ArticleMolecular and cellular biology2010
Alternative chromatin structures of the 35S rRNA genes in Saccharomyces cerevisiae provide a molecular basis for the selective recruitment of RNA polymerases I and II.
Article in Molecular and cellular biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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26 citing papers in PubMed, 45 citations in OpenAlex.
- Psoralen Crosslinking-Chromatin Endogenous Cleavage Assay to Examine Histone DNA Interactions of Active and Inactive rRNA Genes.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Establishment of closed 35S ribosomal RNA gene chromatin in stationary Saccharomyces cerevisiae cells.Nucleic acids research · 2024Article
- High-Resolution Characterization of DNA/Protein Complexes in Living Bacteria.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Mechanism of RNA polymerase I selection by transcription factor UAF.Science advances · 2022Article
- RNAP II produces capped 18S and 25S ribosomal RNAs resistant to 5'-monophosphate dependent processive 5' to 3' exonuclease in polymerase switched Saccharomyces cerevisiae.BMC molecular and cell biology · 2022Article
- Single-Molecule Multikilobase-Scale Profiling of Chromatin Accessibility Using m6A-SMAC-Seq and m6A-CpG-GpC-SMAC-Seq.Methods in molecular biology (Clifton, N.J.) · 2022Article
- HSF1 induces RNA polymerase II synthesis of ribosomal RNA in S. cerevisiae during nitrogen deprivation.Current genetics · 2021Article
- Non-Coding, RNAPII-Dependent Transcription at the Promoters of rRNA Genes Regulates Their Chromatin State inNon-coding RNA · 2021Article
- Long-range single-molecule mapping of chromatin accessibility in eukaryotes.Nature methods · 2020Article
- Mechanisms of rDNA Copy Number Maintenance.Trends in genetics : TIG · 2019Review
- The C-terminal region of Net1 is an activator of RNA polymerase I transcription with conserved features from yeast to human.PLoS genetics · 2019Article
- Molecular breeding of Saccharomyces cerevisiae with high RNA content by harnessing essential ribosomal RNA transcription regulator.AMB Express · 2017Article
- A unique enhancer boundary complex on the mouse ribosomal RNA genes persists after loss of Rrn3 or UBF and the inactivation of RNA polymerase I transcription.PLoS genetics · 2017Article
- Histone H3 N-terminal acetylation sites especially K14 are important for rDNA silencing and aging.Scientific reports · 2016Article
- ChEC-seq kinetics discriminates transcription factor binding sites by DNA sequence and shape in vivo.Nature communications · 2015Article
- High-resolution mapping of architectural DNA binding protein facilitation of a DNA repression loop in Escherichia coli.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
- Conditional inactivation of Upstream Binding Factor reveals its epigenetic functions and the existence of a somatic nucleolar precursor body.PLoS genetics · 2014Article
- Nutrient sensing and signaling in the yeast Saccharomyces cerevisiae.FEMS microbiology reviews · 2014Review
- Independent RNA polymerase II preinitiation complex dynamics and nucleosome turnover at promoter sites in vivo.Genome research · 2014Article
- Compositional and structural analysis of selected chromosomal domains from Saccharomyces cerevisiae.Nucleic acids research · 2014Article
Corrections and comments
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Authors and funding
7 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In all eukaryotes, a specialized enzyme, RNA polymerase I (Pol I), is dedicated to transcribe the 35S rRNA gene from a multicopy gene cluster, the ribosomal DNA (rDNA). In certain Saccharomyces cerevisiae mutants, 35S rRNA genes can be transcribed by RNA polymerase II (Pol II). In these mutants, rDNA silencing of Pol II transcription is impaired. It has been speculated that upstream activating factor (UAF), which binds to a specific DNA element within the Pol I promoter, plays a crucial role in forming chromatin structures responsible for polymerase specificity and silencing at the rDNA locus. We therefore performed an in-depth analysis of chromatin structure and composition in different mutant backgrounds. We demonstrate that chromatin architecture of the entire Pol I-transcribed region is substantially altered in the absence of UAF, allowing RNA polymerases II and III to access DNA elements flanking a Pol promoter-proximal Reb1 binding site. Furthermore, lack of UAF leads to the loss of Sir2 from rDNA, correlating with impaired Pol II silencing. This analysis of rDNA chromatin provides a molecular basis, explaining many phenotypes observed in previous genetic analyses.
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