Remote control of gene transcription

Human Molecular Genetics

Volumn 14, Issue SPEC. ISS. 1, 2005, Pages

  West, Adam G ^a   Fraser, Peter ^b  

^a UNIVERSITY OF GLASGOW   (United Kingdom)

^b BABRAHAM INSTITUTE   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

BETA GLOBIN; DNA; NICOTINAMIDE ADENINE DINUCLEOTIDE ADENOSINE DIPHOSPHATE RIBOSYLTRANSFERASE; PROTEIN CTCF; REGULATOR PROTEIN; TRANSCRIPTION FACTOR CTF 1; UNCLASSIFIED DRUG;

CELL NUCLEUS; CHROMATIN ASSEMBLY AND DISASSEMBLY; CHROMATIN STRUCTURE; DNA SEQUENCE; DNA STRUCTURE; ENHANCER REGION; GENE ACTIVATION; GENE EXPRESSION REGULATION; GENE FUNCTION; GENE INTERACTION; GENE LOCATION; GENE LOCUS; GENE SILENCING; GENE TARGETING; GENETIC DISTANCE; GENETIC LINKAGE; GENETIC SUSCEPTIBILITY; GENETIC TRANSCRIPTION; HETEROCHROMATIN; HUMAN; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; REGULATOR GENE; REGULATORY MECHANISM; REVIEW; TRANSCRIPTION REGULATION;

ANIMALS; CHROMATIN; DNA; ENHANCER ELEMENTS (GENETICS); GENE EXPRESSION REGULATION; HETEROCHROMATIN; HUMANS; MODELS, BIOLOGICAL; MODELS, GENETIC; PROMOTER REGIONS (GENETICS); TRANSCRIPTION, GENETIC;

EID: 17444369067     PISSN: 09646906     EISSN: None     Source Type: Journal    
DOI: 10.1093/hmg/ddi104     Document Type: Review

References (113)

1. Lettice, L.A., Heaney, S.J., Purdie, L.A., Li, L., de Beer, P., Oostra, B.A., Goode, D., Elgar, G., Hill, R.E. and de Graaff, E. (2003) A long-range Shh enhancer regulates expression in the developing limb and fin and is associated with preaxial polydactyly. Hum. Mol. Genet., 12, 1725-1735.
2. Nobrega, M.A., Ovcharenko, I., Afzal, V. and Rubin, E.M. (2003) Scanning human gene deserts for long-range enhancers. Science 302, 413.
3. Qin, Y., Kong, L.K., Poirier, C., Truong, C., Overbeek, P.A. and Bishop, C.E. (2004) Long-range activation of Sox9 in Odd Sex (Ods) mice. Hum. Mol. Genet., 13, 1213-1218.
4. Butler, J.E. and Kadonaga, J.T. (2001) Enhancer-promoter specificity mediated by DPE or TATA core promoter motifs. Genes Dev. 15, 2515-2519.
5. Calhoun, V.C., Stathopoulos, A. and Levine, M. (2002) Promoter-proximal tethering elements regulate enhancer-promoter specificity in the Drosophila Antennapedia complex. Proc. Natl. Acad. Sci. USA, 99, 9243-9247.
6. Gilbert, N., Boyle, S., Fiegler, H., Woodfine, K., Carter, N.P. and Bickmore, W.A. (2004) Chromatin architecture of the human genome: gene-rich domains are enriched in open chromatin fibers. Cell 118, 555-566.
7. Ghirlando, R., Litt, M.D., Prioleau, M.N., Recillas-Targa, F. and Felsenfeld, G. (2004) Physical properties of a genomic condensed chromatin fragment. J. Mol. Biol., 336, 597-605.
8. Grewal, S.I. and Moazed, D. (2003) Heterochromatin and epigenetic control of gene expression. Science, 301, 798-802.
9. Kleinjan, D.A. and van Heyningen, V. (2005) Long-range control of gene expression: emerging mechanisms and disruption in disease. Am. J. Hum. Genet., 76, 8-32.
10. Sharp, A.J., Spotswood, H.T., Robinson, D.O., Turner, B.M. and Jacobs, P.A. (2002) Molecular and cytogenetic analysis of the spreading of X inactivation in X; autosome translocations. Hum. Mol. Genet., 11, 3145-3156.
11. West, A.G., Gaszner, M. and Felsenfeld, G. (2002) Insulators: many functions, many mechanisms. Genes Dev., 16, 271-288.
12. Kioussis, D., Vanin, E., delange, T., Flavell, R.A. and Grosveld, F.G. (1983) Beta-globin gene inactivation by DNA translocation in gamma beta-thalassaemia. Nature, 306, 662-666.
13. Tuan, D., Solomon, W., Li, Q. and London, I.M. (1985) The "beta-like-globin" gene domain in human erythroid cells. Proc. Natl Acad. Sci. USA, 82, 6384-6388.
14. Grosveld, F., van Assendelft, G.B., Greaves, D.R. and Kollias, G. (1987) Position-independent, high-level expression of the human beta-globin gene in transgenic mice. Cell, 51, 975-985.
15. Greaves, D.R., Wilson, F.D., Lang, G. and Kioussis, D. (1989) Human CD2 3′-flanking sequences confer high-level, T cell-specific, position-independent gene expression in transgenic mice. Cell, 56, 979-986.
16. Li, Q., Peterson, K.R., Fang, X. and Stamatoyannopoulos, G. (2002) Locus control regions. Blood, 100, 3077-3086.
17. Festenstein, R., Tolaini, M., Corbella, P., Mamalaki, C., Parrington, J., Fox, M., Miliou, A., Jones, M. and Kioussis, D. (1996) Locus control region function and heterochromatin-induced position effect variegation. Science, 271, 1123-1125.
18. Milot, E., Strouboulis, J., Trimborn, T., Wijgerde, M., de Boer, E., Langeveld, A., Tan-Un, K., Vergeer, W., Yannoutsos, N., Grosveld, F. et al. (1996) Heterochromatin effects on the frequency and duration of LCR-mediated gene transcription. Cell, 87, 105-114.
19. Bulger, M., Schubeler, D., Bender, M.A., Hamilton, J., Farrell, C.M., Hardison, R.C. and Groudine, M. (2003) A complex chromatin landscape revealed by patterns of nuclease sensitivity and histone modification within the mouse beta-globin locus. Mol. Cell. Biol., 23, 5234-5244.
20. Farrell, C.M., West, A.G. and Felsenfeld, G. (2002) Conserved CTCF insulator elements flank the mouse and human beta-globin loci. Mol. Cell. Biol., 22, 3820-3831.
21. Mutskov, V.J., Farrell, C.M., Wade, P.A., Wolffe, A.P. and Felsenfeld, G. (2002) The barrier function of an insulator couples high histone acetylation levels with specific protection of promoter DNA from methylation. Genes Dev., 16, 1540-1554.
22. Bender, M.A., Bulger, M., Close, J. and Groudine, M. (2000) Beta-globin gene switching and DNase I sensitivity of the endogenous beta-globin locus in mice do not require the locus control region. Mol. Cell, 5, 387-393.
23. Reik, A., Telling, A., Zitnik, G., Cimbora, D., Epner, E. and Groudine, M. (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. Biol., 18, 5992-6000.
24. Gribnau, J., Diderich, K., Pruzina, S., Calzolari, R. and Fraser, P. (2000) Intergenic transcription and developmental remodeling of chromatin subdomains in the human beta-globin locus. Mol. Cell, 5, 377-386.
25. Cajiao, I., Zhang, A., Yoo, E.J., Cooke, N.E. and Liebhaber, S.A. (2004) Bystander gene activation by a locus control region. EMBO J., 23, 3854-3863.
26. Spitz, F., Gonzalez, F. and Duboule, D. (2003) A global control region defines a chromosomal regulatory landscape containing the HoxD cluster. Cell, 113, 405-417.
27. Foster, J.W., Dominguez-Steglich, M.A., Guioli, S., Kowk, G., Weller, P.A., Stevanovic, M., Weissenbach, J., Mansour, S., Young, I.D., Goodfellow, P.N. et al. (1994) Campomelic dysplasia and autosomal sex reversal caused by mutations in an SRY-related gene. Nature, 372, 525-530.
28. Wagner, T., Wirth, J., Meyer, J., Zabel, B., Held, M., Zimmer, J., Pasantes, J., Bricarelli, F.D., Keutel, J., Hustert, E. et al. (1994) Autosomal sex reversal and campomelic dysplasia are caused by mutations in and around the SRY-related gene SOX9. Cell, 79 1111-1120.
29. Wunderle, V.M., Critcher, R., Hastie, N., Goodfellow, P.N. and Schedl, A. (1998) Deletion of long-range regulatory elements upstream of SOX9 causes campomelic dysplasia. Proc. Natl Acad. Sci. USA, 95, 10649-10654.
30. Pop, R., Conz, C., Lindenberg, K.S., Blesson, S., Schmalenberger, B., Briault, S., Pfeifer, D. and Scherer, G. (2004) Screening of the 1 Mb SOX9 5′ control region by array CGH identifies a large deletion in a case of campomelic dysplasia with XY sex reversal. J. Med. Genet., 41, e47.
31. Lettice, L.A., Horikoshi, T., Heaney, S.J., van Baren, M.J., van der Linde, H.C., Breedveld, G.J., Joosse, M., Akarsu, N., Oostra, B.A., Endo, N. et al. (2002) Disruption of a long-range cis acting regulator for Shh causes preaxial polydactyly. Proc. Natl Acad. Sci. USA, 99, 7548-7553.
32. Tolhuis, B., Palstra, R.J., Splinter, E., Grosveld, F. and de Laat, W. (2002) Looping and interaction between hypersensitive sites in the active beta-globin locus. Mol. Cell, 10, 1453-1465.
33. Dekker, J., Rippe, K., Dekker, M. and Kleckner, N. (2002) Capturing chromosome conformation. Science, 295, 1306-1311.
34. Carter, D., Chakalova, L., Osborne, C.S., Dai, Y.F. and Fraser, P. (2002) Long-range chromatin regulatory interactions in vivo. Nat. Genet., 32, 623-626.
35. Spilianakis, C.G. and Flavell, R.A. (2004) Long-range intrachromosomal interactions in the T helper type 2 cytokine locus. Nat. Immunol., 5, 1017-1027.
36. Palstra, R.J., Tolhuis, B., Splinter, E., Nijmeijer, R., Grosveld, F. and de Laat, W. (2003) The beta-globin nuclear compartment in development and erythroid differentiation. Nat. Genet., 35 190-194.
37. Patrinos, G.P., de Krom, M., de Boer, E., Langeveld, A., Imam, A.M., Strouboulis, J., de Laat, W. and Grosveld, F.G. (2004) Multiple interactions between regulatory regions are required to stabilize an active chromatin hub. Genes Dev., 18, 1495-1509.
38. Drissen, R,, Palstra, R.J., Gillemans, N., Splinter, E., Grosveld, F., Philipsen, S. and de Laat, W. (2004) The active spatial organization of the beta-globin locus requires the transcription factor EKLF. Genes Dev., 18, 2485-2490.
39. Casolari, J.M., Brown, C.R., Komili, S., West, J., Hieronymus, H. and Silver, P.A. (2004) Genome-wide localization of the nuclear transport machinery couples transcriptional status and nuclear organization. Cell, 117, 427-439.
40. Brown, K.E., Amoils, S., Horn, J.M., Buckle, V.J., Higgs, D.R., Merkenschlager, M. and Fisher, A.G. (2001) Expression of alpha- and beta-globin genes occurs within different nuclear domains in haemopoietic cells. Nat. Cell Biol., 3, 602-606.
41. Brown, K.E., Baxter, J., Graf, D., Merkenschlager, M. and Fisher, A.G. (1999) Dynamic repositioning of genes in the nucleus of lymphocytes preparing for cell division. Mol. Cell, 3, 207-217.
42. Mahy, N.L., Perry, P.E., Gilchrist, S., Baldock, R.A, and Bickmore, W.A. (2002) Spatial organization of active and inactive genes and noncoding DNA within chromosome territories. J. Cell Biol., 157, 579-589.
43. Ragoczy, T., Telling, A., Sawado, T., Groudine, M. and Kosak, S.T. (2003) A genetic analysis of chromosome territory looping: diverse roles for distal regulatory elements. Chromosome Res., 11, 513-525.
44. Chambeyron, S. and Bickmore, W.A. (2004) Chromatin decondensation and nuclear reorganization of the HoxB locus upon induction of transcription. Genes Dev., 18, 1119-1130.
45. Verschure, P.J., van Der Kraan, I., Manders, E.M. and van Driel, R. (1999) Spatial relationship between transcription sites and chromosome territories. J. Cell Biol., 147, 13-24.
46. Zink, D., Amaral, M.D., Englmann, A., Lang, S., Clarke, L.A., Rudolph, C., Alt, F., Luther, K., Braz, C., Sadoni, N. et al. (2004) Transcription-dependent spatial arrangements of CFTR and adjacent genes in human cell nuclei. J. Cell Biol., 166, 815-825.
47. Osborne, C.S., Chakalova, L., Brown, K.E., Carter, D., Horton, A,, Debrand, E., Goyenechea, B., Mitchell, J.A., Lopes, S., Reik, W. et al. (2004) Active genes dynamically colocalize to shared sites of ongoing transcription. Nat. Genet., 36, 1065-1071.
48. Iborra, F.J., Pombo, A., Jackson, D.A. and Cook, P.R. (1996) Active RNA polymerases are localized within discrete transcription "factories' in human nuclei. J. Cell Sci., 109, 1427-1436.
49. Cook, P.R. (2002) Predicting three-dimensional genome structure from transcriptional activity. Nat. Genet., 32, 347-352.
50. Misteli, T. (2001) The concept of self-organization in cellular architecture. J. Cell Biol., 155, 181-185.
51. Rippe, K. (2001) Making contacts on a nucleic acid polymer. Trends Biochem. Sci., 26, 733-740.
52. Ringrose, L., Chabanis, S., Angrand, P.O., Woodroofe, C. and Stewart, A.F. (1999) Quantitative comparison of DNA looping in vitro and in vivo: chromatin increases effective DNA flexibility at short distances. EMBO J., 18, 6630-6641.
53. Cook, P.R. (2003) Nongenic transcription, gene regulation and action at a distance. J. Cell Sci., 116, 4483-4491.
54. Yin, H., Wang, M.D., Svoboda, K., Landick, R., Block, S.M. and Gelles, J. (1995) Transcription against an applied force. Science 270, 1653-1657.
55. Sims, R.J., III, Belotserkovskaya, R. and Reinberg, D. (2004) Elongation by RNA polymerase II: the short and long of it. Genes Dev. 18, 2437-2468.
56. Ling, J., Ainol, L., Zhang, L., Yu, X., Pi, W. and Tuan, D. (2004) HS2 enhancer function is blocked by a transcriptional terminator inserted between the enhancer and the promoter. J. Biol. Chem., 279, 51704-51713.
57. Zhao, H. and Dean, A. (2004) An insulator blocks spreading of histone acetylation and interferes with RNA polymerase II transfer between an enhancer and gene. Nucleic Acids Res., 32, 4903-4919.
58. Dorsett, D. (1999) Distant liaisons: long-range enhancer-promoter interactions in Drosophila. Curr. Opin. Genet. Dev. 9, 505-514.
59. Bulger, M. and Groudine, M. (1999) Looping versus linking: toward a model for long-distance gene activation. Genes Dev., 13 2465-2477.
60. Rollins, R.A., Korom, M., Aulner, N., Martens, A. and Dorsett, D. (2004) Drosophila nipped-B protein supports sister chromatid cohesion and opposes the stromalin/Scc3 cohesion factor to facilitate long-range activation of the cut gene. Mol. Cell. Biol., 24, 3100-3111.
61. Hark, A.T., Schoenherr, C.J., Katz, D.J., Ingram, R.S., Levorse, J.M. and Tilghman, S.M. (2000) CTCF mediates methylation-sensitive enhancer-blocking activity at the H19/Igf2 locus. Nature, 405, 486-489.
62. Bell, A.C. and Felsenfeld, G. (2000) Methylation of a CTCF-dependent boundary controls imprinted expression of the Igf2 gene. Nature, 405, 482-485.
63. Filippova, G.N., Thienes, C.P., Penn, B.H., Cho, D.H., Hu, Y.J., Moore, J.M., Kiesert, T.R., Lobanenkov, V.V. and Tapscott, S.J. (2001) CTCF-binding sites flank CTG/CAG repeats and form a methylation-sensitive insulator at the DM1 locus. Nat. Genet., 28, 335-343.
64. Takada, S., Paulsen, M., Tevendale, M., Tsai, C.E., Kelsey, G., Cattanach, B.M. and Ferguson-Smith, A.C. (2002) Epigenetic analysis of the Dlk1-Gtl2 imprinted domain on mouse chromosome 12: implications for imprinting control from comparison with Igf2-H19. Hum. Mol. Genet. 11, 77-86.
65. Lutz, M., Burke, L.J., LeFevre, P., Myers, F.A., Thorne, A.W., Crane-Robinson, C., Bonifer, C., Filippova, G.N., Lobanenkov, V. and Renkawitz, R. (2003) Thyroid hormone-regulated enhancer blocking: cooperation of CTCF and thyroid hormone receptor. EMBO J., 22 1579-1587.
66. Hikichi, T., Kohda, T., Kaneko-Ishino, T. and Ishino, F. (2003) hnprinting regulation of the murine Meg1/Grb10 and human GRB10 genes; roles of brain-specific promoters and mouse-specific CTCF-binding sites. Nucleic Acids Res., 31, 1398-1406.
67. Ishihara, K. and Sasaki, H. (2002) An evolutionarily conserved putative insulator element near the 3′ boundary of the imprinted Igf2/H19 domain. Hum. Mol. Genet., 11, 1627-1636.
68. Fillipova, G.N., Cheng, M.K., Moore, J.M., Truong, J.P., Hu, Y.J., Nguyen, D.K., Tsuchiya, K.D. and Disteche, C.M. (2005) Boundaries between chromosomal domains of X inactivation and escape bind CTCF and lack CpG methylation during early development. Dev. Cell, 8, 31-42.
69. Magdinier, F., Yusufzai, T.M. and Felsenfeld, G. (2004) Both CTCF-dependent and -independent insulators are found between the mouse T cell receptor alpha and Dad1 genes. J. Biol. Chem., 279 25381-25389.
70. Valadez-Graham, V., Razin, S.V. and Recillas-Targa, F. (2004) CTCF-dependent enhancer blockers at the upstream region of the chicken alpha-globin gene domain. Nucleic Acids Res., 32, 1354-1362.
71. Gombert, W.M., Farris, S.D., Rubio, E.D., Morey-Rosler, K.M., Schubach, W.H. and Krumm, A. (2003) The c-myc insulator element and matrix attachment regions define the c-myc chromosomal domain. Mol. Cell. Biol., 23, 9338-9348.
72. Chao, W., Huynh, K.D., Spencer, R.J., Davidow, L.S. and Lee, J.T. (2002) CTCF, a candidate trans-acting factor for X-inactivation choice. Science, 295, 345-347.
73. Kanduri, C., Pant, V., Loukinov, D., Pugacheva, E., Qi, C.F., Wolffe, A., Ohlsson, R. and Lobanenkov, V.V. (2000) Functional association of CTCF with the insulator upstream of the H19 gene is parent of origin-specific and methylation-sensitive. Curr. Biol., 10, 853-856.
74. Kanduri, C., Fitzpatrick, G., Mukhopadhyay, R., Kanduri, M., Lobanenkov, V., Higgins, M. and Ohlsson, R. (2002) A differentially methylated imprinting control region within the Kcnq1 locus harbors a methylation-sensitive chromatin insulator. J. Biol. Chem., 277 18106-18110.
75. Gause, M., Morcillo, P. and Dorsett, D. (2001) Insulation of enhancer-promoter communication by a gypsy transposon insert in the Drosophila cut gene: cooperation between suppressor of hairy-wing and modifier of mdg4 proteins. Mol. Cell. Biol., 21, 4807-4817.
76. Yusufzai, T.M. and Felsenfeld, G. (2004) The 5′-HS4 chicken beta-globin insulator is a CTCF-dependent nuclear matrix-associated element. Proc. Natl Acad Sci. USA, 101, 8620-8624.
77. Gerasimova, T.I., Byrd, K. and Corces, V.G. (2000) A chromatin insulator determines the nuclear localization of DNA. Mol. Cell, 6, 1025-1035.
78. Xu, Q., Li, M., Adams, J. and Cai, H.N. (2004) Nuclear location of a chromatin insulator in Drosophila melanogaster. J. Cell Sci., 117, 1025-1032.
79. Byrd, K. and Corces, V.G. (2003) Visualization of chromatin domains created by the gypsy insulator of Drosophila. J. Cell Biol. 162, 565-574.
80. Chen, J.L., Huisinga, K.L., Viering, M.M., Ou, S.A., Wu, C.T. and Geyer, P.K. (2002) Enhancer action in trans is permitted throughout the Drosophila genome. Proc. Natl Acad. Sci. USA, 99, 3723-3728.
81. Schedl, P. and Broach, J.R. (2003) Making good neighbors: the right fence for the right job. Nat. Struct. Biol., 10, 241-243.
82. Ulaner, G.A., Vu, T.H., Li, T., Hu, J.F., Yao, X.M., Yang, Y., Gorlick, R., Meyers, P., Healey, J., Ladanyi, M. et al. (2003) Loss of imprinting of IGF2 and H19 in osteosarcoma is accompanied by reciprocal methylation changes of a CTCF-binding site. Hum. Mol. Genet., 12, 535-549.
83. Takai, D., Gonzales, F.A., Tsai, Y.C., Thayer, M.J. and Jones, P.A. (2001) Large scale mapping of methylcytosines in CTCF-binding sites in the human H19 promoter and aberrant hypomethylation in human bladder cancer. Hum. Mol. Genet., 10, 2619-2626.
84. Cui, H., Niemitz, E.L., Ravenel, J.D., Onyango, P., Brandenburg, S.A., Lobanenkov, V.V. and Feinberg, A.P. (2001) Loss of imprinting of insulin-like growth factor-II in Wilms' tumor commonly involves altered methylation but not mutations of CTCF or its binding site. Cancer Res., 61, 4947-4950.
85. Nakagawa, H., Chadwick, R.B., Peltomaki, P., Plass, C., Nakamura, Y. and de La Chapelle, A. (2001) Loss of imprinting of the insulin-like growth factor II gene occurs by biallelic methylation in a core region of H19-associated CTCF-binding sites in colorectal cancer. Proc. Natl Acad. Sci. USA, 98, 591-596.
86. Yu, W., Ginjala, V., Pant, V., Chernukhin, I., Whitehead, J., Docquier, F., Farrar, D., Tavoosidana, G., Mukhopadhyay, R., Kanduri, C. et al. (2004) Poly(ADP-ribosyl)ation regulates CTCF-dependent chromatin insulation. Nat. Genet., 36, 1105-1110.
87. Tulin, A. and Spradling, A. (2003) Chromatin loosening by poly(ADP)-ribose polymerase (PARP) at Drosophila puff loci. Science, 299, 560-562.
88. Muravyova, E., Golovnin, A., Gracheva, E., Parshikov, A., Belenkaya, T., Pirrotta, V. and Georgiev, P. (2001) Loss of insulator activity by paired Su(Hw) chromatin insulators. Science, 291, 495-498.
89. Cai, H.N. and Shen, P. (2001) Effects of cis arrangement of chromatin insulators on enhancer-blocking activity. Science, 291, 493-495.
90. Pai, C.Y., Lei, E.P., Ghosh, D. and Corces, V.G. (2004) The centrosomal protein CP190 is a component of the gypsy chromatin insulator. Mol. Cell, 16, 737-748.
91. Melnikova, L., Juge, F., Gruzdeva, N., Mazur, A., Cavalli, G. and Georgiev, P. (2004) Interaction between the GAGA factor and Mod(mdg4) proteins promotes insulator bypass in Drosophila. Proc. Natl Acad. Sci. USA, 101, 14806-14811.
92. Zhou, J. and Levine, M. (1999) A novel cis-regulatory element, the PTS, mediates an anti-insulator activity in the Drosophila embryo. Cell, 99, 567-575.
93. Lin, Q., Wu, D. and Zhou, J. (2003) The promoter targeting sequence facilitates and restricts a distant enhancer to a single promoter in the Drosophila embryo. Development, 130, 519-526.
94. Majumder, P. and Cai, H.N. (2003) The functional analysis of insulator interactions in the Drosophila embryo. Proc. Natl Acad. Sci. USA, 100, 5223-5228.
95. Kuhn, E.J., Viering, M.M., Rhodes, K.M. and Geyer, P.K. (2003) A test of insulator interactions in Drosophila.EMBO J., 22, 2463-2471.
96. Blanton, J., Gaszner, M. and Schedl, P. (2003) Protein:protein interactions and the pairing of boundary elements in vivo. Genes Dev., 17, 664-675.
97. 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.
98. Szabo, P.E., Tang, S.H., Reed, M.R., Silva, F.J., Tsark, W.M. and Mann, J.R. (2002) The chicken beta-globin insulator element conveys chromatin boundary activity but not imprinting at the mouse Igf2/H19 domain. Development, 129, 897-904.
99. Kaffer, C.R., Srivastava, M., Park, K.Y., Ives, E., Hsieh, S., Batlle, J., Grinberg, A., Huang, S.P. and Pfeifer, K. (2000) A transcriptional insulator at the imprinted H19/Igf2 locus. Genes Dev. 14, 1908-1919.
100. West, A.G., Huang, S,, Gaszner, M., Litt, M.D. and Felsenfeld, G. (2004) Recruitment of histone modifications by USF proteins at a vertebrate barrier element. Mol. Cell, 16, 453-463.
101. Recillas-Targa, F., Pikaart, M,J., Burgess-Beusse, B., Bell, A.C., Litt, M.D., West, A.G., Gaszner, M. and Felsenfeld, G. (2002) Position-effect protection and enhancer blocking by the chicken beta-globin insulator are separable activities. Proc. Natl Acad. Sci. USA, 99, 6883-6888.
102. Belozerov, V.E., Majumder, P., Shen, P. and Cai, H.N. (2003) A novel boundary element may facilitate independent gene regulation in the Antennapedia complex of Drosophila. EMBO J., 22, 3113-3121.
103. Recillas-Targa, F., Valadez-Graham, V. and Farrell, C.M. (2004) Prospects and implications of using chromatin insulators in gene therapy and transgenesis. Bioessays, 26, 796-807.
104. Noma, K., Allis, C.D. and Grewal, S.I. (2001) Transitions in distinct histone H3 methylation patterns at the heterochromatin domain boundaries. Science, 293, 1150-1155.
105. Ishii, K., Arib, G., Lin, C., Van Houwe, G. and Laemmli, U.K. (2002) Chromatin boundaries in budding yeast: the nuclear pore connection. Cell, 109, 551-562.
106. Oki, M., Valenzuela, L., Chiba, T., Ito, T. and Kamakaka, R.T. (2004) Barrier proteins remodel and modify chromatin to restrict silenced domains. Mol. Cell. Biol., 24, 1956-1967.
107. Bi, X. and Broach, J.R. (2001) Chromosomal boundaries in S. cerevisiae. Curr. Opin. Genet. Dev., 11, 199-204.
108. Ferrari, S., Carmine-Simmen, K., Dusserre, Y., Muller, K., Fourel, G., Gilson, E. and Mermod, N. (2004) Chromatin domain boundaries delimited by a histone-binding protein in yeast. J. Biol. Chem., 279, 55520-55530.
109. Donze, D. and Kamakaka, R.T. (2002) Braking the silence: how heterochromatic gene repression is stopped in its tracks. Bioessays 24, 344-349.
110. Chiu, Y.H., Yu, Q., Sandmeier, J.J. and Bi, X. (2003) A targeted histone acetyltransferase can create a sizable region of hyperacetylated chromatin and counteract the propagation of transcriptionally silent chromatin. Genetics, 165, 115-125.
111. Litt, M.D., Simpson, M., Gaszner, M,, Allis, C.D. and Felsenfeld, G. (2001) Correlation between histone lysine methylation and developmental changes at the chicken beta-globin locus. Science, 293, 2453-2455.
112. Litt, M.D., Simpson, M., Recillas-Targa, F., Prioleau, M.N. and Felsenfeld, G. (2001) Transitions in histone acetylation reveal boundaries of three separately regulated neighboring loci. EMBO J., 20, 2224-2235.
113. Morshead, K.B., Ciccone, D.N., Taverna, S.D., Allis, C.D. and Oettinger, M.A. (2003) Antigen receptor loci poised for V(D)J rearrangement are broadly associated with BRG1 and flanked by peaks of histone H3 dimethylated at lysine 4. Proc. Natl Acad. Sci. USA, 100, 11577-11582.