Dissecting the regulatory circuitry of a eukaryotic genome.
Genome-wide expression analysis was used to identify genes whose expression depends on the functions of key components of the transcription initiation machinery in yeast. Components of the RNA polymerase II holoenzyme, the general transcription factor TFIID, and the SAGA chromatin modification complex were found to have roles in expression of distinct sets of genes. The results reveal an unanticipated level of regulation which is superimposed on that due to gene-specific transcription factors, a novel mechanism for coordinate regulation of specific sets of genes when cells encounter limiting nutrients, and evidence that the ultimate targets of signal transduction pathways can be identified within the initiation apparatus.
Holstege
F C
FC
Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA.
Jennings
E G
EG
Wyrick
J J
JJ
Lee
T I
TI
Hengartner
C J
CJ
Green
M R
MR
Golub
T R
TR
Lander
E S
ES
Young
R A
RA
D000123:Acetyltransferases / Q000378:metabolism; D002843:Chromatin / Q000235:genetics / Q000378:metabolism*; D056850:Cyclin-Dependent Kinase 8; D018844:Cyclin-Dependent Kinases / Q000378:metabolism; D004268:DNA-Binding Proteins / Q000378:metabolism; D005057:Eukaryotic Cells; D005656:Fungal Proteins / Q000235:genetics / Q000378:metabolism; D015966:Gene Expression Regulation, Fungal; D005809:Genes, Regulator; D018816:Genes, cdc; D016681:Genome, Fungal; D051548:Histone Acetyltransferases; D056892:Mediator Complex; D009687:Nuclear Proteins; D011494:Protein Kinases / Q000235:genetics / Q000378:metabolism; D012319:RNA Polymerase II / Q000235:genetics / Q000378:metabolism*; D029701:Saccharomyces cerevisiae Proteins; D015398:Signal Transduction / Q000235:genetics; D035362:Transcription Factor TFIID; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism; D019473:Transcription Factors, TFII / Q000235:genetics / Q000378:metabolism*; D014158:Transcription, Genetic / Q000502:physiology*
D002843:Chromatin; D004268:DNA-Binding Proteins; D005656:Fungal Proteins; D056892:Mediator Complex; C083323:NGG1 protein, S cerevisiae; D009687:Nuclear Proteins; C075582:SPT3 protein, S cerevisiae; C082149:SRB5 protein, S cerevisiae; D029701:Saccharomyces cerevisiae Proteins; D035362:Transcription Factor TFIID; D014157:Transcription Factors; D019473:Transcription Factors, TFII; D000123:Acetyltransferases; D051548:Histone Acetyltransferases; D011494:Protein Kinases; D056850:Cyclin-Dependent Kinase 8; D018844:Cyclin-Dependent Kinases; C498309:SSN3 protein, S cerevisiae; D012319:RNA Polymerase II