RNA promoters located on (-)-strands of a subviral RNA associated with turnip crinkle virus

RNA

Volumn 3, Issue 12, 1997, Pages 1401-1412

  Guan, Hancheng ^a   Song, Chuanzheng ^a   Simon, Anne E ^a  

^a UNIVERSITY OF MASSACHUSETTS   (United States)

Author keywords

In vitro transcription; RNA replication; RNA dependent RNA polymerase; Satellite RNA; Turnip crinkle virus

Indexed keywords

PURINE; RNA DIRECTED RNA POLYMERASE; SATELLITE RNA; VIRUS RNA;

ARTICLE; CONTROLLED STUDY; NONHUMAN; PLANT VIRUS; PRIORITY JOURNAL; PROMOTER REGION; RNA REPLICATION; RNA STRUCTURE; RNA VIRUS; TRANSCRIPTION INITIATION;

CARMOVIRUS; NUCLEIC ACID CONFORMATION; PROMOTER REGIONS (GENETICS); RNA REPLICASE; RNA, SATELLITE; SEQUENCE DELETION; TRANSCRIPTION, GENETIC; VIRUS REPLICATION;

BRASSICA RAPA SUBSP. RAPA; RNA VIRUSES; TURNIP CRINKLE VIRUS;

EID: 0031468352     PISSN: 13558382     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (71)

1. Andino R, Rieckhof GE, Baltimore D. 1990. A functional ribonucleoprotein complex forms around the 5′ end of poliovirus RNA. Cell 63:369-380.
2. Axelrod VD, Brown E, Priano C, Mills DR. 1991. Coliphage Qβ RNA replication: RNA catalytic for single-strand release. Virology 184:595-608.
3. Ball LA. 1994. Replication of the gecomic RNA of a positive-strand RNA animal virus from negative-sense transcripts. Proc Natl Acad Sci USA 91:12443-12447.
4. Ball LA, Li Y. 1993. Cis-acting, requirements for the replication of flock house virus RNA2. J Virol 67:3544-3551.
5. Barrera I, Schuppli D, Sogo JM, Weber H. 1993. Different mechanisms of recognition of bacteriophage Qβ plus and minus strand RNAs by Qβ replicase. J Mol Biol 232:512-521.
6. Biebricher CK. 1987. Replication and evolution of short-chained RNA species replicated by Qβ replicase. Cold Spring Harbor Symp Qurnt Biol LII:299-306.
7. Biebricher CK, Diekmann S, Luce R. 1982. Structural analysis of self-replicating RNA synthesized by Qβ replicase. J Mol Biol 154:629-648.
8. Blumenthal T, Carmichael GG. 1979. RNA replication: Function and structure of Qβ-replicase. Annu Rev Biochem 48:525-548.
9. Boccard R, Baulcombe D. 1993. Mntational analysis of cis-acting sequences and gene function in RNA3 of cucumber mosaic virus. Virology 193:563-578.
10. Brown D, Gold L. 1995a. Template recognition by an RNA-dependent RNA polymerase: Identification and characterrization of two RNA binding sites on Qβ replicase. Biochemistry 34:14765-14774.
11. Brown D, Gold L. 1995b. Selection and characterrization of RNAs replicated by Qβ replicase. Biochemistry 34:14775-14782.
12. Carpenter CD, Oh JW, Zhang C, Simon AE. 1995. Involvement of a stem-loop structure in the location of junction sites in viral RNA recombination. J Mol Biol 245:608-622.
13. Carringtion JC, Morris TJ, Stockey PG, Harrison SC. 1987. Structure and assembly of turnip crinkle vitus. IV. Analysis of tne coat protein gene and implication of the subunit primary structure. J Mol Biol 194:265-276.
14. Cascone PJ, Carpenter CD, Li XH, Simon AE. 1990. RNA recombination between satellite RNAs of turnip crinkle virus. EMBO J 9:1709-1715.
15. Cascone PJ, Haydar TF, Simon AE. 1993. Sequences and structures required for recombination between virus-associated RNAs. Scicnce 260:801-805.
16. Chang RY, Hofmann MA, Sethna PB, Brian DA. 1994. A cis-acting function for the coronavirus leader in defective interfering RNA replication. J Virol 68:8223-8231.
17. Chang YC, Borja M, Scholthof HB, Jackson AO, Morris TJ. 1995. Host effects and sequences essential for accumulation of defective interfaring RNAs of cucumber necrosis and tomato bushy stunt tombusviruses. Virology 210:41-53.
18. de Graaff M, Jaspars EMJ. 1994. Plant viral RNA synthesis in cell-free systems. Annu Rev Phytopathol 32:311-335.
19. Dreher TW, Hall TC. 1988. Mutational analysis of the sequence and structural requirements in brome mosaic virus RNA for minus strand promoter activity. J Mol Biol 201:31-40.
20. Duggal R, Hall TC. 1995. Interaction of host proteins with the plusstrand promoter of brome mosaic virus RNA-2 Virology 214:638-641.
21. Duggal R, Lahser FC, Hall TC. 1994. Cis-acting sequences in the replication of plant viruses with plus-sense RNA genomes. Annu Rev Phytopethol 32:287-309.
22. Eggen R, Verver J, Wellink J, Jong AD, Goldbach R, van Kammen AB. 1989a. Improvements of the infectivity of in vitro transcripts from cloned cowpea mosaic virus cDNA: Impact of terminal nucleotide sequences. Virology 173:447-455.
23. Eggen R, Verver J, Wellink J, Pleij K, van Kammen AB, Goldbach R. 1989b. Analysis of sequences involved in cowpea mosaic virus RNA replication using site-specific mutants. Virology 173:456-464.
24. French R, Ahlquist P. 1987. Intercistronic as well as terminal sequences are required for efficient amplification of brome mosaic virus RNA3. J Virol 61:1457-1465.
25. Guilley H, Carrington JC, Balazs E, Jonard G, Richards K, Morris TJ. 1985. Nucleotide sequence and genome organization of carnation mottle virus RNA. Nucleic Acids Res 13:6663-6677.
26. Havelda Z, Dalmay T, Burgyan J. 1995. Localization of cis-acting sequences essential for cymbidium ringspot tombusvirus defective interfering RNA replication. J Gen Virol 76:2311-2316.
27. Heaton LA, Carrington JC, Morris TJ. 1989. Turnip crinkle virus infection from RNA synthesized in vitro. Virology 170:214-218.
28. Huntley C, Hall TC. 1993. Minus sense transcripts of brome mosaic virus RNA-3 intercistronic region interfere with viral replication. Virology 192:290-297.
29. Kajitani M, Ishihama A. 1991. Identification and sequence determination of the host factor gene for bacteriophage Qβ. Nucleic Acids Res 19:1063-1066.
30. Kim KH, Hemenway C. 1996. The 5′ nontranslated region of potato virus X RNA affects both genomic and sabgenomic RNA synthesis. J Virol 70:5533-5540.
31. Kim YN, Jeong YS, Makino S. 1993. Analysis of cis-acting sequences essential for coronavirus defective interfering RNA replication. Virology 197:53-63.
32. Kim YN, Makino S. 1995. Characterization of a murine coronavirus defective interfering RNA internal cis-acting replication signal. J Virol 69:4963-4971.
33. Levis R, Weiss BG, Tsiang M, Huang H, Schlesinger S. 1986. Deletion mapping of Sindbis virus DI RNAs derived from cDNAs defines the sequence essential for replication and packaging. Cell 44:137-145.
34. Li XH, Heaton LA, Morris TJ, Simon AE. 1989. Turnip crinkle virus defective interfering RNAs intensify viral symptorns and are generated de novo. Proc Natl Acad USA 86:9173-9177.
35. Lin YJ, Lai MMC. 1993. Deletion mapping of a mouse hepatitis virus defective interfering RNAs reveals the requirement of an internal and discontiguous scquence for replication. J Virol 67:6110-6118.
36. Marsh LE, Pogue GP, Hall TC. 1989. Similarities among plant virus (+) and (-) RNA termini imply a common ancestry with promoters of eukaryotic tRNAs. Virology 172:415-427.
37. Meyer F, Weber H, Weissmann C. 1981. Interactions of Qβ replicase with Qβ RNA. J Mol Biol 153:631-660.
38. Mizumoto K, Muroya K, Takagi T, Omata-Yamada T, Shibuta H, Iwasaki K. 1995. Protein factors required for in vitro transcription of sendai virus genome. J Biochem 117:527-534.
39. Munishkin AV, Voronin LA, Chetverin AB. 1988. An in vivo recombinant RNA capable of autocatalytic synthesis by Qβ replicase. Nature 333:473-475.
40. Munishkin AV, Voronin LA, Ugarov VI, Bondareva LA, Chetverina HV, Chetverin AB. 1991. Efficient templates for Qβ replicase are formed by recombination from heterologous sequences. J Mol Biol 221:463-472.
41. Nagy PD, Carpenter CD, Simon AE. 1997. A novel 3′-end repair mechanism in an RNA virus. Proc Natl Acad Sci USA 94:1113-1118.
42. Nutter RC, Scheets K, Panganiban LC, Lommel SA. 1989. The complete nucleotide sequence of maize chlorotic mottle virus genome. Nucleic Acids Res 17:3163-3177.
43. Oh JW, Kong Q, Song C, Carpenter CD, Simon AE. 1995. Open reading frames of turnip crinkle virus involved in satellite symptom expression and incompatibility with Arabidopsis thaliana ecotype Dijon. Mol Plant-Microbe Interac 8:979-987.
44. Palasingam K, Shaklee PN. 1992. Reversion of Qβ RNA phage mutants by homologous RNA recombination. J Virol 66:2435-2442.
45. Pilipenko EV, Poperechny KV, Maslova SV, Melchers WJG, Bruins Slot HJ, Agol VI. 1996. Cis-element. oriR, involved in the initiation of (-) strand poliovirus RNA: A quasi-globular multidomain RNA structure maintained by tertiary ("kissing") interactions. EMBO J 15:5428-5436.
46. Pogue GP, Hall TC. 1992. The requirement for a 5′ stem-loop structure in brome mosic virus replication supports a new model for viral positive-strand RNA initiation. J Virol 66:674-684.
47. Pogue GP, Marsh LE, Connell JP, Hall TC. 1992. Requirement for ICR-like sequences in the replication of brome mosak virus genomic RNA. Virology 188:742-753.
48. Pogue GP, Marsh LE, Hall TC. 1990. Point mutations in the ICR2 motif of brome mosaic virus RNAs debilitate (+)-strand replication. Virology 178:152-160.
49. Quillet L, Guilley H, Jonard G, Richards K. 1989. In vitro synthesis of biologically active necrotic yellow vein virus RNA. Virology 172:293-301.
50. Riviere CJ, Rochon DM. 1990. Nucleotide sequence and genomic organization of melon necrotic spot virus. J Gen Virol 71:1887-1896.
51. Rochon DM, Johnston JC. 1991. Infectious transcripts from cloned cucumber necrosis virus cDNA: Evidence for a bifunctional subgenomic mRNA. Virology 181:656-665.
52. Rohll JB, Holness CL, Lomonossoff GP, Maule AJ. 1993. 3′-Terminal nucleotide sequences important for the accumulation of cowpea mosaic virus M-RNA. Virology 193:672-679.
53. Rohll JB, Moon DH, Evans DJ, Almond JW. 1995. The 3′ untranslated region of picornavirus RNA: Features required for efficient genome replication. J Virol 69:7835-7844.
54. Roossinck MJ, Sleat D. Palukaitis P. 1992. Satellite RNAs of plant viruses: Structures and biological effects. Microbiol Rev 56:265-279.
55. Roux L, Simon AE, Holland JJ. 1991. Effects of defective interfering viruses on virus replication and pathogenesis in vitro and in vivo. Adv Virus Res 40:181-211.
56. Schuppli D, Barrera I, Weber H. 1994. Identification of recognition elements on bacteriophage Qβ minus strand RNA that are essential for template activity with Qβ replicase. J Mol Biol 243:811-815.
57. Siegel RW, Adkins S, Kao CC. 1997. Sequence-specific recognition of a subgenomic RNA promoter by a viral RNA polymerase. Proc Netl Acad Sci USA. forthcoming.
58. Simon AE, Howell SH. 1986. The virulent satellite RNA of turnip crinkle virus has a major domain homologous to the 3′ end of the helper virus genome. EMBO J 5:3423-3428.
59. Skotnicki ML, Mackenzie AM, Torronen M, Gibbs AJ. 1993. The genomic sequence of cardamine chlorotic fleck carmovirus. J Gen Virol 74:1933-1937.
60. Song C, Simon AE. 1994. RNA-dependent RNA polymerase from plants infected with turnip crinkle virus can transcribe (+)- and (-)-strands of virus-associated RNAs. Proc Natl Acad Sci USA 91:8792-8796.
61. Song C, Simon AE. 1995a. Requirement of a 3′-terminal stem-loop in in vitro transcription by an RNA-dependent RNA polymerase. J Mol Biol 254:6-14.
62. Song C, Simon AE. 1995b. Synthesis of novel products in vitro by an RNA-dependent RNA polymerase. J Virol 69:4020-4028.
63. Sriskanda VS, Pruss G, Ge X, Vance VB. 1996. An eight-nucleotide sequence in the potato virus X 3′ untranslated region is required for both host protein binding and viral multiplication. J Virol 70:5266-5271.
64. Thomson M, Dimmock NJ. 1994. Common sequence elements in structurally unrelated genomes of defective interfering semliki forest virus. Virology 199.354-365.
65. Tsiang M, Weiss BG, Schlesinger S. 1988. Effects of 5′-terminal modifications on the biological activity of defective interfering RNAs of Sindbis virus. J Virol 62:47-53.
66. van der Kuyl AC, Langereis K, Houwing CJ, Jaspars EMJ, Bol JF. 1990. cis-Acting elements involved in replication of alfalfa mosaic virus RNAs in vitro. Virology 176:346-354.
67. van der Kuyl AC, Neeleman L, Bol JF 1991. Deletion analysis of cisand trans-acting elements involved in replication of alfalfa mosaic virus RNA3 in vivo. Virology 183:687-694.
68. Voronin LA. 1992, Structural consensus of RNA templates replicated by Qβ replicase. Biochimie 74:491-494.
69. Wang J, Simon AE. 1997. Analysis of the two subgenomic RNA promoters for turnip crinkle virus in vivo and in vitro. Virology 232:174-186.
70. Wu G, Kaper JM, Kung SD. 1993. Replication of satellite RNA in vitro by homologous and heterologous cucumoviral RNA-dependent RNA polymerases. Biochimic 75:749-755.
71. You XJ, Kim JW, Stuart GW, Bazarth RF. 1995. The nucleotide sequence of cowpea mottle virus and its assignment to the genus Carmovirus. J Gen Virol 76:2841-2845.