Genetic interactions of MAF1 identify a role for Med20 in transcriptional repression of ribosomal protein genes

PLoS Genetics

Volumn 4, Issue 7, 2008, Pages

  Willis, Ian M ^a   Chua, Gordon ^b,c   Tong, Amy H ^b,d   Brost, Renee L ^b   Hughes, Timothy R ^b   Boone, Charles ^b   Moir, Robyn D ^a  

^a ALBERT EINSTEIN COLLEGE OF MEDICINE   (United States)

^b UNIVERSITY OF TORONTO   (Canada)

^c UNIVERSITY OF CALGARY   (Canada)

^d UNIVERSITY OF HONG KONG   (Hong Kong)

Author keywords

[No Author keywords available]

Indexed keywords

DNA DIRECTED DNA POLYMERASE GAMMA; RIBOSOME PROTEIN; TRANSFER RNA; UBIQUITIN; MAF1 PROTEIN, S CEREVISIAE; MESSENGER RNA; PROTEIN SUBUNIT; RAPAMYCIN; REPRESSOR PROTEIN; SACCHAROMYCES CEREVISIAE PROTEIN; SRB2 PROTEIN, S CEREVISIAE; TRANSCRIPTION FACTOR;

ARTICLE; DOWN REGULATION; FUNGAL GENE; GENE DELETION; GENE INTERACTION; MAF1 GENE; MED20 GENE; MESSENGER RNA SYNTHESIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PROTEIN DEGRADATION; RIBOSOME; RNA PROCESSING; SACCHAROMYCES CEREVISIAE; TRANSCRIPTION REGULATION; BIOSYNTHESIS; GENE EXPRESSION PROFILING; GENE REGULATORY NETWORK; GENETIC TRANSCRIPTION; GENETICS; METABOLISM; PHYSIOLOGY;

SACCHAROMYCES CEREVISIAE;

GENE EXPRESSION PROFILING; GENE REGULATORY NETWORKS; PROTEIN SUBUNITS; REPRESSOR PROTEINS; RIBOSOMAL PROTEINS; RNA, MESSENGER; RNA, TRANSFER; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SIROLIMUS; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC;

EID: 48249120798     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1000112     Document Type: Article

References (50)

1. Warner J (1999) The economics of ribosome biosynthesis in yeast. Trends Biochem Sci 24: 437-440.
2. Willis IM, Desai NA, Upadhya R (2004) Signaling repression of transcription by RNA polymerase III in yeast. Prog Nucl Acid Res and Mol Bio 77: 323-353.
3. Phizicky EM (2005) Have tRNA, will travel. Proc Natl Acad Sci U S A 102: 11127-11128.
4. Upadhya R, Lee J, Willis IM (2002) Maf1 Is an Essential Mediator of Diverse Signals that Repress RNA Polymerase III Transcription. Mol Cell 10: 1489-1494.
5. Jorgensen P, Rupes I, Sharom JR, Schneper L, Broach JR, et al. (2004) A dynamic transcriptional network communicates growth potential to ribosome synthesis and critical cell size. Genes Dev 18: 2491-2505.
6. Marion RM, Regev A, Segal E, Barash Y, Koller D, et al. (2004) Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression. Proc Natl Acad Sci U S A 101: 14315-14322.
7. Martin DE, Soulard A, Hall MN (2004) TOR regulates ribosomal protein gene expression via PKA and the Forkhead transcription factor FHL1. Cell 119: 969-979.
8. Claypool JA, French SL, Johzuka K, Eliason K, Vu L, et al. (2004) Tor pathway regulates Rrn3p-dependent recruitment of yeast RNA polymerase I to the promoter but does not participate in alteration of the number of active genes. Mol Biol Cell 15: 946-956.
9. Rudra D, Zhao Y, Warner JR (2005) Central role of Ifh1p-Fhl1p interaction in the synthesis of yeast ribosomal proteins. EMBO J 24: 533-542.
10. Desai N, Lee J, Upadhya R, Chu Y, Moir RD, et al. (2005) Two Steps in Maf1-dependent Repression of Transcription by RNA Polymerase III. J Biol Chem 280: 6455-6462.
11. Oficjalska-Pham D, Harismendy O, Smagowicz WJ, Gonzalez dP, Boguta M, et al. (2006) General Repression of RNA Polymerase III Transcription Is Triggered by Protein Phosphatase Type 2A-Mediated Dephosphorylation of Maf1. Mol Cell 22: 623-632.
12. Reina JH, Azzouz TN, Hernandez N (2006) Maf1, a New Player in the Regulation of Human RNA Polymerase III Transcription. PLoS ONE 1: e134.
13. Willis IM, Moir RD (2007) Integration of nutritional and stress signaling pathways by Maf1. Trends Biochem Sci 32: 51-53.
14. Stark C, Breitkreutz BJ, Reguly T, Boucher L, Breitkreutz A, et al. (2006) BioGRID: a general repository for interaction datasets. Nucleic Acids Res 34: D535-D539.
15. Tong AH, Boone C (2006) Synthetic genetic array analysis in Saccharomyces cerevisiae. Methods Mol Biol 313: 171-192.
16. Mnaimneh S, Davierwala AP, Haynes J, Moffat J, Peng WT, et al. (2004) Exploration of essential gene functions via titratable promoter alleles. Cell 118: 31-44.
17. Davierwala AP, Haynes J, Li Z, Brost RL, Robinson MD, et al. (2005) The synthetic genetic interaction spectrum of essential genes. Nat Genet 37: 1147-1152.
18. Tong AH, Lesage G, Bader GD, Ding H, Xu H, et al. (2004) Global mapping of the yeast genetic interaction network. Science 303: 808-813.
19. Miyoshi K, Tsujii R, Yoshida H, Maki Y, Wada A, et al. (2002) Normal assembly of 60 S ribosomal subunits is required for the signaling in response to a secretory defect in Saccharomyces cerevisiae. J Biol Chem 277: 18334-18339.
20. Zhao Y, Sohn JH, Warner JR (2003) Autoregulation in the biosynthesis of ribosomes. Mol Cell Biol 23: 699-707.
21. Dragon F, Gallagher JE, Compagnone-Post PA, Mitchell BM, Porwancher KA, et al. (2002) A large nucleolar U3 ribonucleoprotein required for 18S ribosomal RNA biogenesis. Nature 417: 967-970.
22. Rudra D, Mallick J, Zhao Y, Warner JR (2007) Potential interface between ribosomal protein production and pre-rRNA processing. Mol Cell Biol 27: 4815-4824.
23. Guglielmi B, van Berkum NL, Klapholz B, Bijma T, Boube M, et al. (2004) A high resolution protein interaction map of the yeast Mediator complex. Nucleic Acids Res 32: 5379-5391.
24. Zhang F, Sumibcay L, Hinnebusch AG, Swanson MJ (2004) A triad of subunits from the Gal11/tail domain of Srb mediator is an in vivo target of transcriptional activator Gcn4p. Mol Cell Biol 24: 6871-6886.
25. van de Peppel J, Kettelarij N, van Bakel H, Kockelkorn TT, van Leenen D, et al. (2005) Mediator expression profiling epistasis reveals a signal transduction pathway with antagonistic submodules and highly specific downstream targets. Mol Cell 19: 511-522.
26. Chen JC, Powers T (2006) Coordinate regulation of multiple and distinct biosynthetic pathways by TOR and PKA kinases in S. cerevisiae. Curr Genet 49: 281-293.
27. Qiu H, Hu C, Zhang F, Hwang GJ, Swanson MJ, et al. (2005) Interdependent recruitment of SAGA and Srb mediator by transcriptional activator Gcn4p. Mol Cell Biol 25: 3461-3474.
28. Gasch AP, Spellman PT, Kao CM, Carmel-Harel O, Eisen MB, et al. (2000) Genomic expression programs in the response of yeast cells to environmental changes. Mol Biol Cell 11: 4241-4257.
29. Fan X, Chou DM, Struhl K (2006) Activator-specific recruitment of Mediator in vivo. Nat Struct Mol Biol 13: 117-120.
30. Singh H, Erkine AM, Kremer SB, Duttweiler HM, Davis DAI, et al. (2006) A functional module of yeast mediator that governs the dynamic range of heat-shock gene expression. Genetics 172: 2169-2184.
31. Krasley E, Cooper KF, Mallory MJ, Dunbrack R, Strich R (2006) Regulation of the oxidative stress response through Slt2p-dependent destruction of cyclin C in Saccharomyces cerevisiae. Genetics 172: 1477-1486.
32. Chang YW, Howard SC, Herman PK (2004) The Ras/PKA signaling pathway directly targets the Srb9 protein, a component of the general RNA polymerase II transcription apparatus. Mol Cell 15: 107-116.
33. Schmelzle T, Beck T, Martin DE, Hall MN (2004) Activation of the RAS/cyclic AMP pathway suppresses a TOR deficiency in yeast. Mol Cell Biol 24: 338-351.
34. Kornberg RD (2005) Mediator and the mechanism of transcriptional activation. Trends Biochem Sci 30: 235-239.
35. Bjorklund S, Gustafsson CM (2005) The yeast Mediator complex and its regulation. Trends Biochem Sci 30: 240-244.
36. Holstege FC, Jennings EG, Wyrick JJ, Lee TI, Hengartner CJ, et al. (1998) Dissecting the regulatory circuitry of a eukaryotic genome. Cell 95: 717-728.
37. Takagi Y, Kornberg RD (2006) Mediator as a general transcription factor. J Biol Chem 281: 80-89.
38. Andrau JC, van de Pasch L, Lijnzaad P, Bijma T, Koerkamp MG, et al. (2006) Genome-wide location of the coactivator mediator: Binding without activation and transient Cdk8 interaction on DNA. Mol Cell 22: 179-192.
39. Zhu X, Wiren M, Sinha I, Rasmussen NN, Linder T, et al. (2006) Genome-wide occupancy profile of mediator and the Srb8-11 module reveals interactions with coding regions. Mol Cell 22: 169-178.
40. Takagi Y, Calero G, Komori H, Brown JA, Ehrensberger AH, et al. (2006) Head module control of mediator interactions. Mol Cell 23: 355-364.
41. Lariviere L, Geiger S, Hoeppner S, Rother S, Strasser K, et al. (2006) Structure and TBP binding of the Mediator head subcomplex Med8-Med18-Med20. Nat Struct Mol Biol 13: 895-901.
42. Zhao Y, McIntosh KB, Rudra D, Schawalder S, Shore D, et al. (2006) Fine-structure analysis of ribosomal protein gene transcription. Mol Cell Biol 26: 4853-4862.
43. Kuras L, Kosa P, Mencia M, Struhl K (2000) TAF-Containing and TAF-independent forms of transcriptionally active TBP in vivo. Science 288: 1244-1248.
44. Mencia M, Moqtaderi Z, Geisberg JV, Kuras L, Struhl K (2002) Activator-specific recruitment of TFIID and regulation of ribosomal protein genes in yeast. Mol Cell 9: 823-833.
45. Shen WC, Green MR (1997) Yeast TAF(II)145 functions as a core promoter selectivity factor, not a general coactivator. Cell 90: 615-624.
46. Schultz MC (2003) DNA damage regulation of the RNA components of the translational apparatus: new biology and mechanisms. IUBMB Life 55: 243-247.
47. Pluta K, Lefebvre O, Martin NC, Smagowicz WJ, Stanford DR, et al. (2001) Maf1p, a negative effector of RNA polymerase III in Saccharomyces cerevisiae. Mol Cell Biol 21: 5031-5040.
48. Alexandrov A, Chernyakov I, Gu W, Hiley SL, Hughes TR, et al. (2006) Rapid tRNA decay can result from lack of nonessential modifications. Mol Cell 21: 87-96.
49. Grigull J, Mnaimneh S, Pootoolal J, Robinson MD, Hughes TR (2004) Genome-wide analysis of mRNA stability using transcription inhibitors and microarrays reveals posttranscriptional control of ribosome biogenesis factors. Mol Cell Biol 24: 5534-5547.
50. Chua G, Morris QD, Sopko R, Robinson MD, Ryan O, et al. (2006) Identifying transcription factor functions and targets by phenotypic activation. Proc Natl Acad Sci U S A 103: 12045-12050.