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Interchromosomal Contacts of rDNA Clusters in Three Human Cell Lines Are Associated with Silencing of Genes Controlling Morphogenesis

  • BIOCHEMISTRY, BIOPHYSICS, AND MOLECULAR BIOLOGY
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Abstract

To study the rDNA contacts with genes in three human cell lines of different origin, we used 4C approach. Our data indicate that the same set of about five hundred genes frequently shape contacts with rDNA clusters in HEK293T, K652, and hESM01 cells. Gene ontology search suggests that the genes are involved in development and morphogenesis. Approximately one hundred of these genes are highly associated with silencing by H3K27me3 mark in different normal cells, including bronchial epithelial cells, keratinocytes, myoblasts, monocytes, endothelial cells, kidney epithelial cells, and some others. We conclude that the concerted silencing of specific group of rDNA-contacting genes controlling development occurs during differentiation. We assume that the phase separation mechanisms may be involved in the rDNA-mediated silencing of a set of genes via the contacts with inactive rDNA clusters.

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ACKNOWLEDGMENTS

The authors are grateful to M.A. Lagarkova for providing hESM01 cells.

Funding

This study was supported by the Russian Science Foundation (project no. 18-14-00122) and the Russian Foundation for Basic Research (project nos. 20-04-01134 and 18-04-00198).

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Authors and Affiliations

  1. Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia

    N. A. Tchurikov, E. S. Klushevskaya, Y. V. Kravatsky, G. I. Kravatskaya & D. M. Fedoseeva

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  1. N. A. Tchurikov
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  2. E. S. Klushevskaya
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  3. Y. V. Kravatsky
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  4. G. I. Kravatskaya
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  5. D. M. Fedoseeva
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Correspondence to N. A. Tchurikov.

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The authors declare that they have no conflict of interest. This article does not contain any studies involving animals or human participants performed by any of the authors.

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Translated by M. Batrukova

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Tchurikov, N.A., Klushevskaya, E.S., Kravatsky, Y.V. et al. Interchromosomal Contacts of rDNA Clusters in Three Human Cell Lines Are Associated with Silencing of Genes Controlling Morphogenesis. Dokl Biochem Biophys 496, 22–26 (2021). https://doi.org/10.1134/S1607672921010038

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  • DOI: https://doi.org/10.1134/S1607672921010038

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