Structural and functional conservation at the boundaries of the chicken β-globin domain

EMBO Journal

Volumn 19, Issue 10, 2000, Pages 2315-2322

  Saitoh, Noriko ^a   Bell, Adam C ^a   Recillas Targa, Félix ^b,d   West, Adam G ^a   Simpson, Melanie ^a   Pikaart, Michael ^c   Felsenfeld, Gary ^a  

^a NATIONAL INSTITUTE OF DIABETES AND DIGESTIVE AND KIDNEY DISEASES   (United States)

^b Howard Hughes Medical Institute Cold Spring Harbor Laboratory Cold Spring Harbor   (United States)

^c INSTITUTO DE FISIOLOGÍA CELULAR   (Mexico)

^d HOPE COLLEGE   (United States)

Author keywords

Chromatin domains; CTCF; Globin genes; Insulators; Odorant receptors

Indexed keywords

BETA GLOBIN; DEOXYRIBONUCLEASE I; TRANSCRIPTION FACTOR;

ANIMAL CELL; ARTICLE; CHICKEN; CHROMATIN; DNA BINDING; DNA SEQUENCE; ERYTHROID CELL; GENE CONSTRUCT; GENE LOCUS; GENETIC TRANSFECTION; HUMAN; HUMAN CELL; NONHUMAN; PRIORITY JOURNAL; PROTEIN DOMAIN; STRUCTURE ACTIVITY RELATION; TRANSCRIPTION REGULATION;

ANIMALIA; AVES; GALLUS GALLUS;

EID: 0034657720     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/19.10.2315     Document Type: Article

References (46)

1. Abe, K., Kusakabe, Y., Tanemura, K., Emori, Y. and Arai, S. (1993) Multiple genes for G protein-coupled receptors and their expression in lingual epithelia. FEBS Lett., 316, 253-256.
2. Arnold, R., Burcin, M., Kaiser, B., Muller, M. and Renkawitz, R. (1996) DNA bending by the silencer protein NeP1 is modulated by TR and RXR. Nucleic Acids Res., 24, 2640-2647.
3. Barton, M.C., Hoekstra, M.F. and Emerson, B.M. (1990) Site-directed, recombination-mediated mutagenesis of a complex gene locus. Nucleic Acids Res., 18, 7349-7355.
4. Bell, A.C. and Felsenfeld, G. (1999) Stopped at the border: boundaries and insulators. Curr. Opin. Genet. Dev., 9, 191-198.
5. Bell, A.C., West, A.G. and Felsenfeld, G. (1999) The protein CTCF is required for the enhancer-blocking activity of vertebrate insulators. Cell, 98, 387-396.
6. Bossy, B., Hall, L.M.C. and Spierer, P. (1984) Genetic activity along 315 kb of the Drosophila chromosome. EMBO J., 3, 2537-2541.
7. Bulger, M., Von Doominck, J.H., Saitoh, N., Telling, A., Farrell, C., Bender, M.A., Felsenfeld, G., Axel, R. and Groudine, M. (1999) Conservation of sequence and structure flunking the mouse and human β-globin loci: the β-globin genes are embedded within an array of odorant receptor genes. Proc. Natl Acad. Sci. USA, 96, 5129-5134.
8. Burcin, M., Arnold, R., Lutz, M., Kaiser, B., Runge, D., Lottspeich, F., Filippova, G.N., Lobanenkov, V.V. and Renkawitz, R. (1997) Negative protein 1, which is required for function of the chicken lysozyme gene silencer in conjunction with hormone receptors, is identical to the multivalent zinc finger repressor CTCF. Mol. Cell. Biol., 17, 1281-1288.
9. Chung, J.H., Whiteley, M. and Felsenfeld, G. (1993) A 5′ element of the chicken β-globin domain serves as an insulator in human erythroid cells and protects against position effect in Drosophila. Cell, 74, 505-514.
10. Chung, J.H., Bell, A.C. and Felsenfeld, G. (1997) Characterization of the chicken β-globin insulator. Proc. Natl Acad. Sci. USA, 94, 575-580.
11. Dreyer, W.J. (1998) The area code hypothesis revisited: olfactory receptors and other related transmembrane receptors may function as the last digits in a cell surface code for assembling embryos. Proc. Natl Acad. Sci. USA. 95, 9072-9077.
12. Drutel, G., Arrang, J.M., Diaz, J., Wisnewsky, C. Schwartz, K. and Schwartz, J.C. (1995) Cloning of OL1, a putative olfactory receptor and its expression in the developing rat heart. Receptors Channels, 3, 33-40.
13. Farache, G., Razin, S.V., Recillas-Targa, F. and Scherrer, K. (1990) Organization of the 3′-boundary of the chicken α globin gene domain and characterization of a CR1-specific protein binding site. Nucleic Acids Res., 18. 401-409.
14. Feingold, E.A., Penny,L.A., Nienhuis, A.W. and Forget, B.G. (1999) An olfactory receptor gene is located in the extended human β-globin gene cluster and is expressed in erythroid cells. Genomics, 61, 15-23.
15. Filippova, G.N., Fagerlie, S., Klenova, E.M., Myers, C., Dehner, Y., Goodwin, G., Neiman, P.E., Collins, S.J. and Lobanenkov, V.V. (1996) An exceptionally conserved transcriptional repressor, CTCF, employs different combinations of zinc fingers to bind diverged promoter sequences of avian and mammalian c-myc oncogenes. Mol. Cell. Biol., 16, 2802-2813.
16. Friedman, T.B., Owens, K.N., Burnett, J.B., Saura, A.O. and Wallrath, L.L. (1991) The faint band/interband region 28C2 to 28C4-5(-) of the Drosophila melanogaster salivary gland polytene chromosomes is rich in transcripts. Mol. Gen. Genet., 226, 81-87.
17. Gaszner, M., Vazquez, J. and Schedl, P. (1999) The Zw5 protein, a component of the scs chromatin domain boundary, is able to block enhancer-promoter interaction. Genes Dev., 13, 2098-2107.
18. Grunstein, M. (1997) Histone acetylation in chromatin structure and transcription. Nature, 389, 349-352.
19. Hebbes, T.R., Thorne, A.W. and Crane-Robinson, C. (1988) A direct link between core histone acetylation and transcriptionally active chromatin. EMBO J., 7, 1395-1402.
20. Hebbes, T.R., Clayton, A.L., Thorne, A.W. and Crane-Robinson C. (1994) Core histone hyperacetylation co-maps with generalized DNase I sensitivity in the chicken β-globin chromosomal domain. EMBO J., 13, 1823-1830.
21. Jantzen, K., Fritton, H. and Igo-Kemenes, T. (1986) The DNase I sensitive domain of the chicken lysozyme gene spans 24 kb. Nucleic Acids Res., 14, 6085-6099.
22. Kellum, R. and Schedl, P. (1991) A position-effect assay for boundaries of higher order chromosomal domains. Cell, 64, 941-950.
23. Kellum, R. and Schedl, P. (1992) A group of scs elements function as domain boundaries in an enhancer-blocking assay. Mol. Cell. Biol., 12, 2424-2431.
24. Klenova, E.M., Nicolas, R.H., Paterson, H.F., Carne, A.F., Heath, C.M., Goodwin, G.H., Neiman, P.E. and Lobanenkov, V.V. (1993) CTCF, a conserved nuclear factor required for optimal transcriptional activity of the chicken c-myc gene, is an 11-Zn-finger protein differentially expressed in multiple forms. Mol. Cell. Biol., 13, 7612-7624.
25. Lawson, G.M., Knoll, B.J., March, C.J., Woo, S.L., Tsai, M.J. and O'Malley, B.W. (1982) Definition of 5′ and 3′ structural boundaries of the chromatin domain containing the ovalbumin multigene family. J. Biol. Chem., 257, 1501-1507.
26. Li, Q. and Stamatoyannopoulos, G. (1994) Hypersensitive site 5 of the human β locus control region functions as a chromatin insulator. Blood, 84, 1399-1401.
27. Nef, S. and Nef, P. (1997) Olfaction: transient expression of a putative odorant receptor in the avian notochord. Proc. Natl Acad. Sci. USA, 94, 4766-4771.
28. O'Neill, L.P. and Turner, B.M. (1995) Histone H4 acetylation distinguishes coding regions of the human genome from heterochromatin in a differentiation-dependent but transcription-independent manner. EMBO J., 14, 3946-3957.
29. Parmentier, M., Libert, F., Schurmans, S., Schiffmann, S., Lefort, A., Eggerickx, D., Ledent, C. Mollereau, C., Gerard, C. and Perret, J. (1992) Expression of members of the putative olfactory receptor gene family in mammalian germ cells. Nature, 355, 453-455.
30. Pikaart, M.J., Feng, J. and Villeponteau, B. (1992) The polyomavirus enhancer activates chromatin accessibility on integration into the HPRT gene. Mol. Cell. Biol., 12, 5785-5792.
31. Pikaart, M.J., Recillas-Targa, F. and Felsenfeld, G. (1998) Loss of transcriptional activity of a transgene is accompanied by DNA methylation and histone deacetylation and is prevented by insulators. Genes Dev., 12, 2852-2862.
32. Prioleau, M.N., Nony, P., Simpson, M. and Felsenfeld, G. (1999) An insulator element and condensed chromatin region separate the chicken β-globin locus from an independently regulated erythroid-specific folate receptor gene. EMBO J., 18, 4035-4048.
33. Raming, K., Konzelmann, S. and Breer, H. (1998) Identification of a novel G-protein coupled receptor expressed in distinct brain regions and a defined olfactory zone. Receptors Channels, 6, 141-151.
34. Recillas-Targa, F., Bell, A.C. and Felsenfeld, G. (1999) Positional enhancer-blocking activity of the chicken β-globin insulator in transiently transfected cells. Proc. Natl Acad. Sci. USA, 96, 14354-14359.
35. Reitman, M. and Felsenfeld, G. (1990) Developmental regulation of topoisomerase II sites and DNase I-hypersensitive sites in the chicken β-globin locus. Mol. Cell. Biol., 10, 2774-2786.
36. Rykowski, M.C, Parmelee, S.J., Agard, D.A. and Sedat, J.W. (1988) Precise determination of the molecular limits of a polytene chromosome band: regulatory sequences for the Notch gene are in the interband. Cell, 54, 461-172.
37. Sambrook, J., Fritsch, E.F. and Maniatis, T. (1989) Molecular Cloning: A Laboratory Manual. 2nd edn, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
38. Staines, D.M. and Thomas, J.O. (1999) A sequence with homology to human HPFH-linked enhancer elements and to a family of G-protein linked membrane receptor genes is located downstream of the chicken β-globin locus. Gene. 234, 345-352.
39. Stalder, J., Larsen, A., Engel, J.D., Dolan, M., Groudine, M. and Weintraub, H. (1980) Tissue-specific DNA cleavages in the globin chromatin domain introduced by DNase I. Cell, 20, 451-460.
40. Tanimoto, K., Liu, Q., Bungert, J. and Engel, J.D. (1999) Effects of altered gene order or orientation of the locus control region on human β-globin gene expression in mice. Nature, 398, 344-348.
41. Verreault, A. and Thomas, J.O. (1993) Chromatin structure of the β-globin chromosomal domain in adult chicken erythrocytes. Cold Spring Harb. Symp. Quant. Biol., 58, 15-24.
42. Villeponteau, B. and Martinson, H. (1981) Isolation and characterization of the complete chicken β-globin gene region: frequent deletion of the adult β-globin genes in λ. Nucleic Acids Res., 9, 3731-3746.
43. Vostrov,A.A. and Quitschke, W.W. (1997) The zinc finger protein CTCF binds to the APBb domain of the amyloid β-protein precursor promoter. Evidence for a role in transcriptional activation. J. Biol. Chem., 272, 33353-33359.
44. Weintraub, H. and Groudine, M. (1976) Chromosomal subunits in active genes have an altered conformation. Science, 193, 848-856.
45. Woo, S.L., Beattie, W.G., Catterall, J.F., Dugaiczyk, A., Staden, R., Brownlee, G.G. and O'Malley, B.W. (1981) Complete nucleotide sequence of the chicken chromosomal ovalbumin gene and its biological significance. Biochemistry, 20, 6437-6446.
46. Zhao, K., Hart, C.M. and Laemmli, U.K. (1995) Visualization of chromosomal domains with boundary element-associated factor BEAF-32. Cell, 16, 879-889.