Role of chromatin structure in integration of helper-dependent adenoviral vectors containing the β-globin locus control region

Human Gene Therapy

Volumn 19, Issue 2, 2008, Pages 153-166

  Sova, Pavel ^a   Wang, Hongjie ^b   Bomsztyk, Karol ^a   Stamatoyannopoulos, George ^b   Lieber, André ^b  

^a UNIVERSITY OF WASHINGTON   (United States)

^b UNIVERSITY OF WASHINGTON SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOVIRUS VECTOR; BETA GLOBIN; DEOXYRIBONUCLEASE;

ARTICLE; CHROMATIN; CHROMATIN STRUCTURE; CONTROLLED STUDY; ERYTHROID CELL; GENE LOCATION; GENE SEQUENCE; GENETIC ANALYSIS; HUMAN; HUMAN CELL; IMMUNOPRECIPITATION; MOLECULAR CLONING; REGULATOR GENE; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION;

ADENOVIRIDAE; BINDING SITES; CELL LINE; CHROMATIN; CHROMATIN IMMUNOPRECIPITATION; CHROMOSOMES, HUMAN, PAIR 11; DNA-BINDING PROTEINS; ERYTHROID CELLS; GENETIC VECTORS; GENOME, VIRAL; GLOBINS; GREEN FLUORESCENT PROTEINS; HELPER VIRUSES; HUMANS; LOCUS CONTROL REGION; PROMOTER REGIONS (GENETICS); TRANSDUCTION, GENETIC; VIRAL PROTEINS; VIRUS INTEGRATION;

ADENO-ASSOCIATED VIRUS;

EID: 39449096048     PISSN: 10430342     EISSN: None     Source Type: Journal    
DOI: 10.1089/hum.2007.091     Document Type: Article

References (45)

1. AVANZI, G.C., LISTA, P., GIOVINAZZO, B., MINIERO, R., SAGLIO, G., BENETTON, G., CODA, R., CATTORETTI, G., and PEGORARO, L. (1988). Selective growth response to IL-3 of a human leukaemic cell line with megakaryoblastic features. Br. J. Haematol. 69, 359-366.
2. BARJOT, C., HARTIGAN-O'CONNOR, D., SALVATORI, G., SCOTT, J.M., and CHAMBERLAIN, J.S. (2002). Gutted adenoviral vector growth using E1/E2b/E3-deleted helper viruses. J. Gene Med. 4, 480-489.
3. BULGER, M., SCHUBELER, D., BENDER, M.A., HAMILTON, J., FARRELL, C.M., HARDISON, R.C., and GROUDINE, M. (2003). A complex chromatin landscape revealed by patterns of nuclease sensitivity and histone modification within the mouse β-globin locus. Mol. Cell. Biol. 23, 5234-5244.
4. CHUBB, J.R., and BICKMORE, W.A. (2003). Considering nuclear compartmentalization in the light of nuclear dynamics. Cell 112, 403-406.
5. CIUFFI, A., LLANO, M., POESCHLA, E., HOFFMANN, C., LEIPZIG, J., SHINN, P., ECKER, J.R., and BUSHMAN, F. (2005). A role for LEDGF/p75 in targeting HIV DNA integration. Nat. Med. 11, 1287-1289.
6. EHRHARDT, A., XU, H., HUANG, Z., ENGLER, J.A., and KAY, M.A. (2005). A direct comparison of two nonviral gene therapy vectors for somatic integration: In vivo evaluation of the bacteriophage integrase φC31 and the Sleeping Beauty transposase. Mol. Ther. 11, 695-706.
7. FANG, X., SUN, J., XIANG, P., YU, M., NAVAS, P.A., PETERSON, K.R., STAMATOYANNOPOULOS, G., and LI, Q. (2005). Synergistic and additive properties of the β-globin locus control region (LCR) revealed by 5′HS3 deletion mutations: Implication for LCR chromatin architecture. Mol. Cell. Biol. 25, 7033-7041.
8. FANG, X., XIANG, P., YIN, W., STAMATOYANNOPOULOS, G., and LI, Q. (2007). Cooperativeness of the higher chromatin structure of the β-globin locus revealed by the deletion mutations of DNase I hypersensitive site 3 of the LCR. J. Mol. Biol. 365, 31-37.
9. GROSVELD, F., ANTONIOU, M., BERRY, M., DE BOER, E., DILLON, N., ELLIS, J., FRASER, P., HANSCOMBE, O., HURST, J., IMAM, A., LINDENBAUM, M., PHILIPSEN, S., PRUZINA, S., STROUBOULIS, J., RAGUZ-BOLOGNESI, S., and TALBOT, D. (1993). The regulation of human globin gene switching. Philos. Trans. R. Soc. Lond. B Biol. Sci. 339, 183-191.
10. HARTIGAN-O'CONNOR, D., BARJOT, C., SALVATORI, G., and CHAMBERLAIN, J.S. (2002). Generation and growth of gutted adenoviral vectors. Methods Enzymol. 346, 224-246.
11. KIM, A., KIEFER, C.M., and DEAN, A. (2007a). Distinctive signatures of histone methylation in transcribed coding and noncoding human β-globin sequences. Mol. Cell. Biol. 27, 1271-1279.
12. KIM, A., ZHAO, H., IFRIM, I., and DEAN, A. (2007b). β-Globin intergenic transcription and histone acetylation dependent on an enhancer. Mol. Cell. Biol. 27, 2980-2986.
13. KIM, S.I., BULTMAN, S.J., JING, H., BLOBEL, G.A., and BRESNICK, E.H. (2007). Dissecting molecular steps in chromatin domain activation during hematopoietic differentiation. Mol. Cell. Biol. 27, 4551-4565.
14. KOHN, D.B., SADELAIN, M., and GLORIOSO, J.C. (2003). Occurrence of leukaemia following gene therapy of X-linked SCID. Nat. Rev. Cancer 3, 477-488.
15. KOOREN, J., PALSTRA, R.J., KLOUS, P., SPLINTER, E., VON LINDERN, M., GROSVELD, F., and DE LAAT, W. (2007). β-Globin active chromatin hub formation in differentiating erythroid cells and in p45 NF-E2 knockout mice. J. Biol. Chem. 282, 16544-16552.
16. LANZOV, V.A. (1999). Gene targeting for gene therapy: Prospects. Mol. Genet. Metab. 68, 276-282.
17. LI, Z., DULLMANN, J., SCHIEDLMEIER, B., SCHMIDT, M., VON KALLE, C., MEYER, J., FORSTER, M., STOCKING, C., WAHLERS, A., FRANK, O., OSTERTAG, W., KUHLCKE, K., ECKERT, H.G., FEHSE, B., and BAUM, C. (2002). Murine leukemia induced by retroviral gene marking. Science 296, 497.
18. LIEBERMAN, P.M. (2006). Chromatin regulation of virus infection. Trends Microbiol. 14, 132-140.
19. LINDEN, R.M., WARD, P., GIRAUD, C., WINOCOUR, E., and BERNS, K.I. (1996). Site-specific integration by adeno-associated virus. Proc. Natl. Acad. Sci. U.S.A. 93, 11288-11294.
20. LLANO, M., VANEGAS, M., HUTCHINS, N., THOMPSON, D., DELGADO, S., and POESCHLA, E.M. (2006). Identification and characterization of the chromatin-binding domains of the HIV-1 integrase interactor LEDGF/p75. J. Mol. Biol. 360, 760-773.
21. MIRZA, M.A., and WEBER, J. (1982). Structure of adenovirus chromatin. Biochim. Biophys. Acta 696, 76-86.
22. MITCHELL, R.S., BEITZEL, B.F., SCHRODER, A.R., SHINN, P., CHEN, H., BERRY, C.C., ECKER, J.R., and BUSHMAN, F.D. (2004). Retroviral DNA integration: ASLV, HIV, and MLV show distinct target site preferences. PLoS Biol. 2, E234.
23. MOORE, M., and ULLMAN, C. (2003). Recent developments in the engineering of zinc finger proteins. Brief. Funct. Genomic. Proteomic. 1, 342-355.
24. NELSON, J.D., DENISENKO, O., and BOMSZTYK, K. (2006a). Protocol for the fast chromatin immunoprecipitation (ChIP) method. Nat. Protoc. 1, 179-185.
25. NELSON, J.D., DENISENKO, O., SOVA, P., and BOMSZTYK, K. (2006b). Fast chromatin immunoprecipitation assay. Nucleic Acids Res. 34, e2.
26. RUSSELL, D.W. (2003). AAV loves an active genome. Nat. Genet. 34, 241-242.
27. SANDIG, V., YOUIL, R., BETT, A.J., FRANLIN, L.L., OSHIMA, M., MAIONE, D., WANG, F., METZKER, M.L., SAVINO, R., and CASKEY, C.T. (2000). Optimization of the helper-dependent adenovirus system for production and potency in vivo. Proc. Natl. Acad. Sci. U.S.A. 97, 1002-1007.
28. SCHAACK, J., HO, W.Y., FREIMUTH, P., and SHENK, T. (1990). Adenovirus terminal protein mediates both nuclear matrix association and efficient transcription of adenovirus DNA. Genes Dev. 4, 1197-1208.
29. SCHAACK, J., GUO, X., HO, W.Y., KARLOK, M., CHEN, C., and ORNELLES, D. (1995). Adenovirus type 5 precursor terminal protein-expressing 293 and HeLa cell lines. J. Virol. 69, 4079-4085.
30. SHAW, G., MORSE, S., ARARAT, M., and GRAHAM, F.L. (2002). Preferential transformation of human neuronal cells by human adenoviruses and the origin of HEK 293 cells. FASEB J. 16, 869-871.
31. + cells by a retargeted adenovirus vector. J. Virol. 74, 2567-2583.
32. SHAYAKHMETOV, D.M., CARLSON, C.A., STECHER, H., LI, Q., STAMATOYANNOPOULOS, G., and LIEBER, A. (2002). A high-capacity, capsid-modified hybrid adenovirus/adeno-associated virus vector for stable transduction of human hematopoietic cells. J. Virol. 76, 1135-1143.
33. SHAYAKHMETOV, D.M., LI, Z.Y., GAGGAR, A., GHARWAN, H., TERNOVOI, V., SANDIG, V., and LIEBER, A. (2004). Genome size and structure determine efficiency of postinternalization steps and gene transfer of capsid-modified adenovirus vectors in a cell-type-specific manner. J. Virol. 78, 10009-10022.
34. SNYDER, R.O., IM, D.S., NI, T., XIAO, X., SAMULSKI, R.J., and MUZYCZKA, N. (1993). Features of the adeno-associated virus origin involved in substrate recognition by the viral Rep protein. J. Virol. 67, 6096-6104.
35. SOVA, P., FENG, Q., GEISS, G., WOOD, T., STRAUSS, R., RUDOLF, V., LIEBER, A., and KIVIAT, N. (2006). Discovery of novel methylation biomarkers in cervical carcinoma by global demethylation and microarray analysis. Cancer Epidemiol. Biomarkers Prev. 15, 114-123.
36. TATE, V.E., and PHILIPSON, L. (1979). Parental adenovirus DNA accumulates in nucleosome-like structures in infected cells. Nucleic Acids Res. 6, 2769-2785.
37. TOLHUIS, B., PALSTRA, R.J., SPLINTER, E., GROSVELD, F., and DE LAAT, W. (2002). Looping and interaction between hypersensitive sites in the active β-globin locus. Mol. Cell 10, 1453-1465.
38. VIJAYA, S., STEFFEN, D.L., and ROBINSON, H.L. (1986). Acceptor sites for retroviral integrations map near DNase I-hypersensitive sites in chromatin. J. Virol. 60, 683-692.
39. WANG, H., and LIEBER, A. (2006). A helper-dependent capsid-modified adenovirus vector expressing adeno-associated virus rep78 mediates site-specific integration of a 27-kilobase transgene cassette. J. Virol. 80, 11699-11709.
40. WANG, H., SHAYAKHMETOV, D.M., LEEGE, T., HARKEY, M., LI, Q., PAPAYANNOPOULOU, T., STAMATOYANNOPOLOUS, G., and LIEBER, A. (2005). A capsid-modified helper-dependent adenovirus vector containing the β-globin locus control region displays a nonrandom integration pattern and allows stable, erythroid-specific gene expression. J. Virol. 79, 10999-11013.
41. WEITZMAN, M.D., KYOSTIO, S.R., KOTIN, R.M., and OWENS, R.A. (1994). Adeno-associated virus (AAV) Rep proteins mediate complex formation between AAV DNA and its integration site in human DNA. Proc. Natl. Acad. Sci. U.S.A. 91, 5808-5812.
42. XIAO, X., XIAO, W., LI, J., and SAMULSKI, R.J. (1997). A novel 165-base-pair terminal repeat sequence is the sole cis requirement for the adeno-associated virus life cycle. J. Virol. 71, 941-948.
43. YOTNDA, P., ONISHI, H., HESLOP, H.E., SHAYAKHMETOV, D., LIEBER, A., BRENNER, M., and DAVIS, A. (2001). Efficient infection of primitive hematopoietic stem cells by modified adenovirus. Gene Ther. 8, 930-937.
44. YOUNG, S.M., Jr., MCCARTY, D.M., DEGTYAREVA, N., and SAMULSKI, R.J. (2000). Roles of adeno-associated virus Rep protein and human chromosome 19 in site-specific recombination. J. Virol. 74, 3953-3966.
45. ZHU, Y., DAI, J., FUERST, P.G., and VOYTAS, D.F. (2003). Controlling integration specificity of a yeast retrotransposon. Proc. Natl. Acad. Sci. U.S.A. 100, 5891-5895.