Identification of CIITA regulated genetic module dedicated for antigen presentation

PLoS Genetics

Volumn 4, Issue 4, 2008, Pages

  Krawczyk, Michal ^a,c   Seguín Estévez, Queralt ^a   Leimgruber, Elisa ^a   Sperisen, Peter ^b   Schmid, Christoph ^b   Bucher, Philipp ^b   Reith, Walter ^a  

^a UNIVERSITY OF GENEVA MEDICAL SCHOOL   (Switzerland)

^b SWISS INST FOR EXP CANCER RESEARCH   (Switzerland)

^c SALK INSTITUTE FOR BIOLOGICAL STUDIES   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANTIGEN; CLASS II TRANSACTIVATOR PROTEIN; TRANSACTIVATOR PROTEIN; TRANSCRIPTION FACTOR; DNA; DNA BINDING PROTEIN; MHC CLASS II TRANSACTIVATOR PROTEIN; NUCLEAR PROTEIN; RECOMBINANT GAMMA INTERFERON; X BOX BINDING PROTEIN (RF X); X BOX BINDING PROTEIN (RF-X);

ANTIGEN PRESENTATION; ANTIGEN PRESENTING CELL; ARTICLE; B LYMPHOCYTE; BINDING SITE; CONTROLLED STUDY; DENDRITIC CELL; GENE CONTROL; GENE EXPRESSION PROFILING; GENE FUNCTION; GENE IDENTIFICATION; GENE MAPPING; GENE TARGETING; GENOME ANALYSIS; HUMAN; HUMAN CELL; IMMUNOGENETICS; MAJOR HISTOCOMPATIBILITY COMPLEX; NUCLEOTIDE SEQUENCE; PLEIOTROPY; PROMOTER REGION; VALIDATION PROCESS; CELL LINE; CHROMATIN IMMUNOPRECIPITATION; DRUG EFFECT; ENHANCER REGION; GENE; GENETICS; IMMUNOLOGY; METABOLISM; TRANSACTIVATION;

ANTIGEN PRESENTATION; B-LYMPHOCYTES; BASE SEQUENCE; BINDING SITES; CELL LINE; CHROMATIN IMMUNOPRECIPITATION; DENDRITIC CELLS; DNA; DNA-BINDING PROTEINS; ENHANCER ELEMENTS (GENETICS); GENES, MHC CLASS II; HUMANS; INTERFERON-GAMMA, RECOMBINANT; NUCLEAR PROTEINS; PROMOTER REGIONS (GENETICS); TRANS-ACTIVATION (GENETICS); TRANS-ACTIVATORS; TRANSCRIPTION FACTORS;

EID: 43249085688     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1000058     Document Type: Article

References (62)

1. Marson A, Kretschmer K, Frampton GM, Jacobsen ES, Polansky JK, et al. (2007) Foxp3 occupancy and regulation of key target genes during T-cell stimulation. Nature 445: 931-935.
2. Hartman SE, Bertone P, Nath AK, Royce TE, Gerstein M, et al. (2005) Global changes in STAT target selection and transcription regulation upon interferon treatments. Genes Dev 19: 2953-2968.
3. Euskirchen GM, Rozowsky JS, Wei CL, Lee WH, Zhang ZD, et al. (2007) Mapping of transcription factor binding regions in mammalian cells by ChIP: comparison of array- and sequencing-based technologies. Genome Res 17: 898-909.
4. Cawley S, Bekiranov S, Ng HH, Kapranov P, Sekinger EA, et al. (2004) Unbiased mapping of transcription factor binding sites along human chromosomes 21 and 22 points to widespread regulation of noncoding RNAs. Cell 116: 499-509.
5. Wei CL, Wu Q, Vega VB, Chiu KP, Ng P, et al. (2006) A global map of p53 transcription-factor binding sites in the human genome. Cell 124: 207-219.
6. Steimle V, Otten LA, Zufferey M, Mach B (1993) Complementation cloning of an MHC class II transactivator mutated in hereditary MHC class II deficiency. Cell 75: 135-146.
7. Reith W, Mach B (2001) The bare lymphocyte syndrome and the regulation of MHC expression. Annu Rev Immunol 19: 331-373.
8. Boss JM, Jensen PE (2003) Transcriptional regulation of the MHC class II antigen presentation pathway. Curr Opin Immunol 15: 105-111.
9. Ting JP, Trowsdale J (2002) Genetic control of MHC class II expression. Cell 109 Suppl. pp S21-33.
10. Martin BK, Chin KC, Olsen JC, Skinner CA, Dey A, et al. (1997) Induction of MHC class I expression by the MHC class II transactivator CIITA. Immunity 6: 591-600.
11. van den Elsen PJ, Gobin SP, van Eggermond MC, Peijnenburg A (1998) Regulation of MHC class I and II gene transcription: differences and similarities. Immunogenetics 48: 208-221.
12. Gobin SJ, Peijnenburg A, Van Eggermond M, van Zutphen M, van den Berg R, et al. (1998) The RFX complex is crucial for the constitutive and CIITA-mediated transactivation of MHC class I and beta2-microglobulin genes. Immunity 9: 531-541.
13. Wong AW, Brickey WJ, Taxman DJ, van Deventer HW, Reed W, et al. (2003) CIITA-regulated plexin-A1 affects T-cell-dendritic cell interactions. Nat Immunol 4: 891-898.
14. Nagarajan UM, Bushey A, Boss JM (2002) Modulation of gene expression by the MHC class II transactivator. J Immunol 169: 5078-5088.
15. Gourley T, Roys S, Lukacs NW, Kunkel SL, Flavell RA, et al. (1999) A novel role for the major histocompatibility complex class II transactivator CIITA in the repression of IL-4 production. Immunity 10: 377-386.
16. Gourley TS, Chang CH (2001) Cutting edge: the class II transactivator prevents activation-induced cell death by inhibiting Fas ligand gene expression. J Immunol 166: 2917-2921.
17. Sisk TJ, Gourley T, Roys S, Chang CH (2000) MHC class II transactivator inhibits IL-4 gene transcription by competing with NF-AT to bind the coactivator CREB binding protein (CBP)/p300. J Immunol 165: 2511-2517.
18. Gourley TS, Patel DR, Nickerson K, Hong SC, Chang CH (2002) Aberrant expression of Fas ligand in mice deficient for the MHC class II transactivator. J Immunol 168: 4414-4419.
19. Yee CS, Yao Y, Li P, Klemsz MJ, Blum JS, et al. (2004) Cathepsin E: a novel target for regulation by class II transactivator. J Immunol 172: 5528-5534.
20. Yee CS, Yao Y, Xu Q, McCarthy B, Sun-Lin D, et al. (2005) Enhanced production of IL-10 by dendritic cells deficient in CIITA. J Immunol 174: 1222-1229.
21. Zhu XS, Ting JP (2001) A 36-amino-acid region of CIITA is an effective inhibitor of CBP: novel mechanism of gamma interferon-mediated suppression of collagen alpha(2)(I) and other promoters. Mol Cell Biol 21: 7078-7088.
22. Xu Y, Wang L, Buttice G, Sengupta PK, Smith BD (2004) Major histocompatibility class II transactivator (CIITA) mediates repression of collagen (COL1A2) transcription by interferon gamma (IFN-gamma). J Biol Chem 279: 41319-41332.
23. Reith W, LeibundGut-Landmann S, Waldburger JM (2005) Regulation of MHC class II gene expression by the class II transactivator. Nat Rev Immunol 5: 793-806.
24. Landmann S, Muhlethaler-Mottet A, Bernasconi L, Suter T, Waldburger JM, et al. (2001) Maturation of dendritic cells is accompanied by rapid transcriptional silencing of class II transactivator (CIITA) expression. J Exp Med 194: 379-392.
25. Durand B, Sperisen P, Emery P, Barras E, Zufferey M, et al. (1997) RFXAP, a novel subunit of the RFX DNA binding complex is mutated in MHC class II deficiency. EMBO J 16: 1045-1055.
26. Masternak K, Barras E, Zufferey M, Conrad B, Corthals G, et al. (1998) A gene encoding a novel RFX-associated transactivator is mutated in the majority of MHC class II deficiency patients. Nat Genet 20: 273-277.
27. Steimle V, Durand B, Barras E, Zufferey M, Hadam MR, et al. (1995) A novel DNA binding regulatory factor is mutated in primary MHC class II deficiency (bare lymphocyte syndrome). Genes Dev 9: 1021-1032.
28. Nagarajan UM, Louis-Plence P, DeSandro A, Nilsen R, Bushey A, et al. (1999) RFX-B is the gene responsible for the most common cause of the bare lymphocyte syndrome, an MHC class II immunodeficiency. Immunity 10: 153-162.
29. Nekrep N, Jabrane-Ferrat N, Wolf HM, Eibl MM, Geyer M, et al. (2002) Mutation in a winged-helix DNA-binding motif causes atypical bare lymphocyte syndrome. Nat Immunol 3: 1075-1081.
30. Masternak K, Reith W (2002) Promoter-specific functions of CIITA and the MHC class II enhancesosome in transcriptional activation. EMBO J 21: 1379-1388.
31. Masternak K, Peyraud N, Krawczyk M, Barras E, Reith W (2003) Chromatin remodeling and extragenic transcription at the MHC class II locus control region. Nat Immunol 4: 132-137.
32. Krawczyk M, Leimgruber E, Seguin-Estevez Q, Dunand-Sauthier I, Barras E, et al. (2007) Expression of RAB4B, a protein governing endocytic recycling, is coregulated with MHC class II genes. Nucleic Acids Res 35: 595-605.
33. Beresford GW, Boss JM (2001) CIITA coordinates multiple histone acetylation modifications at the HLA- DRA promoter. Nat Immunol 2: 652-657.
34. Scacheri PC, Crawford GE, Davis S (2006) Statistics for ChIP-chip and DNase hypersensitivity experiments on NimbleGen arrays. Methods Enzymol 411: 270-282.
35. Rybtsova N, Leimgruber E, Seguin-Estevez Q, Dunand-Sauthier I, Krawczyk M, et al. (2007) Transcription-coupled deposition of histone modifications during MHC class II gene activation. Nucleic Acids Res 35: 3431-3441.
36. Krawczyk M, Peyraud N, Rybtsova N, Masternak K, Bucher P, et al. (2004) Long distance control of MHC class II expression by multiple distal enhancers regulated by regulatory factor X complex and CIITA. J Immunol 173: 6200-6210.
37. Gomez JA, Majumder P, Nagarajan UM, Boss JM (2005) X box-like sequences in the MHC class II region maintain regulatory function. J Immunol 175: 1030-1040.
38. Kaczynski J, Cook T, Urrutia R (2003) Sp1- and Kruppel-like transcription factors. Genome Biol 4: 206.
39. Pfeffer SR (2001) Rab GTPases: specifying and deciphering organelle identity and function. Trends Cell Biol 11: 487-491.
40. Groothuis TA, Neefjes J (2005) The many roads to cross-presentation. J Exp Med 202: 1313-1318.
41. Ackerman AL, Cresswell P (2004) Cellular mechanisms governing crosspresentation of exogenous antigens. Nat Immunol 5: 678-684.
42. Bergtold A, Desai DD, Gavhane A, Clynes R (2005) Cell surface recycling of internalized antigen permits dendritic cell priming of B cells. Immunity 23: 503-514.
43. Pinet V, Vergelli M, Martin R, Bakke O, Long EO (1995) Antigen presentation mediated by recycling of surface HLA-DR molecules. Nature 375: 603-606.
44. Lazzarino DA, Blier P, Mellman I (1998) The monomeric guanosine triphosphatase rab4 controls an essential step on the pathway of receptor-mediated antigen processing in B cells. J Exp Med 188: 1769-1774.
45. Golabek AA, Kida E (2006) Tripeptidyl-peptidase I in health and disease. Biol Chem 387: 1091-1099.
46. Kloetzel PM (2004) The proteasome and MHC class I antigen processing. Biochim Biophys Acta 1695: 225-233.
47. Weber FE, Vaughan KT, Reinach FC, Fischman DA (1993) Complete sequence of human fast-type and slow-type muscle myosin-binding-protein C (MyBP-C). Differential expression, conserved domain structure and chromosome assignment. Eur J Biochem 216: 661-669.
48. Flashman E, Redwood C, Moolman-Smook J, Watkins H (2004) Cardiac myosin binding protein C: its role in physiology and disease. Circ Res 94: 1279-1289.
49. Vascotto F, Lankar D, Faure-Andre G, Vargas P, Diaz J, et al. (2007) The actin-based motor protein myosin II regulates MHC class II trafficking and BCR-driven antigen presentation. J Cell Biol 176: 1007-1019.
50. West MA, Wallin RPA, Matthews SP, Svensson HG, Zaru R, et al. (2004) Enhanced dendritic cell antigen capture via toll-like receptor-induced actin remodeling. Science 305: 1153-1157.
51. Gordy C, Mishra S, Rodgers W (2004) Visualization of antigen presentation by actin-mediated targeting of glycolipid-enriched membrane domains to the immune synapse of B cell APCs. J Immunol 172: 2030-2038.
52. Meroni G, Diez-Roux G (2005) TRIM/RBCC, a novel class of single protein RING finger E3 ubiquitin ligases. BioEssays 27: 1147-1157.
53. Holling TM, van Eggermond MC, Jager MJ, van den Elsen PJ (2006) Epigenetic silencing of MHC2TA transcription in cancer. Biochem Pharmacol 72: 1570-1576.
54. Garcia-Lora A, Algarra I, Collado A, Garrido F (2003) Tumour immunology, vaccination and escape strategies. Eur J Immunogenet 30: 177-183.
55. Otten LA, Leibundgut-Landmann S, Huarte J, Kos-Braun IC, Lavanchy C, et al. (2006) Revisiting the specificity of the MHC class II transactivator CIITA in vivo. Eur J Immunol 36: 1548-1558.
56. Kodadek T, Sikder D, Nalley K (2006) Keeping transcriptional activators under control. Cell 127: 261-264.
57. Ting JP, Davis BK (2005) CATERPILLER: a novel gene family important in immunity, cell death, and diseases. Annu Rev Immunol 23: 387-414.
58. Inohara, Chamaillard, McDonald C, Nunez G (2005) NOD-LRR proteins: role in host-microbial interactions and inflammatory disease. Annu Rev Biochem 74: 355-383.
59. Martinon F, Tschopp J (2005) NLRs join TLRs as innate sensors of pathogens. Trends Immunol 26: 447-454.
60. Jaccard P (1908) Nouvelles recherches sur distribution florale. Bull Soc Vaud Sci Nat 44: 223-270.
61. Kaufman L, Rousseeuw PJ (1990) Finding Groups in Data: An Introduction to Cluster Analysis. New York: John Wiley and Sons inc. 368 p.
62. Rousseeuw PJ (1987) Silhouettes: a graphical aid to the interpretation and validation of cluster analysis. J Comput Appl Math 20: 53-65.