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PMID: 15169959 Published · ppublish English Journal Article

The 5'-HS4 chicken beta-globin insulator is a CTCF-dependent nuclear matrix-associated element.

Proceedings of the National Academy of Sciences of the United States of America ·Vol. 101 ·No. 23 ·2004-06-08 ·Pages 8620-4

Yusufzai TM, Felsenfeld G

Abstract

The protein CTCF plays an essential role in the action of a widely distributed class of vertebrate enhancer-blocking insulators, of which the first example was found in a DNA sequence element, HS4, at the 5' end of the chicken beta-globin locus. HS4 contains a binding site for CTCF that is necessary and sufficient for insulator action. Purification of CTCF has revealed that it interacts with proteins involved in subnuclear architecture, notably nucleophosmin, a 38-kDa nucleolar phosphoprotein that is concentrated in nuclear matrix preparations. In this report we show that both CTCF and the HS4 insulator element are incorporated in the matrix; HS4 incorporation depends on the presence of an intact CTCF-binding site. However the DNA sequence in the neighborhood of HS4 is not like that of canonical matrix attachment regions, and its incorporation into the matrix fraction is not sensitive to ribonuclease, suggesting that the insulator is a distinct matrix-associated element.

MeSH Terms
Animals Base Sequence Binding Sites/genetics CCCTC-Binding Factor Chickens DNA/genetics,metabolism DNA-Binding Proteins/metabolism Erythrocytes/metabolism Globins/genetics In Vitro Techniques Locus Control Region Molecular Sequence Data Nuclear Matrix/metabolism Nuclear Proteins/metabolism Nucleoplasmins Phosphoproteins/metabolism Repressor Proteins/metabolism
Chemicals
CCCTC-Binding Factor DNA-Binding Proteins Nuclear Proteins Nucleoplasmins Phosphoproteins Repressor Proteins Globins DNA
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Yusufzai Timur M
Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892-0540, USA.
Felsenfeld Gary
References (35)
35 references, click to expand
  1. A Drosophila protein that imparts directionality on a chromatin insulator is an enhancer of position-effect variegation.
    Cell. 1995 Aug 25;82(4):587-97 PMID: 7664338
  2. hnRNP proteins and B23 are the major proteins of the internal nuclear matrix of HeLa S3 cells.
    J Cell Biochem. 1996 Aug;62(2):275-89 PMID: 8844407
  3. Mathematical model to predict regions of chromatin attachment to the nuclear matrix.
    Nucleic Acids Res. 1997 Apr 1;25(7):1419-25 PMID: 9060438
  4. A nuclear matrix/scaffold attachment region co-localizes with the gypsy retrotransposon insulator sequence.
    J Biol Chem. 1998 Jan 23;273(4):2473-9 PMID: 9442099
  5. Going the distance: a current view of enhancer action.
    Science. 1998 Jul 3;281(5373):60-3 PMID: 9679020
  6. Enhancer blocking by the Drosophila gypsy insulator depends upon insulator anatomy and enhancer strength.
    Genetics. 1999 Oct;153(2):787-98 PMID: 10511558
  7. Conserved CTCF insulator elements flank the mouse and human beta-globin loci.
    Mol Cell Biol. 2002 Jun;22(11):3820-31 PMID: 11997516
  8. Position-effect protection and enhancer blocking by the chicken beta-globin insulator are separable activities.
    Proc Natl Acad Sci U S A. 2002 May 14;99(10):6883-8 PMID: 12011446
  9. Chromatin boundaries in budding yeast: the nuclear pore connection.
    Cell. 2002 May 31;109(5):551-62 PMID: 12062099
  10. Setting the boundaries of chromatin domains and nuclear organization.
    Cell. 2002 Oct 18;111(2):151-4 PMID: 12408858
  11. Long-range chromatin regulatory interactions in vivo.
    Nat Genet. 2002 Dec;32(4):623-6 PMID: 12426570
  12. Dynamics of enhancer-promoter communication during differentiation-induced gene activation.
    Mol Cell. 2002 Dec;10(6):1467-77 PMID: 12504020
  13. The insulator binding protein CTCF associates with the nuclear matrix.
    Exp Cell Res. 2003 Aug 1;288(1):218-23 PMID: 12878173
  14. Visualization of chromatin domains created by the gypsy insulator of Drosophila.
    J Cell Biol. 2003 Aug 18;162(4):565-74 PMID: 12925706
  15. Genomic imprinting controls matrix attachment regions in the Igf2 gene.
    Mol Cell Biol. 2003 Dec;23(24):8953-9 PMID: 14645508
  16. CTCF tethers an insulator to subnuclear sites, suggesting shared insulator mechanisms across species.
    Mol Cell. 2004 Jan 30;13(2):291-8 PMID: 14759373
  17. Nuclear location of a chromatin insulator in Drosophila melanogaster.
    J Cell Sci. 2004 Mar 1;117(Pt 7):1025-32 PMID: 14996934
  18. Both CTCF-dependent and -independent insulators are found between the mouse T cell receptor alpha and Dad1 genes.
    J Biol Chem. 2004 Jun 11;279(24):25381-9 PMID: 15082712
  19. The structure of histone-depleted metaphase chromosomes.
    Cell. 1977 Nov;12(3):817-28 PMID: 922894
  20. Organization of the higher-order chromatin loop: specific DNA attachment sites on nuclear scaffold.
    Cell. 1984 Nov;39(1):223-32 PMID: 6091913
  21. Half a century of "the nuclear matrix".
    Mol Biol Cell. 2000 Mar;11(3):799-805 PMID: 10712500
  22. Looping, linking, and chromatin activity: new insights into beta-globin locus regulation.
    Cell. 2000 Mar 3;100(5):499-502 PMID: 10721987
  23. Methylation of a CTCF-dependent boundary controls imprinted expression of the Igf2 gene.
    Nature. 2000 May 25;405(6785):482-5 PMID: 10839546
  24. CTCF mediates methylation-sensitive enhancer-blocking activity at the H19/Igf2 locus.
    Nature. 2000 May 25;405(6785):486-9 PMID: 10839547
  25. A new look at the nuclear matrix.
    Chromosoma. 2000 Jul;109(4):219-25 PMID: 10968250
  26. DNA supercoiling allows enhancer action over a large distance.
    Proc Natl Acad Sci U S A. 2001 Dec 18;98(26):14883-8 PMID: 11742093
  27. A chromatin insulator determines the nuclear localization of DNA.
    Mol Cell. 2000 Nov;6(5):1025-35 PMID: 11106742
  28. CTCF, a candidate trans-acting factor for X-inactivation choice.
    Science. 2002 Jan 11;295(5553):345-7 PMID: 11743158
  29. Insulators: many functions, many mechanisms.
    Genes Dev. 2002 Feb 1;16(3):271-88 PMID: 11825869
  30. Chromosomal loop anchorage of the kappa immunoglobulin gene occurs next to the enhancer in a region containing topoisomerase II sites.
    Cell. 1986 Jan 31;44(2):273-82 PMID: 3002631
  31. Identification and characterization of a hexameric form of nucleolar phosphoprotein B23.
    Biochim Biophys Acta. 1987 Jul 16;925(1):74-82 PMID: 3593769
  32. Association of RNA with the cytoskeleton and the nuclear matrix.
    J Cell Sci Suppl. 1986;5:99-119 PMID: 3477558
  33. A comprehensive study on the isolation and characterization of the HeLa S3 nuclear matrix.
    J Cell Sci. 1991 Mar;98 ( Pt 3):281-91 PMID: 1711534
  34. DNA position-specific repression of transcription by a Drosophila zinc finger protein.
    Genes Dev. 1992 Oct;6(10):1865-73 PMID: 1327958
  35. A 5' element of the chicken beta-globin domain serves as an insulator in human erythroid cells and protects against position effect in Drosophila.
    Cell. 1993 Aug 13;74(3):505-14 PMID: 8348617
Article Info
Journal
Proceedings of the National Academy of Sciences of the United States of America
Abbr.
Proc Natl Acad Sci U S A
ISSN
0027-8424
DOI
10.1073/pnas.0402938101
Published
2004-06-08
Epub
2004-00-28
Pages
8620-4
Language
English
Region
United States
NLM ID
7505876
PMCID
PMC423244
Subset
IM
External Links
PubMed source DOI: 10.1073/pnas.0402938101 PMC Full Text View journal details
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