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Wheat chromatin architecture is organized in genome territories and transcription factories

Abstract : BACKGROUND: Polyploidy is ubiquitous in eukaryotic plant and fungal lineages, and it leads to the co-existence of several copies of similar or related genomes in one nucleus. In plants, polyploidy is considered a major factor in successful domestication. However, polyploidy challenges chromosome folding architecture in the nucleus to establish functional structures. RESULTS: We examine the hexaploid wheat nuclear architecture by integrating RNA-seq, ChIP-seq, ATAC-seq, Hi-C, and Hi-ChIP data. Our results highlight the presence of three levels of large-scale spatial organization: the arrangement into genome territories, the diametrical separation between facultative and constitutive heterochromatin, and the organization of RNA polymerase II around transcription factories. We demonstrate the micro-compartmentalization of transcriptionally active genes determined by physical interactions between genes with specific euchromatic histone modifications. Both intra- and interchromosomal RNA polymerase-associated contacts involve multiple genes displaying similar expression levels. CONCLUSIONS: Our results provide new insights into the physical chromosome organization of a polyploid genome, as well as on the relationship between epigenetic marks and chromosome conformation to determine a 3D spatial organization of gene expression, a key factor governing gene transcription in polyploids.
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https://hal.inrae.fr/hal-02571325
Contributor : Christine Molé <>
Submitted on : Thursday, November 19, 2020 - 4:38:26 PM
Last modification on : Wednesday, June 2, 2021 - 4:26:07 PM

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Lorenzo Concia, Alaguraj Veluchamy, Juan Ramirez-Prado, Azahara Martin-Ramirez, Ying Huang, et al.. Wheat chromatin architecture is organized in genome territories and transcription factories. Genome Biology, BioMed Central, 2020, 21 (1), pp.1-20. ⟨10.1186/s13059-020-01998-1⟩. ⟨hal-02571325⟩

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