ArticleNucleic acids research2019
DNA sequence influences hexasome orientation to regulate DNA accessibility.
Article in Nucleic acids research, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- 8oxoG:A Is Structurally Accommodated in the Nucleosome Core Particle, Yet Inaccessible to MUTYH-Initiated DNA Repair.Biomolecules · 2026Article
- Recognition and remodelling of nucleosomes and hexasomes by the human INO80 complex.Nucleic acids research · 2026Article
- Hexasomal particles: consequence or also consequential?Current opinion in genetics & development · 2024Review
- Nucleosome Core Particle Reconstitution with Recombinant Histones and Widom 601 DNA.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Histone protein surface accessibility dictates direction of RSC-dependent nucleosome mobilization.Nucleic acids research · 2022Article
- FACT modulates the conformations of histone H2A and H2B N-terminal tails within nucleosomes.Communications biology · 2022Article
- Synthesis of Oriented Hexasomes and Asymmetric Nucleosomes Using a Template Editing Process.Journal of the American Chemical Society · 2022Article
- Nucleosome assembly and disassembly pathways in vitro.PloS one · 2022Article
- The switch of DNA states filtering the extrinsic noise in the system of frequency modulation.Scientific reports · 2021Article
- The kinetic landscape of nucleosome assembly: A coarse-grained molecular dynamics study.PLoS computational biology · 2021Article
- Nucleosome composition regulates the histone H3 tail conformational ensemble and accessibility.Nucleic acids research · 2021Article
- Ensembles of Breathing Nucleosomes: A Computational Study.Biophysical journal · 2020Article
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Authors and funding
6 authors.
Funding
Abstract
Nucleosomes, the fundamental organizing units of eukaryotic genomes, contain ∼146 base pairs of DNA wrapped around a histone H3-H4 tetramer and two histone H2A-H2B dimers. Converting nucleosomes into hexasomes by removal of a H2A-H2B dimer is an important regulatory event, but its regulation and functional consequences are not well-understood. To investigate the influence of hexasomes on DNA accessibility, we used the property of the Widom-601 Nucleosome Positioning Sequence (NPS) to form homogeneously oriented hexasomes in vitro. We find that DNA accessibility to transcription factors (TF) on the hexasome H2A-H2B distal side is identical to naked DNA, while the accessibility on the H2A-H2B proximal side is reduced by 2-fold, which is due to a 2-fold reduction in hexasome unwrapping probability. We then determined that a 23 bp region of the Widom-601 NPS is responsible for forming homogeneously oriented hexasomes. Analysis of published ChIP-exo data of hexasome containing genes identified two DNA sequence motifs that correlate with hexasome orientation in vivo, while ExoIII mapping studies of these sequences revealed they generate homogeneously oriented hexasomes in vitro. These results indicate that hexasome orientation, which is influenced by the underlying DNA sequence in vivo, is important for modulating DNA accessibility to regulate transcription.
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