Evidence for DNA Sequence Encoding of an Accessible Nucleosomal Array across Vertebrates

Abstract : Nucleosome-depleted regions around which nucleosomes order following the ''statistical'' positioning scenario were recently shown to be encoded in the DNA sequence in human. This intrinsic nucleosomal ordering strongly correlates with oscillations in the local GC content as well as with the interspecies and intraspecies mutation profiles, revealing the existence of both positive and negative selection. In this letter, we show that these predicted nucleosome inhibitory energy barriers (NIEBs) with compacted neighboring nucleosomes are indeed ubiquitous to all vertebrates tested. These 1 kb-sized chromatin patterns are widely distributed along vertebrate chromosomes, overall covering more than a third of the genome. We have previously observed in human deviations from neutral evolution at these genome-wide distributed regions, which we interpreted as a possible indication of the selection of an open, accessible, and dynamic nucleosomal array to constitutively facilitate the epigenetic regulation of nuclear functions in a cell-type-specific manner. As a first, very appealing observation supporting this hypothesis, we report evidence of a strong association between NIEB borders and the poly(A) tails of Alu sequences in human. These results suggest that NIEBs provide adequate chromatin patterns favorable to the integration of Alu retrotransposons and, more generally to various transposable elements in the genomes of primates and other vertebrates.
Liste complète des métadonnées

Littérature citée [82 références]  Voir  Masquer  Télécharger

https://hal.archives-ouvertes.fr/hal-01766614
Contributeur : Françoise Argoul <>
Soumis le : vendredi 13 avril 2018 - 17:49:18
Dernière modification le : mardi 29 mai 2018 - 17:34:51

Fichier

BrunetBioJ2018-Postprint.pdf
Fichiers produits par l'(les) auteur(s)

Licence


Distributed under a Creative Commons Paternité - Pas d'utilisation commerciale - Pas de modification 4.0 International License

Identifiants

Collections

Citation

Frédéric Brunet, Benjamin Audit, Guénola Drillon, Françoise Argoul, Jean-Nicolas Volff, et al.. Evidence for DNA Sequence Encoding of an Accessible Nucleosomal Array across Vertebrates. Biophysical Journal, Biophysical Society, In press, 114 (10), pp.2308-2316. 〈10.1016/j.bpj.2018.02.025〉. 〈hal-01766614〉

Partager

Métriques

Consultations de la notice

118

Téléchargements de fichiers

22