![[Feedback]](/icons/banner/feedbackACT.gif){kind=icon}
![[For Subscribers]](/icons/banner/subscriberACT.gif){kind=icon}
![[Archive]](/icons/banner/archiveACT.gif){kind=icon}
![[Search]](/icons/banner/searchACT.gif){kind=icon}
![[Contents]](/icons/banner/tocACT.gif){kind=icon}
|
|
|
|
|
||
RESEARCH PAPER
MRC Human Genetics Unit, Edinburgh EH4 2XU, United Kingdom
The colinearity of genes in Hox clusters suggests a role for chromosome structure in gene regulation. We reveal programmed changes in chromatin structure and nuclear organization upon induction of Hoxb expression by retinoic acid. There is an early increase in the histone modifications that are marks of active chromatin at both the early expressed gene Hoxb1, and also at Hoxb9 that is not expressed until much later. There is also a visible decondensation of the chromatin between Hoxb1 and Hoxb9 at this early stage. However, a further change in higher-order chromatin structure, looping out of genes from the chromosome territory, occurs in synchrony with the execution of the gene expression program. We suggest that higher-order chromatin structure regulates the expression of the HoxB cluster at several levels. Locus-wide changes in chromatin structure (histone modification and chromatin decondensation) may establish a transcriptionally poised state but are not sufficient for the temporal program of gene expression. The choreographed looping out of decondensed chromatin from chromosome territories may then allow for activation of high levels of transcription from the sequence of genes along the cluster.
[Keywords: Chromatin decondensation; chromosome territory; differentiation; gene expression; histone modification; nuclear structure]
Received November 18, 2003; revised version accepted April 2, 2004.
E-MAIL W.Bickmore{at}hgu.mrc.ac.uk; FAX 44-131-467-8456.
CiteULike 
Connotea 
Del.icio.us 
Digg 
Reddit 
Technorati What's this?
This article has been cited by other articles:
|
|
 |
|
  E. Bartova, J. Krejci, A. Harnicarova, G. Galiova, and S. Kozubek Histone Modifications and Nuclear Architecture: A Review J. Histochem. Cytochem., August 1, 2008; 56(8): 711 - 721. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 F. Grasser, M. Neusser, H. Fiegler, T. Thormeyer, M. Cremer, N. P. Carter, T. Cremer, and S. Muller Replication-timing-correlated spatial chromatin arrangements in cancer and in primate interphase nuclei J. Cell Sci., June 1, 2008; 121(11): 1876 - 1886. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. P. Atkinson, C. M. Koch, G. K. Clelland, S. Willcox, J. C. Fowler, R. Stewart, M. Lako, I. Dunham, and L. Armstrong Epigenetic Marking Prepares the Human HOXA Cluster for Activation During Differentiation of Pluripotent Cells Stem Cells, May 1, 2008; 26(5): 1174 - 1185. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 T. Yamagishi, S. Hirose, and T. Kondo Secondary DNA structure formation for Hoxb9 promoter and identification of its specific binding protein Nucleic Acids Res., April 1, 2008; 36(6): 1965 - 1975. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Morey, N. R. Da Silva, M. Kmita, D. Duboule, and W. A. Bickmore Ectopic nuclear reorganisation driven by a Hoxb1 transgene transposed into Hoxd J. Cell Sci., March 1, 2008; 121(5): 571 - 577. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. A. Finch, G. Fonseka, D. Ioannou, N. Hickson, Z. Barclay, K. Chatzimeletiou, A. Mantzouratou, A. Handyside, J. Delhanty, and D. K. Griffin Nuclear organisation in totipotent human nuclei and its relationship to chromosomal abnormality J. Cell Sci., March 1, 2008; 121(5): 655 - 663. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 K. J. Meaburn and T. Misteli Locus-specific and activity-independent gene repositioning during early tumorigenesis J. Cell Biol., January 10, 2008; 180(1): 39 - 50. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. A. Mitchell and P. Fraser Transcription factories are nuclear subcompartments that remain in the absence of transcription Genes & Dev., January 1, 2008; 22(1): 20 - 25. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Carmo-Fonseca How genes find their way inside the cell nucleus J. Cell Biol., December 17, 2007; 179(6): 1093 - 1094. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. Schneider and R. Grosschedl Dynamics and interplay of nuclear architecture, genome organization, and gene expression Genes & Dev., December 1, 2007; 21(23): 3027 - 3043. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. R. Matarazzo, S. Boyle, M. D'Esposito, and W. A. Bickmore Chromosome territory reorganization in a human disease with altered DNA methylation PNAS, October 16, 2007; 104(42): 16546 - 16551. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. Teller, I. Solovei, K. Buiting, B. Horsthemke, and T. Cremer Maintenance of imprinting and nuclear architecture in cycling cells PNAS, September 18, 2007; 104(38): 14970 - 14975. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. P. Kimura, D. Sizova, S. Handwerger, N. E. Cooke, and S. A. Liebhaber Epigenetic Activation of the Human Growth Hormone Gene Cluster during Placental Cytotrophoblast Differentiation Mol. Cell. Biol., September 15, 2007; 27(18): 6555 - 6568. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. Christova, T. Jones, P.-J. Wu, A. Bolzer, A. P. Costa-Pereira, D. Watling, I. M. Kerr, and D. Sheer P-STAT1 mediates higher-order chromatin remodelling of the human MHC in response to IFN{gamma} J. Cell Sci., September 15, 2007; 120(18): 3262 - 3270. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. P. Martins and S. A. Krawetz Decondensing the protamine domain for transcription PNAS, May 15, 2007; 104(20): 8340 - 8345. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
N. Gilbert, I. Thomson, S. Boyle, J. Allan, B. Ramsahoye, and W. A. Bickmore DNA methylation affects nuclear organization, histone modifications, and linker histone binding but not chromatin compaction J. Cell Biol., May 7, 2007; 177(3): 401 - 411. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
F. Tessadori, M.-C. Chupeau, Y. Chupeau, M. Knip, S. Germann, R. van Driel, P. Fransz, and V. Gaudin Large-scale dissociation and sequential reassembly of pericentric heterochromatin in dedifferentiated Arabidopsis cells J. Cell Sci., April 1, 2007; 120(7): 1200 - 1208. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 C. Morey, N. R. Da Silva, P. Perry, and W. A. Bickmore Nuclear reorganisation and chromatin decondensation are conserved, but distinct, mechanisms linked to Hox gene activation Development, March 1, 2007; 134(5): 909 - 919. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 L. Sessa, A. Breiling, G. Lavorgna, L. Silvestri, G. Casari, and V. Orlando Noncoding RNA synthesis and loss of Polycomb group repression accompanies the colinear activation of the human HOXA cluster RNA, February 1, 2007; 13(2): 223 - 239. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Karamboulas, A. Swedani, C. Ward, A. S. Al-Madhoun, S. Wilton, S. Boisvenue, A. G. Ridgeway, and I. S. Skerjanc HDAC activity regulates entry of mesoderm cells into the cardiac muscle lineage J. Cell Sci., October 15, 2006; 119(20): 4305 - 4314. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Chaumeil, P. Le Baccon, A. Wutz, and E. Heard A novel role for Xist RNA in the formation of a repressive nuclear compartment into which genes are recruited when silenced. Genes & Dev., August 15, 2006; 20(16): 2223 - 2237. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
N. Gheldof, T. M. Tabuchi, and J. Dekker The active FMR1 promoter is associated with a large domain of altered chromatin conformation with embedded local histone modifications PNAS, August 15, 2006; 103(33): 12463 - 12468. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
L. S. Shopland, C. R. Lynch, K. A. Peterson, K. Thornton, N. Kepper, J. v. Hase, S. Stein, S. Vincent, K. R. Molloy, G. Kreth, et al. Folding and organization of a contiguous chromosome region according to the gene distribution pattern in primary genomic sequence J. Cell Biol., July 3, 2006; 174(1): 27 - 38. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y.-i. Fujimura, K.-i. Isono, M. Vidal, M. Endoh, H. Kajita, Y. Mizutani-Koseki, Y. Takihara, M. van Lohuizen, A. Otte, T. Jenuwein, et al. Distinct roles of Polycomb group gene products in transcriptionally repressed and active domains of Hoxb8 Development, June 15, 2006; 133(12): 2371 - 2381. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. Fraser and J. D. Engel Constricting restricted transcription: the (actively?) shrinking web Genes & Dev., June 1, 2006; 20(11): 1379 - 1383. [Full Text] [PDF]
|
|
|
|
|
|
T. Ragoczy, M.A. Bender, A. Telling, R. Byron, and M. Groudine The locus control region is required for association of the murine beta-globin locus with engaged transcription factories during erythroid maturation Genes & Dev., June 1, 2006; 20(11): 1447 - 1457. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. M. Clemson, L. L. Hall, M. Byron, J. McNeil, and J. B. Lawrence The X chromosome is organized into a gene-rich outer rim and an internal core containing silenced nongenic sequences PNAS, May 16, 2006; 103(20): 7688 - 7693. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
G. Legube, S. K. McWeeney, M. J. Lercher, and A. Akhtar X-chromosome-wide profiling of MSL-1 distribution and dosage compensation in Drosophila Genes & Dev., April 1, 2006; 20(7): 871 - 883. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. M. Brown, J. Leach, J. E. Reittie, A. Atzberger, J. Lee-Prudhoe, W. G. Wood, D. R. Higgs, F. J. Iborra, and V. J. Buckle Coregulated human globin genes are frequently in spatial proximity when active J. Cell Biol., January 17, 2006; 172(2): 177 - 187. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. B. Hake, B. A. Garcia, E. M. Duncan, M. Kauer, G. Dellaire, J. Shabanowitz, D. P. Bazett-Jones, C. D. Allis, and D. F. Hunt Expression Patterns and Post-translational Modifications Associated with Mammalian Histone H3 Variants J. Biol. Chem., January 6, 2006; 281(1): 559 - 568. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. M. Boutanaev, L. M. Mikhaylova, and D. I. Nurminsky The Pattern of Chromosome Folding in Interphase Is Outlined by the Linear Gene Density Profile Mol. Cell. Biol., September 15, 2005; 25(18): 8379 - 8386. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. E. Wiblin, W. Cui, A. J. Clark, and W. A. Bickmore Distinctive nuclear organisation of centromeres and regions involved in pluripotency in human embryonic stem cells J. Cell Sci., September 1, 2005; 118(17): 3861 - 3868. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Q. Yang, R. Riblet, and C. L. Schildkraut Sites That Direct Nuclear Compartmentalization Are near the 5' End of the Mouse Immunoglobulin Heavy-Chain Locus Mol. Cell. Biol., July 15, 2005; 25(14): 6021 - 6030. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Deschamps and J. van Nes Developmental regulation of the Hox genes during axial morphogenesis in the mouse Development, July 1, 2005; 132(13): 2931 - 2942. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. Soulier, E. Clappier, J.-M. Cayuela, A. Regnault, M. Garcia-Peydro, H. Dombret, A. Baruchel, M.-L. Toribio, and F. Sigaux HOXA genes are included in genetic and biologic networks defining human acute T-cell leukemia (T-ALL) Blood, July 1, 2005; 106(1): 274 - 286. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. J. Verschure, I. van der Kraan, W. de Leeuw, J. van der Vlag, A. E. Carpenter, A. S. Belmont, and R. van Driel In Vivo HP1 Targeting Causes Large-Scale Chromatin Condensation and Enhanced Histone Lysine Methylation Mol. Cell. Biol., June 1, 2005; 25(11): 4552 - 4564. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 K. Stanislav Light Microscopy in Biological Research Biophys. J., June 1, 2005; 88(6): 3741 - 3741. [Full Text] [PDF]
|
|
|
|
|
|
S. Chambeyron, N. R. Da Silva, K. A. Lawson, and W. A. Bickmore Nuclear re-organisation of the Hoxb complex during mouse embryonic development Development, May 1, 2005; 132(9): 2215 - 2223. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
E. Martinez-Ceballos, P. Chambon, and L. J. Gudas Differences in Gene Expression between Wild Type and Hoxa1 Knockout Embryonic Stem Cells after Retinoic Acid Treatment or Leukemia Inhibitory Factor (LIF) Removal J. Biol. Chem., April 22, 2005; 280(16): 16484 - 16498. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. G. West and P. Fraser Remote control of gene transcription Hum. Mol. Genet., April 15, 2005; 14(suppl_1): R101 - R111. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Schmitt, M. Prestel, and R. Paro Intergenic transcription through a Polycomb group response element counteracts silencing Genes & Dev., March 15, 2005; 19(6): 697 - 708. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
E. Wegel, R. H. Vallejos, P. Christou, E. Stoger, and P. Shaw Large-scale chromatin decondensation induced in a developmentally activated transgene locus J. Cell Sci., March 1, 2005; 118(5): 1021 - 1031. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Tabaries, J. Lapointe, T. Besch, M. Carter, J. Woollard, C. K. Tuggle, and L. Jeannotte Cdx Protein Interaction with Hoxa5 Regulatory Sequences Contributes to Hoxa5 Regional Expression along the Axial Skeleton Mol. Cell. Biol., February 15, 2005; 25(4): 1389 - 1401. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. E. Carpenter, S. Memedula, M. J. Plutz, and A. S. Belmont Common Effects of Acidic Activators on Large-Scale Chromatin Structure and Transcription Mol. Cell. Biol., February 1, 2005; 25(3): 958 - 968. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. P. Martins, G. C. Ostermeier, and S. A. Krawetz Nuclear Matrix Interactions at the Human Protamine Domain: A WORKING MODEL OF POTENTIATION J. Biol. Chem., December 10, 2004; 279(50): 51862 - 51868. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. T. Kosak and M. Groudine Gene Order and Dynamic Domains Science, October 22, 2004; 306(5696): 644 - 647. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. K. Zaidi, D. W. Young, J.-Y. Choi, J. Pratap, A. Javed, M. Montecino, J. L. Stein, J. B. Lian, A. J. van Wijnen, and G. S. Stein Intranuclear Trafficking: Organization and Assembly of Regulatory Machinery for Combinatorial Biological Control J. Biol. Chem., October 15, 2004; 279(42): 43363 - 43366. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Rastegar, L. Kobrossy, E. N. Kovacs, I. Rambaldi, and M. Featherstone Sequential Histone Modifications at Hoxd4 Regulatory Regions Distinguish Anterior from Posterior Embryonic Compartments Mol. Cell. Biol., September 15, 2004; 24(18): 8090 - 8103. [Abstract] [Full Text] [PDF]
|
|
