Long-distance control of origin choice and replication timing in the human β-globin locus are independent of the locus control region

Molecular and Cellular Biology

Volumn 20, Issue 15, 2000, Pages 5581-5591

  Cimbora, Daniel M ^a   Schübeler, Dirk ^a   Reik, Andreas ^a   Hamilton, Joan ^a   Francastel, Claire ^a   Epner, Elliot M ^b   Groudine, Mark ^a,c  

^a Fred Hutchinson Cancer Research Center   (United States)

^b UNIVERSITY OF ARIZONA COLLEGE OF MEDICINE   (United States)

^c UNIVERSITY OF WASHINGTON   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BETA GLOBIN; NUCLEASE;

ANIMAL CELL; ARTICLE; CELL CYCLE S PHASE; DNA CONFORMATION; DNA REPLICATION; GENE EXPRESSION; GENE LOCUS; GENETIC TRANSCRIPTION; NONHUMAN; PRIORITY JOURNAL;

ANIMALS; CELL LINE; DEOXYRIBONUCLEASE I; DNA REPLICATION; ERYTHROID PROGENITOR CELLS; GLOBINS; HUMANS; MICE; REPLICATION ORIGIN; SEQUENCE DELETION; TIME FACTORS;

ANIMALIA; MURINAE;

EID: 0343953085     PISSN: 02707306     EISSN: None     Source Type: Journal    
DOI: 10.1128/MCB.20.15.5581-5591.2000     Document Type: Article

References (61)

1. Aladjem, M. I., M. Groudine, L. L. Brody, E. S. Dieken, R. E. Fournier, G. M. Wahl, and E. M. Epner. 1995. Participation of the human beta-globin locus central region in initiation of DNA replication. Science 270:815-819.
2. Aladjem, M. I., L. W. Rodewald, J. L. Kolman, and G. M. Wahl. 1998. Genetic dissection of a mammalian replicator in the human beta-globin locus. Science 281:1005-1009.
3. Bender, M., M. Bulger, J. Close, and M. Groudine. 2000. Glohin gene switching and DNaseI sensitivity of the endogenous β globin locus in mice do not require the locus control region. Mol. Cell 5:387-393.
4. Bergemann, A. D., and E. M. Johnson. 1992. The HeLa Pur factor binds single-stranded DNA at a specific element conserved in gene flanking regions and origins of DNA replication. Mol. Cell. Biol. 12:1257-1265.
5. Brown, B. A., R. W. Padgett, S. C. Hardies, C. A. Hutchison, and M. H. Edgell. 1982. Beta-globin transcript found in induced murine erythroleukemia cells is homologous to the beta H0 and beta h1 genes. Proc. Natl. Acad. Sci. USA 79:2753-2757.
6. Brown, E. H., M. A. Iqbal, S. Stuart, K. S. Hatton, J. Valinsky, and C. L. Schildkraut. 1987. Rate of replication of the murine immunoglobulin heavychain locus: evidence that the region is part of a single replicon. Mol. Cell. Biol. 7:450-457.
7. Bulger, M., J. H. van Doorninck, N. Saitoh, A. Telling, C. Farrell, M. A. Bender, G. Felsenfeld, R. Axel, and M. Groudine. 1999. Conservation of sequence and structure flanking the mouse and human beta-globin loci: the beta-globin genes are embedded within an array of odorant receptor genes. Proc. Natl. Acad. Sci. USA 96:5129-5134.
8. Calza, R. E., L. A. Eckhardt, T. DelGiudice, and C. L. Schildkraut. 1984. Changes in gene position are accompanied by a change in time of replication. Cell 36:689-696.
9. Chang, C. F., G. L. Gallia, V. Muralidharan, N. N. Chen, P. Zoltick, E. Johnson, and K. Khalili. 1996. Evidence that replication of human neurotropic JC virus DNA in glial cells is regulated by the sequence-specific single-stranded DNA-binding protein Pur alpha. J. Virol. 70:4150-4156.
10. DePamphilis, M. L. 1996. Origins of DNA replication, p. 48-86. In M. DePamphilis (ed.), DNA replication in eukaryotic cells. Cold Spring Harbor Laboratory Press, Plainview, N. Y.
11. Dhar, V., D. Mager, A. Iqbal, and C. L. Schildkraut. 1988 The coordinate replication of the human beta-globin gene domain reflects its transcriptional activity and nuclease hypersensitivity. Mol. Cell. Biol. 8:4958-4965.
12. Dhar, V., A. I. Skoultchi, and C. L. Schildkraut. 1989. Activation and repression of a beta-globin gene in cell hybrids is accompanied by a shift in its temporal replication. Mol. Cell. Biol. 9:3524-3532.
13. Dieken, E. S., E. M. Epner, S. Fiering, R. E. Fournier, and M. Groudine. 1996. Efficient modification of human chromosomal alleles using recombination-proficient chicken/human microcell hybrids. Nat. Genet. 12:174-182.
14. Disteche, C. M., E. M. Eicher, and S. A. Latt. 1979. Late replication in an X-autosome translocation in the mouse: correlation with genetic inactivation and evidence for selective effects during embryogenesis. Proc. Natl. Acad. Sci. USA 76:5234-5238.
15. Driscoll, M. C., C. S. Dobkin, and B. P. Alter. 1989. Gamma delta beta-thalassemia due to a de novo mutation deleting the 5' beta-globin gene activation-region hypersensitive sites. Proc. Natl. Acad. Sci. USA 86:7470-7474.
16. Epner, E., W. C. Forrester, and M. Groudine. 1988. Asynchronous DNA replication within the human beta-globin gene locus. Proc. Natl. Acad. Sci. USA 85:8081-8085.
17. Epner, E., A. Reik, D. Cimbora, A. Telling, M. A. Bender, S. Fiering, T. Enver, D. I. Martin, M. Kennedy, G. Keller, and M. Groudine. 1998. The beta-globin LCR is not necessary for an open chromatin structure or developmentally regulated transcription of the native mouse beta-globin locus. Mol. Cell 2:447-455.
18. Epner, E., R. A. Rifkind, and P. A. Marks. 1981. Replication of alpha and beta globin DNA sequences occurs during early S phase in murine erythroleukemia cells. Proc. Natl. Acad. Sci. USA 78:3058-3062.
19. Forrester, W. C., E. Epner, M. C. Driscoll, T. Enver, M. Brice, T. Papayannopoulou, and M. Groudine. 1990. A deletion of the human beta-globin locus activation region causes a major alteration in chromatin structure and replication across the entire beta-globin locus. Genes Dev. 4:1637-1649.
20. Francastel, C., M. C. Walters, M. Groudine, and D. I. K. Martin. 1999 A functional enhancer supresses silencing of a transgene and prevents its localization close to centromeric heterochromatin. Cell 99:259-269.
21. Gerbi, S. A., and A. K. Bielinsky. 1997. Replication initiation point mapping. Methods 13:271-280.
22. Grosveld, F., G. B. van Assendelft, D. R. Greaves, and G. Kollias. 1987. Position-independent, high-ievel expression of the human beta-globin gene in transgenic mice. Cell 51:975-985.
23. Groudine, M., T. Kohwi-Shigematsu, R. Gelinas, G. Stamatoyannopoulos, and T. Papayannopoulou. 1983. Human fetal to adult hemoglobin switching: changes in chromatin structure of the beta-glohin gene locus. Proc. Natl. Acad. Sci. USA 80:7551-7555.
24. Guinta, D. R., J. Y. Tso, S. Narayanswami, B. A. Hamkalo, and L. J. Korn. 1986. Early replication and expression of oocyte-type 5S RNA genes in a Xenopus somatic cell line carrying a translocation. Proc. Natl. Acad. Sci. USA 83:5150-5154.
25. Hansen, R. S., T. K. Canfield, M. M. Lamb, S. M. Gartler, and C. D. Laird. 1993. Association of fragile X syndrome with delayed replication of the FMR1 gene. Cell 73:1403-1409.
26. Hatton, K. S., V. Dhar, E. H. Brown, M. A. Iqbal, S. Stuart, V. T. Didamo, and C. L, Schildkraut. 1988. Replication program of active and inactive multigene families in mammalian cells. Mol. Cell. Biol. 8:2149-2158.
27. Higgs, D. R. 1998. Do LCRs open chromatin domains? Cell 95:299-302.
28. Holmquist, G. P. 1987. Role of replication time in the control of tissuespecific gene expression. Am. J. Hum. Genet. 40:151-173.
29. Iguchi-Ariga, S. M., N. Ogawa, and H. Ariga. 1993. Identification of the initiation region of DNA replication in the murine immunoglobulin heavy chain gene and possible function of the octamer motif as a putative DNA replication origin in mammalian cells. Biochim. Biophys. Acta 1172:73-81.
30. Itoh, H., M. J. Wortman, M. Kanovsky. R. R. Uson, R. E. Gordon, N. Alfano, and E. M. Johnson. 1998. Alterations in Pur(alpha) levels and intracellular localization in the CV-1 cell cycle. Cell Growth Differ. 9:651-665.
31. Jacob, F., S. Brenner, and F. Cuzin. 1964. On the regulation of DNA replication in bacteria. Cold Spring Harbor Symp. Quant. Biol. 28:329-348.
32. Jones, C., L. Penny, T. Mattina, S. Yu, E. Baker, L. Voullaire, W. Y. Langdon, G. R. Sutherland, R. I. Richards, and A. Tunnacliffe. 1995. Association of a chromosome deletion syndrome with a fragile site within the protooncogene CBL2. Nature 376:145-149.
33. Kalejta, R. F., X. Li, L. D. Mesner, P. A. Dijkwel, H. B. Lin, and J. L. Hamlin. 1998. Distal sequences, but not ori-beta/OBR-1, are essential for initiation of DNA replication in the Chinese hamster DHFR origin. Mol. Cell 2:797-806.
34. Karube, T., and S. Watanabe. 1988. Analysis of the chromosomal DNA replication pattern using the bromodeoxyuridine labeling method. Cancer Res. 48:219-222.
35. Kitsberg, D., S. Selig, I. Keshet, and H. Cedar. 1993. Replication structure of the human beta-glohin gene domain. Nature 366:588-590.
36. Kobayashi, T., T. Rein, and M. L. DePamphilis. 1998 Identification of primary initiation sites for DNA replication in the hamster dihydrofolate reductase gene initiation zone. Mol. Cell. Biol. 18:3266-3277.
37. Lawlis, S. J., S. M. Keezer, J. R. Wu, and D. M. Gilbert. 1996. Chromosome architecture can dictate site-specific initiation of DNA replication in Xenopus egg extracts. J. Cell Biol. 135:1207-1218.
38. Malott, M., and M. Leffak. 1999. Activity of the c-myc replicator at an ectopic chromosomal location. Mol. Cell. Biol. 19:5685-5695.
39. Manders, E. M., J. Stap, G. J. Brakenhoff, R. van Driel, and J. A. Aten. 1992. Dynamics of three-dimensional replication patterns during the S-phase. analysed by double labelling of DNA and confocal microscopy. J. Cell Sci. 103:857-862.
40. Nakayasu, H., and R. Berezney. 1989. Mapping replicational sites in the eucaryotic cell nucleus. J. Cell Biol. 108:1-11.
41. O'Keefe, R. T., S. C. Henderson, and D. L. Spector. 1992. Dynamic organization of DNA replication in mammalian cell nuclei: spatially and temporally defined replication of chromosome-specific alpha-satellite DNA sequences. J. Cell Biol. 116:1095-1110.
42. Orr-Weaver, T. L., C. G. Johnston, and A. C. Spradling. 1989 The role of ACE3 in Drosophila chorion gene amplification. EMBO J. 8:4153-4162.
43. Pederson, D., and N. Heintz. 1994. Transcription factors and DNA replication. R. G. Landes, Austin, Tex.
44. Phi-van, L., and W. H. Stratling. 1999. An origin of bidirectional DNA replication is located within a CpG island at the 3' end of the chicken lysozyme gene. Nucleic Acids Res. 27:3009-3017.
45. Raich, N., T. Enver, B. Nakamoto, B. Josephson, T. Papayannopoulou, and G. Stamatoyannnpoulos. 1990. Autonomous developmental control of human embryonic globin gene switching in transgenic mice. Science 250:1147-1149.
46. Reik, A., A. Telling, G. Zitnik, D. Cimbora, E. Epner, and M. Groudine. 1998. The locus control region is necessary for gene expression in the human beta-globin locus but not the maintenance of an open chromatin structure in erythroid cells. Mol. Cell. Biology 18:5992-6000.
47. Schübeler, D., G. Francastel, D. M. Cimbora, A. Reik, D. I. K. Martin, and M. Groudine. 2000. Nuclear localization and histone acetylation: a pathway for chromatin opening and transcriptional activation of the human β-globin locus. Genes Dev. 14:940-950.
48. Simon, I., and H. Cedar. 1996. Temporal order of DNA replication, p. 387-408. In M. DePamphilis (ed.), DNA replication in eukaryotic cells. Cold Spring Harbor Laboratory Press, Plainview, N.Y.
49. Simpson, R. T. 1990. Nucleosome positioning can affect the function of a cis-acting DNA element in vivo. Nature 343:387-389.
50. Smith, Z. E., and D. R. Higgs. 1999. The pattern of replication at a human telomeric region (16p13.3): its relationship to chromosome structure and gene expression. Hum. Mol. Genet. 8:1373-1386.
51. Stamatoyannopoulos, G., and A. W. Nienhuis. 1994. Hemoglobin switching, p. 107-155. In G. Stamatoyannopoulos, A. W. Nienhuis, P. W. Majerus, and H. Varmus (ed.), The molecular basis of blood disease. W. B. Saunders, Philadelphia, Pa.
52. Stillman, B. 1993. DNA replication: replicator renaissance. Nature 366:506-507.
53. Taira, T., S. M. Iguchi-Ariga, and H. Ariga. 1994. A novel DNA replication origin identified in the human heat shock protein 70 gene promoter. Mol. Cell. Biol. 14:6386-6397.
54. Takagi, N. 1974. Differentiation of X chromosomes in early female mouse embryos. Exp. Cell Res. 86:127-135.
55. van der Vliet, P. 1996. Roles of transcription factors in DNA replication, p. 87-118. In M. DePamphilis (ed.), DNA replication in eukaryotic cells. Cold Spring Harbor Laboratory Press, Plainview. N.Y.
56. Wahrman, J., C. Richler, E. Neufeld, and A. Friedmann. 1983. The origin of multiple sex chromosomes in the gerbil Gerbillus gerbillus (Rodentia: Gerbillinae). Cytogenet. Cell Genet. 35:161-180.
57. Widrow, R. J. 1999. Ph.D. thesis. University of Washington, Seattle.
58. Widrow, R. J., R. S. Hansen, H. Kawame, S. M. Gartler, and C. D. Laird. 1998. Very late DNA replication in the human cell cycle. Proc. Natl. Acad. Sci. USA 95:11246-11250.
59. Wiebauer, K., D. L. Gumucio, J. M. Jones, R. M. Caldwell, H. T. Hartle, and M. H. Meisler. 1985. A 78-kilobase region of mouse chromosome 3 contains salivary and pancreatic amylase genes and a pseudogene. Proc. Natl. Acad. Sci. USA 82:5446-5449.
60. Yagi, M., R. Gelinas, J. T. Elder, M. Peretz, T. Papayannopoulou, G. Stamatoyannopoulos, and M. Groudine. 1986. Chromatin structure and developmental expression of the human alpha-globin cluster. Mol. Cell. Biol. 6:1108-1116.
61. Zitnik, G., P. Hines, G. Stamatoyannopoulos, and T. Papayannopoulou. 1991. Murine erythroleukemia cell line GM979 contains factors that can activate silent chromosomal human gamma-globin genes. Proc. Natl. Acad. Sci. USA 88:2530-2534.