Modulated contact frequencies at gene-rich loci support a statistical helix model for mammalian chromatin organization.

ABSTRACT: BACKGROUND: Despite its critical role for mammalian gene regulation, the basic structural landscape of chromatin in living cells remains largely unknown within chromosomal territories below the megabase scale. RESULTS: Here, using the 3C-qPCR method, we investigate contact frequencies at high resolution within the interphase chromatin at several mouse loci. We find that, at several gene-rich loci, contact frequencies undergo a periodical modulation (every 90-100 kb) that affects chromatin dynamics over large genomic distances (few hundred kb). Interestingly, this modulation appears to be conserved in human cells and bioinformatic analyses of locus-specific, long-range cis-interactions suggest that it may underlie the dynamics of a significant number of gene-rich domains in mammals, thus contributing to genome evolution. Finally, using an original model derived from polymer physics, we show that this modulation can be understood as a fundamental helix shape that chromatin tends to adopt in gene-rich domains when no significant locus-specific interaction takes place. CONCLUSIONS: Altogether, our work unveils a fundamental aspect of chromatin dynamics in mammals and contributes to a better understanding of genome organization within chromosomal territories.

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Genomics [q-bio.GN] Genetics

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https://www.hal.inserm.fr/inserm-00605349

Submitted on : Friday, July 1, 2011-12:04:32 PM

Last modification on : Friday, March 24, 2023-2:52:54 PM

Long-term archiving on: Monday, November 12, 2012-9:52:26 AM

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inserm-00605349 , version 1 (01-07-2011)

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HAL Id : inserm-00605349 , version 1
DOI : 10.1186/gb-2011-12-5-r42
PUBMED : 21569291

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Franck Court, Julie Miro, Caroline Braem, Marie-Noëlle Lelay-Taha, Audrey Brisebarre, et al.. Modulated contact frequencies at gene-rich loci support a statistical helix model for mammalian chromatin organization.. Genome Biology, 2011, 12 (5), pp.R42. ⟨10.1186/gb-2011-12-5-r42⟩. ⟨inserm-00605349⟩

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