Chromatin boundaries require functional collaboration between the hSET1 and NURF complexes

Blood

Volumn 118, Issue 5, 2011, Pages 1386-1394

  Li, Xingguo ^a   Wang, Shaohua ^a   Li, Ying ^a   Deng, Changwang ^a   Steiner, Laurie A ^b   Xiao, Hua ^c   Wu, Carl ^c   Bungert, Jörg ^a   Gallagher, Patrick G ^b   Felsenfeld, Gary ^d   Qiu, Yi ^a,e   Huang, Suming ^a,e  

^a UNIVERSITY OF FLORIDA COLLEGE OF MEDICINE   (United States)

^b YALE UNIVERSITY SCHOOL OF MEDICINE   (United States)

^c NATIONAL CANCER INSTITUTE   (United States)

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

^e UNIVERSITY OF FLORIDA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE TRIPHOSPHATE; GLOBIN; HISTONE METHYLTRANSFERASE; HSET1 ENZYME; METHYLTRANSFERASE; NUCLEOSOME ANTIBODY; NUCLEOSOME REMODELING FACTOR; UNCLASSIFIED DRUG; UPSTREAM STIMULATORY FACTOR 1;

ANTIGEN ANTIBODY REACTION; ARTICLE; CHROMATIN; CHROMATIN STRUCTURE; ENZYME ACTIVITY; ERYTHROCYTE; GENE LOCUS; HETEROCHROMATIN; HUMAN; HUMAN CELL; IN VIVO STUDY; NUCLEOSOME; PRIORITY JOURNAL; PROTEIN PURIFICATION;

EID: 80051561684     PISSN: 00064971     EISSN: 15280020     Source Type: Journal    
DOI: 10.1182/blood-2010-11-319111     Document Type: Article

References (46)

1. Benz EJ Jr. Learning about genomics and disease from the anucleate human red blood cell. J Clin Invest. 2010;120(12):4204-4206.
2. Grewal SI, Rice JC. Regulation of heterochromatin by histone methylation and small RNAs. Curr Opin Cell Biol. 2004;16(3):230-238. (Pubitemid 38610402)
3. Gaszner M, Felsenfeld G. Insulators: exploiting transcriptional and epigenetic mechanisms. Nat Rev Genet. 2006;7(9):703-713. (Pubitemid 44260006)
4. West AG, Gaszner M, Felsenfeld G. Insulators: many functions, many mechanisms. Genes Dev. 2002;16(3):271-288. (Pubitemid 34111407)
5. Gallagher PG, Steiner LA, Liem RI, et al. Mutation of a barrier insulator in the human ankyrin-1 gene is associated with hereditary spherocytosis. J Clin Invest. 2010;120(12):4453-4465.
6. Pikaart MJ, Recillas-Targa F, Felsenfeld G. Loss of transcriptional activity of a transgene is accompanied by DNA methylation and histone deacetylation and is prevented by insulators. Genes Dev. 1998;12(18):2852-2862. (Pubitemid 28440144)
7. Recillas-Targa F, Pikaart MJ, Burgess-Beusse B, et al. Position-effect protection and enhancer blocking by the chicken beta-globin insulator are separable activities. Proc Natl Acad Sci U S A. 2002;99(10):6883-6888. (Pubitemid 34526227)
8. Litt MD, Simpson M, Recillas-Targa F, et al. Transitions in histone acetylation reveal boundaries of three separately regulated neighboring loci. EMBO J. 2001;20(9):2224-2235. (Pubitemid 32410592)
9. Litt MD, Simpson M, Gaszner M, et al. Correlation between histone lysine methylation and developmental changes at the chicken beta-globin locus. Science. 2001;293(5539):2453-2455. (Pubitemid 32917326)
10. Huang S, Litt M, Felsenfeld G. Methylation of histone H4 by arginine methyltransferase PRMT1 is essential in vivo for many subsequent histone modifications. Genes Dev. 2005;19(16):1885-1893. (Pubitemid 41186989)
11. West AG, Huang S, Gaszner M, et al. Recruitment of histone modifications by USF proteins at a vertebrate barrier element. Mol Cell. 2004;16(3):453-463. (Pubitemid 39504798)
12. Huang S, Li X, Yusufzai TM, et al. USF1 recruits histone modification complexes and is critical for maintenance of a chromatin barrier. Mol Cell Biol. 2007;27(22):7991-8002. (Pubitemid 350086431)
13. Gallagher PG, Nilson DG, Steiner LA, et al. An insulator with barrier-element activity promotes alpha-spectrin gene expression in erythroid cells. Blood. 2009;113(7):1547-1554.
14. Xiao B, Jing C, Wilson JR, et al. Structure and catalytic mechanism of the human histone methyltransferase SET7/9. Nature. 2003;421(6923):652-656. (Pubitemid 36227675)
15. Couture JF, Collazo E, Hauk G, et al. Structural basis for the methylation site specificity of SET7/9. Nat Struct Mol Biol. 2006;13(2):140-146. (Pubitemid 43214717)
16. Mutskov VJ, Farrell CM, Wade PA, et al. The barrier function of an insulator couples high histone acetylation levels with specific protection of promoter DNA from methylation. Genes Dev. 2002;16(12):1540-1554. (Pubitemid 34686335)
17. Li X, Hu X, Patel B, et al. H4R3 methylation facilitates beta-globin transcription by regulating histone acetyltransferase binding and H3 acetylation. Blood. 2010;115(10):2028-2037.
18. Panzenböck B, Bartunek P, Mapara MY, et al. Growth and differentiation of human stem cell factor/erythropoietin-dependent erythroid progenitor cells in vitro. Blood. 1998;92(10):3658-3668. (Pubitemid 28525191)
19. Migliaccio AR, Migliaccio G, Di Baldassarre A, et al. Circulating hematopoietic progenitor cells in a fetus with alpha thalassemia: comparison with the cells circulating in normal and non-thalassemic anemia fetuses and implications for in utero transplantations. Bone Marrow Transplant. 2002;30(2):75-80.
20. Zhang J, Socolovsky M, Gross AW, et al. Role of Ras signaling in erythroid differentiation of mouse fetal liver cells: functional analysis by a flow cytometry-based novel culture system. Blood. 2003;102(12):3938-3946. (Pubitemid 37486974)
21. Hamiche A, Xiao H. Methods for analysis of nucleosome sliding by Drosophila NURF. Methods Enzymol. 2004;377:353-363. (Pubitemid 38166827)
22. Lowary PT, Widom J. New DNA sequence rules for high affinity binding to histone octamer and sequence-directed nucleosome positioning. J Mol Biol. 1998;276(1):19-42. (Pubitemid 28085408)
23. Hu X, Li X, Valverde K, et al. LSD1-mediated epigenetic modification is required for TAL1 function and hematopoiesis. Proc Natl Acad Sci U S A. 2009;106(25):10141-10146.
24. Sekinger EA, Moqtaderi Z, Struhl K. Intrinsic histone-DNA interactions and low nucleosome density are important for preferential accessibility of promoter regions in yeast. Mol Cell. 2005;18(6):735-748. (Pubitemid 40804808)
25. Hamiche A, Sandaltzopoulos R, Gdula DA, et al. ATP-dependent histone octamer sliding mediated by the chromatin remodeling complex NURF. Cell. 1999;97(7):833-842. (Pubitemid 29375043)
26. Schwanbeck R, Xiao H, Wu C. Spatial contacts and nucleosome step movements induced by the NURF chromatin remodeling complex. J Biol Chem. 2004;279(38):39933-39941. (Pubitemid 39258266)
27. Xiao H, Sandaltzopoulos R, Wang HM, et al. Dual functions of largest NURF subunit NURF301 in nucleosome sliding and transcription factor interactions. Mol Cell. 2001;8(3):531-543. (Pubitemid 32946931)
28. Giannola DM, Shlomchik WD, Jegathesan M, et al. Hematopoietic expression of HOXB4 is regulated in normal and leukemic stem cells through transcriptional activation of the HOXB4 promoter by upstream stimulating factor (USF)-1 and USF-2. J Exp Med. 2000;192(10):1479-1490.
29. Liang SY, Moghimi B, Crusselle-Davis VJ, et al. Defective erythropoiesis in transgenic mice expressing dominant-negative upstream stimulatory factor. Mol Cell Biol. 2009;29(21):5900-5910.
30. Wu M, Wang PF, Lee JS, et al. Molecular regulation of H3K4 trimethylation by Wdr82, a component of human Set1/COMPASS. Mol Cell Biol. 2008;28(24):7337-7344.
31. Milne TA, Briggs SD, Brock HW, et al. MLL targets SET domain methyltransferase activity to Hox gene promoters. Mol Cell. 2002;10(5):1107- 1117. (Pubitemid 35453828)
32. Yu BD, Hess JL, Horning SE, et al. Altered Hox expression and segmental identity in Mll-mutant mice. Nature. 1995;378(6556):505-508.
33. Couture JF, Collazo E, Trievel RC. Molecular recognition of histone H3 by the WD40 protein WDR5. Nat Struct Mol Biol. 2006;13(8):698-703. (Pubitemid 44175162)
34. Dou Y, Milne TA, Ruthenburg AJ, et al. Regulation of MLL1 H3K4 methyltransferase activity by its core components. Nat Struct Mol Biol. 2006;13(8):713-719. (Pubitemid 44175164)
35. Steward MM, Lee JS, O'Donovan A, et al. Molecular regulation of H3K4 trimethylation by ASH2L, a shared subunit of MLL complexes. Nat Struct Mol Biol. 2006;13(9):852-854. (Pubitemid 44338781)
36. Lazzaro MA, Picketts DJ. Cloning and characterization of the murine Imitation Switch (ISWI) genes: differential expression patterns suggest distinct developmental roles for Snf2h and Snf2l. J Neurochem. 2001;77(4):1145-1156. (Pubitemid 32467069)
37. Ito T, Bulger M, Pazin MJ, et al. ACF, an ISWI-containing and ATP-utilizing chromatin assembly and remodeling factor. Cell. 1997;90(1):145-155. (Pubitemid 28009426)
38. Bozhenok L, Wade PA, Varga-Weisz P. WSTF-ISWI chromatin remodeling complex targets heterochromatic replication foci. EMBO J. 2002;21(9):2231-2241. (Pubitemid 34516782)
39. Hakimi MA, Bochar DA, Schmiesing JA, et al. A chromatin remodelling complex that loads cohesin onto human chromosomes. Nature. 2002;418(6901):994- 998. (Pubitemid 34976036)
40. Chopra VS, Cande J, Hong JW, et al. Stalled Hox promoters as chromosomal boundaries. Genes Dev. 2009;23(13):1505-1509.
41. Rada-Iglesias A, Ameur A, Kapranov P, et al. Whole-genome maps of USF1 and USF2 binding and histone H3 acetylation reveal new aspects of promoter structure and candidate genes for common human disorders. Genome Res. 2008;18(3):380-392. (Pubitemid 351347081)
42. Zhao H, Dean A. An insulator blocks spreading of histone acetylation and interferes with RNA polymerase II transfer between an enhancer and gene. Nucleic Acids Res. 2004;32(16):4903-4919.
43. Wysocka J, Swigut T, Xiao H, et al. A PHD finger of NURF couples histone H3 lysine 4 trimethylation with chromatin remodelling. Nature. 2006;442(7098):86-90. (Pubitemid 44064214)
44. Li H, Ilin S, Wang W, et al. Molecular basis for site-specific read-out of histone H3K4me3 by the BPTF PHD finger of NURF. Nature. 2006;442(7098):91-95. (Pubitemid 44064215)
45. Oki M, Valenzuela L, Chiba T, et al. Barrier proteins remodel and modify chromatin to restrict silenced domains. Mol Cell Biol. 2004;24(5):1956-1967. (Pubitemid 38248936)
46. Bi X, Yu Q, Sandmeier JJ, et al. Formation of boundaries of transcriptionally silent chromatin by nucleosome-excluding structures. Mol Cell Biol. 2004;24(5):2118-2131. (Pubitemid 38248950)