ArticleJournal of molecular cell biology2015
Hot spots of DNA double-strand breaks and genomic contacts of human rDNA units are involved in epigenetic regulation.
Article in Journal of molecular cell biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.
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Who cites it
52 citing papers in PubMed, 70 citations in OpenAlex.
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- Formation of the Vasculogenic Mimicry Phenotype in Melanoma Mel Z Cells Is Coupled with Changes in Inter-Chromosomal Contacts of Developmental Genes with rDNA Clusters.International journal of molecular sciences · 2025Article
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- Homeotic DUX4 Genes Shape Dynamic Inter-Chromosomal Contacts with Nucleoli in Human Cells.Doklady. Biochemistry and biophysics · 2024Article
- Preferential Co-Expression and Colocalization of rDNA-Contacting Genes with LincRNAs Suggest Their Involvement in Shaping Inter-Chromosomal Interactions with Nucleoli.International journal of molecular sciences · 2024Article
- A recognition of exosomes as regulators of epigenetic mechanisms in central nervous system diseases.Frontiers in molecular neuroscience · 2024Review
- SUMOylation-triggered ALIX activation modulates extracellular vesicles circTLCD4-RWDD3 to promote lymphatic metastasis of non-small cell lung cancer.Signal transduction and targeted therapy · 2023Article
- Functional Diversity of SIRT7 Across Cellular Compartments: Insights and Perspectives.Cell biochemistry and biophysics · 2023Review
- Ribosome biosynthesis and Hedgehog activity are cooperative actionable signaling mechanisms in breast cancer following radiotherapy.NPJ precision oncology · 2023Article
- Induction of the Erythroid Differentiation of K562 Cells Is Coupled with Changes in the Inter-Chromosomal Contacts of rDNA Clusters.International journal of molecular sciences · 2023Article
- Chromosomal Diversification inAnimals : an open access journal from MDPI · 2022Article
- Genes Possessing the Most Frequent DNA DSBs Are Highly Associated with Development and Cancers, and Essentially Overlap with the rDNA-Contacting Genes.International journal of molecular sciences · 2022Article
- Unraveling the DNA Methylation in the rDNA Foci in Mutagen-InducedInternational journal of molecular sciences · 2022Article
- Fragments of rDNA Genes Scattered over the Human Genome Are Targets of Small RNAs.International journal of molecular sciences · 2022Article
- Treacle Sticks the Nucleolar Responses to DNA Damage Together.Frontiers in cell and developmental biology · 2022Review
- Article
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Authors and funding
8 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
DNA double-strand breaks (DSBs) are involved in many cellular mechanisms, including replication, transcription, and genome rearrangements. The recent observation that hot spots of DSBs in human chromosomes delimit DNA domains that possess coordinately expressed genes suggests a strong relationship between the organization of transcription patterns and hot spots of DSBs. In this study, we performed mapping of hot spots of DSBs in a human 43-kb ribosomal DNA (rDNA) repeated unit. We observed that rDNA units corresponded to the most fragile sites in human chromosomes and that these units possessed at least nine specific regions containing clusters of extremely frequently occurring DSBs, which were located exclusively in non-coding intergenic spacer (IGS) regions. The hot spots of DSBs corresponded to only a specific subset of DNase-hypersensitive sites, and coincided with CTCF, PARP1, and HNRNPA2B1 binding sites, and H3K4me3 marks. Our rDNA-4C data indicate that the regions of IGS containing the hot spots of DSBs often form contacts with specific regions in different chromosomes, including the pericentromeric regions, as well as regions that are characterized by H3K27ac and H3K4me3 marks, CTCF binding sites, ChIA-PET and RIP signals, and high levels of DSBs. The data suggest a strong link between chromosome breakage and several different mechanisms of epigenetic regulation of gene expression.
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