title: A meta-analysis reveals complex regulatory properties at Taf14-repressed genes.
abstract: Regulation of gene transcription in response to stress is central to a cell's ability to cope with environmental challenges. Taf14 is a YEATS domain protein in S.cerevisiae that physically associates with several transcriptionally relevant multisubunit complexes including the general transcription factors TFIID and TFIIF and the chromatin-modifying complexes SWI/SNF, INO80, RSC and NuA3. TAF14 deletion strains are sensitive to a variety of stresses suggesting that it plays a role in the transcriptional stress response.
  
  
  
  In this report we survey published genome-wide transcriptome and occupancy data to define regulatory properties associated with Taf14-dependent genes. Our transcriptome analysis reveals that stress related, TATA-containing and SAGA-dependent genes were much more affected by TAF14 deletion than were TFIID-dependent genes. Comparison of Taf14 and multiple transcription factor occupancy at promoters genome-wide identified a group of proteins whose occupancy correlates with that of Taf14 and whose proximity to Taf14 suggests functional interactions. We show that Taf14-repressed genes tend to be extensively regulated, positively by SAGA complex and the stress dependent activators, Msn2/4 and negatively by a wide number of repressors that act upon promoter chromatin and TBP.
  
  
  
  Taken together our analyses suggest a novel role for Taf14 in repression and derepression of stress induced genes, most probably as part of a regulatory network which includes Cyc8-Tup1, Srb10 and histone modifying enzymes.
authors.affiliation: Department of molecular biology, Ruđer Bošković Institute, Bijenička 54, Zagreb, Croatia.
authors.forename: Josipa
authors.initials: J
authors.lastname: Nemet
authors.affiliation: Department of molecular biology, Ruđer Bošković Institute, Bijenička 54, Zagreb, Croatia.
authors.forename: Nikolina
authors.initials: N
authors.lastname: Vidan
authors.affiliation: Department of molecular biology, Ruđer Bošković Institute, Bijenička 54, Zagreb, Croatia. msopta@irb.hr.
authors.forename: Mary
authors.initials: M
authors.lastname: Sopta
mesh_terms: D020869:Gene Expression Profiling; D015966:Gene Expression Regulation, Fungal; D023281:Genomics; D018869:Heat-Shock Response / Q000235:genetics; D012441:Saccharomyces cerevisiae / Q000235:genetics / Q000502:physiology; D029701:Saccharomyces cerevisiae Proteins / Q000378:metabolism*; D035362:Transcription Factor TFIID / Q000378:metabolism*
chemical_list: D029701:Saccharomyces cerevisiae Proteins; C090313:TAF14 protein, S cerevisiae; D035362:Transcription Factor TFIID
keywords: Meta-analysis; Saccharomyces cerevisiae; Transcription regulation