Abstract
While this volume covers many different aspects of hepatitis delta virus (HDV) replication, the focus in this chapter is on studies of the structure and replication of the HDV RNA genome. An evaluation of such studies is not only an integral part of our understanding of HDV infections but it also sheds new light on some important aspects of cell biology, such as the fidelity of RNA transcription by a host RNA polymerase and on various forms of post-transcriptional RNA processing. Representations of the replication of the RNA genome are frequently simplified to a form of rolling-circle model, analogous to what have been described for plant viroids. One theme of this review is that such models, even after some revision, deceptively simplify the complexity of HDV replication and can fail to make clear major questions yet to be solved.
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References
Beard MR, Macnaughton TB, Gowans EJ (1996) Identification and characterization of a hepatitis delta virus RNA transcriptional promoter. J Virol 70:4986–4995
Bichko VV, Lemon SM, Wang J-G, Hwang S, Lai MMC, Taylor JM (1996) Epitopes exposed on hepatitis delta virus ribonucleoproteins. J Virol 70:5807–5811
Bitko V, Barik S (2001) Phenotypic silencing of cytoplasmic genes using sequence-specific double-stranded short interfering RNA and its application in the reverse genetics of wild type negative-strand RNA viruses. BMC Microbiol 1:34
Branch AD, Benenfeld BJ, Baroudy BM, Wells FV, Gerin JL, Robertson HD (1989) An ultraviolet-sensitive RNA structural element in a viroid-like domain of the hepatitis delta virus. Science 243:649–652
Branch AD, Robertson HD (1984) A replication cycle for viroids and small infectious RNAs. Science 223:450–455
Brazas R, Ganem D (1996) A cellular homolog of hepatitis delta antigen: implications for viral replication and evolution. Science 274:90–94
Chang FL, Chen PJ, Tu SJ, Chiu MN, Wang CJ, Chen DS (1991) The large form of hepatitis δ antigen is crucial for the assembly of hepatitis δ virus. Proc Natl Acad Sci USA 88:8490–8494
Chang J, Gudima SO, Tarn C, Nie X, Taylor JM (2005a) Development of a novel system to study HDV genome replication. J Virol 79:8182–8188
Chang J, Gudima SO, Taylor JM (2005b) Evolution of hepatitis delta virus RNA genome following long-term replication in cell culture. J Virol 79:13310–13316
Chang J, Nie X, Gudima S, Taylor J (2006) Action of inhibitors on accumulation of processed hepatitis delta virus RNAs. J Virol (in press)
Chang J, Moraleda G, Taylor J (2000) Limitations to the replication of hepatitis delta virus in avian cells. J Virol 74:8861–8866
Chang J, Provost P, Taylor JM (2003) Resistance of human hepatitis delta virus RNAs to dicer action. J Virol 77:11910–11917
Chang J, Taylor J (2002) In vivo RNA-directed transcription, with template switching, by a mammalian RNA polymerase. EMBO J 21:157–164
Chang J, Taylor JM (2003) Susceptibility of human hepatitis delta virus RNAs to small interfering RNA action. J Virol 77:9722–9731
Chao M, Hsieh S-Y, Taylor J (1990) Role of two forms of the hepatitis delta virus antigen: evidence for a mechanism of self-limiting genome replication. J Virol 64:5066–5069
Chao M, Hsieh S-Y, Taylor J (1991) The antigen of hepatitis delta virus: examination of in vitro RNA-binding specificity. J Virol 65:4057–4062
Chen P-J, Kalpana G, Goldberg J, Mason W, Werner B, Gerin J, Taylor J (1986) Structure and replication of the genome of hepatitis δ virus. Proc Natl Acad Sci USA 83:8774–8778
Choi SS, Rasshofer R, Roggendorf M (1989) Inhibition of hepatitis delta virus RNA replication in primary woodchuck hepatocytes. Antiviral Res 12:213–222
Circle DA, Lyons AJ, Neel OD, Robertson HD (2003) Recurring features of local tertiary structure elements in RNA molecules exemplified by hepatitis D virus RNA. RNA 9:280–286
Circle DA, Neel OD, Robertson HD, Clarke PA, Mathews MB (1997) Surprising specificity of PKR binding to delta agent genomic RNA. RNA 3:438–448
Coburn GA, Cullen BR (2002) Potent and specific inhibition of human immunodeficiency virus type 1 replication by RNA interference. J Virol 76:9225–9231
Cunha C, Freitas N, Mota S (2003) Developments in hepatitis delta research. The Internet Journal of Tropical Medicine
Dingle K, Moraleda G, Bichko V, Taylor J (1998) Electrophoretic analysis of the ribonucleoproteins of hepatitis delta virus. J Virol Methods 75:199–204
Ferre-D’Amare AR, Zhou K, Doudna JA (1998) Crystal structure of a hepatitis delta virus ribozyme. Nature 395:567–574
Filipovska J, Konarska MM (2000) Specific HDV RNA-templated transcription by pol II in vitro. RNA 6:41–54
Flint SJ, Enquist LW, Racaniello VR, Skalka AM. 2004. Principles of Virology: Molecular Biology, Pathogenesis, and Control of Animal Viruses. Washington: ASM Press
Fu T-B, Taylor J (1993) The RNAs of hepatitis delta virus are copied by RNA polymerase II in nuclear homogenates. J Virol 67:6965–6972
Gaeta GB, Stroffolini T, Chiaramonte M, Ascione T, Stornaiuolo G, Lobello S, Brunetto MR, Rizzetto M (2000) Chronic hepatitis D: a vanishing disease? An Italian multicenter study. Hepatology 32:824–827
Galban-Garcia E, Vega-Sanchez H, Gra-Oramas B, Jorge-Riano JL, Soneiras-Perez M, Haedo-Castro D, Rolo-Gomez F, Lorenzo-Morejon I, Ramos-Sanchez V (2000) Efficacy of ribavirin in patients with chronic hepatitis B. J Gastroenterol 35:347–352
Ge Q, McManus MT, Nguyen T, Shen C-H, Sharp PA, Eisen HN, Chen J (2003) RNA interference of influenza virus production by directly targeting mRNA for degradation and indirectly inhibiting all viral RNA transcription. Proc Natl Acad Sci USA 100:2718–2723
Gerin JL, Casey JL, Purcell RH (2001) Hepatitis Delta Virus. In: Howley PM, (ed) Fields’ Virology. Lippincott Williams & Wilkins, Philadelphia, pp 3037–3050
Gitlin L, Karelsky S, Andino R (2002) Short interfering RNA confers intracellular antiviral immunity in human cells. Nature 418:430–434.
Glenn JS, Watson JA, Havel CM, White JO (1992) Identification of a prenylation site in the delta virus large antigen. Science 256:1331–1333
Gowans EJ, Bonino F (1993) Hepatitis delta virus pathogenicity. Prog. Clin. Biol. Res. 382:125–130
Gowans EJ, Macnaughton TB, Jilbert AR, Burrell CJ (1991) Cell culture model systems to study HDV expression, replication and pathogenesis. In: Rizzetto M, (ed) The Hepatitis Delta Virus. Wiley-Liss, New York, pp 299–308
Gudima S, Dingle K, Wu T-T, Moraleda G, Taylor J (1999) Characterization of the 5′-ends for polyadenylated RNAs synthesized during the replication of hepatitis delta virus. J Virol 73:6533–6539
Gudima S, Wu S-Y, Chiang C-M, Moraleda G, Taylor J (2000) Origin of the hepatitis delta virus mRNA. J Virol 74:7204–7210
Gudima SO, Chang J, Moraleda G, Azvolinsky A, Taylor J (2002) Parameters of human hepatitis delta virus replication: the quantity, quality, and intracellular distribution of viral proteins and RNA. J Virol 76:3709–3719
Gudima SO, Chang J, Taylor JM (2004) Features affecting the ability of hepatitis delta virus RNAs to initiate RNA-directed RNA synthesis. J Virol 78:5737–5744
Gudima SO, Chang J, Taylor JM (2005) Reconstitution in cultured cells of replicating HDV RNA from pairs of less than full-length RNAs. RNA 11:90–98
He L, Hannon GJ (2004) Micro RNAs: small RNAs with a big role in gene regulation. Nat Rev Genet 5:522–531
Hoofnagle J (1998) Therapy of viral hepatitis. Digestion 59:563–578
Hsieh S-Y, Taylor J (1991) Regulation of polyadenylation of HDV antigenomic RNA. J Virol 65:6438–6446
Ilan YM, Klein A, Taylor J, Tur-Kaspa R (1992) Resistance of hepatitis delta virus replication to alpha interferon treatment in transfected human cells. J Infect Dis 166:1164–1166
Itaya A, Folimonov A, Matsuda Y, Nelson RS, Ding B (2001) Potato spindle tuber viroid as inducer of RNA silencing in infected tomato. Mol Plant Microb Interact 14:1332–1334
Kleiner D, Di Bisceglie AM, Axiotis CA, Hoofnagle JH (1993) Prolonged alpha interferon therapy for chronic delta hepatitis: effect on liver histopathology. Prog Clin Biol Res 382:365–371
Kos A, Dijkema R, Arnberg AC, van derMeide PH, Schellekens H (1986) The hepatitis delta (δ) virus possesses a circular RNA. Nature 323:558–560
Kuo MY-P, Goldberg J, Coates L, Mason W, Gerin J, Taylor J (1988a) Molecular cloning of hepatitis delta virus RNA from an infected woodchuck liver: sequence, structure, and applications. J Virol 62:1855–1861
Kuo MYP, Sharmeen L, Dinter-Gottlieb G, Taylor J (1988b) Characterization of self-cleaving RNA sequences on the genome and antigenome of human hepatitis delta virus. J Virol 62:4439–4444
Lau DT, Kleiner DE, Park Y, Di Bisceglie AM, Hoofnagle JH (1999) Resolution of chronic delta hepatitis after 12 years of interferon alfa therapy. Gastroenterology 117:1229–1233.
Lazinski DW, Taylor JM (1993) Relating structure to function in the hepatitis delta virus antigen. J Virol 67:2672–2680
Lazinski DW, Taylor JM (1994a) Expression of hepatitis delta virus RNA deletions: cis and trans requirements for self-cleavage, ligation, and RNA packaging. J Virol 68:2879–2888
Lazinski DW, Taylor JM (1994b) Recent developments in hepatitis delta virus research. Adv Virus Res 43:187–231
Lazinski DW, Taylor JM (1995) Intracellular cleavage and ligation of hepatitis delta virus genomic RNA: Regulation of ribozyme activity by cis-acting sequences and host factors. J Virol 69:1190–1200
Lee C-Z, Lin J-H, McKnight K, Lai MMC (1993) RNA-binding activity of hepatitis delta antigen involves two arginine-rich motifs and is required for hepatitis delta virus RNA replication. J Virol 67:2221–2227
Lee Y, Ahn C, Han J, Choi H, Kim J, Yim J, Lee J, Provost P, Radmark O, Kim S and others (2003) The nuclear RNase III Drosha initiates microRNA processing. Nature 425:415–419
Lin CC, Yeh LT, Vitarella D, Hong Z (2003) Viramidine, a prodrug of ribavirin, shows better liver-targeting properties and safety profiles than ribavirin in animals. Antivir Chem Chemother 14:145–152
Liu YT, Brazas R, Ganem D (2001) Efficient hepatitis delta virus RNA replication in avian cells requires a permissive factor(s) from mammalian cells. J Virol 75:7489–7493
Macnaughton TB, Shi ST, Modahl LE, Lai MM (2002) Rolling circle replication of hepatitis delta virus RNA is carried out by two different cellular RNA polymerases. J Virol 76:3920–3927
Macnaughton TB, Wang Y-J, Lai MMC (1993) Replication of hepatitis delta virus RNA: effect of mutations of the autocatalytic cleavage sites. J Virol 67:2228–2234
Martinez De Alba AE, Flores R, Hernandez C (2002) Two chloroplastic viroids induce the accumulation of small RNAs associated with posttranscriptional gene silencing. J Virol 76:13094–13096
McNair ANB, Monjardino J, Cheng D, Thomas HC, Kerr IM (1993) Hepatitis delta virus and the interferon system. Prog Clin Biol Res 382:161–164
Modahl LE, Macnaughton TB, Zhu N, Johnson DL, Lai MMC (2000) RNA-dependent replication and transcription of hepatitis delta virus RNA involve distinct cellular RNA polymerases. Mol Cell Biol 20:6030–6039
Moraleda G, Taylor J (2001) Host RNA polymerase requirements for transcription of the human hepatitis delta virus genome. J Virol 75:10161–10169
Netter HJ, Wu T-T, Bockol M, Cywinski A, Ryu W-S, Tennant BC, Taylor JM (1995) Nucleotide sequence stability of the genome of hepatitis delta virus. J Virol 69:1687–1692
Nie X, Chang J, Taylor JM (2004) Alternative processing of hepatitis delta virus antigenomic RNA transcripts. J Virol 78:4517–4524
Qanungo KR, Shaji D, Mathur M, Banerjee AK (2004) Two RNA polymerase complexes from vesicular stomatitis virus-infected cells that carry out transcription and replication of genome RNA. Proc Natl Acad Sci USA 101:5952–5957
Radjef N, Gordien E, Ivaniushina V, Gault E, Anais P, Drugan T, Trinchet JC, Roulot D, Tamby M, Milinkovitch MC and others (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 78:2537–2544
Rasshofer R, Choi SS, Wolfl P, Roggendorf M (1991) Interference of antiviral substances with replication of hepatitis delta virus RNA in primary woodchuck hepatocytes. Prog Clin Biol Res 364:223–234
Reid CE, Lazinski DW (2000) A host-specific function is required for ligation of a wide variety of ribozyme-processed RNAs. Proc Natl Acad Sci USA 97:424–429
Robertson HD (1996) How did replicating and coding RNAs first get together? Science 274:66–67
Robertson HD, Manche L, Mathews MB (1996) Paradoxical interactions between human hepatitis delta agent RNA and the cellular protein kinase PKR. J Virol 70:5611–5617
Ryu W-S, Bayer M, Taylor J (1992) Assembly of hepatitis delta virus particles. J Virol 66:2310–2315
Ryu WS, Netter HJ, Bayer M, Taylor J (1993) Ribonucleoprotein complexes of hepatitis delta virus. J Virol 67:3281–3287
Sato S, Cornillez-Ty C, Lazinski DW (2004) By inhibiting replication, the large hepatitis delta antigen can indirectly regulate amber/W editing and its own expression. J Virol 78:8120–8134
Taylor J (1990) Hepatitis delta virus: cis and trans functions needed for replication. Cell 61:371–373
Taylor JM (1999) Replication of human hepatitis delta virus: influence of studies on subviral plant pathogens. Adv Vir Res 54:45–60
Taylor JM (2003) Replication of human hepatitis delta virus: recent developments. Trends Microbiol 11:185–190
Taylor JM (2004) Structure and replication of hepatitis delta virus RNA. In: Yamaguchi Y, (ed) Hepatitis Delta Virus. Eurekah
Uhlenbeck O (1995) Keeping RNA happy. RNA 1:4–6
Wang D, Pearlberg J, Liu YT, Ganem D (2001) Deleterious effects of hepatitis delta virus replication on host cell proliferation. J Virol 75:3600–3604
Wang K-S, Choo Q-L, Weiner AJ, Ou J-H, Najarian C, Thayer RM, Mullenbach GT, Denniston KJ, Gerin JL, Houghton M (1986) Structure, sequence and expression of the hepatitis delta viral genome. Nature 323:508–513
Wang TC, Chao M (2005) RNA recombination of hepatitis delta virus in natural mixed-genotype infection and transfected cultured cells. J Virol 79:2221–2229
Waris G, Sarker S, Siddiqui A (2004) Two-step affinity purification of the hepatitis C virus ribonucleoprotein complex. RNA 10:321–329
Wu JC, Chiang TY, Shiue WK, Wang SY, Sheen IJ, Huang YH, Syu WJ (1999) Recombination of hepatitis D virus RNA sequences and its implications. Mol Biol Evol 16:1622–1632
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Taylor, J.M. (2006). Structure and Replication of Hepatitis Delta Virus RNA. In: Casey, J.L. (eds) Hepatitis Delta Virus. Current Topics in Microbiology and Immunology, vol 307. Springer, Berlin, Heidelberg . https://doi.org/10.1007/3-540-29802-9_1
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DOI: https://doi.org/10.1007/3-540-29802-9_1
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