ArticleNucleic acids research2013
Sequence features of yeast and human core promoters that are predictive of maximal promoter activity.
Article in Nucleic acids research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers.
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Who cites it
58 citing papers in PubMed, 99 citations in OpenAlex.
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- Development of Terminator-Promoter Bifunctional Elements for Application inInternational journal of molecular sciences · 2023Article
- Chance promoter activities illuminate the origins of eukaryotic intergenic transcriptions.Nature communications · 2023Article
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- A successful hybrid deep learning model aiming at promoter identification.BMC bioinformatics · 2022Article
- Expanding the promoter toolbox for metabolic engineering of methylotrophic yeasts.Applied microbiology and biotechnology · 2022Review
- Engineering of Promoters for Gene Expression in Pichia pastoris.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Hybrid promoter engineering strategies in Yarrowia lipolytica: isoamyl alcohol production as a test study.Biotechnology for biofuels · 2021Article
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- Linking the dynamics of chromatin occupancy and transcription with predictive models.Genome research · 2021Article
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- Identifying transcript 5' capped ends inPeerJ · 2021Article
- Extensive 5'-surveillance guards against non-canonical NAD-caps of nuclear mRNAs in yeast.Nature communications · 2020Article
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Authors and funding
3 authors at 1 institution in 1 country.
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Abstract
The core promoter is the region in which RNA polymerase II is recruited to the DNA and acts to initiate transcription, but the extent to which the core promoter sequence determines promoter activity levels is largely unknown. Here, we identified several base content and k-mer sequence features of the yeast core promoter sequence that are highly predictive of maximal promoter activity. These features are mainly located in the region 75 bp upstream and 50 bp downstream of the main transcription start site, and their associations hold for both constitutively active promoters and promoters that are induced or repressed in specific conditions. Our results unravel several architectural features of yeast core promoters and suggest that the yeast core promoter sequence downstream of the TATA box (or of similar sequences involved in recruitment of the pre-initiation complex) is a major determinant of maximal promoter activity. We further show that human core promoters also contain features that are indicative of maximal promoter activity; thus, our results emphasize the important role of the core promoter sequence in transcriptional regulation.
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