Nutrient control of ribosomal gene expression (Saccharomyces cerevisiae)

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Conrad et al. 20141ActiveTranscription of5S RNA genestRNA genesRrn3pTFSfp1pTFAmino acidpermeasesMaf1pregulatorD-Glucoseamino acidsRNA Pol IISch9pkinaseGpr1preceptorTpk1pkinaseTpk3pkinaseRNA Pol IYak1pkinaseTorC1complexSch9pkinaseCrf1prepressorFhl1pregulatorIfh1pactivatorcAMPTpk2pkinaseRNA Pol IIICyr1padenylatecyclaseamino acidsMaf1pregulatorMaf1pregulatorActiveSfp1pTFRrn3pTFTorC1complexCrf1prepressorActiveActiveActiveActivecytosolnucleusTranscription ofribosomal protein genesribosome biogenesis genesTranscription ofrDNA genes


Description

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Bibliography

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  1. Mager WH, Planta RJ; ''Multifunctional DNA-binding proteins mediate concerted transcription activation of yeast ribosomal protein genes.''; Biochim Biophys Acta, 1990 PubMed Europe PMC Scholia
  2. Li B, Nierras CR, Warner JR; ''Transcriptional elements involved in the repression of ribosomal protein synthesis.''; Mol Cell Biol, 1999 PubMed Europe PMC Scholia
  3. Yamamoto RT, Nogi Y, Dodd JA, Nomura M; ''RRN3 gene of Saccharomyces cerevisiae encodes an essential RNA polymerase I transcription factor which interacts with the polymerase independently of DNA template.''; EMBO J, 1996 PubMed Europe PMC Scholia
  4. Fath S, Milkereit P, Peyroche G, Riva M, Carles C, Tschochner H; ''Differential roles of phosphorylation in the formation of transcriptional active RNA polymerase I.''; Proc Natl Acad Sci U S A, 2001 PubMed Europe PMC Scholia
  5. Moir RD, Lee J, Willis IM; ''Recovery of RNA polymerase III transcription from the glycerol-repressed state: revisiting the role of protein kinase CK2 in Maf1 phosphoregulation.''; J Biol Chem, 2012 PubMed Europe PMC Scholia
  6. Mager WH, Planta RJ, Ballesta JG, Lee JC, Mizuta K, Suzuki K, Warner JR, Woolford J; ''A new nomenclature for the cytoplasmic ribosomal proteins of Saccharomyces cerevisiae.''; Nucleic Acids Res, 1997 PubMed Europe PMC Scholia
  7. Huber A, Bodenmiller B, Uotila A, Stahl M, Wanka S, Gerrits B, Aebersold R, Loewith R; ''Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.''; Genes Dev, 2009 PubMed Europe PMC Scholia
  8. Philippi A, Steinbauer R, Reiter A, Fath S, Leger-Silvestre I, Milkereit P, Griesenbeck J, Tschochner H; ''TOR-dependent reduction in the expression level of Rrn3p lowers the activity of the yeast RNA Pol I machinery, but does not account for the strong inhibition of rRNA production.''; Nucleic Acids Res, 2010 PubMed Europe PMC Scholia
  9. Zhao Y, McIntosh KB, Rudra D, Schawalder S, Shore D, Warner JR; ''Fine-structure analysis of ribosomal protein gene transcription.''; Mol Cell Biol, 2006 PubMed Europe PMC Scholia
  10. Rudra D, Warner JR; ''What better measure than ribosome synthesis?''; Genes Dev, 2004 PubMed Europe PMC Scholia
  11. Moir RD, Lee J, Haeusler RA, Desai N, Engelke DR, Willis IM; ''Protein kinase A regulates RNA polymerase III transcription through the nuclear localization of Maf1.''; Proc Natl Acad Sci U S A, 2006 PubMed Europe PMC Scholia
  12. Claypool JA, French SL, Johzuka K, Eliason K, Vu L, Dodd JA, Beyer AL, Nomura M; ''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, 2004 PubMed Europe PMC Scholia
  13. Goetze H, Wittner M, Hamperl S, Hondele M, Merz K, Stoeckl U, Griesenbeck J; ''Alternative chromatin structures of the 35S rRNA genes in Saccharomyces cerevisiae provide a molecular basis for the selective recruitment of RNA polymerases I and II.''; Mol Cell Biol, 2010 PubMed Europe PMC Scholia
  14. Zhao Y, Sohn JH, Warner JR; ''Autoregulation in the biosynthesis of ribosomes.''; Mol Cell Biol, 2003 PubMed Europe PMC Scholia
  15. Gerber J, Reiter A, Steinbauer R, Jakob S, Kuhn CD, Cramer P, Griesenbeck J, Milkereit P, Tschochner H; ''Site specific phosphorylation of yeast RNA polymerase I.''; Nucleic Acids Res, 2008 PubMed Europe PMC Scholia
  16. Conrad M, Schothorst J, Kankipati HN, Van Zeebroeck G, Rubio-Texeira M, Thevelein JM; ''Nutrient sensing and signaling in the yeast Saccharomyces cerevisiae.''; FEMS Microbiol Rev, 2014 PubMed Europe PMC Scholia
  17. Graczyk D, Debski J, Muszyńska G, Bretner M, Lefebvre O, Boguta M; ''Casein kinase II-mediated phosphorylation of general repressor Maf1 triggers RNA polymerase III activation.''; Proc Natl Acad Sci U S A, 2011 PubMed Europe PMC Scholia
  18. Verschoor A, Warner JR, Srivastava S, Grassucci RA, Frank J; ''Three-dimensional structure of the yeast ribosome.''; Nucleic Acids Res, 1998 PubMed Europe PMC Scholia
  19. Lee J, Moir RD, Willis IM; ''Regulation of RNA polymerase III transcription involves SCH9-dependent and SCH9-independent branches of the target of rapamycin (TOR) pathway.''; J Biol Chem, 2009 PubMed Europe PMC Scholia
  20. Zaman S, Lippman SI, Zhao X, Broach JR; ''How Saccharomyces responds to nutrients.''; Annu Rev Genet, 2008 PubMed Europe PMC Scholia
  21. Venema J, Tollervey D; ''Ribosome synthesis in Saccharomyces cerevisiae.''; Annu Rev Genet, 1999 PubMed Europe PMC Scholia
  22. Jenner L, Melnikov S, Garreau de Loubresse N, Ben-Shem A, Iskakova M, Urzhumtsev A, Meskauskas A, Dinman J, Yusupova G, Yusupov M; ''Crystal structure of the 80S yeast ribosome.''; Curr Opin Struct Biol, 2012 PubMed Europe PMC Scholia
  23. Lempiäinen H, Shore D; ''Growth control and ribosome biogenesis.''; Curr Opin Cell Biol, 2009 PubMed Europe PMC Scholia
  24. Warner JR; ''The economics of ribosome biosynthesis in yeast.''; Trends Biochem Sci, 1999 PubMed Europe PMC Scholia

History

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CompareRevisionActionTimeUserComment
134113view11:08, 21 June 2024EgonwPermeases are proteins
134112view11:07, 21 June 2024EgonwAdded a missing identifier
110881view14:30, 17 June 2020EgonwReplaced an IntAct complex identifier with a Complex Portal identifier (the link out redirects to Complex Portal anyway)
107254view14:35, 17 September 2019MaintBotChEBI identifier normalization
107017view13:47, 17 September 2019MaintBotHMDB identifier normalization
89882view12:58, 6 October 2016MkutmonModified description
78912view20:25, 12 February 2015StaciaSpecify description
78870view18:33, 10 February 2015StaciaSpecify description
78762view13:12, 23 January 2015Bart SmeetsConnected all unconnected lines.
78761view13:08, 23 January 2015Bart SmeetsSpecify description
78760view13:07, 23 January 2015Bart SmeetsPeriodical save, work in progress
78759view12:57, 23 January 2015Bart SmeetsPeriodical save, work in progress
78703view18:04, 15 January 2015StaciaModified description
78702view17:54, 15 January 2015StaciaModified description
78688view05:56, 14 January 2015StaciaSpecify description
78687view05:51, 14 January 2015StaciaModified description
78686view05:32, 14 January 2015StaciaSpecify description
78685view05:29, 14 January 2015StaciaSpecify description
78678view00:35, 14 January 2015StaciaModified description
78677view00:34, 14 January 2015StaciaSpecify description
78676view00:32, 14 January 2015StaciaModified description
78675view00:00, 14 January 2015StaciaSpecify description
78674view23:53, 13 January 2015StaciaSpecify description
78673view23:50, 13 January 2015StaciaSpecify description
78672view23:23, 13 January 2015StaciaSpecify description
78669view00:04, 13 January 2015StaciaModified description
78668view00:04, 13 January 2015StaciaSpecify description
78667view00:03, 13 January 2015StaciaModified description
78666view23:54, 12 January 2015StaciaSpecify description
78665view23:50, 12 January 2015StaciaModified description
78664view23:16, 12 January 2015StaciaOntology Term : 'regulatory pathway' added !
78663view23:16, 12 January 2015StaciaOntology Term : 'signaling pathway' added !
78662view23:12, 12 January 2015StaciaSpecify description
78659view21:09, 12 January 2015StaciaSpecify description
78658view21:08, 12 January 2015StaciaSpecify description
78657view21:05, 12 January 2015StaciaSpecify description
78656view21:02, 12 January 2015StaciaSpecify description
78655view20:59, 12 January 2015StaciaSpecify description
78654view20:57, 12 January 2015StaciaSpecify description
78653view20:56, 12 January 2015StaciaSpecify description
78652view20:53, 12 January 2015StaciaPeriodical save, work in progress
78651view20:52, 12 January 2015StaciaSpecify description
78650view20:50, 12 January 2015StaciaSpecify description
78649view20:50, 12 January 2015StaciaSpecify description
78648view20:50, 12 January 2015StaciaSpecify description
78647view20:46, 12 January 2015StaciaSpecify description
78646view20:46, 12 January 2015StaciaSpecify description
78645view20:45, 12 January 2015StaciaSpecify description
78644view20:43, 12 January 2015StaciaSpecify description
78643view20:43, 12 January 2015StaciaPeriodical save, work in progress

External references

DataNodes

View all...
NameTypeDatabase referenceComment
Amino acid permeases
Crf1p repressorProteinS000002631 (SGD)
Cyr1p

adenylate

cyclase		ProteinS000003542 (SGD)
D-GlucoseMetaboliteHMDB00122 (HMDB)
Fhl1p regulatorProteinS000006308 (SGD)
Gpr1p receptorProteinS000002193 (SGD)
Ifh1p activatorProteinS000004213 (SGD)
Maf1p regulatorProteinS000002412 (SGD)
RNA Pol IComplexEBI-2339149 (IntAct)
RNA Pol IIIComplexS000005642 (SGD)
RNA Pol IIComplexS000002299 (SGD)
Rrn3p TFProteinS000001608 (SGD)
Sch9p kinaseProteinS000001248 (SGD)
Sfp1p TFProteinS000004395 (SGD)
TorC1 complexComplexEBI-2435049 (IntAct)
Tpk1p kinaseProteinS000003700 (SGD)
Tpk2p kinaseProteinS000006124 (SGD)
Tpk3p kinaseProteinS000001649 (SGD)
Yak1p kinaseProteinS000003677 (SGD)
amino acidsMetabolite33709 (ChEBI)
cAMPMetaboliteHMDB00058 (HMDB)

Annotated Interactions

No annotated interactions

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