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Confirmatory Results

Nup93 and CTCF co-modulate spatiotemporal dynamics and function of the HOXA gene cluster during differentiation

Ajay S. Labade, Adwait Salvi, View ORCID ProfileKrishanpal Karmodiya, View ORCID ProfileKundan Sengupta
doi: https://doi.org/10.1101/646224
Ajay S. Labade
Biology, Indian Institute of Science Education and Research (IISER), Pune - 411008, Maharashtra, INDIA
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Adwait Salvi
Biology, Indian Institute of Science Education and Research (IISER), Pune - 411008, Maharashtra, INDIA
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Krishanpal Karmodiya
Biology, Indian Institute of Science Education and Research (IISER), Pune - 411008, Maharashtra, INDIA
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  • ORCID record for Krishanpal Karmodiya
Kundan Sengupta
Biology, Indian Institute of Science Education and Research (IISER), Pune - 411008, Maharashtra, INDIA
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  • ORCID record for Kundan Sengupta
  • For correspondence: kunsen@iiserpune.ac.in
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ABSTRACT

Nucleoporins regulate nuclear transport. In addition, nucleoporins also modulate chromatin organization and gene expression. Here we investigated the role of nucleoporin Nup93, in regulating HOXA gene expression during differentiation. ChIP-Seq analysis revealed that Nup93 associates with genes involved in development and differentiation. Furthermore, Nup93 occupancy significantly overlaps with CTCF. Interestingly, Nup93 and CTCF show antagonistic roles in regulating 3’ and 5’ end HOXA genes in undifferentiated cells. The HOXA gene locus untethered from the nuclear periphery upon Nup93 but not CTCF depletion, consistent with its upregulation. Remarkably, occupancy of Nup93 and CTCF on HOXA gene locus progressively declined during differentiation but was restored in differentiated cells, consistent with the rerepression and re-localization of the HOXA gene locus with the nuclear periphery upon differentiation. In summary, Nup93 is a key modulator of the spatiotemporal dynamics and function of the HOXA gene locus during differentiation.

Footnotes

  • https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE130656

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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 July 02, 2019.
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Nup93 and CTCF co-modulate spatiotemporal dynamics and function of the HOXA gene cluster during differentiation
Ajay S. Labade, Adwait Salvi, Krishanpal Karmodiya, Kundan Sengupta
bioRxiv 646224; doi: https://doi.org/10.1101/646224
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Nup93 and CTCF co-modulate spatiotemporal dynamics and function of the HOXA gene cluster during differentiation
Ajay S. Labade, Adwait Salvi, Krishanpal Karmodiya, Kundan Sengupta
bioRxiv 646224; doi: https://doi.org/10.1101/646224

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