The ‘Alu-ome’ shapes the epigenetic environment of regulatory elements controlling cellular defense - CNRS - Centre national de la recherche scientifique Accéder directement au contenu
Article Dans Une Revue Nucleic Acids Research Année : 2022

The ‘Alu-ome’ shapes the epigenetic environment of regulatory elements controlling cellular defense

Résumé

Promoters and enhancers are sites of transcription initiation (TSSs) and carry specific histone modifications, including H3K4me1, H3K4me3, and H3K27ac. Yet, the principles governing the boundaries of such regulatory elements are still poorly characterized. Alu elements are good candidates for a boundary function, being highly abundant in gene-rich regions, while essentially excluded from regulatory elements. Here, we show that the interval ranging from TSS to first upstream Alu, accommodates all H3K4me3 and most H3K27ac marks, while excluding DNA methylation. Remarkably, the average length of these intervals greatly varies in-between tissues, being longer in stem-and shorter in immune-cells. The very shortest TSS-to-first-Alu intervals were observed at promoters active in T-cells, particularly at immune genes, where first-Alus were traversed by RNA polymerase II transcription, while accumulating H3K4me1 signal. Finally, DNA methylation at first-Alus was found to evolve with age, regressing from young to middle-aged, then recovering later in life. Thus, the first-Alus upstream of TSSs appear as dynamic boundaries marking the transition from DNA methylation to active histone modifications at regulatory elements, while also participating in the recording of immune gene transcriptional events by positioning H3K4me1-modified nucleosomes.
Fichier principal
Vignette du fichier
gkac346.pdf (6.78 Mo) Télécharger le fichier
Origine : Fichiers éditeurs autorisés sur une archive ouverte

Dates et versions

hal-03666783 , version 1 (12-05-2022)

Identifiants

Citer

Mickael Costallat, Eric Batsché, Christophe Rachez, Christian Muchardt. The ‘Alu-ome’ shapes the epigenetic environment of regulatory elements controlling cellular defense. Nucleic Acids Research, In press, ⟨10.1093/nar/gkac346⟩. ⟨hal-03666783⟩
56 Consultations
33 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More