ArticlePloS one2017
Regions of very low H3K27me3 partition the Drosophila genome into topological domains.
Article in PloS one, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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20 citing papers in PubMed, 44 citations in OpenAlex.
- Determining the functional relationship between epigenetic and physical chromatin domains in Drosophila.Genome biology · 2025Article
- Drosophila Protein Z4 Possesses ZAD Dimerization Domain.Doklady biological sciences : proceedings of the Academy of Sciences of the USSR, Biological sciences sections · 2024Article
- CTCF, BEAF-32, and CP190 are not required for the establishment of TADs in earlyScience advances · 2023Article
- Comparison of genome architecture at two stages of male germline cell differentiation in Drosophila.Nucleic acids research · 2022Article
- The role of insulators and transcription in 3D chromatin organization of flies.Genome research · 2022Article
- Application of the 3C Method to Study the Developmental Genes inFrontiers in genetics · 2022Article
- Multi-Scale Organization of theGenes · 2021Review
- FISH Going Meso-Scale: A Microscopic Search for Chromatin Domains.Frontiers in cell and developmental biology · 2021Review
- Investigation of the Basic Steps in the Chromosome Conformation Capture Procedure.Frontiers in genetics · 2021Article
- Histone deacetylase (Rpd3) regulatesOpen biology · 2020Article
- DifferentiatingeLife · 2020Article
- Review
- The role of transcription in shaping the spatial organization of the genome.Nature reviews. Molecular cell biology · 2019Review
- Chromatin architecture reorganization during neuronal cell differentiation inGenome research · 2019Article
- Epigenetic changes during aging and their reprogramming potential.Critical reviews in biochemistry and molecular biology · 2019Review
- Inherency of Form and Function in Animal Development and Evolution.Frontiers in physiology · 2019Review
- Similarity in replication timing between polytene and diploid cells is associated with the organization of the Drosophila genome.PloS one · 2018Article
- Article
- Article
- Evolutionarily Conserved Principles Predict 3D Chromatin Organization.Molecular cell · 2017Article
Corrections and comments
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Authors and funding
8 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
It is now well established that eukaryote genomes have a common architectural organization into topologically associated domains (TADs) and evidence is accumulating that this organization plays an important role in gene regulation. However, the mechanisms that partition the genome into TADs and the nature of domain boundaries are still poorly understood. We have investigated boundary regions in the Drosophila genome and find that they can be identified as domains of very low H3K27me3. The genome-wide H3K27me3 profile partitions into two states; very low H3K27me3 identifies Depleted (D) domains that contain housekeeping genes and their regulators such as the histone acetyltransferase-containing NSL complex, whereas domains containing moderate-to-high levels of H3K27me3 (Enriched or E domains) are associated with regulated genes, irrespective of whether they are active or inactive. The D domains correlate with the boundaries of TADs and are enriched in a subset of architectural proteins, particularly Chromator, BEAF-32, and Z4/Putzig. However, rather than being clustered at the borders of these domains, these proteins bind throughout the H3K27me3-depleted regions and are much more strongly associated with the transcription start sites of housekeeping genes than with the H3K27me3 domain boundaries. While we have not demonstrated causality, we suggest that the D domain chromatin state, characterised by very low or absent H3K27me3 and established by housekeeping gene regulators, acts to separate topological domains thereby setting up the domain architecture of the genome.
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