Identification of a candidate regulatory region in the human CD8 gene complex by colocalization of DNase I hypersensitive sites and matrix attachment regions which bind SATB1 and GATA-3

Lynda J. Kieffer, John M. Greally, Inna Landres, Shanta Nag, Yuko Nakajima, Terumi Kohwi-Shigematsu, Paula B. Kavathas

Research output: Contribution to journalArticle

26 Citations (Scopus)

Abstract

To locate elements regulating the human CD8 gene complex, we mapped nuclear matrix attachment regions (MARs) and DNase I hypersensitive (HS) sites over a 100-kb region that included the CD8B gene, the intergenic region, and the CD8A gene. MARs facilitate long-range chromatin remodeling required for enhancer activity and have been found closely linked to several lymphoid enhancers. Within the human CD8 gene complex, we identified six DNase HS clusters, four strong MARs, and several weaker MARs. Three of the strong MARs were closely linked to two tissue-specific DNase HS clusters (III and IV) at the 3′ end of the CD8B gene. To further establish the importance of this region, we obtained 19 kb of sequence and screened for potential binding sites for the MAR-binding protein, SATB1, and for GATA-3, both of which are critical for T cell development. By gel shift analysis we identified two strong SATB1 binding sites, located 4.5 kb apart, in strong MARs. We also detected strong GATA-3 binding to an oligonucleotide containing two GATA-3 motifs located at an HS site in cluster IV. This clustering of DNase HS sites and MARs capable of binding SATB1 and GATA-3 at the 3′ end of the CD8B gene suggests that this region is an epigenetic regulator of CD8 expression.

Original languageEnglish (US)
Pages (from-to)3915-3922
Number of pages8
JournalJournal of Immunology
Volume168
Issue number8
StatePublished - Apr 15 2002
Externally publishedYes

Fingerprint

Matrix Attachment Regions
Nucleic Acid Regulatory Sequences
Deoxyribonuclease I
Deoxyribonucleases
Genes
Matrix Attachment Region Binding Proteins
Binding Sites
Nuclear Matrix
Intergenic DNA
Chromatin Assembly and Disassembly
Electrophoretic Mobility Shift Assay
Epigenomics
Oligonucleotides
Cluster Analysis
T-Lymphocytes

ASJC Scopus subject areas

  • Immunology

Cite this

Identification of a candidate regulatory region in the human CD8 gene complex by colocalization of DNase I hypersensitive sites and matrix attachment regions which bind SATB1 and GATA-3. / Kieffer, Lynda J.; Greally, John M.; Landres, Inna; Nag, Shanta; Nakajima, Yuko; Kohwi-Shigematsu, Terumi; Kavathas, Paula B.

In: Journal of Immunology, Vol. 168, No. 8, 15.04.2002, p. 3915-3922.

Research output: Contribution to journalArticle

Kieffer, Lynda J. ; Greally, John M. ; Landres, Inna ; Nag, Shanta ; Nakajima, Yuko ; Kohwi-Shigematsu, Terumi ; Kavathas, Paula B. / Identification of a candidate regulatory region in the human CD8 gene complex by colocalization of DNase I hypersensitive sites and matrix attachment regions which bind SATB1 and GATA-3. In: Journal of Immunology. 2002 ; Vol. 168, No. 8. pp. 3915-3922.
@article{b26e1ed5ebe44820a90351f50035dd00,
title = "Identification of a candidate regulatory region in the human CD8 gene complex by colocalization of DNase I hypersensitive sites and matrix attachment regions which bind SATB1 and GATA-3",
abstract = "To locate elements regulating the human CD8 gene complex, we mapped nuclear matrix attachment regions (MARs) and DNase I hypersensitive (HS) sites over a 100-kb region that included the CD8B gene, the intergenic region, and the CD8A gene. MARs facilitate long-range chromatin remodeling required for enhancer activity and have been found closely linked to several lymphoid enhancers. Within the human CD8 gene complex, we identified six DNase HS clusters, four strong MARs, and several weaker MARs. Three of the strong MARs were closely linked to two tissue-specific DNase HS clusters (III and IV) at the 3′ end of the CD8B gene. To further establish the importance of this region, we obtained 19 kb of sequence and screened for potential binding sites for the MAR-binding protein, SATB1, and for GATA-3, both of which are critical for T cell development. By gel shift analysis we identified two strong SATB1 binding sites, located 4.5 kb apart, in strong MARs. We also detected strong GATA-3 binding to an oligonucleotide containing two GATA-3 motifs located at an HS site in cluster IV. This clustering of DNase HS sites and MARs capable of binding SATB1 and GATA-3 at the 3′ end of the CD8B gene suggests that this region is an epigenetic regulator of CD8 expression.",
author = "Kieffer, {Lynda J.} and Greally, {John M.} and Inna Landres and Shanta Nag and Yuko Nakajima and Terumi Kohwi-Shigematsu and Kavathas, {Paula B.}",
year = "2002",
month = "4",
day = "15",
language = "English (US)",
volume = "168",
pages = "3915--3922",
journal = "Journal of Immunology",
issn = "0022-1767",
publisher = "American Association of Immunologists",
number = "8",

}

TY - JOUR

T1 - Identification of a candidate regulatory region in the human CD8 gene complex by colocalization of DNase I hypersensitive sites and matrix attachment regions which bind SATB1 and GATA-3

AU - Kieffer, Lynda J.

AU - Greally, John M.

AU - Landres, Inna

AU - Nag, Shanta

AU - Nakajima, Yuko

AU - Kohwi-Shigematsu, Terumi

AU - Kavathas, Paula B.

PY - 2002/4/15

Y1 - 2002/4/15

N2 - To locate elements regulating the human CD8 gene complex, we mapped nuclear matrix attachment regions (MARs) and DNase I hypersensitive (HS) sites over a 100-kb region that included the CD8B gene, the intergenic region, and the CD8A gene. MARs facilitate long-range chromatin remodeling required for enhancer activity and have been found closely linked to several lymphoid enhancers. Within the human CD8 gene complex, we identified six DNase HS clusters, four strong MARs, and several weaker MARs. Three of the strong MARs were closely linked to two tissue-specific DNase HS clusters (III and IV) at the 3′ end of the CD8B gene. To further establish the importance of this region, we obtained 19 kb of sequence and screened for potential binding sites for the MAR-binding protein, SATB1, and for GATA-3, both of which are critical for T cell development. By gel shift analysis we identified two strong SATB1 binding sites, located 4.5 kb apart, in strong MARs. We also detected strong GATA-3 binding to an oligonucleotide containing two GATA-3 motifs located at an HS site in cluster IV. This clustering of DNase HS sites and MARs capable of binding SATB1 and GATA-3 at the 3′ end of the CD8B gene suggests that this region is an epigenetic regulator of CD8 expression.

AB - To locate elements regulating the human CD8 gene complex, we mapped nuclear matrix attachment regions (MARs) and DNase I hypersensitive (HS) sites over a 100-kb region that included the CD8B gene, the intergenic region, and the CD8A gene. MARs facilitate long-range chromatin remodeling required for enhancer activity and have been found closely linked to several lymphoid enhancers. Within the human CD8 gene complex, we identified six DNase HS clusters, four strong MARs, and several weaker MARs. Three of the strong MARs were closely linked to two tissue-specific DNase HS clusters (III and IV) at the 3′ end of the CD8B gene. To further establish the importance of this region, we obtained 19 kb of sequence and screened for potential binding sites for the MAR-binding protein, SATB1, and for GATA-3, both of which are critical for T cell development. By gel shift analysis we identified two strong SATB1 binding sites, located 4.5 kb apart, in strong MARs. We also detected strong GATA-3 binding to an oligonucleotide containing two GATA-3 motifs located at an HS site in cluster IV. This clustering of DNase HS sites and MARs capable of binding SATB1 and GATA-3 at the 3′ end of the CD8B gene suggests that this region is an epigenetic regulator of CD8 expression.

UR - http://www.scopus.com/inward/record.url?scp=0037090304&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=0037090304&partnerID=8YFLogxK

M3 - Article

C2 - 11937547

AN - SCOPUS:0037090304

VL - 168

SP - 3915

EP - 3922

JO - Journal of Immunology

JF - Journal of Immunology

SN - 0022-1767

IS - 8

ER -