ArticleGenome biology2013
Genome-wide incorporation dynamics reveal distinct categories of turnover for the histone variant H3.3.
Article in Genome biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 93 papers.
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Who cites it
93 citing papers in PubMed, 154 citations in OpenAlex.
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- A novel iPSC model of Bryant-Li-Bhoj neurodevelopmental/neurodegenerative syndrome demonstrates the role of histone H3.3 in chromatin dynamics, neuronal differentiation, and maturation.Journal of translational medicine · 2026Article
- Cohesin Facilitates Nucleosome Invasion by Transcription Factors.bioRxiv : the preprint server for biology · 2025Article
- CRISPR live-cell imaging reveals chromatin dynamics and enhancer interactions at multiple non-repetitive loci.Nature biotechnology · 2025Article
- H3.3K122A results in a neomorphic phenotype in mouse embryonic stem cells.Epigenetics & chromatin · 2024Article
- H3.3K122A results in a neomorphic phenotype in mouse embryonic stem cells.Research square · 2024Article
- Emerging Approaches to Profile Accessible Chromatin from Formalin-Fixed Paraffin-Embedded Sections.Epigenomes · 2024Review
- NELF focuses sites of initiation and maintains promoter architecture.Nucleic acids research · 2024Article
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- Histone retention preserves epigenetic marks during heat stress-induced transcriptional memory in plants.The EMBO journal · 2023Article
- The chromatin signatures of enhancers and their dynamic regulation.Nucleus (Austin, Tex.) · 2023Review
- A New Insight into 6-Pentyl-2H-pyran-2-one againstJournal of fungi (Basel, Switzerland) · 2023Article
- Involvement of the H3.3 Histone Variant in the Epigenetic Regulation of Gene Expression in the Nervous System, in Both Physiological and Pathological Conditions.International journal of molecular sciences · 2023Review
- Differential effect of histone H3.3 depletion on retroviral repression in embryonic stem cells.Clinical epigenetics · 2023Article
- PRC2-independent actions of H3.3K27M in embryonic stem cell differentiation.Nucleic acids research · 2023Article
- Postmitotic accumulation of histone variant H3.3 in new cortical neurons establishes neuronal chromatin, transcriptome, and identity.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Managing the Steady State Chromatin Landscape by Nucleosome Dynamics.Annual review of biochemistry · 2022Review
- Rtt109 promotes nucleosome replacement ahead of the replication fork.Genome research · 2022Article
- Facultative heterochromatin formation in rDNA is essential for cell survival during nutritional starvation.Nucleic acids research · 2022Article
33 more citing papers are in PubMed but not listed here.
Corrections and comments
- Erratum issued
Authors and funding
6 authors at 2 institutions in 2 countries.
Funding
Abstract
backgroundNucleosomes are present throughout the genome and must be dynamically regulated to accommodate binding of transcription factors and RNA polymerase machineries by various mechanisms. Despite the development of protocols and techniques that have enabled us to map nucleosome occupancy genome-wide, the dynamic properties of nucleosomes remain poorly understood, particularly in mammalian cells. The histone variant H3.3 is incorporated into chromatin independently of DNA replication and requires displacement of existing nucleosomes for its deposition. Here, we measure H3.3 turnover at high resolution in the mammalian genome in order to present a genome-wide characterization of replication-independent H3.3-nucleosome dynamics.
resultsWe developed a system to study the DNA replication-independent turnover of nucleosomes containing the histone variant H3.3 in mammalian cells. By measuring the genome-wide incorporation of H3.3 at different time points following epitope-tagged H3.3 expression, we find three categories of H3.3-nucleosome turnover in vivo: rapid turnover, intermediate turnover and, specifically at telomeres, slow turnover. Our data indicate that H3.3-containing nucleosomes at enhancers and promoters undergo rapid turnover that is associated with active histone modification marks including H3K4me1, H3K4me3, H3K9ac, H3K27ac and the histone variant H2A.Z. The rate of turnover is negatively correlated with H3K27me3 at regulatory regions and with H3K36me3 at gene bodies.
conclusionsWe have established a reliable approach to measure turnover rates of H3.3-containing nucleosomes on a genome-wide level in mammalian cells. Our results suggest that distinct mechanisms control the dynamics of H3.3 incorporation at functionally different genomic regions.
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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.