Inversion of a topological domain leads to restricted changes in its gene expression and affects interdomain communication - Archive ouverte HAL Access content directly
Journal Articles Development (Cambridge, England) Year : 2022

Inversion of a topological domain leads to restricted changes in its gene expression and affects interdomain communication

(1) , (1) , (2, 3) , (1) , (4, 5) , (1) , (6) , (6) , (1) , (1) , (5) , (1, 7)
1
2
3
4
5
6
7

Abstract

The interplay between the topological organization of the genome and the regulation of gene expression remains unclear. Depletion of molecular factors (e.g. CTCF) underlying topologically associating domains (TADs) leads to modest alterations in gene expression, whereas genomic rearrangements involving TAD boundaries disrupt normal gene expression and can lead to pathological phenotypes. Here, we targeted the TAD neighboring that of the noncoding transcript Xist, which controls X-chromosome inactivation. Inverting 245 kb within the TAD led to expected rearrangement of CTCF-based contacts but revealed heterogeneity in the ‘contact’ potential of different CTCF sites. Expression of most genes therein remained unaffected in mouse embryonic stem cells and during differentiation. Interestingly, expression of Xist was ectopically upregulated. The same inversion in mouse embryos led to biased Xist expression. Smaller inversions and deletions of CTCF clusters led to similar results: rearrangement of contacts and limited changes in local gene expression, but significant changes in Xist expression in embryos. Our study suggests that the wiring of regulatory interactions within a TAD can influence the expression of genes in neighboring TADs, highlighting the existence of mechanisms of inter-TAD communication.
Fichier principal
Vignette du fichier
dev200568.pdf (8.13 Mo) Télécharger le fichier
Origin : Publication funded by an institution

Dates and versions

hal-03746685 , version 1 (08-08-2022)

Identifiers

Cite

Rafael Galupa, Christel Picard, Nicolas Servant, Elphège P Nora, Yinxiu Zhan, et al.. Inversion of a topological domain leads to restricted changes in its gene expression and affects interdomain communication. Development (Cambridge, England), 2022, 149 (9), pp.dev200568. ⟨10.1242/dev.200568⟩. ⟨hal-03746685⟩
65 View
4 Download

Altmetric

Share

Gmail Facebook Twitter LinkedIn More