ArticleMolecular biology of the cell2011
Chromatin remodelers clear nucleosomes from intrinsically unfavorable sites to establish nucleosome-depleted regions at promoters.
Article in Molecular biology of the cell, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed, 35 citations in OpenAlex.
- Genome-wide mapping and cryo-EM structural analyses of the overlapping tri-nucleosome composed of hexasome-hexasome-octasome moieties.Communications biology · 2024Article
- Stochastic nucleosome disassembly mediated by remodelers and histone fragmentation.The Journal of chemical physics · 2023Article
- Transcriptional co-activators: emerging roles in signaling pathways and potential therapeutic targets for diseases.Signal transduction and targeted therapy · 2023Review
- Chromatin remodelers and lineage-specific factors interact to target enhancers to establish proneurosensory fate within otic ectoderm.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- A deformation energy model reveals sequence-dependent property of nucleosome positioning.Chromosoma · 2021Article
- Role of cell-type specific nucleosome positioning in inducible activation of mammalian promoters.Nature communications · 2020Article
- INO80 represses osmostress induced gene expression by resetting promoter proximal nucleosomes.Nucleic acids research · 2017Article
- Generation of Gross Chromosomal Rearrangements by a Single Engineered DNA Double Strand Break.Scientific reports · 2017Article
- Sequence-directed nucleosome-depletion is sufficient to activate transcription from a yeast core promoter in vivo.Biochemical and biophysical research communications · 2016Article
- Nucleosome repositioning underlies dynamic gene expression.Genes & development · 2016Article
- Genome-wide profiling of nucleosome sensitivity and chromatin accessibility in Drosophila melanogaster.Nucleic acids research · 2016Article
- Nucleosome positioning in yeasts: methods, maps, and mechanisms.Chromosoma · 2015Review
- Functional roles of nucleosome stability and dynamics.Briefings in functional genomics · 2015Review
- RSC-dependent constructive and destructive interference between opposing arrays of phased nucleosomes in yeast.Genome research · 2014Article
- A dynamic interplay of nucleosome and Msn2 binding regulates kinetics of gene activation and repression following stress.Nucleic acids research · 2014Article
- The nucleosomal barrier to promoter escape by RNA polymerase II is overcome by the chromatin remodeler Chd1.eLife · 2014Article
- Gene promoters dictate histone occupancy within genes.The EMBO journal · 2013Article
- Nucleosome remodeling and epigenetics.Cold Spring Harbor perspectives in biology · 2013Review
- Global remodeling of nucleosome positions in C. elegans.BMC genomics · 2013Article
- Nucleosome free regions in yeast promoters result from competitive binding of transcription factors that interact with chromatin modifiers.PLoS computational biology · 2013Article
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
Abstract
Most promoters in yeast contain a nucleosome-depleted region (NDR), but the mechanisms by which NDRs are established and maintained in vivo are currently unclear. We have examined how genome-wide nucleosome placement is altered in the absence of two distinct types of nucleosome remodeling activity. In mutants of both SNF2, which encodes the ATPase component of the Swi/Snf remodeling complex, and ASF1, which encodes a histone chaperone, distinct sets of gene promoters carry excess nucleosomes in their NDRs relative to wild-type. In snf2 mutants, excess promoter nucleosomes correlate with reduced gene expression. In both mutants, the excess nucleosomes occupy DNA sequences that are energetically less favorable for nucleosome formation, indicating that intrinsic histone-DNA interactions are not sufficient for nucleosome positioning in vivo, and that Snf2 and Asf1 promote thermodynamic equilibration of nucleosomal arrays. Cells lacking SNF2 or ASF1 still accomplish the changes in promoter nucleosome structure associated with large-scale transcriptional reprogramming. However, chromatin reorganization in the mutants is reduced in extent compared to wild-type cells, even though transcriptional changes proceed normally. In summary, active remodeling is required for distributing nucleosomes to energetically favorable positions in vivo and for reorganizing chromatin in response to changes in transcriptional activity.
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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.