Scholars@Duke publication: A role of the CTCF binding site at enhancer Eα in the dynamic chromatin organization of the Tcra-Tcrd locus.

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

Publication , Journal Article

Zhao, H; Li, Z; Zhu, Y; Bian, S; Zhang, Y; Qin, L; Naik, AK; He, J; Zhang, Z; Krangel, MS; Hao, B

Published in: Nucleic Acids Res

September 25, 2020

Published version (DOI) Open Access Copy (Duke) Link to item

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 locus and the downstream region including the Dad1 gene. The EACBE is required for long-distance regulation of the Eα on the proximal Vα genes, and its deletion impaired the Tcra rearrangement. We also noticed that the EACBE and Eα 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.

Duke Scholars

Author Michael S. Krangel Integrative Immunobiology

Author Abani Naik

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Published In

Nucleic Acids Res

DOI

10.1093/nar/gkaa711

EISSN

1362-4962

Publication Date

September 25, 2020

Volume

Issue

Start / End Page

9621 / 9636

Location

England

Related Subject Headings

Thymus Gland
Receptors, Antigen, T-Cell, gamma-delta
Receptors, Antigen, T-Cell, alpha-beta
Mice, Mutant Strains
Mice, Inbred C57BL
Membrane Proteins
Homeodomain Proteins
Gene Rearrangement, alpha-Chain T-Cell Antigen Receptor
Gene Expression Regulation
Enhancer Elements, Genetic

Citation

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Chicago

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MLA

NLM

Zhao, H., Li, Z., Zhu, Y., Bian, S., Zhang, Y., Qin, L., … Hao, B. (2020). A role of the CTCF binding site at enhancer Eα in the dynamic chromatin organization of the Tcra-Tcrd locus. Nucleic Acids Res, 48(17), 9621–9636. https://doi.org/10.1093/nar/gkaa711

Zhao, Hao, Zhaoqiang Li, Yongchang Zhu, Shasha Bian, Yan Zhang, Litao Qin, Abani Kanta Naik, et al. “A role of the CTCF binding site at enhancer Eα in the dynamic chromatin organization of the Tcra-Tcrd locus.” Nucleic Acids Res 48, no. 17 (September 25, 2020): 9621–36. https://doi.org/10.1093/nar/gkaa711.

Zhao H, Li Z, Zhu Y, Bian S, Zhang Y, Qin L, et al. A role of the CTCF binding site at enhancer Eα in the dynamic chromatin organization of the Tcra-Tcrd locus. Nucleic Acids Res. 2020 Sep 25;48(17):9621–36.

Zhao, Hao, et al. “A role of the CTCF binding site at enhancer Eα in the dynamic chromatin organization of the Tcra-Tcrd locus.” Nucleic Acids Res, vol. 48, no. 17, Sept. 2020, pp. 9621–36. Pubmed, doi:10.1093/nar/gkaa711.

Zhao H, Li Z, Zhu Y, Bian S, Zhang Y, Qin L, Naik AK, He J, Zhang Z, Krangel MS, Hao B. A role of the CTCF binding site at enhancer Eα in the dynamic chromatin organization of the Tcra-Tcrd locus. Nucleic Acids Res. 2020 Sep 25;48(17):9621–9636.

Published In

Nucleic Acids Res

DOI

10.1093/nar/gkaa711

EISSN

1362-4962

Publication Date

September 25, 2020

Volume

Issue

Start / End Page

9621 / 9636

Location

England

Related Subject Headings

Thymus Gland
Receptors, Antigen, T-Cell, gamma-delta
Receptors, Antigen, T-Cell, alpha-beta
Mice, Mutant Strains
Mice, Inbred C57BL
Membrane Proteins
Homeodomain Proteins
Gene Rearrangement, alpha-Chain T-Cell Antigen Receptor
Gene Expression Regulation
Enhancer Elements, Genetic