Repression of divergent noncoding transcription by a sequence-specific transcription factor
journal contributionposted on 2020-10-01, 14:49 authored by Andrew CK Wu, Harshil Patel, Minghao Chia, Fabien Moretto, David Frith, Ambrosius P Snijders, Folkert J van Werven
Many active eukaryotic gene promoters exhibit divergent noncoding transcription, but the mechanisms restricting expression of these transcripts are not well understood. Here, we demonstrate how a sequence-specific transcription factor represses divergent noncoding transcription at highly expressed genes in yeast. We find that depletion of the transcription factor Rap1 induces noncoding transcription in a large fraction of Rap1-regulated gene promoters. Specifically, Rap1 prevents transcription initiation at cryptic promoters near its binding sites, which is uncoupled from transcription regulation in the protein-coding direction. We further provide evidence that Rap1 acts independently of previously described chromatin-based mechanisms to repress cryptic or divergent transcription. Finally, we show that divergent transcription in the absence of Rap1 is elicited by the RSC chromatin remodeler. We propose that a sequence-specific transcription factor limits access of basal transcription machinery to regulatory elements and adjacent sequences that act as divergent cryptic promoters, thereby providing directionality toward productive transcription.
RSCRap1directionalitydivergentnoncoding RNApromoterrepressiontranscriptiontranscription factoryeastBinding SitesChromatin Assembly and DisassemblyGene Expression Regulation, FungalPromoter Regions, GeneticProtein BindingProtein Interaction Domains and MotifsRNA, FungalRNA, UntranslatedRibosomal ProteinsSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsTelomere-Binding ProteinsTranscription FactorsTranscription, Geneticvan Werven FC001203CBPRTAS-ackGEP-ackDevelopmental Biology06 Biological Sciences11 Medical and Health Sciences