The AMP-activated protein kinase Snf1 regulates transcription factor binding, RNA polymerase II activity, and mRNA stability of glucose-repressed genes in Saccharomyces cerevisiaeElton T Young
Department of Biochemistry, University of Washington, Seattle, Washington 98195 7350, USA
J Biol Chem 287:29021-34. 2012
..In conclusion, Snf1 appears to affect multiple steps in gene regulation, including transcription factor binding, RNA polymerase II activity, and cytoplasmic mRNA stability...
- Snf1 dependence of peroxisomal gene expression is mediated by Adr1
Sooraj Ratnakumar
Department of Biochemistry, University of Washington, Seattle, Washington 98195 7350, USA
J Biol Chem 285:10703-14. 2010
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Snf1-independent, glucose-resistant transcription of Adr1-dependent genes in a mediator mutant of Saccharomyces cerevisiaeElton T Young
Department of Biochemistry, University of Washington, Seattle, WA, USA
Mol Microbiol 74:364-83. 2009
..Expression of most genes was not significantly affected by the loss of Med14 function...
- Artificial recruitment of mediator by the DNA-binding domain of Adr1 overcomes glucose repression of ADH2 expression
Elton T Young
Department of Biochemistry, Box 357350, University of Washington, Seattle, WA 98195 7350, USA
Mol Cell Biol 28:2509-16. 2008
..Artificial recruitment of Mediator appears to overcome this requirement and to allow stable binding and transcription under normally inhibitory conditions...
A poised initiation complex is activated by SNF1Christine Tachibana
Department of Biochemistry, University of Washington, Seattle, WA 98195, USA
J Biol Chem 282:37308-15. 2007
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- Snf1 controls the activity of adr1 through dephosphorylation of Ser230
Sooraj Ratnakumar
Department of Biochemistry, University of Washington, Seattle, Washington 98195 7350, USA
Genetics 182:735-45. 2009
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- 14-3-3 (Bmh) proteins regulate combinatorial transcription following RNA polymerase II recruitment by binding at Adr1-dependent promoters in Saccharomyces cerevisiae
Katherine A Braun
Department of Biochemistry, University of Washington, Seattle, Washington, USA
Mol Cell Biol 33:712-24. 2013
..Activating Snf1 by deleting Reg1, a Glc7 protein phosphatase regulatory subunit, is lethal in combination with defective Bmh in strain W303, suggesting that Bmh and Snf1 have opposing roles in an essential cellular process...
- Adr1 and Cat8 mediate coactivator recruitment and chromatin remodeling at glucose-regulated genes
Rhiannon K Biddick
Department of Biochemistry, University of Washington, Seattle, Washington, United States of America
PLoS ONE 3:e1436. 2008
..Adr1 and Cat8 co-regulate numerous glucose-repressed genes in S. cerevisiae, presenting a unique opportunity to explore their individual roles in coactivator recruitment, chromatin remodeling, and transcription...
- The transcriptional coactivators SAGA, SWI/SNF, and mediator make distinct contributions to activation of glucose-repressed genes
Rhiannon K Biddick
Department of Biochemistry, University of Washington, Seattle, Washington 98105, USA
J Biol Chem 283:33101-9. 2008
..Finally, we found that activator overexpression can compensate for the loss of SWI/SNF but not for the loss of SAGA...
- Promoter binding by the Adr1 transcriptional activator may be regulated by phosphorylation in the DNA-binding region
Nataly Kacherovsky
Department of Biochemistry, University of Washington, Seattle, Washington, United States of America
PLoS ONE 3:e3213. 2008
..A fusion protein with the Adr1 DNA-binding domain and a heterologous activation domain is glucose-regulated, suggesting that the DNA binding region is the target of regulation...
- Multiple pathways are co-regulated by the protein kinase Snf1 and the transcription factors Adr1 and Cat8
Elton T Young
Department of Biochemistry, The University of Washington, Seattle, Washington 98195 7350, USA
J Biol Chem 278:26146-58. 2003
..The largest class of SNF1-dependent genes encodes regulatory proteins that could extend SNF1 dependence to additional pathways...
- Snf1-dependent and Snf1-independent pathways of constitutive ADH2 expression in Saccharomyces cerevisiae
Valentina Voronkova
Department of Biochemistry, University of Washington, Seattle, WA 98195 7350, USA
Genetics 172:2123-38. 2006
..Thus, the mutant search revealed previously unknown Snf1-dependent and -independent pathways of ADH2 expression...
- Combined global localization analysis and transcriptome data identify genes that are directly coregulated by Adr1 and Cat8
Christine Tachibana
Department of Biochemistry, Box 357350, University of Washington, Seattle, WA 98195 7350, USA
Mol Cell Biol 25:2138-46. 2005
..These data provide a comprehensive analysis of the direct, indirect, and combinatorial requirements for these two global transcription factors...
- The Reg1-interacting proteins, Bmh1, Bmh2, Ssb1, and Ssb2, have roles in maintaining glucose repression in Saccharomyces cerevisiae
Kenneth M Dombek
Department of Biochemistry, University of Washington, Seattle, Washington 98195 7350, USA
J Biol Chem 279:39165-74. 2004
..Deletion of both SSB genes modestly decreases repression of ADH2 expression in the presence of glucose, suggesting that Ssb proteins, perhaps through their interaction with Reg1, play a minor role in glucose repression...
- Identification and evaluation of cycling yeast metabolites in two-dimensional comprehensive gas chromatography-time-of-flight-mass spectrometry data
Rachel E Mohler
University of Washington, Department of Chemistry, Box 351700, Seattle, WA 98195, USA
J Chromatogr A 1186:401-11. 2008
..The phase delay of the cycling metabolites ranged widely in relation to the oxygen consumption cycling pattern...
- Cyclic changes in metabolic state during the life of a yeast cell
Benjamin P Tu
Department of Biochemistry, University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, TX 75390 9038, USA
Proc Natl Acad Sci U S A 104:16886-91. 2007
..Such oscillations in metabolic state might occur during the course of other biological cycles...
- Toward a global analysis of metabolites in regulatory mutants of yeast
Elizabeth M Humston
Department of Chemistry, University of Washington, Box 351700, Seattle, WA 98195 7350, USA
Anal Bioanal Chem 401:2387-402. 2011
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- The disorderly study of ordered recruitment
Rhiannon Biddick
Department of Biochemistry, University of Washington, Seattle, WA 98105, USA
Yeast 26:205-20. 2009
..Taking a step back to survey these results, however, suggests that there are few generalizations that could be used to guide future studies of uncharacterized promoters...
- Activator-independent transcription of Snf1-dependent genes in mutants lacking histone tails
Juan J Infante
Department of Biochemistry, University of Washington, Seattle, WA 98195, USA
Mol Microbiol 80:407-22. 2011
..Deleting REG1 in the histone H4 tail mutant appeared to be lethal, even in the absence of Snf1, suggesting that Reg1 and the H4 tail have redundant functions that are important for cell viability...
- Time-dependent profiling of metabolites from Snf1 mutant and wild type yeast cells
Elizabeth M Humston
Department of Chemistry, University of Washington, Seattle, Washington 98195, USA
Anal Chem 80:8002-11. 2008
..For the yeast strains examined in the current study, data collection at either 4 or 6 h provided information comparable to averaged time course data, albeit with a few metabolites missing using a single sampling time point...
- Pichia pastoris 14-3-3 regulates transcriptional activity of the methanol inducible transcription factor Mxr1 by direct interaction
Pabitra K Parua
Department of Biochemistry, University of Washington, 1705 NE Pacific Street, Seattle, Washington 98195 7350, USA
Mol Microbiol 85:282-98. 2012
..We provide the first molecular explanation of carbon source-mediated regulation of Mxr1 activity, whose mechanism involves a post-DNA binding role of 14-3-3...
- Comprehensive analysis of yeast metabolite GC x GC-TOFMS data: combining discovery-mode and deconvolution chemometric software
Rachel E Mohler
University of Washington, Department of Chemistry, Box 351700, Seattle, WA 98195, USA
Analyst 132:756-67. 2007
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- Analysis of nucleosome positioning using a nucleosome-scanning assay
Juan José Infante
Department of Microbiology, University of Washington, Seattle, WA, USA
Methods Mol Biol 833:63-87. 2012
..When coupled with chromatin immunoprecipitation (ChIP), NuSA can identify histone variants and modifications associated with specific nucleosomes...
- Snf1 protein kinase regulates Adr1 binding to chromatin but not transcription activation
Elton T Young
Department of Biochemistry, University of Washington, Seattle, Washington 98195 7350, USA
J Biol Chem 277:38095-103. 2002
..We conclude that Snf1 regulates Adr1-dependent transcription primarily at the level of chromatin binding...
- Comprehensive two-dimensional gas chromatography time-of-flight mass spectrometry analysis of metabolites in fermenting and respiring yeast cells
Rachel E Mohler
Department of Chemistry, University of Washington, Box 351700, Seattle, Washington 98195, USA
Anal Chem 78:2700-9. 2006
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- Yeast mediator and its role in transcriptional regulation
Rhiannon Biddick
Department of Biochemistry, University of Washington, Box 357350, Seattle, WA 98195-7350, USA
C R Biol 328:773-82. 2005
..One focal point of the review is to summarize new information regarding the negative effect of Mediator on transcription and suggest a possible mechanism that encompasses the latest results...
- Transcriptional regulation in Saccharomyces cerevisiae: transcription factor regulation and function, mechanisms of initiation, and roles of activators and coactivators
Steven Hahn
Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, USA
Genetics 189:705-36. 2011
..We also examine advances in understanding the RNA polymerase II transcription machinery, conserved coactivator complexes, transcription activation domains, and the cooperation of these factors in gene regulatory mechanisms...
