Cohesin constrains histone modification-driven chromatin dynamics

Kitamura, T.; Fujino, T.; Ochi, Y.; Goyama, S.; Shimosato, Y.; Shikata, S.; Kon, A.; Mori, T.; Sakata, T.; Honda, H.; Koseki, H.; Nakayama, M.; Shirahige, K.; Miyano, S.; Ogawa, S.

doi:10.64898/2025.12.13.694149

bioRxiv · 10.64898/2025.12.13.694149

Cohesin constrains histone modification-driven chromatin dynamics

Kitamura, T.·Fujino, T.·Ochi, Y.·Goyama, S.·Shimosato, Y.·Shikata, S.·Kon, A.·Mori, T.·Sakata, T.·Honda, H.·Koseki, H.·Nakayama, M.·Shirahige, K.·Miyano, S.·Ogawa, S.

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Abstract

Gene expressions are regulated by an interplay between epigenetics and spatial genome organization, the deregulation of which has been implicated in the development of cancers, including myeloid neoplasms. However, it is unclear how they coordinately contribute to normal and malignant hematopoiesis. Here, we show that simultaneous dysregulations of histone modifications and chromatin structures caused by mutations of the epigenetic modulator Asxl1 and cohesin subunit Stag2 cooperatively induce ectopic interactions between polycomb-regulated promoters and active enhancers, leading to the aberrant upregulation of hematopoietic stem cell related genes and development of myelodysplastic syndromes (MDS). De-repression of polycomb-regulated genes induces their translocation to the transcriptionally active loci, where active promoters and enhancers are assembled, in the absence of Stag2-mediated chromatin organization. Our findings revealed that cohesin counteracts histone modification-driven chromatin conformations, manifesting the coordinate roles of histone modifiers and cohesin in regulating genome architectures and gene expressions to prevent malignant transformation.

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Kitamura, T., Fujino, T., Ochi, Y., Goyama, S., Shimosato, Y., Shikata, S., Kon, A., Mori, T., Sakata, T., Honda, H., Koseki, H., Nakayama, M., Shirahige, K., Miyano, S., Ogawa, S.. 2025-12-16. Cohesin constrains histone modification-driven chromatin dynamics. https://doi.org/10.64898/2025.12.13.694149

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