ArticleThe Plant cell2023
Binding by the Polycomb complex component BMI1 and H2A monoubiquitination shape local and long-range interactions in the Arabidopsis genome.
Article in The Plant cell, 2023. 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, 41 citations in OpenAlex.
- EMF2 deficiency disrupts epigenetic and chromatin organization landscapes, blocking root regeneration competence in Arabidopsis.The New phytologist · 2026Article
- CRISPR gene editing of AtRING1 unravels a critical role of RAWUL domain in PRC1 repression of transcription.The Plant journal : for cell and molecular biology · 2026Article
- Locked tight (mostly): Histone ubiquitylation by PRC1 isn't always required for H3K27me3-dependent gene silencing.The Plant cell · 2026Article
- PRC1-mediated H2A.Zub promotes gene expression by preventing H3.1K27me1 incorporation in Arabidopsis.Genome biology · 2025Article
- The Association Between DNA Methylation and Three-Dimensional Genome During Whole Genome Doubling inPlants (Basel, Switzerland) · 2025Article
- BMI1s interact with condensin complexes to regulate chromatin 3D structure and gene expression inaBIOTECH · 2025Article
- PRC1-Mediated H2Aub Loop Formation and Function in Arabidopsis.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- T-DNAreader: fast and precise identification of T-DNA insertion sites in plant genomes using RNA sequencing data.Genome biology · 2025Article
- Chromatin insulators: Good fences that make good neighbors.The Plant cell · 2025Article
- Epigenetics in the modern era of crop improvements.Science China. Life sciences · 2025Review
- Topologically associating domains and the evolution of three-dimensional genome architecture in rice.The Plant journal : for cell and molecular biology · 2025Article
- The Impact of Polycomb Group Proteins on 3D Chromatin Structure and Environmental Stresses in Plants.Plants (Basel, Switzerland) · 2025Review
- Dynamic changes in 3D chromatin structure during male gametogenesis in Arabidopsis thaliana.Genome biology · 2025Article
- Hi-GDT: A Hi-C-based 3D gene domain analysis tool for analyzing local chromatin contacts in plants.GigaScience · 2025Article
- Promoter capture Hi-C identifies promoter-related loops and fountain structures in Arabidopsis.Genome biology · 2024Article
- PWOs repress gene transcription by regulating chromatin structures in Arabidopsis.Nucleic acids research · 2024Article
- 3D chromatin maps of a brown alga reveal U/V sex chromosome spatial organization.Nature communications · 2024Article
- Mutations of PDS5 genes enhance TAD-like domain formation Arabidopsis thaliana.Nature communications · 2024Article
- Light control of three-dimensional chromatin organization in soybean.Plant biotechnology journal · 2024Article
- Mind the gap: Epigenetic regulation of chromatin accessibility in plants.Plant physiology · 2024Review
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Authors and funding
15 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Three-dimensional (3D) chromatin organization is highly dynamic during development and seems to play a crucial role in regulating gene expression. Self-interacting domains, commonly called topologically associating domains (TADs) or compartment domains (CDs), have been proposed as the basic structural units of chromatin organization. Surprisingly, although these units have been found in several plant species, they escaped detection in Arabidopsis (Arabidopsis thaliana). Here, we show that the Arabidopsis genome is partitioned into contiguous CDs with different epigenetic features, which are required to maintain appropriate intra-CD and long-range interactions. Consistent with this notion, the histone-modifying Polycomb group machinery is involved in 3D chromatin organization. Yet, while it is clear that Polycomb repressive complex 2 (PRC2)-mediated trimethylation of histone H3 on lysine 27 (H3K27me3) helps establish local and long-range chromatin interactions in plants, the implications of PRC1-mediated histone H2A monoubiquitination on lysine 121 (H2AK121ub) are unclear. We found that PRC1, together with PRC2, maintains intra-CD interactions, but it also hinders the formation of H3K4me3-enriched local chromatin loops when acting independently of PRC2. Moreover, the loss of PRC1 or PRC2 activity differentially affects long-range chromatin interactions, and these 3D changes differentially affect gene expression. Our results suggest that H2AK121ub helps prevent the formation of transposable element/H3K27me1-rich long loops and serves as a docking point for H3K27me3 incorporation.
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