Epigenetics and T helper 1 differentiation

Immunology

Volumn 126, Issue 3, 2009, Pages 299-305

  Aune, Thomas M ^a,b   Collins, Patrick L ^b   Chang, Shaojing ^b  

^a VANDERBILT UNIVERSITY MEDICAL CENTER   (United States)

^b VANDERBILT UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

Differentiation; Epigenetics; Interferon ; T helper 1; Transcription

Indexed keywords

GAMMA INTERFERON; GENOMIC DNA; HISTONE; INTERLEUKIN 4; STAT4 PROTEIN; STAT6 PROTEIN; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR GATA 3; TRANSCRIPTION FACTOR T BET;

ADAPTIVE IMMUNITY; CELL DIFFERENTIATION; CELL FATE; CELL LINEAGE; CHROMATIN; CYTOKINE PRODUCTION; EPIGENETICS; GENE ACTIVATION; GENE FUNCTION; GENE LOCATION; GENE LOCUS; GENE REPRESSION; GENE SILENCING; GENETIC TRANSCRIPTION; HISTONE CODE; HUMAN; NONHUMAN; PATHOGENESIS; PRIORITY JOURNAL; PROTEIN CONFORMATION; REGULATORY SEQUENCE; REVIEW; TH1 CELL; TH2 CELL;

CELL DIFFERENTIATION; CHROMATIN; EPIGENESIS, GENETIC; HISTONES; HUMANS; INTERFERON-GAMMA; TH1 CELLS;

EID: 59449091985     PISSN: 00192805     EISSN: 13652567     Source Type: Journal    
DOI: 10.1111/j.1365-2567.2008.03026.x     Document Type: Review

References (54)

1. Mosmann TR, Coffman RL. TH1 and TH2 cells: different patterns of lymphokine secretion lead to different functional properties. Annu Rev Immunol 1989 7 : 145 73.
2. Seder RA, Paul WE. Acquisition of lymphokine-producing phenotype by CD4+ T cells. Annu Rev Immunol 1994 12 : 635 73.
3. Murphy KM, Reiner SL. The lineage decisions of helper T cells. Nat Rev Immunol 2002 2 : 933 44.
4. Thierfelder WE, van Deursen JM, Yamamoto K et al. Requirement for Stat4 in interleukin-12-mediated responses of natural killer and T cells. Nature 1996 382 : 171 4.
5. Kaplan MH, Schindler U, Smiley ST, Grusby MJ. Stat6 is required for mediating responses to IL-4 and for the development of Th2 cells. Immunity 1996 4 : 313 9.
6. Zheng W, Flavell RA. The transcription factor GATA-3 is necessary and sufficient for Th2 cytokine gene expression in CD4 T cells. Cell 1997 89 : 587 96.
7. Szabo SJ, Kim ST, Costa GL, Zhang X, Fathman CG, Glimcher LH. A novel transcription factor, T-bet, directs Th1 lineage commitment. Cell 2000 100 : 655 69.
8. Ho IC, Glimcher LH. Transcription: tantalizing times for T cells. Cell 2002 109 : 109 20.
9. Szabo SJ, Sullivan BM, Peng SL, Glimcher LH. Molecular mechanisms regulating Th1 immune responses. Annu Rev Immunol 2003 21 : 713 58.
10. Aune TM, Penix LA, Rincon MR, Flavell RA. Differential transcription directed by discrete gamma interferon promoter elements in naive and memory (effector) CD4 T cells and CD8 T cells. Mol Cell Biol 1997 17 : 199 208.
11. Soutto M, Zhang F, Enerson B, Tong Y, Boothby M, Aune TM. A minimal IFN-gamma promoter confers Th1 selective expression. J Immunol 2002 169 : 4205 12.
12. Zhu H, Yang J, Murphy TL, Ouyang W, Wagner F, Saparov A, Weaver CT, Murphy KM. Unexpected characteristics of the IFN-gamma reporters in nontransformed T cells. J Immunol 2001 167 : 855 65.
13. Soutto M, Zhou W, Aune TM. Cutting edge: distal regulatory elements are required to achieve selective expression of IFN-gamma in Th1/Tc1 effector cells. J Immunol 2002 169 : 6664 7.
14. Siepel A, Bejerano G, Pedersen JS et al. Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res 2005 15 : 1034 50.
15. Dermitzakis ET, Reymond A, Antonarakis SE. Conserved non-genic sequences - an unexpected feature of mammalian genomes. Nat Rev Genet 2005 6 : 151 7.
16. Van Speybroeck L. From epigenesis to epigenetics: the case of C. H. Waddington. Ann N Y Acad Sci 2002 981 : 61 81.
17. Reik W. Stability and flexibility of epigenetic gene regulation in mammalian development. Nature 2007 447 : 425 32.
18. Li B, Carey M, Workman JL. The role of chromatin during transcription. Cell 2007 128 : 707 19.
19. Kouzarides T. Chromatin modifications and their function. Cell 2007 128 : 693 705.
20. Feinberg AP. Phenotypic plasticity and the epigenetics of human disease. Nature 2007 447 : 433 40.
21. Berger SL. The complex language of chromatin regulation during transcription. Nature 2007 447 : 407 12.
22. Calestagne-Morelli A, Ausio J. Long-range histone acetylation: biological significance, structural implications, and mechanisms. Biochem Cell Biol 2006 84 : 518 27.
23. van Holde KE. Chromatin. New York : Springer Verlag, 1988.
24. Trojer P, Reinberg D. Histone lysine demethylases and their impact on epigenetics. Cell 2006 125 : 213 7.
25. Metzger E, Wissmann M, Yin N et al. LSD1 demethylates repressive histone marks to promote androgen-receptor-dependent transcription. Nature 2005 437 : 436 9.
26. Bernstein BE, Kamal M, Lindblad-Toh K et al. Genomic maps and comparative analysis of histone modifications in human and mouse. Cell 2005 120 : 169 81.
27. Barski A, Cuddapah S, Cui K et al. High-resolution profiling of histone methylations in the human genome. Cell 2007 129 : 823 37.
28. Vakoc CR, Mandat SA, Olenchock BA, Blobel GA. Histone H3 lysine 9 methylation and HP1gamma are associated with transcription elongation through mammalian chromatin. Mol Cell 2005 19 : 381 91.
29. Bulger M. Hyperacetylated chromatin domains: lessons from heterochromatin. J Biol Chem 2005 280 : 21689 92.
30. Margueron R, Trojer P, Reinberg D. The key to development: interpreting the histone code? Curr Opin Genet Dev 2005 15 : 163 76.
31. Bottomley MJ. Structures of protein domains that create or recognize histone modifications. EMBO Rep 2004 5 : 464 9.
32. Fields PE, Kim ST, Flavell RA. Cutting edge: changes in histone acetylation at the IL-4 and IFN-gamma loci accompany Th1/Th2 differentiation. J Immunol 2002 169 : 647 50.
33. Zhou W, Chang S, Aune TM. Long-range histone acetylation of the Ifng gene is an essential feature of T cell differentiation. Proc Natl Acad Sci USA 2004 101 : 2440 5.
34. Schoenborn JR, Dorschner MO, Sekimata M, Santer DM, Shnyreva M, Fitzpatrick DR, Stamatoyannopoulos JA, Wilson CB. Comprehensive epigenetic profiling identifies multiple distal regulatory elements directing transcription of the gene encoding interferon-gamma. Nat Immunol 2007 8 : 732 42.
35. Hamalainen-Laanaya HK, Kobie JJ, Chang C, Zeng WP. Temporal and spatial changes of histone 3 K4 dimethylation at the IFN-gamma gene during Th1 and Th2 cell differentiation. J Immunol 2007 179 : 6410 5.
36. Chang S, Aune TM. Histone hyperacetylated domains across the Ifng gene region in natural killer cells and T cells. Proc Natl Acad Sci USA 2005 102 : 17095 100.
37. Hatton RD, Harrington LE, Luther RJ et al. A distal conserved sequence element controls Ifng gene expression by T cells and NK cells. Immunity 2006 25 : 717 29.
38. Ovcharenko I, Nobrega MA, Loots GG, Stubbs L. ECR Browser: a tool for visualizing and accessing data from comparisons of multiple vertebrate genomes. Nucleic Acids Res 2004 32 : W253 W6.
39. Chang S, Aune TM. Dynamic changes in histone-methylation 'marks' across the locus encoding interferon-gamma during the differentiation of T helper type 2 cells. Nat Immunol 2007 8 : 723 31.
40. Bream JH, Hodge DL, Gonsky R et al. A distal region in the interferon-gamma gene is a site of epigenetic remodeling and transcriptional regulation by interleukin-2. J Biol Chem 2004 279 : 41249 57.
41. Lee DU, Avni O, Chen L, Rao A. A distal enhancer in the interferon-gamma (IFN-gamma) locus revealed by genome sequence comparison. J Biol Chem 2004 279 : 4802 10.
42. Shi M, Lin TH, Appell KC, Berg LJ. Janus-kinase-3-dependent signals induce chromatin remodeling at the Ifng locus during T helper 1 cell differentiation. Immunity 2008 28 : 763 73.
43. Eivazova ER, Aune TM. Dynamic alterations in the conformation of the Ifng gene region during T helper cell differentiation. Proc Natl Acad Sci USA 2004 101 : 251 6.
44. Shnyreva M, Weaver WM, Blanchette M, Taylor SL, Tompa M, Fitzpatrick DR, Wilson CB. Evolutionarily conserved sequence elements that positively regulate IFN-gamma expression in T cells. Proc Natl Acad Sci USA 2004 101 : 12622 7.
45. Spilianakis CG, Lalioti MD, Town T, Lee GR, Flavell RA. Interchromosomal associations between alternatively expressed loci. Nature 2005 435 : 637 45.
46. de Laat W, Grosveld F. Spatial organization of gene expression: the active chromatin hub. Chromosome Res 2003 11 : 447 59.
47. Lomvardes S, Barnes G, Pisapia DJ, Mendelsohn M, Kirkland J, Axel R. Interchromosomal interactions and olfactory receptor choice. Cell 2006 126 : 403 13.
48. Oestreich KJ, Cobb RM, Pierce S, Chen J, Ferrier P, Oltz EM. Regulation of TCRbeta gene assembly by a promoter/enhancer holocomplex. Immunity 2006 24 : 381 91.
49. Jhunjhunwala S, van Zelm MC, Peak MM et al. The 3D structure of the immunoglobulin heavy-chain locus: implications for long-range genomic interactions. Cell 2008 133 : 265 79.
50. Eivazova ER, Vassetzky YS, Aune TM. Selective matrix attachment regions in T helper cell subsets support loop conformation in the Ifng gene. Genes Immun 2006 8 : 35 43.
51. Fraser P, Bickmore W. Nuclear organization of the genome and the potential for gene regulation. Nature 2007 447 : 413 7.
52. Osborne CS, Chakalova L, Mitchell JA, Horton A, Wood AL, Bolland DJ, Corcoran AE, Fraser P. Myc dynamically and preferentially relocates to a transcription factory occupied by Igh. PLoS Biol 2007 5 : e192.
53. Mitchell JA, Fraser P. Transcription factories are nuclear subcompartments that remain in the absence of transcription. Genes Dev 2008 22 : 20 5.
54. Ragoczy T, Bender MA, Telling A, Byron R, Groudine M. The locus control region is required for association of the murine beta-globin locus with engaged transcription factories during erythroid maturation. Genes Dev 2006 20 : 1447 57.