The Ras/PKA signaling pathway directly targets the Srb9 protein, a component of the general RNA polymerase II transcription apparatus

Molecular Cell

Volumn 15, Issue 1, 2004, Pages 107-116

  Chang, Ya Wen ^a   Howard, Susie C ^a   Herman, Paul K ^a  

^a OHIO STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CYCLIC AMP DEPENDENT PROTEIN KINASE; HOLOENZYME; PROTEIN; PROTEIN SRB9; RAS PROTEIN; RNA POLYMERASE II; UNCLASSIFIED DRUG;

ARTICLE; CHEMICAL ANALYSIS; CONTROLLED STUDY; DATA ANALYSIS; ENZYME SUBSTRATE; GENE CONTROL; GENE EXPRESSION REGULATION; GENETIC ANALYSIS; GENETIC TRANSCRIPTION; NONHUMAN; PROTEIN FUNCTION; PROTEIN PHOSPHORYLATION; PROTEIN TARGETING; REGULATORY MECHANISM; SACCHAROMYCES CEREVISIAE; SIGNAL TRANSDUCTION; TRANSCRIPTION REGULATION;

CYCLIC AMP-DEPENDENT PROTEIN KINASES; FUNGAL PROTEINS; GENE EXPRESSION REGULATION, FUNGAL; GENES, REGULATOR; MUTATION; PHOSPHORYLATION; RAS PROTEINS; REPRESSOR PROTEINS; RNA POLYMERASE II; RNA, MESSENGER; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SERINE; SIGNAL TRANSDUCTION; TRANS-ACTIVATION (GENETICS); TRANSCRIPTION FACTORS;

SACCHAROMYCES; SACCHAROMYCES CEREVISIAE;

EID: 3042760385     PISSN: 10972765     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.molcel.2004.05.021     Document Type: Article

References (79)

1. Anest V., Hanson J.L., Cogswell P.C., Steinbrecher K.A., Strahl B.D., Baldwin A.S. A nucleosomal function for IkappaB kinase-alpha in NF-kappaB-dependent gene expression. Nature. 423:2003;659-663
2. Ansari A.Z., Koh S.S., Zaman Z., Bongards C., Lehming N., Young R.A., Ptashne M. Transcriptional activating regions target a cyclin-dependent kinase. Proc. Natl. Acad. Sci. USA. 99:2002;14706-14709
3. Ausubel F.M., Brent R., Kingston R.E., Moore D.D., Seidman J.G., Smith J.A., Struhl K. Current Protocols in Molecular Biology. 1995;John Wiley & Sons, Inc, New York
4. Boube M., Joulia L., Cribbs D.L., Bourbon H.M. Evidence for a mediator of RNA polymerase II transcriptional regulation conserved from yeast to man. Cell. 110:2002;143-151
5. Broach J.R. RAS genes in Saccharomyces cerevisiae. signal transduction in search of a pathway Trends Genet. 7:1991;28-33
6. Budovskaya Y.V., Hama H., DeWald D.B., Herman P.K. The C terminus of the Vps34p phosphoinositide 3-kinase is necessary and sufficient for the interaction with the Vps15p protein kinase. J. Biol. Chem. 277:2002;287-294
7. Cantin G.T., Stevens J.L., Berk A.J. Activation domain-mediator interactions promote transcription preinitiation complex assembly on promoter DNA. Proc. Natl. Acad. Sci. USA. 100:2003;12003-12008
8. Carlson M. Genetics of transcriptional regulation in yeast. connections to the RNA polymerase II CTD Annu. Rev. Cell Dev. Biol. 13:1997;1-23
9. Carlson M., Botstein D. Two differentially regulated mRNAs with different 5′ ends encode secreted with intracellular forms of yeast invertase. Cell. 28:1982;145-154
10. Chang Y.W., Howard S.C., Budovskaya Y.V., Rine J., Herman P.K. The rye mutants identify a role for Ssn/Srb proteins of the RNA polymerase II holoenzyme during stationary phase entry in Saccharomyces cerevisiae. Genetics. 157:2001;17-26
11. Christianson T.W., Sikorski R.S., Dante M., Shero J.H., Hieter P. Multifunctional yeast high-copy-number shuttle vectors. Gene. 110:1992;119-122
12. Clayton A.L., Mahadevan L.C. MAP kinase-mediated phosphoacetylation of histone H3 and inducible gene regulation. FEBS Lett. 546:2003;51-58
13. Denis C.L., Kemp B.E., Zoller M.J. Substrate specificities for yeast and mammalian cAMP-dependent protein kinases are similar but not identical. J. Biol. Chem. 266:1991;17932-17935
14. Destruelle M., Holzer H., Klionsky D.J. Identification and characterization of a novel yeast gene. the YGP1 gene product is a highly glycosylated secreted protein that is synthesized in response to nutrient limitation Mol. Cell. Biol. 14:1994;2740-2754
15. Emerson B.M. Specificity of gene regulation. Cell. 109:2002;267-270
16. Field J., Xu H.P., Michaeli T., Ballester R., Sass P., Wigler M., Colicelli J. Mutations of the adenylyl cyclase gene that block RAS function in Saccharomyces cerevisiae. Science. 247:1990;464-467
17. Gerhardt B., Kordas T.J., Thompson C.M., Patel P., Vida T. The vesicle transport protein Vps33p is an ATP-binding protein that localizes to the cytosol in an energy-dependent manner. J. Biol. Chem. 273:1998;15818-15829
18. Gibbs J.B., Marshall M.S. The ras oncogene-an important regulatory element in lower eucaryotic organisms. Microbiol. Rev. 53:1989;171-185
19. Hampsey M., Reinberg D. RNA polymerase II as a control panel for multiple coactivator complexes. Curr. Opin. Genet. Dev. 9:1999;132-139
20. Hengartner C.J., Myer V.E., Liao S.M., Wilson C.J., Koh S.S., Young R.A. Temporal regulation of RNA polymerase II by Srb10 and Kin28 cyclin-dependent kinases. Mol. Cell. 2:1998;43-53
21. Herman P.K. Stationary phase in yeast. Curr. Opin. Microbiol. 5:2002;602-607
22. Herman P.K., Rine J. Yeast spore germination. a requirement for Ras protein activity during re-entry into the cell cycle EMBO J. 16:1997;6171-6181
23. Herman P.K., Stack J.H., DeModena J.A., Emr S.D. A novel protein kinase homolog essential for protein sorting to the yeast lysosome-like vacuole. Cell. 64:1991;425-437. a
24. Herman P.K., Stack J.H., Emr S.D. A genetic and structural analysis of the yeast Vps15 protein kinase. evidence for a direct role of Vps15p in vacuolar protein delivery EMBO J. 10:1991;4049-4060. b
25. Holmberg C.I., Tran S.E., Eriksson J.E., Sistonen L. Multisite phosphorylation provides sophisticated regulation of transcription factors. Trends Biochem. Sci. 27:2002;619-627
26. Holstege F.C., Jennings E.G., Wyrick J.J., Lee T.I., Hengartner C.J., Green M.R., Golub T.R., Lander E.S., Young R.A. Dissecting the regulatory circuitry of a eukaryotic genome. Cell. 95:1998;717-728
27. Howard S.C., Chang Y.W., Budovskaya Y.V., Herman P.K. The Ras/PKA signaling pathway of Saccharomyces cerevisiae exhibits a functional interaction with the Sin4p complex of the RNA polymerase II holoenzyme. Genetics. 159:2001;77-89
28. Howard S.C., Budovskaya Y.V., Chang Y.W., Herman P.K. The C-terminal domain of the largest subunit of RNA polymerase II is required for stationary phase entry and functionally interacts with the Ras/PKA signaling pathway. J. Biol. Chem. 277:2002;19488-19497
29. 0 of higher eucaryotes. J. Cell Biol. 98:1984;1185-1193
30. Jiang Y.W., Veschambre P., Erdjument-Bromage H., Tempst P., Conaway J.W., Conaway R.C., Kornberg R.D. Mammalian mediator of transcriptional regulation and its possible role as an end-point of signal transduction pathways. Proc. Natl. Acad. Sci. USA. 95:1998;8538-8543
31. Johnston M., Carlson M. Regulation of carbon and phosphate utilization. Jones E.W., Pringle J.R., Broach J.R. The Molecular Biology of the Yeast Saccharomyces. 1992;193-281 Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
32. Kaiser C., Michaelis S., Mitchell A. Methods in Yeast Genetics. 1994;Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
33. Keaveney M., Struhl K. Activator-mediated recruitment of the RNA polymerase II machinery is the predominant mechanism for transcriptional activation in yeast. Mol. Cell. 1:1998;917-924
34. Kim Y.J., Bjorklund S., Li Y., Sayre M.H., Kornberg R.D. A multiprotein mediator of transcriptional activation and its interaction with the C-terminal repeat domain of RNA polymerase II. Cell. 77:1994;599-608
35. Koleske A.J., Young R.A. The RNA polymerase II holoenzyme and its implications for gene regulation. Trends Biochem. Sci. 20:1995;113-116
36. Kuchin S., Yeghiayan P., Carlson M. Cyclin-dependent protein kinase and cyclin homologs SSN3 and SSN8 contribute to transcriptional control in yeast. Proc. Natl. Acad. Sci. USA. 92:1995;4006-4010
37. Kuchin S., Treich I., Carlson M. A regulatory shortcut between the Snf1 protein kinase and RNA polymerase II holoenzyme. Proc. Natl. Acad. Sci. USA. 97:2000;7916-7920
38. Kunkel T.A. Rapid and efficient site-specific mutagenesis without phenotypic selection. Proc. Natl. Acad. Sci. USA. 82:1985;488-492
39. Lee T.I., Young R.A. Transcription of eukaryotic protein-coding genes. Annu. Rev. Genet. 34:2000;77-137
40. Lee M., Chatterjee S., Struhl K. Genetic analysis of the role of Pol II holoenzyme components in repression by the Cyc8-Tup1 corepressor in yeast. Genetics. 155:2000;1535-1542
41. Liao S.M., Zhang J., Jeffery D.A., Koleske A.J., Thompson C.M., Chao D.M., Viljoen M., van Vuuren H.J., Young R.A. A kinase-cyclin pair in the RNA polymerase II holoenzyme. Nature. 374:1995;193-196
42. Lo W.S., Dranginis A.M. FLO11, a yeast gene related to the STA genes, encodes a novel cell surface flocculin. J. Bacteriol. 178:1996;7144-7151
43. Lo W.S., Duggan L., Emre N.C., Belotserkovskya R., Lane W.S., Shiekhattar R., Berger S.L. Snf1 - a histone kinase that works in concert with the histone acetyltransferase Gcn5 to regulate transcription. Science. 293:2001;1142-1146
44. Lowy D.R., Willumsen B.M. Function and regulation of ras. Annu. Rev. Biochem. 62:1993;851-891
45. Malik S., Roeder R.G. Transcriptional regulation through Mediator-like coactivators in yeast and metazoan cells. Trends Biochem. Sci. 25:2000;277-283
46. Marchler G., Schuller C., Adam G., Ruis H. A Saccharomyces cerevisiae UAS element controlled by protein kinase A activates transcription in response to a variety of stress conditions. EMBO J. 12:1993;1997-2003
47. Marshall C. How do small GTPase signal transduction pathways regulate cell cycle entry? Curr. Opin. Cell Biol. 11:1999;732-736
48. Matsumoto K., Uno I., Ishikawa T. Control of cell division in Saccharomyces cerevisiae mutants defective in adenylate cyclase and cAMP-dependent protein kinase. Exp. Cell Res. 146:1983;151-161
49. Miller J. Experiments in Molecular Genetics. 1972;Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
50. Myer V.E., Young R.A. RNA polymerase II holoenzymes and subcomplexes. J. Biol. Chem. 273:1998;27757-27760
51. Myers L.C., Kornberg R.D. Mediator of transcriptional regulation. Annu. Rev. Biochem. 69:2000;729-749
52. Nelson C., Goto S., Lund K., Hung W., Sadowski I. Srb10/Cdk8 regulates yeast filamentous growth by phosphorylating the transcription factor Ste12. Nature. 421:2003;187-190
53. Orr-Weaver T.L., Szostak J.W. Yeast recombination. the association between double-strand gap repair and crossing-over Proc. Natl. Acad. Sci. USA. 80:1983;4417-4421
54. Pan X., Heitman J. Protein kinase A operates a molecular switch that governs yeast pseudohyphal differentiation. Mol. Cell. Biol. 22:2002;3981-3993
55. Ptashne M., Gann A. Transcriptional activation by recruitment. Nature. 386:1997;569-577
56. Rachez C., Freedman L.P. Mediator complexes and transcription. Curr. Opin. Cell Biol. 13:2001;274-280
57. Reinders A., Burckert N., Boller T., Wiemken A., De Virgilio C. Saccharomyces cerevisiae cAMP-dependent protein kinase controls entry into stationary phase through the Rim15p protein kinase. Genes Dev. 12:1998;2943-2955
58. Rothstein R. Targeting, disruption, replacement, and allele rescue. integrative DNA transformation in yeast Methods Enzymol. 194:1991;281-301
59. Sass P., Field J., Nikawa J., Toda T., Wigler M. Cloning and characterization of the high-affinity cAMP phosphodiesterase of Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. USA. 83:1986;9303-9307
60. Shabb J.B. Physiological substrates of cAMP-dependent protein kinase. Chem. Rev. 101:2001;2381-2411
61. Shaywitz A.J., Greenberg M.E. Creb. a stimulus-induced transcription factor activated by a diverse array of extracellular signals Annu. Rev. Biochem. 68:1999;821-861
62. Shields J.M., Pruitt K., McFall A., Shaub A., Der C.J. Understanding Ras. "it ain't over 'til it's over." Trends Cell Biol. 10:2000;147-154
63. Sikorski R.S., Hieter P. A system of shuttle vectors and yeast host strains designed for efficient manipulation of DNA in Saccharomyces cerevisiae. Genetics. 122:1989;19-27
64. Song W., Carlson M. Srb/mediator proteins interact functionally and physically with transcriptional repressor Sfl1. EMBO J. 17:1998;5757-5765
65. Song W., Treich I., Qian N., Kuchin S., Carlson M. SSN genes that affect transcriptional repression in Saccharomyces cerevisiae encode SIN4, ROX3, and SRB proteins associated with RNA polymerase II. Mol. Cell. Biol. 16:1996;115-120
66. Stevens J.L., Cantin G.T., Wang G., Shevchenko A., Berk A.J. Transcription control by E1A and MAP kinase pathway via Sur2 mediator subunit. Science. 296:2002;755-758
67. Surosky R.T., Strich R., Esposito R.E. The yeast UME5 gene regulates the stability of meiotic mRNAs in response to glucose. Mol. Cell. Biol. 14:1994;3446-3458
68. Suzuki N., Choe H.R., Nishida Y., Yamawaki-Kataoka Y., Ohnishi S., Tamaoki T., Kataoka T. Leucine-rich repeats and carboxyl terminus are required for interaction of yeast adenylate cyclase with RAS proteins. Proc. Natl. Acad. Sci. USA. 87:1990;8711-8715
69. Tadi D., Hasan R.N., Bussereau F., Boy-Marcotte E., Jacquet M. Selection of genes repressed by cAMP that are induced by nutritional limitation in Saccharomyces cerevisiae. Yeast. 15:1999;1733-1745
70. Tassan J.P., Jaquenoud M., Leopold P., Schultz S.J., Nigg E.A. Identification of human cyclin-dependent kinase 8, a putative protein kinase partner for cyclin C. Proc. Natl. Acad. Sci. USA. 92:1995;8871-8875
71. Taylor S.S., Zheng J., Radzio-Andzelm E., Knighton D.R., Ten Eyck L.F., Sowadski J.M., Herberg F.W., Yonemoto W.M. cAMP-dependent protein kinase defines a family of enzymes. Philos. Trans. R. Soc. Lond. B Biol. Sci. 340:1993;315-324
72. Teunissen A.W., van den Berg J.A., Steensma H.Y. Transcriptional regulation of flocculation genes in Saccharomyces cerevisiae. Yeast. 11:1995;435-446
73. Thevelein J.M., de Winde J.H. Novel sensing mechanisms and targets for the cAMP-protein kinase A pathway in the yeast Saccharomyces cerevisiae. Mol. Microbiol. 33:1999;904-918
74. Toda T., Uno I., Ishikawa T., Powers S., Kataoka T., Broek D., Cameron S., Broach J., Matsumoto K., Wigler M. In yeast, RAS proteins are controlling elements of adenylate cyclase. Cell. 40:1985;27-36
75. Toda T., Cameron S., Sass P., Zoller M., Wigler M. Three different genes in S. cerevisiae encode the catalytic subunits of the cAMP-dependent protein kinase. Cell. 50:1987;277-287
76. Verstrepen K.J., Derdelinckx G., Verachtert H., Delvaux F.R. Yeast flocculation. what brewers should know Appl. Microbiol. Biotechnol. 61:2003;197-205
77. Werner-Washburne M., Braun E., Johnston G.C., Singer R.A. Stationary phase in the yeast Saccharomyces cerevisiae. Microbiol. Rev. 57:1993;383-401
78. Yamamoto Y., Verma U.N., Prajapati S., Kwak Y.T., Gaynor R.B. Histone H3 phosphorylation by IKK-alpha is critical for cytokine-induced gene expression. Nature. 423:2003;655-659
79. Zhang H., Emmons S.W. Caenorhabditis elegans unc-37/groucho interacts genetically with components of the transcriptional mediator complex. Genetics. 160:2002;799-803