antunovics Z, Enczi K, Bahler J, Sipiczki M, Mol Genet Genomics 2008 279 225 238 10.1007/s00438-007-0296-z 17922236
38. Comprehensive analysis of heterochromatin- and RNAi-mediated epigenetic control of the fission yeast genome. Cam HP, Sugiyama T, Chen ES, Chen X, FitzGerald PC, Grewal SI, Nat Genet 2005 37 809 819 10.1038/ng1602 15976807
39. Telomere binding protein Taz1 establishes Swi6 heterochromatin independently of RNAi at telomeres. Kanoh J, Sadaie M, Urano T, Ishikawa F, Curr Biol 2005 15 1808 1819 10.1016/j.cub.2005.09.041 16243027
40. Spt6 is required for heterochromatic silencing in the fission yeast Schizosaccharomyces pombe. Kiely CM, Marguerat S, Garcia JF, Madhani HD, Bahler J, Winston F, Mol Cell Biol 2011 31 4193 4204 10.1128/MCB.05568-11 21844224
41. Requirement of heterochromatin for cohesion at centromeres. Bernard P, Maure JF, Partridge JF, Genier S, Javerzat JP, Allshire RC, Science 2001 294 2539 2542 10.1126/science.1064027 11598266
42. Heterochromatin links to centromeric protection by recruiting shugoshin. Yamagishi Y, Sakuno T, Shimura M, Watanabe Y, Nature 2008 455 251 255 10.1038/nature07217 18716626
43. Telomere-associated chromosome breakage in fission yeast results in variegated expression of adjacent genes. Nimmo ER, Cranston G, Allshire RC, EMBO J 1994 13 3801 3811 8070408
44. Mediator head module structure and functional interactions. Cai G, Imasaki T, Yamada K, Cardelli F, Takagi Y, Asturias FJ, Nat Struct Mol Biol 2010 17 273 279 10.1038/nsmb.1757 20154708
45. Mediator Promotes CENP-A Incorporation at Fission Yeast Centromeres. Carlsten JO, Szilagyi Z, Liu B, Davila Lopez M, Szaszi E, Djupedal I, Nystrom T, Ekwall K, Gustafsson CM, Zhu X, Mol Cell Biol 2012 19 4035 4043
46. The BioGRID Interaction Database: 2008 update. Breitkreutz BJ, Stark C, Reguly T, Boucher L, Breitkreutz A, Livstone M, Oughtred R, Lackner DH, Bahler J, Wood V, Dolinski K, Tyers M, Nucleic Acids Res 2008 36 637 D640 18000002
47. Osprey: a network visualization system. Breitkreutz BJ, Stark C, Tyers M, Genome Biol 2003 4 22 10.1186/gb-2003-4-3-r22 12620107
48. Global effects on gene expression in fission yeast by silencing and RNA interference machineries. Hansen KR, Burns G, Mata J, Volpe TA, Martienssen RA, Bähler J, Thon G, Mol Cell Biol 2005 25 590 601 10.1128/MCB.25.2.590-601. 2005 15632061