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Novel TRF1/BRF target genes revealed by genome‐wide analysis of Drosophila Pol III transcription
Author(s) -
Isogai Yoh,
Takada Shinako,
Tjian Robert,
Keleş Sündüz
Publication year - 2007
Publication title -
the embo journal
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 7.484
H-Index - 392
eISSN - 1460-2075
pISSN - 0261-4189
DOI - 10.1038/sj.emboj.7601448
Subject(s) - biology , rna polymerase iii , rna polymerase ii , genetics , gene , transcription (linguistics) , genome , promoter , transcription factor ii d , rna , rna polymerase , gene expression , linguistics , philosophy
Metazoans have evolved multiple paralogues of the TATA binding protein (TBP), adding another tunable level of gene control at core promoters. While TBP‐related factor 1 (TRF1) shares extensive homology with TBP and can direct both Pol II and Pol III transcription in vitro , TRF1 target sites in vivo have remained elusive. Here, we report the genome‐wide identification of TRF1‐binding sites using high‐resolution genome tiling microarrays. We found 354 TRF1‐binding sites genome‐wide with ∼78% of these sites displaying colocalization with BRF. Strikingly, the majority of TRF1 target genes are Pol III‐dependent small noncoding RNAs such as tRNAs and small nonmessenger RNAs. We provide direct evidence that the TRF1/BRF complex is functionally required for the activity of two novel TRF1 targets ( 7SL RNA and small nucleolar RNAs). Our studies suggest that unlike most other eukaryotic organisms that rely on TBP for Pol III transcription, in Drosophila and possibly other insects the alternative TRF1/BRF complex appears responsible for the initiation of all known classes of Pol III transcription.