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Multiple parameters shape the 3D chromatin structure of single nuclei

Markus Götz, Olivier Messina, Sergio Espinola, Jean-Bernard Fiche, Marcelo Nollmann
doi: https://doi.org/10.1101/2022.01.16.476319
Markus Götz
1Centre de Biologie Structurale, Univ Montpellier, CNRS UMR 5048, INSERM U1054, Montpellier, France
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Olivier Messina
1Centre de Biologie Structurale, Univ Montpellier, CNRS UMR 5048, INSERM U1054, Montpellier, France
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Sergio Espinola
1Centre de Biologie Structurale, Univ Montpellier, CNRS UMR 5048, INSERM U1054, Montpellier, France
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Jean-Bernard Fiche
1Centre de Biologie Structurale, Univ Montpellier, CNRS UMR 5048, INSERM U1054, Montpellier, France
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Marcelo Nollmann
1Centre de Biologie Structurale, Univ Montpellier, CNRS UMR 5048, INSERM U1054, Montpellier, France
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  • For correspondence: marcelo.nollmann@cbs.cnrs.fr
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Abstract

The spatial organization of chromatin at the scale of topologically associating domains (TADs) and below displays large cell-to-cell variations. Up until now, how this heterogeneity in chromatin conformation is shaped by chromatin condensation, TAD insulation, and transcription has remained mostly elusive. Here, we used Hi-M, a multiplexed DNA-FISH imaging technique providing developmental timing and transcriptional status, to show that the emergence of TADs at the ensemble level partially segregates the conformational space explored by single nuclei during the early development of Drosophila embryos. Surprisingly, a substantial fraction of nuclei displayed strong insulation even before TADs emerged. Moreover, active transcription within a TAD led to minor changes to the local inter- and intra-TAD chromatin conformation in single nuclei and only weakly affected insulation to the neighboring TAD. Overall, our results indicate that multiple parameters contribute to shaping the chromatin architecture of single nuclei at the TAD scale.

Competing Interest Statement

The authors have declared no competing interest.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted January 16, 2022.
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Multiple parameters shape the 3D chromatin structure of single nuclei
Markus Götz, Olivier Messina, Sergio Espinola, Jean-Bernard Fiche, Marcelo Nollmann
bioRxiv 2022.01.16.476319; doi: https://doi.org/10.1101/2022.01.16.476319
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Multiple parameters shape the 3D chromatin structure of single nuclei
Markus Götz, Olivier Messina, Sergio Espinola, Jean-Bernard Fiche, Marcelo Nollmann
bioRxiv 2022.01.16.476319; doi: https://doi.org/10.1101/2022.01.16.476319

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