ArticlePLoS genetics2013
ISWI and CHD chromatin remodelers bind promoters but act in gene bodies.
Article in PLoS genetics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 61 papers.
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Who cites it
61 citing papers in PubMed, 89 citations in OpenAlex.
- Nucleosome remodeling by a CHD enzyme promotes H3K9 methylation establishment and spreading via remodeler-writer feedback.bioRxiv : the preprint server for biology · 2026Article
- The Ies6 subunit is essential for INO80-mediated nucleosome organization.Scientific reports · 2026Article
- Cleavage Under Targets & Release Using Nuclease (CUT&RUN) Protocols for the Study of Genetic and Epigenetic Regulation in Cancer.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Context-specific functions of chromatin remodellers in development and disease.Nature reviews. Genetics · 2024Review
- Nucleosome density shapes kilobase-scale regulation by a mammalian chromatin remodeler.Nature structural & molecular biology · 2023Article
- ISW1a modulates cohesin distribution in centromeric and pericentromeric regions.Nucleic acids research · 2023Article
- A transcriptional roadblock protects yeast centromeres.Nucleic acids research · 2022Article
- nMOWChIP-seq: low-input genome-wide mapping of non-histone targets.NAR genomics and bioinformatics · 2022Article
- CHD Chromatin Remodeling Protein Diversification Yields Novel Clades and Domains Absent in Classic Model Organisms.Genome biology and evolution · 2022Article
- A viral histone-like protein exploits antagonism between linker histones and HMGB proteins to obstruct the cell cycle.Current biology : CB · 2021Article
- A compendium of chromatin contact maps reflecting regulation by chromatin remodelers in budding yeast.Nature communications · 2021Article
- Article
- NuA4 and SAGA acetyltransferase complexes cooperate for repair of DNA breaks by homologous recombination.PLoS genetics · 2021Article
- A deformation energy model reveals sequence-dependent property of nucleosome positioning.Chromosoma · 2021Article
- Dinucleosome specificity and allosteric switch of the ISW1a ATP-dependent chromatin remodeler in transcription regulation.Nature communications · 2020Article
- A Chromodomain-Helicase-DNA-Binding Factor Functions in Chromatin Modification and Gene Regulation.Plant physiology · 2020Article
- Opposing chromatin remodelers control transcription initiation frequency and start site selection.Nature structural & molecular biology · 2019Article
- Local features determine Ty3 targeting frequency at RNA polymerase III transcription start sites.Genome research · 2019Article
- Integrated epigenomic analysis stratifies chromatin remodellers into distinct functional groups.Epigenetics & chromatin · 2019Article
- RSC-Associated Subnucleosomes Define MNase-Sensitive Promoters in Yeast.Molecular cell · 2019Article
1 more citing papers are in PubMed but not listed here.
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
ATP-dependent nucleosome remodelers influence genetic processes by altering nucleosome occupancy, positioning, and composition. In vitro, Saccharomyces cerevisiae ISWI and CHD remodelers require ∼30-85 bp of extranucleosomal DNA to reposition nucleosomes, but linker DNA in S. cerevisiae averages <20 bp. To address this discrepancy between in vitro and in vivo observations, we have mapped the genomic distributions of the yeast Isw1, Isw2, and Chd1 remodelers at base-pair resolution on native chromatin. Although these remodelers act in gene bodies, we find that they are also highly enriched at nucleosome-depleted regions (NDRs), where they bind to extended regions of DNA adjacent to particular transcription factors. Surprisingly, catalytically inactive remodelers show similar binding patterns. We find that remodeler occupancy at NDRs and gene bodies is associated with nucleosome turnover and transcriptional elongation rate, suggesting that remodelers act on regions of transient nucleosome unwrapping or depletion within gene bodies subsequent to transcriptional elongation.
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Registered trials
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.