Linker histone subtypes are not generalized gene repressors

Biochimica et Biophysica Acta - Gene Regulatory Mechanisms

Volumn 1799, Issue 9, 2010, Pages 642-652

  Trollope, Alexandra F ^a   Sapojnikova, Nelly ^a   Thorne, Alan W ^a   Crane Robinson, Colyn ^a   Myers, Fiona A ^a  

^a UNIVERSITY OF PORTSMOUTH   (United Kingdom)

Author keywords

ChiP; Chromatin; Histone variant; Linker histone

Indexed keywords

BETA GLOBIN; CARBONATE DEHYDRATASE; GLYCERALDEHYDE 3 PHOSPHATE DEHYDROGENASE (NADP); HISTONE;

ANIMAL CELL CULTURE; ANIMAL EXPERIMENT; ANIMAL TISSUE; ARTICLE; BRAIN; CELL STRAIN HD24; CELL TYPE; CHICKEN; CHROMATIN IMMUNOPRECIPITATION; EMBRYO; ERYTHROCYTE; ERYTHROID CELL; GENE CONTROL; GENE LOCUS; GENE REPRESSION; GENETIC LINKAGE; HATCHING; HETEROCHROMATIN; NONHUMAN; PRIORITY JOURNAL;

EID: 78149410341     PISSN: 18749399     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.bbagrm.2010.08.007     Document Type: Article

References (54)

1. Bates D.L., Thomas J.O. Histones h1 and h5: one or two molecules per nucleosome?. Nucleic Acids Res. 1981, 9:5883-5894.
2. Th'ng J.P., Sung R., Ye M., Hendzel M.J. H1 family histones in the nucleus. Control of binding and localization by the c-terminal domain. J. Biol. Chem. 2005, 280:27809-27814.
3. Fan Y., Nikitina T., Morin-Kensicki E.M., Zhao J., Magnuson T.R., Woodcock C.L., Skoultchi A.I. H1 linker histones are essential for mouse development and affect nucleosome spacing in vivo. Mol. Cell. Biol. 2003, 23:4559-4572.
4. Pennings S., Meersseman G., Bradbury E.M. Linker histones h1 and h5 prevent the mobility of positioned nucleosomes. Proc. Natl. Acad. Sci. USA 1994, 91:10275-10279.
5. Woodcock C.L., Skoultchi A.I., Fan Y. Role of linker histone in chromatin structure and function: H1 stoichiometry and nucleosome repeat length. Chromosome Res. 2006, 14:17-25.
6. Lever M.A., Th'ng J.P., Sun X., Hendzel M.J. Rapid exchange of histone h1.1 on chromatin in living human cells. Nature 2000, 408:873-876.
7. Misteli T., Gunjan A., Hock R., Bustin M., Brown D.T. Dynamic binding of histone h1 to chromatin in living cells. Nature 2000, 408:877-881.
8. Meshorer E., Yellajoshula D., George E., Scambler P.J., Brown D.T., Misteli T. Hyperdynamic plasticity of chromatin proteins in pluripotent embryonic stem cells. Dev. Cell 2006, 10:105-116.
9. Fan Y., Nikitina T., Zhao J., Fleury T.J., Bhattacharyya R., Bouhassira E.E., Stein A., Woodcock C.L., Skoultchi A.I. Histone h1 depletion in mammals alters global chromatin structure but causes specific changes in gene regulation. Cell 2005, 123:1199-1212.
10. Sirotkin A.M., Edelmann W., Cheng G., Klein-Szanto A., Kucherlapati R., Skoultchi A.I. Mice develop normally without the h1(0) linker histone. Proc. Natl. Acad. Sci. USA 1995, 92:6434-6438.
11. Dorigo B., Schalch T., Bystricky K., Richmond T.J. Chromatin fiber folding: requirement for the histone h4 n-terminal tail. J. Mol. Biol. 2003, 327:85-96.
12. Robinson P.J., An W., Routh A., Martino F., Chapman L., Roeder R.G., Rhodes D. 30nm chromatin fibre decompaction requires both h4-k16 acetylation and linker histone eviction. J. Mol. Biol. 2008, 381:816-825.
13. Routh A., Sandin S., Rhodes D. Nucleosome repeat length and linker histone stoichiometry determine chromatin fiber structure. Proc. Natl. Acad. Sci. USA 2008, 105:8872-8877.
14. Maier V.K., Chioda M., Rhodes D., Becker P.B. Acf catalyses chromatosome movements in chromatin fibres. EMBO J. 2008, 27:817-826.
15. Alami R., Fan Y., Pack S., Sonbuchner T.M., Besse A., Lin Q., Greally J.M., Skoultchi A.I., Bouhassira E.E. Mammalian linker-histone subtypes differentially affect gene expression in vivo. Proc. Natl. Acad. Sci. USA 2003, 100:5920-5925.
16. Parseghian M.H., Newcomb R.L., Winokur S.T., Hamkalo B.A. The distribution of somatic h1 subtypes is non-random on active vs. Inactive chromatin: distribution in human fetal fibroblasts. Chromosome Res. 2000, 8:405-424.
17. Takami Y., Nishi R., Nakayama T. Histone h1 variants play individual roles in transcription regulation in the dt40 chicken b cell line. Biochem. Biophys. Res. Commun. 2000, 268:501-508.
18. Parseghian M.H., Newcomb R.L., Hamkalo B.A. Distribution of somatic h1 subtypes is non-random on active vs. Inactive chromatin ii: distribution in human adult fibroblasts. J. Cell. Biochem. 2001, 83:643-659.
19. Bouvet P., Dimitrov S., Wolffe A.P. Specific regulation of xenopus chromosomal 5s rrna gene transcription in vivo by histone h1. Genes Dev. 1994, 8:1147-1159.
20. Sera T., Wolffe A.P. Role of histone h1 as an architectural determinant of chromatin structure and as a specific repressor of transcription on xenopus oocyte 5s rrna genes. Mol. Cell. Biol. 1998, 18:3668-3680.
21. Tanaka M., Hennebold J.D., Macfarlane J., Adashi E.Y. A mammalian oocyte-specific linker histone gene h1oo: Homology with the genes for the oocyte-specific cleavage stage histone (cs-h1) of sea urchin and the b4/h1m histone of the frog. Development 2001, 128:655-664.
22. Franke K., Drabent B., Doenecke D. Expression of murine h1 histone genes during postnatal development. Biochim. Biophys. Acta 1998, 1398:232-242.
23. Sarg B., Helliger W., Talasz H., Forg B., Lindner H.H. Histone h1 phosphorylation occurs site-specifically during interphase and mitosis: Identification of a novel phosphorylation site on histone h1. J. Biol. Chem. 2006, 281:6573-6580.
24. Daujat S., Zeissler U., Waldmann T., Happel N., Schneider R. Hp1 binds specifically to lys26-methylated histone h1.4, whereas simultaneous ser27 phosphorylation blocks hp1 binding. J. Biol. Chem. 2005, 280:38090-38095.
25. Kuzmichev A., Jenuwein T., Tempst P., Reinberg D. Different ezh2-containing complexes target methylation of histone h1 or nucleosomal histone h3. Mol. Cell 2004, 14:183-193.
26. Trojer P., Zhang J., Yonezawa M., Schmidt A., Zheng H., Jenuwein T., Reinberg D. Dynamic histone h1 isotype 4 methylation and demethylation by histone lysine methyltransferase g9a/kmt1c and the jumonji domain-containing jmjd2/kdm4 proteins. J. Biol. Chem. 2009, 284:8395-8405.
27. Vaquero A., Scher M., Lee D., Erdjument-Bromage H., Tempst P., Reinberg D. Human sirt1 interacts with histone h1 and promotes formation of facultative heterochromatin. Mol. Cell 2004, 16:93-105.
28. Snijders A.P., Pongdam S., Lambert S.J., Wood C.M., Baldwin J.P., Dickman M.J. Characterization of post-translational modifications of the linker histones h1 and h5 from chicken erythrocytes using mass spectrometry. J. Proteome Res. 2008, 7:4326-4335.
29. Wisniewski J.R., Zougman A., Kruger S., Mann M. Mass spectrometric mapping of linker histone h1 variants reveals multiple acetylations, methylations, and phosphorylation as well as differences between cell culture and tissue. Mol. Cell. Proteomics 2007, 6:72-87.
30. Coles L.S., Robins A.J., Madley L.K., Wells J.R. Characterization of the chicken histone h1 gene complement. Generation of a complete set of vertebrate h1 protein sequences. J. Biol. Chem. 1987, 262:9656-9663.
31. Neelin J.M., Callahan P.X., Lamb D.C., Murray K. The histones of chicken erythrocyte nuclei. Can. J. Biochem. Physiol. 1964, 42:1743-1752.
32. Allan J., Hartman P.G., Crane-Robinson C., Aviles F.X. The structure of histone h1 and its location in chromatin. Nature 1980, 288:675-679.
33. Kamakaka R.T., Thomas J.O. Chromatin structure of transcriptionally competent and repressed genes. EMBO J. 1990, 9:3997-4006.
34. Metz T., Graf T. V-myb and v-ets transform chicken erythroid cells and cooperate both in trans and in cis to induce distinct differentiation phenotypes. Genes Dev. 1991, 5:369-380.
35. Stock J.K., Giadrossi S., Casanova M., Brookes E., Vidal M., Koseki H., Brockdorff N., Fisher A.G., Pombo A. Ring1-mediated ubiquitination of h2a restrains poised RNA polymerase ii at bivalent genes in mouse es cells. Nat. Cell Biol. 2007, 9:1428-1435.
36. Biagioli M., Pinto M., Cesselli D., Zaninello M., Lazarevic D., Roncaglia P., Simone R., Vlachouli C., Plessy C., Bertin N., Beltrami A., Kobayashi K., Gallo V., Santoro C., Ferrer I., Rivella S., Beltrami C.A., Carninci P., Raviola E., Gustincich S. Unexpected expression of {alpha}- and {beta}-globin in mesencephalic dopaminergic neurons and glial cells. Proc. Natl. Acad. Sci. USA 2009.
37. Litt M.D., Simpson M., Gaszner M., Allis C.D., Felsenfeld G. Correlation between histone lysine methylation and developmental changes at the chicken beta-globin locus. Science 2001, 293:2453-2455.
38. Mutskov V., Felsenfeld G. The human insulin gene is part of a large open chromatin domain specific for human islets. Proc. Natl. Acad. Sci. USA 2009, 106:17419-17424.
39. Reitman M., Felsenfeld G. Developmental regulation of topoisomerase ii sites and dnase I-hypersensitive sites in the chicken beta-globin locus. Mol. Cell. Biol. 1990, 10:2774-2786.
40. Saitoh N., Bell A.C., Recillas-Targa F., West A.G., Simpson M., Pikaart M., Felsenfeld G. Structural and functional conservation at the boundaries of the chicken beta-globin domain. EMBO J. 2000, 19:2315-2322.
41. Prioleau M.N., Nony P., Simpson M., Felsenfeld G. An insulator element and condensed chromatin region separate the chicken beta-globin locus from an independently regulated erythroid-specific folate receptor gene. EMBO J. 1999, 18:4035-4048.
42. Lennard A.C., Thomas J.O. The arrangement of h5 molecules in extended and condensed chicken erythrocyte chromatin. EMBO J. 1985, 4:3455-3462.
43. Myers F.A., Chong W., Evans D.R., Thorne A.W., Crane-Robinson C. Acetylation of histone h2b mirrors that of h4 and h3 at the chicken beta-globin locus but not at housekeeping genes. J. Biol. Chem. 2003, 278:36315-36322.
44. Bell A.C., West A.G., Felsenfeld G. The protein ctcf is required for the enhancer blocking activity of vertebrate insulators. Cell 1999, 98:387-396.
45. Krishnakumar R., Gamble M.J., Frizzell K.M., Berrocal J.G., Kininis M., Kraus W.L. Reciprocal binding of parp-1 and histone h1 at promoters specifies transcriptional outcomes. Science 2008, 319:819-821.
46. Braunschweig U., Hogan G.J., Pagie L., van Steensel B. Histone h1 binding is inhibited by histone variant h3.3. EMBO J. 2009.
47. Sapojnikova N., Thorne A., Myers F., Staynov D., Crane-Robinson C. The chromatin of active genes is not in a permanently open conformation. J. Mol. Biol. 2009, 386:290-299.
48. Ericsson C., Grossbach U., Bjorkroth B., Daneholt B. Presence of histone h1 on an active balbiani ring gene. Cell 1990, 60:73-83.
49. Ozsolak F., Song J.S., Liu X.S., Fisher D.E. High-throughput mapping of the chromatin structure of human promoters. Nat. Biotechnol. 2007, 25:244-248.
50. Schones D.E., Cui K., Cuddapah S., Roh T.Y., Barski A., Wang Z., Wei G., Zhao K. Dynamic regulation of nucleosome positioning in the human genome. Cell 2008, 132:887-898.
51. Jin C., Zang C., Wei G., Cui K., Peng W., Zhao K., Felsenfeld G. H3.3/h2a.z double variant-containing nucleosomes mark "nucleosome-free regions" of active promoters and other regulatory regions. Nat. Genet. 2009, 41:941-945.
52. Kodama H., Saitoh H., Tone M., Kuhara S., Sakaki Y., Mizuno S. Nucleotide sequences and unusual electrophoretic behavior of the w chromosome-specific repeating DNA units of the domestic fowl, gallus gallus domesticus. Chromosoma 1987, 96:18-25.
53. Jin C., Felsenfeld G. Distribution of histone h3.3 in hematopoietic cell lineages. Proc. Natl. Acad. Sci. USA 2006, 103:574-579.
54. Myers F.A., Evans D.R., Clayton A.L., Thorne A.W., Crane-Robinson C. Targeted and extended acetylation of histones h4 and h3 at active and inactive genes in chicken embryo erythrocytes. J. Biol. Chem. 2001, 276:20197-20205.