Transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate Breviolum minutum

Dinoflagellate chromosomes represent a unique evolutionary experiment, as they exist in a permanently condensed, liquid crystalline state; are not packaged by histones; and contain genes organized into tandem gene arrays, with minimal transcriptional regulation. We analyze the three-dimensional geno...

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Autores principales: Marinov, Georgi K., Trevino, Alexandro E., Xiang, Tingting, Kundaje, Anshul, Grossman, Arthur R., Greenleaf, William J.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group US 2021
Materias:
Letter
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8110477/
https://www.ncbi.nlm.nih.gov/pubmed/33927397
http://dx.doi.org/10.1038/s41588-021-00848-5
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author Marinov, Georgi K.
Trevino, Alexandro E.
Xiang, Tingting
Kundaje, Anshul
Grossman, Arthur R.
Greenleaf, William J.
author_facet Marinov, Georgi K.
Trevino, Alexandro E.
Xiang, Tingting
Kundaje, Anshul
Grossman, Arthur R.
Greenleaf, William J.
author_sort Marinov, Georgi K.
collection PubMed
description Dinoflagellate chromosomes represent a unique evolutionary experiment, as they exist in a permanently condensed, liquid crystalline state; are not packaged by histones; and contain genes organized into tandem gene arrays, with minimal transcriptional regulation. We analyze the three-dimensional genome of Breviolum minutum, and find large topological domains (dinoflagellate topologically associating domains, which we term ‘dinoTADs’) without chromatin loops, which are demarcated by convergent gene array boundaries. Transcriptional inhibition disrupts dinoTADs, implicating transcription-induced supercoiling as the primary topological force in dinoflagellates.
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spelling pubmed-81104772021-05-25 Transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate Breviolum minutum Marinov, Georgi K. Trevino, Alexandro E. Xiang, Tingting Kundaje, Anshul Grossman, Arthur R. Greenleaf, William J. Nat Genet Letter Dinoflagellate chromosomes represent a unique evolutionary experiment, as they exist in a permanently condensed, liquid crystalline state; are not packaged by histones; and contain genes organized into tandem gene arrays, with minimal transcriptional regulation. We analyze the three-dimensional genome of Breviolum minutum, and find large topological domains (dinoflagellate topologically associating domains, which we term ‘dinoTADs’) without chromatin loops, which are demarcated by convergent gene array boundaries. Transcriptional inhibition disrupts dinoTADs, implicating transcription-induced supercoiling as the primary topological force in dinoflagellates. Nature Publishing Group US 2021-04-29 2021 /pmc/articles/PMC8110477/ /pubmed/33927397 http://dx.doi.org/10.1038/s41588-021-00848-5 Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Letter
Marinov, Georgi K.
Trevino, Alexandro E.
Xiang, Tingting
Kundaje, Anshul
Grossman, Arthur R.
Greenleaf, William J.
Transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate Breviolum minutum
title Transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate Breviolum minutum
title_full Transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate Breviolum minutum
title_fullStr Transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate Breviolum minutum
title_full_unstemmed Transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate Breviolum minutum
title_short Transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate Breviolum minutum
title_sort transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate breviolum minutum
topic Letter
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8110477/
https://www.ncbi.nlm.nih.gov/pubmed/33927397
http://dx.doi.org/10.1038/s41588-021-00848-5
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