Novel histone biotinylation marks are enriched in repeat regions and participate in repression of transcriptionally competent genes

Journal of Nutritional Biochemistry

Volumn 22, Issue 4, 2011, Pages 328-333

  Pestinger, Valerie ^a   Wijeratne, Subhashinee S K ^a   Rodriguez Melendez, Rocio ^a   Zempleni, Janos ^a  

^a UNIVERSITY OF NEBRASKA LINCOLN   (United States)

Author keywords

Biotin; Gene regulation; Heterochromatin; Histones; Human

Indexed keywords

HISTONE H3; INTERLEUKIN 2; MESSENGER RNA;

ARTICLE; BIOTINYLATION; CHROMATIN IMMUNOPRECIPITATION; CHROMATIN STRUCTURE; CHROMOSOME SATELLITE; CONTROLLED STUDY; EUCHROMATIN; GENE CONTROL; GENE REPRESSION; GENOMIC INSTABILITY; HETEROCHROMATIN; HUMAN; HUMAN CELL; LONG TERMINAL REPEAT; PROTEIN FUNCTION;

BIOTIN; BIOTINYLATION; CARBON-NITROGEN LIGASES; CHROMATIN IMMUNOPRECIPITATION; GENE EXPRESSION REGULATION; HISTONES; HUMANS; INTERLEUKIN-2; JURKAT CELLS; LYSINE; PROTEIN PROCESSING, POST-TRANSLATIONAL; RNA, MESSENGER; TERMINAL REPEAT SEQUENCES;

EID: 79952533709     PISSN: 09552863     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jnutbio.2010.02.011     Document Type: Article

References (35)

1. Wolffe A. Chromatin 1998, Academic Press, San Diego (Calif). 3th ed.
2. Luger K., Mader A.W., Richmond R.K., Sargent D.F., Richmond T.J. Crystal structure of the nucleosome core particle at 2.8 Å resolution. Nature 1997, 389:251-260.
3. Kouzarides T. Chromatin modifications and their function. Cell 2007, 128:693-705.
4. Cheung P., Tanner K.G., Cheung W.L., Sassone-Corsi P., Denu J.M., Allis C.D. Synergistic coupling of histone H3 phosphorylation and acetylation in response to epidermal growth factor stimulation. Mol Cell 2000, 5:905-915.
5. Clayton A.L., Mahadevan L.C. MAP kinase-mediated phosphoacetylation of histone H3 and inducible gene regulation. FEBS Lett 2003, 546:51-58.
6. Lehnertz B., Ueda Y., Derijck A.A., Braunschweig U., Perez-Burgos L., Kubicek S., et al. Suv39h-mediated histone H3 lysine 9 methylation directs DNA methylation to major satellite repeats at pericentric heterochromatin. Curr Biol 2003, 13:1192-1200.
7. Martens J.H., O'Sullivan R.J., Braunschweig U., Opravil S., Radolf M., Steinlein P., et al. The profile of repeat-associated histone lysine methylation states in the mouse epigenome. EMBO J 2005, 24:800-812.
8. Stanley J.S., Griffin J.B., Zempleni J. Biotinylation of histones in human cells: effects of cell proliferation. Eur J Biochem 2001, 268:5424-5429.
9. Camporeale G., Shubert E.E., Sarath G., Cerny R., Zempleni J. K8 and K12 are biotinylated in human histone H4. Eur J Biochem 2004, 271:2257-2263.
10. Kobza K., Camporeale G., Rueckert B., Kueh A., Griffin J.B., Sarath G., et al. K4, K9, and K18 in human histone H3 are targets for biotinylation by biotinidase. FEBS J 2005, 272:4249-4259.
11. Chew Y.C., Camporeale G., Kothapalli N., Sarath G., Zempleni J. Lysine residues in N- and C-terminal regions of human histone H2A are targets for biotinylation by biotinidase. J Nutr Biochem 2006, 17:225-233.
12. Kobza K., Sarath G., Zempleni J. Prokaryotic BirA ligase biotinylates K4, K9, K18 and K23 in histone H3. BMB Rep 2008, 41:310-315.
13. Camporeale G., Giordano E., Rendina R., Zempleni J., Eissenberg J.C. Drosophila holocarboxylase synthetase is a chromosomal protein required for normal histone biotinylation, gene transcription patterns, lifespan and heat tolerance. J Nutr 2006, 136:2735-2742.
14. Camporeale G., Zempleni J., Eissenberg J.C. Susceptibility to heat stress and aberrant gene expression patterns in holocarboxylase synthetase-deficient Drosophila melanogaster are caused by decreased biotinylation of histones, not of carboxylases. J Nutr 2007, 137:885-889.
15. Chew Y.C., Raza A.S., Sarath G., Zempleni J. Biotinylation of K8 and K12 co-occurs with acetylation and mono-methylation in human histone H4. FASEB J 2006, 20:A610. [abstract].
16. Camporeale G., Oommen A.M., Griffin J.B., Sarath G., Zempleni J. K12-biotinylated histone H4 marks heterochromatin in human lymphoblastoma cells. J Nutr Biochem 2007, 18:760-768.
17. Wijeratne S.S., Camporeale G., Zempleni J. K12-biotinylated histone H4 is enriched in telomeric repeats from human lung IMR-90 fibroblasts. J Nutr Biochem 2010, 21:310-316.
18. Chew Y.C., West J.T., Kratzer S.J., Ilvarsonn A.M., Eissenberg J.C., Dave B.J., et al. Biotinylation of histones represses transposable elements in human and mouse cells and cell lines, and in Drosophila melanogaster. J Nutr 2008, 138:2316-2322.
19. Gralla M., Camporeale G., Zempleni J. Holocarboxylase synthetase regulates expression of biotin transporters by chromatin remodeling events at the SMVT locus. J Nutr Biochem 2008, 19:400-408.
20. Manthey K.C., Griffin J.B., Zempleni J. Biotin supply affects expression of biotin transporters, biotinylation of carboxylases, and metabolism of interleukin-2 in Jurkat cells. J Nutr 2002, 132:887-892.
21. Mascher B., Sclenke P., Seyfarth M. Expression and kinetics of cytokines determined by intracellular staining using flow cytometry. J Immunol Methods 1999, 223:115-121.
22. Camporeale G., Zempleni J. Biotin. Present Knowledge in Nutrition 2006, vol. 1:314-326. International Life Sciences Institute, Washington, DC. B.A. Bowman, R.M. Russell (Eds.).
23. Healy S., Perez-Cadahia B., Jia D., McDonald M.K., Davie J.R., Gravel R.A. Biotin is not a natural histone modification. Biochim Biophys Acta 2009, 1789:719-733.
24. Kouzarides T., Berger S.L. Chromatin modifications and their mechanism of action. Epigenetics 2007, 191-209. Cold Spring Harbor Press, Cold Spring Harbor (NY). C.D. Allis, T. Jenuwein, D. Reinberg (Eds.).
25. Dahl J.A., Collas P. A rapid micro chromatin immunoprecipitation assay (microChIP). Nat Protoc 2008, 3:1032-1045.
26. Livak K.J., Schmittgen T.D. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) method. Methods 2001, 25:402-408.
27. Blanchard R., Gu X., Burnette A., Huang J., Zeng X. Genome-wide, promoter-tilling, real-time PCR assays for analyzing chromatin immunoprecipitation samples [accessed 11/23/2009]. http://www.sabiosciences.com/support_posters.php.
28. Haring M., Offermann S., Danker T., Horst I., Peterhansel C., Stam M. Chromatin immunoprecipitation: optimization, quantitative analysis and data normalization. Plant Methods 2007, 3:11.
29. SAS Institute StatView Reference 1999, SAS Publishing, Cary (NC). 3rd ed.
30. Hassan Y.I., Zempleni J. A novel, enigmatic histone modification: biotinylation of histones by holocarboxylase synthetase. Nutr Rev 2008, 66:721-725.
31. Mock D.M., Lankford G.L., Mock N.I. Biotin accounts for only half of the total avidin-binding substances in human serum. J Nutr 1995, 125:941-946.
32. Zempleni J., Helm R.M., Mock D.M. In vivo biotin supplementation at a pharmacologic dose decreases proliferation rates of human peripheral blood mononuclear cells and cytokine release. J Nutr 2001, 131:1479-1484.
33. Bailey L.M., Ivanov R.A., Wallace J.C., Polyak S.W. Artifactual detection of biotin on histones by streptavidin. Anal Biochem 2008, 373:71-77.
34. Li E., Bird A. DNA methylation in mammals. Epigenetics 2007, 341-356. Cold Spring Harbor Laboratory Press, Cold Spring Harbor (NY). C.D. Allis, T. Jenuwein, D. Reinberg (Eds.).
35. Cheung W.L., Ajiro K., Samejima K., Kloc M., Cheung P., Mizzen C.A., et al. Apoptotic phosphorylation of histone H2B is mediated by mammalian sterile twenty kinase. Cell 2003, 113:507-517.