ReviewNucleic acids research2014
The yeast PHO5 promoter: from single locus to systems biology of a paradigm for gene regulation through chromatin.
Review in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
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Who cites it
36 citing papers in PubMed, 72 citations in OpenAlex.
- Positional interpretation of cis-regulatory code and nucleosome organization with deep learning models.Nature communications · 2026Article
- Context-dependent interplay of Swi-Snf and Tup1-Cyc8 influences chromatin and transcription at antagonistically regulated genes.Nature communications · 2026Article
- The nicotinamide mononucleotide adenylyl transferase (NMNAT/Nma1) modulates phosphate-sensing (PHO) signaling independent of its NAD+ synthesis activity in Saccharomyces cerevisiae.FEMS yeast research · 2026Article
- Identification and Functions of lncRNAs in Fungi.Non-coding RNA · 2025Review
- Design and construction of light-regulated gene transcription and protein translation systems in yeast P. Pastoris.Journal of advanced research · 2025Article
- Optogenetic Control of Phosphate-Responsive Genes Using Single-Component Fusion Proteins inACS synthetic biology · 2024Article
- Optogenetic control of phosphate-responsive genes using single component fusion proteins inbioRxiv : the preprint server for biology · 2024Article
- Single gene analysis in yeast suggests nonequilibrium regulatory dynamics for transcription.Nature communications · 2024Article
- The influence of flocculation upon global gene transcription in a yeastMicrobial genomics · 2024Article
- Article
- Inositol pyrophosphate dynamics reveals control of the yeast phosphate starvation program through 1,5-IPeLife · 2023Article
- Streamlining N-terminally anchored yeast surface display via structural insights into S. cerevisiae Pir proteins.Microbial cell factories · 2023Article
- Structural basis of transcription reduction by a promoter-proximal +1 nucleosome.Molecular cell · 2023Article
- The Histone Deacetylases Hst1 and Rpd3 Integrate De Novo NADInternational journal of molecular sciences · 2023Article
- Sequence and chromatin features guide DNA double-strand break resection initiation.Molecular cell · 2023Article
- Nucleosome Remodeling at the YeastInternational journal of molecular sciences · 2023Article
- Impact ofInternational journal of molecular sciences · 2022Review
- Antisense non-coding transcription represses the PHO5 model gene at the level of promoter chromatin structure.PLoS genetics · 2022Article
- Systematic analysis of low-affinity transcription factor binding site clusters in vitro and in vivo establishes their functional relevance.Nature communications · 2022Article
- Article
Corrections and comments
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Authors and funding
2 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Chromatin dynamics crucially contributes to gene regulation. Studies of the yeast PHO5 promoter were key to establish this nowadays accepted view and continuously provide mechanistic insight in chromatin remodeling and promoter regulation, both on single locus as well as on systems level. The PHO5 promoter is a context independent chromatin switch module where in the repressed state positioned nucleosomes occlude transcription factor sites such that nucleosome remodeling is a prerequisite for and not consequence of induced gene transcription. This massive chromatin transition from positioned nucleosomes to an extensive hypersensitive site, together with respective transitions at the co-regulated PHO8 and PHO84 promoters, became a prime model for dissecting how remodelers, histone modifiers and chaperones co-operate in nucleosome remodeling upon gene induction. This revealed a surprisingly complex cofactor network at the PHO5 promoter, including five remodeler ATPases (SWI/SNF, RSC, INO80, Isw1, Chd1), and demonstrated for the first time histone eviction in trans as remodeling mode in vivo. Recently, the PHO5 promoter and the whole PHO regulon were harnessed for quantitative analyses and computational modeling of remodeling, transcription factor binding and promoter input-output relations such that this rewarding single-locus model becomes a paradigm also for theoretical and systems approaches to gene regulatory networks.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.