請用此 Handle URI 來引用此文件:
http://tdr.lib.ntu.edu.tw/jspui/handle/123456789/45260完整後設資料紀錄
| DC 欄位 | 值 | 語言 |
|---|---|---|
| dc.contributor.advisor | 陳培哲(Pei-Jer Chen) | |
| dc.contributor.author | Shiao-Ya Hong | en |
| dc.contributor.author | 洪小雅 | zh_TW |
| dc.date.accessioned | 2021-06-15T04:11:15Z | - |
| dc.date.available | 2013-03-12 | |
| dc.date.copyright | 2010-03-12 | |
| dc.date.issued | 2010 | |
| dc.date.submitted | 2010-01-27 | |
| dc.identifier.citation | 1. Abrahem, A., and M. Pelchat. 2008. Formation of an RNA polymerase II preinitiation complex on an RNA promoter derived from the hepatitis delta virus RNA genome. Nucleic Acids Res 36:5201-11.
2. Armache, K. J., H. Kettenberger, and P. Cramer. 2003. Architecture of initiation-competent 12-subunit RNA polymerase II. Proc Natl Acad Sci U S A 100:6964-8. 3. Barford, D., A. K. Das, and M. P. Egloff. 1998. The structure and mechanism of protein phosphatases: insights into catalysis and regulation. Annu Rev Biophys Biomol Struct 27:133-64. 4. Bell, P., R. Brazas, D. Ganem, and G. G. Maul. 2000. Hepatitis delta virus replication generates complexes of large hepatitis delta antigen and antigenomic RNA that affiliate with and alter nuclear domain 10. J Virol 74:5329-36. 5. Benayoun, B. A., and R. A. Veitia. 2009. A post-translational modification code for transcription factors: sorting through a sea of signals. Trends Cell Biol 19:189-97. 6. Bergmann, K. F., and J. L. Gerin. 1986. Antigens of hepatitis delta virus in the liver and serum of humans and animals. J Infect Dis 154:702-6. 7. Bernardi, R., and P. P. Pandolfi. 2007. Structure, dynamics and functions of promyelocytic leukaemia nuclear bodies. Nat Rev Mol Cell Biol 8:1006-16. 8. Bichko, V., S. Barik, and J. Taylor. 1997. Phosphorylation of the hepatitis delta virus antigens. J Virol 71:512-8. 9. Bichko, V. V., and J. M. Taylor. 1996. Redistribution of the delta antigens in cells replicating the genome of hepatitis delta virus. J Virol 70:8064-70. 10. Boisvert, F. M., S. van Koningsbruggen, J. Navascues, and A. I. Lamond. 2007. The multifunctional nucleolus. Nat Rev Mol Cell Biol 8:574-85. 11. Bonino, F., N. Caporaso, P. Dentico, G. Marinucci, L. Valeri, A. Craxi, A. Ascione, G. Raimondo, F. Piccinino, G. Rocca, and et al. 1985. Familiar clustering and spreading of hepatitis delta virus infection. J Hepatol 1:221-6. 12. Bonino, F., B. Hoyer, J. Nelson, R. Engle, G. Verme, and J. Gerin. 1981. Hepatitis B virus DNA in the sera of HBsAg carriers: a marker of active hepatitis B virus replication in the liver. Hepatology 1:386-91. 13. Bonino, F., B. Hoyer, J. W. Shih, M. Rizzetto, R. H. Purcell, and J. L. Gerin. 1984. Delta hepatitis agent: structural and antigenic properties of the delta-associated particle. Infect Immun 43:1000-5. 14. Bonino, F., and A. Smedile. 1986. Delta agent (type D) hepatitis. Semin Liver Dis 6:28-33. 15. Branch, A. D., B. J. Benenfeld, B. M. Baroudy, F. V. Wells, J. L. Gerin, and H. D. Robertson. 1989. An ultraviolet-sensitive RNA structural element in a viroid-like domain of the hepatitis delta virus. Science 243:649-52. 16. Brazas, R., and D. Ganem. 1996. A cellular homolog of hepatitis delta antigen: implications for viral replication and evolution. Science 274:90-4. 17. Bregman, D. B., L. Du, S. van der Zee, and S. L. Warren. 1995. Transcription-dependent redistribution of the large subunit of RNA polymerase II to discrete nuclear domains. J Cell Biol 129:287-98. 18. Buratowski, S. 2005. Connections between mRNA 3' end processing and transcription termination. Curr Opin Cell Biol 17:257-61. 19. Buratowski, S. 2003. The CTD code. Nat Struct Biol 10:679-80. 20. Casey, J. L., K. F. Bergmann, T. L. Brown, and J. L. Gerin. 1992. Structural requirements for RNA editing in hepatitis delta virus: evidence for a uridine-to-cytidine editing mechanism. Proc Natl Acad Sci U S A 89:7149-53. 21. Casey, J. L., T. L. Brown, E. J. Colan, F. S. Wignall, and J. L. Gerin. 1993. A genotype of hepatitis D virus that occurs in northern South America. Proc Natl Acad Sci U S A 90:9016-20. 22. Casey, J. L., G. A. Niro, R. E. Engle, A. Vega, H. Gomez, M. McCarthy, D. M. Watts, K. C. Hyams, and J. L. Gerin. 1996. Hepatitis B virus (HBV)/hepatitis D virus (HDV) coinfection in outbreaks of acute hepatitis in the Peruvian Amazon basin: the roles of HDV genotype III and HBV genotype F. J Infect Dis 174:920-6. 23. Chang, J., X. Nie, H. E. Chang, Z. Han, and J. Taylor. 2008. Transcription of hepatitis delta virus RNA by RNA polymerase II. J Virol 82:1118-27. 24. Chang, J., and J. Taylor. 2002. In vivo RNA-directed transcription, with template switching, by a mammalian RNA polymerase. EMBO J 21:157-64. 25. Chang, M. F., S. C. Baker, L. H. Soe, T. Kamahora, J. G. Keck, S. Makino, S. Govindarajan, and M. M. Lai. 1988. Human hepatitis delta antigen is a nuclear phosphoprotein with RNA-binding activity. J Virol 62:2403-10. 26. Chang, M. F., C. Y. Sun, C. J. Chen, and S. C. Chang. 1993. Functional motifs of delta antigen essential for RNA binding and replication of hepatitis delta virus. J Virol 67:2529-36. 27. Chao, M., S. Y. Hsieh, and J. Taylor. 1991. The antigen of hepatitis delta virus: examination of in vitro RNA-binding specificity. J Virol 65:4057-62. 28. Chao, Y. C., M. F. Chang, I. Gust, and M. M. Lai. 1990. Sequence conservation and divergence of hepatitis delta virus RNA. Virology 178:384-92. 29. Chen, C. W., Y. G. Tsay, H. L. Wu, C. H. Lee, D. S. Chen, and P. J. Chen. 2002. The double-stranded RNA-activated kinase, PKR, can phosphorylate hepatitis D virus small delta antigen at functional serine and threonine residues. J Biol Chem 277:33058-67. 30. Chen, P. J., F. L. Chang, C. J. Wang, C. J. Lin, S. Y. Sung, and D. S. Chen. 1992. Functional study of hepatitis delta virus large antigen in packaging and replication inhibition: role of the amino-terminal leucine zipper. J Virol 66:2853-9. 31. Chen, P. J., G. Kalpana, J. Goldberg, W. Mason, B. Werner, J. Gerin, and J. Taylor. 1986. Structure and replication of the genome of the hepatitis delta virus. Proc Natl Acad Sci U S A 83:8774-8. 32. Chen, P. J., H. L. Wu, C. J. Wang, J. H. Chia, and D. S. Chen. 1997. Molecular biology of hepatitis D virus: research and potential for application. J Gastroenterol Hepatol 12:S188-92. 33. Chen, Y. S., W. H. Huang, S. Y. Hong, Y. G. Tsay, and P. J. Chen. 2008. ERK1/2-mediated phosphorylation of small hepatitis delta antigen at serine 177 enhances hepatitis delta virus antigenomic RNA replication. J Virol 82:9345-58. 34. Choi, S. H., K. J. Park, and S. B. Hwang. 2002. Large hepatitis delta antigen is phosphorylated at multiple sites and phosphorylation is associated with protein conformational change. Intervirology 45:142-9. 35. Chung, W. H., J. L. Craighead, W. H. Chang, C. Ezeokonkwo, A. Bareket-Samish, R. D. Kornberg, and F. J. Asturias. 2003. RNA polymerase II/TFIIF structure and conserved organization of the initiation complex. Mol Cell 12:1003-13. 36. Corden, J. L. 1993. RNA polymerase II transcription cycles. Curr Opin Genet Dev 3:213-8. 37. Cozzone, A. J. 1988. Protein phosphorylation in prokaryotes. Annu Rev Microbiol 42:97-125. 38. Cramer, P., D. A. Bushnell, J. Fu, A. L. Gnatt, B. Maier-Davis, N. E. Thompson, R. R. Burgess, A. M. Edwards, P. R. David, and R. D. Kornberg. 2000. Architecture of RNA polymerase II and implications for the transcription mechanism. Science 288:640-9. 39. Cramer, P., D. A. Bushnell, and R. D. Kornberg. 2001. Structural basis of transcription: RNA polymerase II at 2.8 angstrom resolution. Science 292:1863-76. 40. Cunha, C., J. Monjardino, D. Cheng, S. Krause, and M. Carmo-Fonseca. 1998. Localization of hepatitis delta virus RNA in the nucleus of human cells. RNA 4:680-93. 41. Dahmus, M. E. 1995. Phosphorylation of the C-terminal domain of RNA polymerase II. Biochim Biophys Acta 1261:171-82. 42. Dahmus, M. E. 1994. The role of multisite phosphorylation in the regulation of RNA polymerase II activity. Prog Nucleic Acid Res Mol Biol 48:143-79. 43. Darzacq, X., B. E. Jady, C. Verheggen, A. M. Kiss, E. Bertrand, and T. Kiss. 2002. Cajal body-specific small nuclear RNAs: a novel class of 2'-O-methylation and pseudouridylation guide RNAs. EMBO J 21:2746-56. 44. de Bruin, W., W. Leenders, T. Kos, and S. H. Yap. 1994. In vitro binding properties of the hepatitis delta antigens to the hepatitis B virus envelope proteins: potential significance for the formation of delta particles. Virus Res 31:27-37. 45. Dimitrova, D. S., and R. Berezney. 2002. The spatio-temporal organization of DNA replication sites is identical in primary, immortalized and transformed mammalian cells. J Cell Sci 115:4037-51. 46. Dubois, M. F., V. T. Nguyen, S. Bellier, and O. Bensaude. 1994. Inhibitors of transcription such as 5,6-dichloro-1-beta-D-ribofuranosylbenzimidazole and isoquinoline sulfonamide derivatives (H-8 and H-7) promote dephosphorylation of the carboxyl-terminal domain of RNA polymerase II largest subunit. J Biol Chem 269:13331-6. 47. Eberhardy, S. R., and P. J. Farnham. 2002. Myc recruits P-TEFb to mediate the final step in the transcriptional activation of the cad promoter. J Biol Chem 277:40156-62. 48. Elena, S. F., J. Dopazo, R. Flores, T. O. Diener, and A. Moya. 1991. Phylogeny of viroids, viroidlike satellite RNAs, and the viroidlike domain of hepatitis delta virus RNA. Proc Natl Acad Sci U S A 88:5631-4. 49. Fattovich, G., G. Giustina, E. Christensen, M. Pantalena, I. Zagni, G. Realdi, and S. W. Schalm. 2000. Influence of hepatitis delta virus infection on morbidity and mortality in compensated cirrhosis type B. The European Concerted Action on Viral Hepatitis (Eurohep). Gut 46:420-6. 50. Filipovska, J., and M. M. Konarska. 2000. Specific HDV RNA-templated transcription by pol II in vitro. RNA 6:41-54. 51. Fu, T. B., and J. Taylor. 1993. The RNAs of hepatitis delta virus are copied by RNA polymerase II in nuclear homogenates. J Virol 67:6965-72. 52. Fujinaga, K., D. Irwin, Y. Huang, R. Taube, T. Kurosu, and B. M. Peterlin. 2004. Dynamics of human immunodeficiency virus transcription: P-TEFb phosphorylates RD and dissociates negative effectors from the transactivation response element. Mol Cell Biol 24:787-95. 53. Ganem, D., and H. E. Varmus. 1987. The molecular biology of the hepatitis B viruses. Annu Rev Biochem 56:651-93. 54. Glenn, J. S., J. A. Watson, C. M. Havel, and J. M. White. 1992. Identification of a prenylation site in delta virus large antigen. Science 256:1331-3. 55. Gnatt, A. L., P. Cramer, J. Fu, D. A. Bushnell, and R. D. Kornberg. 2001. Structural basis of transcription: an RNA polymerase II elongation complex at 3.3 A resolution. Science 292:1876-82. 56. Gold, M. O., J. P. Tassan, E. A. Nigg, A. P. Rice, and C. H. Herrmann. 1996. Viral transactivators E1A and VP16 interact with a large complex that is associated with CTD kinase activity and contains CDK8. Nucleic Acids Res 24:3771-7. 57. Gorski, S., and T. Misteli. 2005. Systems biology in the cell nucleus. J Cell Sci 118:4083-92. 58. Gowans, E. J., B. M. Baroudy, F. Negro, A. Ponzetto, R. H. Purcell, and J. L. Gerin. 1988. Evidence for replication of hepatitis delta virus RNA in hepatocyte nuclei after in vivo infection. Virology 167:274-8. 59. Greco-Stewart, V. S., P. Miron, A. Abrahem, and M. Pelchat. 2007. The human RNA polymerase II interacts with the terminal stem-loop regions of the hepatitis delta virus RNA genome. Virology 357:68-78. 60. Gudima, S., J. Chang, G. Moraleda, A. Azvolinsky, and J. Taylor. 2002. Parameters of human hepatitis delta virus genome replication: the quantity, quality, and intracellular distribution of viral proteins and RNA. J Virol 76:3709-19. 61. Gudima, S., K. Dingle, T. T. Wu, G. Moraleda, and J. Taylor. 1999. Characterization of the 5' ends for polyadenylated RNAs synthesized during the replication of hepatitis delta virus. J Virol 73:6533-9. 62. Gudima, S., S. Y. Wu, C. M. Chiang, G. Moraleda, and J. Taylor. 2000. Origin of hepatitis delta virus mRNA. J Virol 74:7204-10. 63. Gudima, S. O., J. Chang, and J. M. Taylor. 2004. Features affecting the ability of hepatitis delta virus RNAs to initiate RNA-directed RNA synthesis. J Virol 78:5737-44. 64. Gudima, S. O., J. Chang, and J. M. Taylor. 2005. Reconstitution in cultured cells of replicating HDV RNA from pairs of less than full-length RNAs. RNA 11:90-8. 65. Hadler, S. C., M. Alcala de Monzon, G. Bensabath, M. Martinez Duran, G. Schatz, and H. A. Fields. 1991. Epidemiology of hepatitis delta virus infection in less developed countries. Prog Clin Biol Res 364:21-31. 66. Han, Z., C. Alves, S. Gudima, and J. Taylor. 2009. Intracellular localization of hepatitis delta virus proteins in the presence and absence of viral RNA accumulation. J Virol 83:6457-63. 67. Handwerger, K. E., and J. G. Gall. 2006. Subnuclear organelles: new insights into form and function. Trends Cell Biol 16:19-26. 68. Haussecker, D., D. Cao, Y. Huang, P. Parameswaran, A. Z. Fire, and M. A. Kay. 2008. Capped small RNAs and MOV10 in human hepatitis delta virus replication. Nat Struct Mol Biol 15:714-21. 69. Hirose, Y., and Y. Ohkuma. 2007. Phosphorylation of the C-terminal domain of RNA polymerase II plays central roles in the integrated events of eucaryotic gene expression. J Biochem 141:601-8. 70. Hsieh, S. Y., M. Chao, L. Coates, and J. Taylor. 1990. Hepatitis delta virus genome replication: a polyadenylated mRNA for delta antigen. J Virol 64:3192-8. 71. Hsieh, S. Y., and J. Taylor. 1991. Regulation of polyadenylation of hepatitis delta virus antigenomic RNA. J Virol 65:6438-46. 72. Huang, W. H., R. T. Mai, and Y. H. Lee. 2008. Transcription factor YY1 and its associated acetyltransferases CBP and p300 interact with hepatitis delta antigens and modulate hepatitis delta virus RNA replication. J Virol 82:7313-24. 73. Huang, W. H., B. Y. Yung, W. J. Syu, and Y. H. Lee. 2001. The nucleolar phosphoprotein B23 interacts with hepatitis delta antigens and modulates the hepatitis delta virus RNA replication. J Biol Chem 276:25166-75. 74. Hwang, S. B., and M. M. Lai. 1994. Isoprenylation masks a conformational epitope and enhances trans-dominant inhibitory function of the large hepatitis delta antigen. J Virol 68:2958-64. 75. Hwang, S. B., and M. M. Lai. 1993. Isoprenylation mediates direct protein-protein interactions between hepatitis large delta antigen and hepatitis B virus surface antigen. J Virol 67:7659-62. 76. Hwang, S. B., C. Z. Lee, and M. M. Lai. 1992. Hepatitis delta antigen expressed by recombinant baculoviruses: comparison of biochemical properties and post-translational modifications between the large and small forms. Virology 190:413-22. 77. Isel, C., and J. Karn. 1999. Direct evidence that HIV-1 Tat stimulates RNA polymerase II carboxyl-terminal domain hyperphosphorylation during transcriptional elongation. J Mol Biol 290:929-41. 78. Jady, B. E., and T. Kiss. 2001. A small nucleolar guide RNA functions both in 2'-O-ribose methylation and pseudouridylation of the U5 spliceosomal RNA. EMBO J 20:541-51. 79. Jayan, G. C., and J. L. Casey. 2002. Inhibition of hepatitis delta virus RNA editing by short inhibitory RNA-mediated knockdown of ADAR1 but not ADAR2 expression. J Virol 76:12399-404. 80. Kitajima, S., T. Chibazakura, M. Yonaha, and Y. Yasukochi. 1994. Regulation of the human general transcription initiation factor TFIIF by phosphorylation. J Biol Chem 269:29970-7. 81. Komarnitsky, P., E. J. Cho, and S. Buratowski. 2000. Different phosphorylated forms of RNA polymerase II and associated mRNA processing factors during transcription. Genes Dev 14:2452-60. 82. Kos, A., R. Dijkema, A. C. Arnberg, P. H. van der Meide, and H. Schellekens. 1986. The hepatitis delta (delta) virus possesses a circular RNA. Nature 323:558-60. 83. Kuo, M. Y., M. Chao, and J. Taylor. 1989. Initiation of replication of the human hepatitis delta virus genome from cloned DNA: role of delta antigen. J Virol 63:1945-50. 84. Kuo, M. Y., J. Goldberg, L. Coates, W. Mason, J. Gerin, and J. Taylor. 1988. Molecular cloning of hepatitis delta virus RNA from an infected woodchuck liver: sequence, structure, and applications. J Virol 62:1855-61. 85. Kuo, M. Y., L. Sharmeen, G. Dinter-Gottlieb, and J. Taylor. 1988. Characterization of self-cleaving RNA sequences on the genome and antigenome of human hepatitis delta virus. J Virol 62:4439-44. 86. Lai, M. M. 1995. The molecular biology of hepatitis delta virus. Annu Rev Biochem 64:259-86. 87. Lai, M. M. 2005. RNA replication without RNA-dependent RNA polymerase: surprises from hepatitis delta virus. J Virol 79:7951-8. 88. Lamond, A. I., and D. L. Spector. 2003. Nuclear speckles: a model for nuclear organelles. Nat Rev Mol Cell Biol 4:605-12. 89. Lazinski, D. W., and J. M. Taylor. 1993. Relating structure to function in the hepatitis delta virus antigen. J Virol 67:2672-80. 90. Lee, C. H., S. C. Chang, C. J. Chen, and M. F. Chang. 1998. The nucleolin binding activity of hepatitis delta antigen is associated with nucleolus targeting. J Biol Chem 273:7650-6. 91. Lee, C. H., S. C. Chang, C. H. Wu, and M. F. Chang. 2001. A novel chromosome region maintenance 1-independent nuclear export signal of the large form of hepatitis delta antigen that is required for the viral assembly. J Biol Chem 276:8142-8. 92. Lee, C. Z., P. J. Chen, and D. S. Chen. 1995. Large hepatitis delta antigen in packaging and replication inhibition: role of the carboxyl-terminal 19 amino acids and amino-terminal sequences. J Virol 69:5332-6. 93. Lee, C. Z., P. J. Chen, M. M. Lai, and D. S. Chen. 1994. Isoprenylation of large hepatitis delta antigen is necessary but not sufficient for hepatitis delta virus assembly. Virology 199:169-75. 94. Lee, C. Z., J. H. Lin, M. Chao, K. McKnight, and M. M. Lai. 1993. RNA-binding activity of hepatitis delta antigen involves two arginine-rich motifs and is required for hepatitis delta virus RNA replication. J Virol 67:2221-7. 95. Lee, D. K., H. O. Duan, and C. Chang. 2001. Androgen receptor interacts with the positive elongation factor P-TEFb and enhances the efficiency of transcriptional elongation. J Biol Chem 276:9978-84. 96. Lee, J. M., and A. L. Greenleaf. 1997. Modulation of RNA polymerase II elongation efficiency by C-terminal heptapeptide repeat domain kinase I. J Biol Chem 272:10990-3. 97. Lehmann, E., F. Brueckner, and P. Cramer. 2007. Molecular basis of RNA-dependent RNA polymerase II activity. Nature 450:445-9. 98. Lettau, L. A., J. G. McCarthy, M. H. Smith, S. C. Hadler, L. J. Morse, T. Ukena, R. Bessette, A. Gurwitz, W. G. Irvine, H. A. Fields, and et al. 1987. Outbreak of severe hepatitis due to delta and hepatitis B viruses in parenteral drug abusers and their contacts. N Engl J Med 317:1256-62. 99. Li, Y. J., T. Macnaughton, L. Gao, and M. M. Lai. 2006. RNA-templated replication of hepatitis delta virus: genomic and antigenomic RNAs associate with different nuclear bodies. J Virol 80:6478-86. 100. Li, Y. J., M. R. Stallcup, and M. M. Lai. 2004. Hepatitis delta virus antigen is methylated at arginine residues, and methylation regulates subcellular localization and RNA replication. J Virol 78:13325-34. 101. Liaw, Y. F., K. W. Chiu, C. M. Chu, I. S. Sheen, and M. J. Huang. 1990. Heterosexual transmission of hepatitis delta virus in the general population of an area endemic for hepatitis B virus infection: a prospective study. J Infect Dis 162:1170-2. 102. Lin, J. H., M. F. Chang, S. C. Baker, S. Govindarajan, and M. M. Lai. 1990. Characterization of hepatitis delta antigen: specific binding to hepatitis delta virus RNA. J Virol 64:4051-8. 103. Luo, G. X., M. Chao, S. Y. Hsieh, C. Sureau, K. Nishikura, and J. Taylor. 1990. A specific base transition occurs on replicating hepatitis delta virus RNA. J Virol 64:1021-7. 104. MacNaughton, T. B., E. J. Gowans, S. P. McNamara, and C. J. Burrell. 1991. Hepatitis delta antigen is necessary for access of hepatitis delta virus RNA to the cell transcriptional machinery but is not part of the transcriptional complex. Virology 184:387-90. 105. Macnaughton, T. B., and M. M. Lai. 2002. Genomic but not antigenomic hepatitis delta virus RNA is preferentially exported from the nucleus immediately after synthesis and processing. J Virol 76:3928-35. 106. Macnaughton, T. B., S. T. Shi, L. E. Modahl, and M. M. Lai. 2002. Rolling circle replication of hepatitis delta virus RNA is carried out by two different cellular RNA polymerases. J Virol 76:3920-7. 107. Macnaughton, T. B., Y. J. Wang, and M. M. Lai. 1993. Replication of hepatitis delta virus RNA: effect of mutations of the autocatalytic cleavage sites. J Virol 67:2228-34. 108. Makino, S., M. F. Chang, C. K. Shieh, T. Kamahora, D. M. Vannier, S. Govindarajan, and M. M. Lai. 1987. Molecular cloning and sequencing of a human hepatitis delta (delta) virus RNA. Nature 329:343-6. 109. Marshall, N. F., J. Peng, Z. Xie, and D. H. Price. 1996. Control of RNA polymerase II elongation potential by a novel carboxyl-terminal domain kinase. J Biol Chem 271:27176-83. 110. Mintz, P. J., and D. L. Spector. 2000. Compartmentalization of RNA processing factors within nuclear speckles. J Struct Biol 129:241-51. 111. Misteli, T. 2001. Protein dynamics: implications for nuclear architecture and gene expression. Science 291:843-7. 112. Modahl, L. E., and M. M. Lai. 1998. Transcription of hepatitis delta antigen mRNA continues throughout hepatitis delta virus (HDV) replication: a new model of HDV RNA transcription and replication. J Virol 72:5449-56. 113. Modahl, L. E., T. B. Macnaughton, N. Zhu, D. L. Johnson, and M. M. Lai. 2000. RNA-Dependent replication and transcription of hepatitis delta virus RNA involve distinct cellular RNA polymerases. Mol Cell Biol 20:6030-9. 114. Moraleda, G., and J. Taylor. 2001. Host RNA polymerase requirements for transcription of the human hepatitis delta virus genome. J Virol 75:10161-9. 115. Morris, D. P., G. A. Michelotti, and D. A. Schwinn. 2005. Evidence that phosphorylation of the RNA polymerase II carboxyl-terminal repeats is similar in yeast and humans. J Biol Chem 280:31368-77. 116. Mortillaro, M. J., B. J. Blencowe, X. Wei, H. Nakayasu, L. Du, S. L. Warren, P. A. Sharp, and R. Berezney. 1996. A hyperphosphorylated form of the large subunit of RNA polymerase II is associated with splicing complexes and the nuclear matrix. Proc Natl Acad Sci U S A 93:8253-7. 117. Mu, J. J., D. S. Chen, and P. J. Chen. 2001. The conserved serine 177 in the delta antigen of hepatitis delta virus is one putative phosphorylation site and is required for efficient viral RNA replication. J Virol 75:9087-95. 118. Mu, J. J., Y. G. Tsay, L. J. Juan, T. F. Fu, W. H. Huang, D. S. Chen, and P. J. Chen. 2004. The small delta antigen of hepatitis delta virus is an acetylated protein and acetylation of lysine 72 may influence its cellular localization and viral RNA synthesis. Virology 319:60-70. 119. Mu, J. J., H. L. Wu, B. L. Chiang, R. P. Chang, D. S. Chen, and P. J. Chen. 1999. Characterization of the phosphorylated forms and the phosphorylated residues of hepatitis delta virus delta antigens. J Virol 73:10540-5. 120. Nie, X., J. Chang, and J. M. Taylor. 2004. Alternative processing of hepatitis delta virus antigenomic RNA transcripts. J Virol 78:4517-24. 121. O'Keefe, R. T., S. C. Henderson, and D. L. Spector. 1992. Dynamic organization of DNA replication in mammalian cell nuclei: spatially and temporally defined replication of chromosome-specific alpha-satellite DNA sequences. J Cell Biol 116:1095-110. 122. O'Malley, B., and D. W. Lazinski. 2005. Roles of carboxyl-terminal and farnesylated residues in the functions of the large hepatitis delta antigen. J Virol 79:1142-53. 123. Olson, M. O., and M. Dundr. 2005. The moving parts of the nucleolus. Histochem Cell Biol 123:203-16. 124. Otto, J. C., and P. J. Casey. 1996. The hepatitis delta virus large antigen is farnesylated both in vitro and in animal cells. J Biol Chem 271:4569-72. 125. Palangat, M., D. B. Renner, D. H. Price, and R. Landick. 2005. A negative elongation factor for human RNA polymerase II inhibits the anti-arrest transcript-cleavage factor TFIIS. Proc Natl Acad Sci U S A 102:15036-41. 126. Payne, J. M., P. J. Laybourn, and M. E. Dahmus. 1989. The transition of RNA polymerase II from initiation to elongation is associated with phosphorylation of the carboxyl-terminal domain of subunit IIa. J Biol Chem 264:19621-9. 127. Pohl, C., B. M. Baroudy, K. F. Bergmann, P. J. Cote, R. H. Purcell, J. Hoofnagle, and J. L. Gerin. 1987. A human monoclonal antibody that recognizes viral polypeptides and in vitro translation products of the genome of the hepatitis D virus. J Infect Dis 156:622-9. 128. Price, D. H. 2000. P-TEFb, a cyclin-dependent kinase controlling elongation by RNA polymerase II. Mol Cell Biol 20:2629-34. 129. Radjef, N., E. Gordien, V. Ivaniushina, E. Gault, P. Anais, T. Drugan, J. C. Trinchet, D. Roulot, M. Tamby, M. C. Milinkovitch, and P. Deny. 2004. Molecular phylogenetic analyses indicate a wide and ancient radiation of African hepatitis delta virus, suggesting a deltavirus genus of at least seven major clades. J Virol 78:2537-44. 130. Reid, C. E., and D. W. Lazinski. 2000. A host-specific function is required for ligation of a wide variety of ribozyme-processed RNAs. Proc Natl Acad Sci U S A 97:424-9. 131. Rizzetto, M. 1993. Hepatitis delta virus disease: an overview. Prog Clin Biol Res 382:425-30. 132. Rizzetto, M., M. G. Canese, S. Arico, O. Crivelli, C. Trepo, F. Bonino, and G. Verme. 1977. Immunofluorescence detection of new antigen-antibody system (delta/anti-delta) associated to hepatitis B virus in liver and in serum of HBsAg carriers. Gut 18:997-1003. 133. Rizzetto, M., M. G. Canese, J. L. Gerin, W. T. London, D. L. Sly, and R. H. Purcell. 1980. Transmission of the hepatitis B virus-associated delta antigen to chimpanzees. J Infect Dis 141:590-602. 134. Rizzetto, M., B. Hoyer, M. G. Canese, J. W. Shih, R. H. Purcell, and J. L. Gerin. 1980. delta Agent: association of delta antigen with hepatitis B surface antigen and RNA in serum of delta-infected chimpanzees. Proc Natl Acad Sci U S A 77:6124-8. 135. Ryu, W. S., H. J. Netter, M. Bayer, and J. Taylor. 1993. Ribonucleoprotein complexes of hepatitis delta virus. J Virol 67:3281-7. 136. Sakugawa, H., H. Nakasone, T. Nakayoshi, Y. Kawakami, S. Miyazato, F. Kinjo, A. Saito, S. P. Ma, H. Hotta, and M. Kinoshita. 1999. Hepatitis delta virus genotype IIb predominates in an endemic area, Okinawa, Japan. J Med Virol 58:366-72. 137. Saunders, A., L. J. Core, and J. T. Lis. 2006. Breaking barriers to transcription elongation. Nat Rev Mol Cell Biol 7:557-67. 138. Shakil, A. O., S. Hadziyannis, J. H. Hoofnagle, A. M. Di Bisceglie, J. L. Gerin, and J. L. Casey. 1997. Geographic distribution and genetic variability of hepatitis delta virus genotype I. Virology 234:160-7. 139. Sharmeen, L., M. Y. Kuo, G. Dinter-Gottlieb, and J. Taylor. 1988. Antigenomic RNA of human hepatitis delta virus can undergo self-cleavage. J Virol 62:2674-9. 140. Sharmeen, L., M. Y. Kuo, and J. Taylor. 1989. Self-ligating RNA sequences on the antigenome of human hepatitis delta virus. J Virol 63:1428-30. 141. Sheu, G. T., and M. M. Lai. 2000. Recombinant hepatitis delta antigen from E. coli promotes hepatitis delta virus RNA replication only from the genomic strand but not the antigenomic strand. Virology 278:578-86. 142. Sikorski, T. W., and S. Buratowski. 2009. The basal initiation machinery: beyond the general transcription factors. Curr Opin Cell Biol 21:344-51. 143. Smedile, A., M. Rizzetto, and J. L. Gerin. 1994. Advances in hepatitis D virus biology and disease. Prog Liver Dis 12:157-75. 144. Smith, K. P., M. Byron, C. Johnson, Y. Xing, and J. B. Lawrence. 2007. Defining early steps in mRNA transport: mutant mRNA in myotonic dystrophy type I is blocked at entry into SC-35 domains. J Cell Biol 178:951-64. 145. Spector, D. L. 2001. Nuclear domains. J Cell Sci 114:2891-3. 146. Spilianakis, C., A. Kretsovali, T. Agalioti, T. Makatounakis, D. Thanos, and J. Papamatheakis. 2003. CIITA regulates transcription onset viaSer5-phosphorylation of RNA Pol II. EMBO J 22:5125-36. 147. Stein, G. S., S. K. Zaidi, C. D. Braastad, M. Montecino, A. J. van Wijnen, J. Y. Choi, J. L. Stein, J. B. Lian, and A. Javed. 2003. Functional architecture of the nucleus: organizing the regulatory machinery for gene expression, replication and repair. Trends Cell Biol 13:584-92. 148. Sureau, C., B. Guerra, and R. E. Lanford. 1993. Role of the large hepatitis B virus envelope protein in infectivity of the hepatitis delta virion. J Virol 67:366-72. 149. Tan, K. P., K. N. Shih, and S. J. Lo. 2004. Ser-123 of the large antigen of hepatitis delta virus modulates its cellular localization to the nucleolus, SC-35 speckles or the cytoplasm. J Gen Virol 85:1685-94. 150. Tan, S., R. C. Conaway, and J. W. Conaway. 1995. Dissection of transcription factor TFIIF functional domains required for initiation and elongation. Proc Natl Acad Sci U S A 92:6042-6. 151. Tavanez, J. P., C. Cunha, M. C. Silva, E. David, J. Monjardino, and M. Carmo-Fonseca. 2002. Hepatitis delta virus ribonucleoproteins shuttle between the nucleus and the cytoplasm. RNA 8:637-46. 152. Taylor, J. M. 1999. Hepatitis delta virus. Intervirology 42:173-8. 153. Taylor, J. M. 2006. Structure and replication of hepatitis delta virus RNA. Curr Top Microbiol Immunol 307:1-23. 154. Tian, Y., S. Ke, M. Chen, and T. Sheng. 2003. Interactions between the aryl hydrocarbon receptor and P-TEFb. Sequential recruitment of transcription factors and differential phosphorylation of C-terminal domain of RNA polymerase II at cyp1a1 promoter. J Biol Chem 278:44041-8. 155. Wang, H. W., P. J. Chen, C. Z. Lee, H. L. Wu, and D. S. Chen. 1994. Packaging of hepatitis delta virus RNA via the RNA-binding domain of hepatitis delta antigens: different roles for the small and large delta antigens. J Virol 68:6363-71. 156. Wang, H. W., H. L. Wu, D. S. Chen, and P. J. Chen. 1997. Identification of the functional regions required for hepatitis D virus replication and transcription by linker-scanning mutagenesis of viral genome. Virology 239:119-31. 157. Wang, K. S., Q. L. Choo, A. J. Weiner, J. H. Ou, R. C. Najarian, R. M. Thayer, G. T. Mullenbach, K. J. Denniston, J. L. Gerin, and M. Houghton. 1986. Structure, sequence and expression of the hepatitis delta (delta) viral genome. Nature 323:508-14. 158. Weiner, A. J., Q. L. Choo, K. S. Wang, S. Govindarajan, A. G. Redeker, J. L. Gerin, and M. Houghton. 1988. A single antigenomic open reading frame of the hepatitis delta virus encodes the epitope(s) of both hepatitis delta antigen polypeptides p24 delta and p27 delta. J Virol 62:594-9. 159. Wong, S. K., and D. W. Lazinski. 2002. Replicating hepatitis delta virus RNA is edited in the nucleus by the small form of ADAR1. Proc Natl Acad Sci U S A 99:15118-23. 160. Wu, H. N., Y. J. Lin, F. P. Lin, S. Makino, M. F. Chang, and M. M. Lai. 1989. Human hepatitis delta virus RNA subfragments contain an autocleavage activity. Proc Natl Acad Sci U S A 86:1831-5. 161. Wu, J. C., C. L. Chen, S. D. Lee, I. J. Sheen, and L. P. Ting. 1992. Expression and localization of the small and large delta antigens during the replication cycle of hepatitis D virus. Hepatology 16:1120-7. 162. Wu, J. C., T. Z. Chen, Y. S. Huang, F. S. Yen, L. T. Ting, W. Y. Sheng, S. H. Tsay, and S. D. Lee. 1995. Natural history of hepatitis D viral superinfection: significance of viremia detected by polymerase chain reaction. Gastroenterology 108:796-802. 163. Wu, J. C., T. Y. Chiang, and I. J. Sheen. 1998. Characterization and phylogenetic analysis of a novel hepatitis D virus strain discovered by restriction fragment length polymorphism analysis. J Gen Virol 79 ( Pt 5):1105-13. 164. Xia, Y. P., M. F. Chang, D. Wei, S. Govindarajan, and M. M. Lai. 1990. Heterogeneity of hepatitis delta antigen. Virology 178:331-6. 165. Xia, Y. P., and M. M. Lai. 1992. Oligomerization of hepatitis delta antigen is required for both the trans-activating and trans-dominant inhibitory activities of the delta antigen. J Virol 6 | |
| dc.identifier.uri | http://tdr.lib.ntu.edu.tw/jspui/handle/123456789/45260 | - |
| dc.description.abstract | D型肝炎是最簡單的RNA病毒,它可以透過相當獨特的方式進行複製。當病毒進入細胞,病毒本身會先合成小型抗原,並利用細胞內的RNA複製酶進行基因體增殖。過去研究已發現,小型抗原的後轉譯修飾(例如磷酸化、乙醯化與甲基化)可以引導病毒成功完成各階段的生活史,其中小型抗原Ser 177的磷酸化對於病毒反向基因體的複製是相當重要的。目前普遍認為執行D型肝炎病毒反向基因體的RNA複製酶為RNA polymerase II,而且Ser 177在小型抗原與RNA polymerase II之結合能力上可能扮演著舉足輕重的角色,本論文便針對此論點加以進行探討。結果發現,小型抗原在Ser 177進行去磷酸化後與低磷酸化之IIA型RNA polymerase II有較佳的結合力,反觀磷酸化的小型抗原卻與高磷酸化之IIO型RNA polymerase II有較佳的結合力。RNA polymerase II在細胞中合成RNA時,通常會利用磷酸化與否來調控轉錄的各個時期,一般在initiation時期RNA polymerase II會以IIA型態結合在DNA模板的起始點,到了elongation時期則會被細胞中的kinase大量磷酸化而呈現IIO型態,尤其是在其C端Ser 2和Ser 5的位置上。更進一步探討小型抗原磷酸化在病毒反向基因體複製上可能扮演的角色,結果發現Ser 177磷酸化之小型抗原通常會和Ser 2和Ser 5同時被磷酸化的IIO型RNA polymerase II結合,而且kinase抑制劑(DRB)不但會阻斷磷酸化之小型抗原與IIO型RNA polymerase II結合,更會抑制病毒反向基因體之複製。由此結果推斷,Ser 177之磷酸化可能會調控小型抗原與不同型態的RNA polymerase II結合,使RNA polymerase II在進行病毒反向基因體複製時,得以由initiation時期進入elongation時期。然而,除了病毒反向基因體複製酶RNA polymerase II之外,小型抗原是否還可以透過磷酸化來調控與其他細胞內分子的結合力,進而影響病毒反向基因體之複製,則是未來仍需繼續探究的方向。 | zh_TW |
| dc.description.abstract | Hepatitis delta virus (HDV) is the simplest RNA virus that employs a unique strategy for viral replication. Once the virus enters the cells, it uses cellular RNA polymerases and one viral protein, small hepatitis delta antigen (SHDAg), for viral RNA replication. Recent studies have revealed that posttranslational modifications (e.g., phosphorylation, acetylation, and methylation) of SHDAg are conducting the essential functions at successive stages of the HDV life cycle. Phosphorylation of SHDAg at Ser177 is required for HDV replication from antigenomic to genomic RNA, and this residue is crucial for interaction with RNA polymerase II (RNAP II), the enzyme assumed to be responsible for antigenomic RNA replication. This study demonstrated that SHDAg dephosphorylated at Ser177 interacted preferentially with hypophosphorylated RNAP II (RNAP IIA), which generally binds at the transcription initiation sites. In contrast, the Ser177-phosphorylated counterpart (pSer177-SHDAg) exhibited preferential binding to hyperphosphorylated RNAP II (RNAP IIO). In addition, RNAP IIO associated with pSer177-SHDAg was hyperphosphorylated at both the Ser2 and Ser5 residues of its carboxyl-terminal domain (CTD), which is a hallmark of the transcription elongation isoform. Moreover, the RNAP II CTD kinase inhibitor 5,6-dichloro-1-β-D-ribofuranosyl- benzimidazole (DRB) not only blocked the interaction between pSer177-SHDAg and RNAP IIO, but also inhibited HDV antigenomic replication. Our results suggest that the phosphorylation of SHDAg at Ser177 shifted its affinity toward the RNAP IIO isoform and thus may be a switch for HDV antigenome replication, from the initiation to the elongation stage. Except for RNAP II, the study of whether SHDAg interacts with some unknown factors essential for viral replication through a phosphorylation-dependent manner is ongoing. | en |
| dc.description.provenance | Made available in DSpace on 2021-06-15T04:11:15Z (GMT). No. of bitstreams: 1 ntu-99-F91445113-1.pdf: 3685294 bytes, checksum: 69632d67b1a49e60f183bc50cd36f893 (MD5) Previous issue date: 2010 | en |
| dc.description.tableofcontents | CHAPTER I: INTRODUCTION...............................................................................................................................................................................................................1
I-1 The history of HDV I-2 The epidemiology of HDV I-3 The virion structure of HDV I-4 The model of HDV replication cycle I-5 The genome and antigenome of HDV I-6 The mRNA of HDV I-7 RNA edioting I-8 Hepatitis delta antigen I-9 The mechanism of HDV RNA-dependent RNA transcription I-10 RNA polymerase II I-11 Celllular RNA polymerase II-mediated transcription I-12 The post-translational modification of HDAg I-13 The working hypothesis CHAPTER II: MATERIAL AND METHODS...........................................................................................................................................................................................23 II-1 Cell culture and DNA transfection II-2 The generation of antibody against Ser177-phosphorylated SHDAg II-3 Coimmunoprecipitation II-4 Western blotting II-5 RNA preparation and Northern blotting II-6 Glycerol gradient sedimentation II-7 Lambda protein phosphatase treatment II-8 In vitro transcription and RNA transfection II-9 The knockdown of cyclin-dependent kinases II-10 Immunofluorescence staining II-11 Silver staining II-12 RNA recovery from polyacrylamide gel II-13 Reverse transcription II-14 cDNA library preparation and amplification II-15 Polymerase chain reaction II-16 TA cloning and sequence analysis CHAPTER III: RESULTS.....................................................................................................................................................................................................................33 III-1 The Ser177 residue of SHDAg was important for its interaction with RNAP IIA and IIO III-2 Phosphorylation of SHDAg regulated its binding to different RNAP II complexes in vitro III-3 SHDAg phosphorylated at Ser177 interacted preferentially with RNAP IIO complexes in vivo III-4 SHDAg phosphorylated at Ser177 associated with the processive RNAP II complexes, which were hyperphosphorylated at both the Ser5 and Ser2 residues of their CTD III-5 HDV antigenomic RNA replication was inhibited by DRB treatment and was reversed by DRB clearance in vivo III-6 Ser177-phosphorylated HDAg was predominantly localized to nuclear bodies CHAPTER IV: DISCUSSION...............................................................................................................................................................................................................39 IV-1 The proposed model of SHDAg Ser177-phosphorylation in regulating in regulating viral antigenomic RNA replication IV-2 The possible role of the interaction between RNAP IIO and Ser177 phosphorylated SHDAg in viral antigenomic RNA replication IV-3 The possible mechanism of SHDAg to regulate two different replication machineries by post-translational modifications IV-4 The significance in studying the mechanism of HDV RNA replication CHAPTER V: PERSPECTIVES..........................................................................................................................................................................................................45 V-1 The post-translational modifications of SHDAg in regulating viral RNA replication: more questions than answers V-2 The pSer177-SHDAg associated component(s) during viral replicaiton CHAPTER VI: FIGURES, FIGURE LEGENDS AND TABLE...................................................................................................................................................................52 Fig. 1 The virion structure of HDV Fig. 2 The double rolling circle model of HDV RNA replication Fig. 3 The structure of HDV RNA Fig. 4 The functional domains and post-translational modifications of HDAg Fig. 5 The structural domains of RNAP II Fig. 6 The Ser177 residue of SHDAg was an essential factor for its interaction with both RNAP IIA and IIO Fig. 7 Dephosphorylated and phosphorylated isoforms of SHDAg had different binding affinity to RNAP IIA and IIO in vitro Fig. 8 pSer177-SHDAg interacted preferentially with RNAP IIO in vivo Fig. 9 pSer177-SHDAg associated with the transcription elongation complexes of RNAP IIO Fig. 10 HDV antigenomic RNA replication was arrested by DRB treatment and resumed after DRB withdrawal Fig. 11 The localization of Ser177-phosphorylated HDAg was restricted to nuclear bodies, while its unphosphorylated counterpart accumulated predominantly in nucleoli Fig. 12 The proposed model of HDV antigenomic RNA replicaiton Fig. 13 The compartments with pSer177-HDAg were correlated with Cajal bodies Fig. 14 The knockdown effect of CDK 7 and CDK 9 on HDAg phosphorylation and viral antigenomic RNA replication with shRNA-lentivirus infection Fig. 15 The pSer177-SHDAg associated component(s) during viral replication Fig. 16 Characterizations of the pSer177-SHDAg associated component Fig. 17 The amplification of the pSer177-SHDAg associated RNAs Tab. 1 The target sequences of CDK 7 and CDK 9 Tab. 2 The pSer177-SHDAg associated RNAs REFERENCES..................................................................................................................................................................................................................................74 | |
| dc.language.iso | en | |
| dc.subject | RNA複製酶 | zh_TW |
| dc.subject | 小型抗原 | zh_TW |
| dc.subject | D型肝炎病毒 | zh_TW |
| dc.subject | 蛋白質結合 | zh_TW |
| dc.subject | 複製 | zh_TW |
| dc.subject | 磷酸化 | zh_TW |
| dc.subject | replication | en |
| dc.subject | RNA polymerase II | en |
| dc.subject | phosphorylation | en |
| dc.subject | small hepatitis delta antigen | en |
| dc.subject | hepatitis delta virus | en |
| dc.subject | interaction | en |
| dc.title | D型肝炎抗原磷酸化對病毒反向基因體複製機轉
之功能性探討 | zh_TW |
| dc.title | A Functional Study of Phosphorylation of Small Hepatitis Delta Antigen on Viral Antigenomic RNA Replication | en |
| dc.type | Thesis | |
| dc.date.schoolyear | 98-1 | |
| dc.description.degree | 博士 | |
| dc.contributor.oralexamcommittee | 張智芬(Zee-Fen Chang),呂勝春(Sheng-Chung Lee),鄧述諄(Shu-Chun Teng),鄭金松(King-Song Jeng) | |
| dc.subject.keyword | D型肝炎病毒,小型抗原,RNA複製酶,複製,磷酸化,蛋白質結合, | zh_TW |
| dc.subject.keyword | hepatitis delta virus,small hepatitis delta antigen,RNA polymerase II,replication,phosphorylation,interaction, | en |
| dc.relation.page | 86 | |
| dc.rights.note | 有償授權 | |
| dc.date.accepted | 2010-01-27 | |
| dc.contributor.author-college | 醫學院 | zh_TW |
| dc.contributor.author-dept | 微生物學研究所 | zh_TW |
| 顯示於系所單位: | 微生物學科所 | |
文件中的檔案:
| 檔案 | 大小 | 格式 | |
|---|---|---|---|
| ntu-99-1.pdf 未授權公開取用 | 3.6 MB | Adobe PDF |
系統中的文件,除了特別指名其著作權條款之外,均受到著作權保護,並且保留所有的權利。
