Unknown

Dataset Information

0

A role of the CTCF binding site at enhancer E? in the dynamic chromatin organization of the Tcra-Tcrd locus.

ABSTRACT: The regulation of T cell receptor Tcra gene rearrangement has been extensively studied. The enhancer E? plays an essential role in Tcra rearrangement by establishing a recombination centre in the J? array and a chromatin hub for interactions between V? and J? genes. But the mechanism of the E? and its downstream CTCF binding site (here named EACBE) in dynamic chromatin regulation is unknown. The Hi-C data showed that the EACBE is located at the sub-TAD boundary which separates the Tcra-Tcrd locus and the downstream region including the Dad1 gene. The EACBE is required for long-distance regulation of the E? on the proximal V? genes, and its deletion impaired the Tcra rearrangement. We also noticed that the EACBE and E? regulate the genes in the downstream sub-TAD via asymmetric chromatin extrusion. This study provides a new insight into the role of CTCF binding sites at TAD boundaries in gene regulation.

SUBMITTER: Zhao H 

PROVIDER: S-EPMC7515734 | biostudies-literature | 2020 Sep

REPOSITORIES: biostudies-literature

Json Xml
altmetric image

Publications

A role of the CTCF binding site at enhancer Eα in the dynamic chromatin organization of the Tcra-Tcrd locus.

Zhao Hao H   Li Zhaoqiang Z   Zhu Yongchang Y   Bian Shasha S   Zhang Yan Y   Qin Litao L   Naik Abani Kanta AK   He Jiangtu J   Zhang Zhenhai Z   Krangel Michael S MS   Hao Bingtao B  

Nucleic acids research 20200901 17

The regulation of T cell receptor Tcra gene rearrangement has been extensively studied. The enhancer Eα plays an essential role in Tcra rearrangement by establishing a recombination centre in the Jα array and a chromatin hub for interactions between Vα and Jα genes. But the mechanism of the Eα and its downstream CTCF binding site (here named EACBE) in dynamic chromatin regulation is unknown. The Hi-C data showed that the EACBE is located at the sub-TAD boundary which separates the Tcra-Tcrd locu  ...[more]

Similar Datasets

Unknown Tcra gene recombination is supported by a Tcra enhancer- and CTCF-dependent chromatin hub.
| S-EPMC3528579 | biostudies-literature
Unknown A discrete chromatin loop in the mouse Tcra-Tcrd locus shapes the TCRδ and TCRα repertoires.
| S-EPMC4575630 | biostudies-literature
Unknown Chromatin Domain Organization of the TCRb Locus and Its Perturbation by Ectopic CTCF Binding.
| S-EPMC5394274 | biostudies-literature
Unknown Specification of Vδ and Vα usage by Tcra/Tcrd locus V gene segment promoters.
| S-EPMC4282949 | biostudies-literature
Unknown Tcrd Rearrangement Redirects a Processive Tcra Recombination Program to Expand the Tcra Repertoire.
| S-EPMC5529038 | biostudies-literature
Genomics A role of the CTCF binding site at enhancer Ea in Tcra rearrangement
2020-02-13 | GSE145147 | GEO
Transcriptomics An ectopic CTCF binding element disturbs Vδ usage at the mouse Tcra-Tcrd locus by regulating contact between Vδ and Dδ gene segments
2016-09-02 | E-GEOD-81351 | biostudies-arrayexpress
Unknown E protein binding at the <i>Tcra</i> enhancer promotes <i>Tcra</i> repertoire diversity.
| S-EPMC10358851 | biostudies-literature
Transcriptomics A discrete chromatin loop in the murine Tcra/Tcrd locus shapes the TCRδ and TCRα repertoires
2015-08-10 | E-GEOD-67442 | biostudies-arrayexpress
Other An ectopic CTCF binding element disturbs Vδ usage at the mouse Tcra-Tcrd locus by regulating contact between Vδ and Dδ gene segments
2016-09-02 | GSE81351 | GEO