|
|
Blood, 15 November 2004, Vol. 104, No. 10, pp. 3106-3116.
Prepublished online as a Blood First Edition Paper on July 20, 2004; DOI 10.1182/blood-2004-04-1333.
 Previous Article | Table of Contents | Next Article 
HEMATOPOIESIS
Differences in the chromatin structure and cis-element organization of the human and mouse GATA1 loci: implications for cis-element identification
Veronica Valverde-Garduno,
Boris Guyot,
Eduardo Anguita,
Isla Hamlett,
Catherine Porcher, and
Paresh Vyas
From the Department of Haematology and the Medical Research Council (MRC) Molecular Haematology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Oxford, United Kingdom.
Cis-element identification is a prerequisite to understand transcriptional regulation of gene loci. From analysis of a limited number of conserved gene loci, sequence comparison has proved a robust and efficient way to locate cis-elements. Human and mouse GATA1 genes encode a critical hematopoietic transcription factor conserved in expression and function. Proper control of GATA1 transcription is critical in regulating myeloid lineage specification and maturation. Here, we compared sequence and systematically mapped position of DNase I hypersensitive sites, acetylation status of histone H3/H4, and in vivo binding of transcription factors over approximately 120 kilobases flanking the human GATA1 gene and the corresponding region in mice. Despite lying in approximately 10 megabase (Mb) conserved syntenic segment, the chromatin structures of the 2 homologous loci are strikingly different. The 2 previously unidentified hematopoietic cis-elements, one in each species, are not conserved in position and sequence and have enhancer activity in erythroid cells. In vivo, they both bind the transcription factors GATA1, SCL, LMO2, and Ldb1. More broadly, there are both species- and regulatory element–specific patterns of transcription factor binding. These findings suggest that some cis-elements regulating human and mouse GATA1 genes differ. More generally, mouse human sequence comparison may fail to identify all cis-elements.
 CiteULike  Connotea  Del.icio.us  Digg  Reddit  Technorati What's this?
This article has been cited by other articles:
|
|
|
|
 
W. Miller, K. Rosenbloom, R. C. Hardison, M. Hou, J. Taylor, B. Raney, R. Burhans, D. C. King, R. Baertsch, D. Blankenberg, et al.
28-Way vertebrate alignment and conservation track in the UCSC Genome Browser
Genome Res.,
December 1, 2007;
17(12):
1797 - 1808.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
M. Kobayashi and M. Yamamoto
Regulation of GATA1 Gene Expression
J. Biochem.,
July 1, 2007;
142(1):
1 - 10.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
A. R. Migliaccio
To code or not to code
Blood,
June 15, 2007;
109(12):
5077 - 5078.
[Full Text]
[PDF]
|
|
|
|
|
|
|
D. C. King, J. Taylor, Y. Zhang, Y. Cheng, H. A. Lawson, J. Martin, ENCODE groups for Transcriptional Regulation and M, F. Chiaromonte, W. Miller, and R. C. Hardison
Finding cis-regulatory elements using comparative genomics: Some lessons from ENCODE data
Genome Res.,
June 1, 2007;
17(6):
775 - 786.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
M. Stumpf, C. Waskow, M. Krotschel, D. van Essen, P. Rodriguez, X. Zhang, B. Guyot, R. G. Roeder, and T. Borggrefe
The mediator complex functions as a coactivator for GATA-1 in erythropoiesis via subunit Med1/TRAP220
PNAS,
December 5, 2006;
103(49):
18504 - 18509.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
H. Wang, Y. Zhang, Y. Cheng, Y. Zhou, D. C. King, J. Taylor, F. Chiaromonte, J. Kasturi, H. Petrykowska, B. Gibb, et al.
Experimental validation of predicted mammalian erythroid cis-regulatory modules
Genome Res.,
December 1, 2006;
16(12):
1480 - 1492.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
J. Taylor, S. Tyekucheva, D. C. King, R. C. Hardison, W. Miller, and F. Chiaromonte
ESPERR: Learning strong and weak signals in genomic sequence alignments to identify functional elements
Genome Res.,
December 1, 2006;
16(12):
1596 - 1604.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
B. Guyot, K. Murai, Y. Fujiwara, V. Valverde-Garduno, M. Hammett, S. Wells, N. Dear, S. H. Orkin, C. Porcher, and P. Vyas
Characterization of a Megakaryocyte-specific Enhancer of the Key Hemopoietic Transcription Factor GATA1
J. Biol. Chem.,
May 12, 2006;
281(19):
13733 - 13742.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
R. M. Johnson, T. Prychitko, D. Gumucio, D. E. Wildman, M. Uddin, and M. Goodman
Phylogenetic comparisons suggest that distance from the locus control region guides developmental expression of primate beta-type globin genes
PNAS,
February 28, 2006;
103(9):
3186 - 3191.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
A. H. Schuh, A. J. Tipping, A. J. Clark, I. Hamlett, B. Guyot, F. J. Iborra, P. Rodriguez, J. Strouboulis, T. Enver, P. Vyas, et al.
ETO-2 Associates with SCL in Erythroid Cells and Megakaryocytes and Provides Repressor Functions in Erythropoiesis
Mol. Cell. Biol.,
December 1, 2005;
25(23):
10235 - 10250.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
S. Rodriguez-Jato, R. D. Nicholls, D. J. Driscoll, and T. P. Yang
Characterization of cis- and trans-acting elements in the imprinted human SNURF-SNRPN locus
Nucleic Acids Res.,
August 22, 2005;
33(15):
4740 - 4753.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
R. Ferreira, K. Ohneda, M. Yamamoto, and S. Philipsen
GATA1 Function, a Paradigm for Transcription Factors in Hematopoiesis
Mol. Cell. Biol.,
February 15, 2005;
25(4):
1215 - 1227.
[Full Text]
[PDF]
|
|
|
| |
