Phase-separated super-enhancers confer an innate radioresistance on genomic DNA

• Published in: Journal of radiation research 2024-07, Vol.65 (4), p.482-490
• Main Authors: Matsumoto, Koki, Ikliptikawati, Dini Kurnia, Makiyama, Kei, Mochizuki, Kako, Tobita, Maho, Kobayashi, Isao, Voon, Dominic Chih-Cheng, Lim, Keesiang, Ogawa, Kazuma, Kashiwakura, Ikuo, Suzuki, Hiroshi I, Yoshino, Hironori, Wong, Richard W, Hazawa, Masaharu
• Format: Article
• Language: English
• Subjects: Bromodomain Containing Proteins; Cancer; Care and treatment; Cell Cycle Proteins - metabolism; Cell Line, Tumor; Cells; DNA; DNA - chemistry; DNA - radiation effects; DNA Damage; Enhancer Elements, Genetic; Fundamental Radiation Science; Genes; Genetic aspects; Genetic transcription; Genome, Human; Humans; Ionization; Nuclear Proteins - metabolism; Radiation; Radiation Tolerance; Radiotherapy; Scientific equipment and supplies industry; Transcription Factors - metabolism
• ISSN: 0449-3060; 1349-9157; 1349-9157
• DOI: 10.1093/jrr/rrae044

Recently, biomolecular condensates formed through liquid-liquid phase separation have been widely reported to regulate key intracellular processes involved in cell biology and pathogenesis. BRD4 is a nuclear protein instrumental to the establishment of phase-separated super-enhancers (SEs) to direct the transcription of important genes. We previously observed that protein droplets of BRD4 became hydrophobic as their size increase, implying an ability of SEs to limit the ionization of water molecules by irradiation. Here, we aim to establish if SEs confer radiation resistance in cancer cells. We established an in vitro DNA damage assay that measures the effect of radicals provoked by the Fenton reaction on DNA integrity. This revealed that DNA damage was markedly reduced when BRD4 underwent phase separation with DNA. Accordingly, co-focal imaging analyses revealed that SE foci and DNA damage foci are mutually exclusive in irradiated cells. Lastly, we observed that the radioresistance of cancer cells was significantly reduced when irradiation was combined with ARV-771, a BRD4 de-stabilizer. Our data revealed the existence of innately radioresistant genomic regions driven by phase separation in cancer cells. The disruption of these phase-separated components enfolding genomic DNA may represent a novel strategy to augment the effects of radiotherapy.