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Comparison of the somatic TADs and lampbrush chromomere-loop complexes in transcriptionally active prophase I oocytes

View ORCID ProfileTatiana Kulikova, View ORCID ProfileAntonina Maslova, Polina Starshova, Sebastian Juan Rodriguez, View ORCID ProfileAlla Krasikova
doi: https://doi.org/10.1101/2021.11.30.470320
Tatiana Kulikova
Saint Petersburg State University, Saint-Petersburg, Russia
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Antonina Maslova
Saint Petersburg State University, Saint-Petersburg, Russia
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Polina Starshova
Saint Petersburg State University, Saint-Petersburg, Russia
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Sebastian Juan Rodriguez
Saint Petersburg State University, Saint-Petersburg, Russia
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Alla Krasikova
Saint Petersburg State University, Saint-Petersburg, Russia
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  • ORCID record for Alla Krasikova
  • For correspondence: a.krasikova@spbu.ru
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Abstract

In diplotene oocyte nuclei of all vertebrate species, except mammals, chromosomes lack interchromosomal contacts and chromatin is linearly compartmentalized into distinct chromomere-loop complexes forming lampbrush chromosomes. However, the mechanisms underlying the formation of chromomere-loop complexes remain unexplored. Here we aimed to juxtapose somatic topologically associating domains (TADs), recently identified in chicken embryonic fibroblasts, with chromomere-loop complexes in lampbrush meiotic chromosomes. By measuring 3D-distances and colocalization between linear equidistantly located genomic loci, positioned within one TAD or separated by a TAD border, we confirmed the presence of predicted TADs in chicken embryonic fibroblast nuclei. Using three-colored FISH with BAC probes we mapped equidistant genomic regions included in several sequential somatic TADs on isolated chicken lampbrush chromosomes. Eight genomic regions, each comprising two or three somatic TADs, were mapped to non-overlapping neighboring lampbrush chromatin domains – lateral loops, chromomeres or chromomere-loop complexes. Genomic loci from the neighboring somatic TADs could localize in one lampbrush chromomere-loop complex, while genomic loci belonging to the same somatic TAD could be localized in neighboring lampbrush chromomere- loop domains. In addition, FISH-mapping of BAC probes to the nascent transcripts on the lateral loops indicates transcription of at least 17 protein-coding genes and 2 non-coding RNA genes during the lampbrush stage of chicken oogenesis, including genes involved in oocyte maturation and early embryo development.

Competing Interest Statement

The authors have declared no competing interest.

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Posted November 30, 2021.
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Comparison of the somatic TADs and lampbrush chromomere-loop complexes in transcriptionally active prophase I oocytes
Tatiana Kulikova, Antonina Maslova, Polina Starshova, Sebastian Juan Rodriguez, Alla Krasikova
bioRxiv 2021.11.30.470320; doi: https://doi.org/10.1101/2021.11.30.470320
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Comparison of the somatic TADs and lampbrush chromomere-loop complexes in transcriptionally active prophase I oocytes
Tatiana Kulikova, Antonina Maslova, Polina Starshova, Sebastian Juan Rodriguez, Alla Krasikova
bioRxiv 2021.11.30.470320; doi: https://doi.org/10.1101/2021.11.30.470320

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