Analysis of the subgenomic RNAs and the small open reading frames of Beet black scorch virus

Journal of General Virology

Volumn 87, Issue 10, 2006, Pages 3077-3086

  Yuan, Xuefeng ^a   Cao, Yunhe ^a   Xi, Dehui ^a   Guo, Lihua ^a   Han, Chenggui ^a   Li, Dawei ^a   Zhai, Yafeng ^a   Yu, Jialin ^a  

^a CHINA AGRICULTURAL UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

CAPSID PROTEIN; COAT PROTEIN; COMPLEMENTARY DNA; GENOMIC RNA; GREEN FLUORESCENT PROTEIN; RNA POLYMERASE; VIRUS RNA;

AMINO ACID SEQUENCE; AMINO TERMINAL SEQUENCE; ARTICLE; BEET BLACK SCORCH VIRUS; CARBOXY TERMINAL SEQUENCE; CELL MOTION; CODON; COMPUTER ANALYSIS; CONTROLLED STUDY; ENZYME SUBUNIT; GOOSEFOOT; IN VITRO STUDY; MICROSCOPY; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PHENOTYPE; PLANT LEAF; PLANT VIRUS; PRIORITY JOURNAL; PROTEIN LOCALIZATION; RNA ANALYSIS; RNA TRANSCRIPTION; RNA TRANSLATION; SITE DIRECTED MUTAGENESIS; VIRUS GENE; VIRUS GENOME; VIRUS REPLICATION; VIRUS TRANSCRIPTION;

BASE SEQUENCE; BETA VULGARIS; CHENOPODIUM; GENE EXPRESSION REGULATION, VIRAL; GENES, VIRAL; GENOME, VIRAL; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; OPEN READING FRAMES; PLANT DISEASES; PLANT LEAVES; PROTEIN BIOSYNTHESIS; RNA, VIRAL; TOMBUSVIRIDAE;

BEET BLACK SCORCH VIRUS; CHENOPODIUM AMARANTICOLOR; MIRIDAE;

EID: 33749043245     PISSN: 00221317     EISSN: None     Source Type: Journal    
DOI: 10.1099/vir.0.81928-0     Document Type: Article

References (53)

1. Argos, P. (1988). A sequence motif in many polymerases. Nucleic Acids Res 16, 9909-9916.
2. Barlow, J. J., Mathias, A. P., Williamson, R. & Gammack D. B. (1963). A simple method for quantitative isolation of undegraded high molecular weight ribonucleic acid. Biochem Biophys Res Commun 13, 61-66.
3. Benson, R. J., Porter-Jordan, K., Buoniconti, P. & Fine, R. E. (1985). Biochemical and cytochemical evidence indicates that coated vesicles in chick embryo myotubes contain newly synthesized acetylcholinesterase. J Cell Biol 101, 1930-1940.
4. Bo, Y.-X., Cal, Z.-N., Ding, Q., Yu, J.-L. & Liu, Y. (1996). Characterization of beet black scorch virus RNA, partial cDNA cloning and sequencing of the small component. J Agric Biotechnol 4, 269-276.
5. Boonham, N., Henry, C. M. & Wood, K. R. (1995). The nucleotide sequence and proposed genome organization of oat chlorotic stunt virus, a new soil-borne virus of cereals. J Gen Virol 76, 2025-2034.
6. Cai, Z-N., Chen, D.-H., Wu, M.-S., Cui, X.-M., Yu, J.-L. & Liu, Y. (1993). Identification of pathogenic virus of beet black scorch disease and detection by synthesized cDNA probes. J Beijing Agric Univ 19, 112.
7. Callaway, A., Giesman-Cookmeyer, D., Gillock, E. T., Sit T. L. & Lommel, S. A. (2001). The multifunctional capsid proteins of plant RNA viruses. Annu Rev Phytopathol 39, 419-460.
8. Cao, Y.-H., Cal, Z.-N., Ding, Q., Li, D.-W., Han, C.-G., Yu, J.-L. & Liu, Y. (2002). The complete nucleotide sequence of Beet black scorch virus (BBSV), a new member of the genus Necrovirus. Arch Virol 147, 2431-2435.
9. Cardoso, J. M. S., Félix, M. R., Clara, M. I. E. & Oliveira, S. (2005). The complete genome sequence of a new Necrovirus isolated from Olea europaea L. Arch Virol 150, 815-823.
10. Castellano, M. A., Loconsole, G., Grieco, F., Di Sansebastiano, G. P. & Martelli, G. P. (2005). Subcellular localization and immunodetection of movement proteins of olive latent virus 1. Arch Virol 150, 1369-1381.
11. Cohen, Y., Gisel, A. & Zambryski, P. C. (2000a). Cell-to-cell and systemic movement of recombinant green fluorescent protein-tagged turnip crinkle viruses. Virology 273, 258-266.
12. Cohen, Y., Qu, F., Gisel, A., Morris, T. J. & Zambryski, P. C. (2000b). Nuclear localization of turnip crinkle virus movement protein p8. Virology 273, 276-285.
13. Cormack, B. P., Valdivia, R. H. & Falkow, S. (1996). FACS-optimized mutants of the green fluorescent protein (GFP). Gene 173, 33-38.
14. Coutts, R. H., Rigden, J. E., Slabas, A. R., Lomonossoff, G. P. & Wise, P. J. (1991). The complete nucleotide sequence of tobacco necrosis virus strain D. J Gen Virol 72, 1521-1529.
15. Cui, X.-M., Gong, Z-X & Yu, N.-J. (1988). Studies on two virus isolates from sugar beet in Xinjiang. J Shihezi Agric Coll 10, 73-78.
16. Dodds, J. A., Morris, T. J. & Jordan, R. C. (1984). Plant viral double-stranded RNA. Annu Rev Phytopathol 22, 151-168.
17. Drouzas, A. D., Offel, S. K. & Coutts, R. H. A. (1996). Subcellular location and expression of tobacco necrosis necrovirus p7a protein. J Phytopathol 144, 297-299.
18. Fabian, M. R. & White, K. A. (2004). 5′-3′ RNA-RNA interaction facilitates cap- and poly(A) tail-independent translation of tomato bushy stunt virus mRNA: a potential common mechanism for Tombusviridae. J Biol Chem 279, 28862-28872.
19. Frohman, M. A., Dush, M. K & Martin, G. R. (1988). Rapid production of full-length cDNAs from rare transcripts: amplification using a single gene-specific oligonucleotide primer. Proc Natl Acad Sci U S A 85, 8998-9002.
20. Geier, G. E. & Modrich, P. (1979). Recognition sequence of the dam methylase of Escherichia coli K12 and mode of cleavage of Dpn I endonuclease. J Biol Chem 254, 1408-1413.
21. Grieco, F., Savino, V. & Martelli, G. P. (1996). Nucleotide sequence of the genome of a citrus isolate of olive latent virus 1. Arch Virol 141, 825-838.
22. Guo, L., Allen, E. M. & Miller, W. A. (2001). Base-pairing between untranslated regions facilitates translation of uncapped, nonpolyadenylated viral RNA. Mol Cell 7, 1103-1109.
23. Guo, L.-H., Cao, Y.-H., Li, D.-W., Niu, S.-N., Cal, Z.-N., Han, C.-G., Zhai, Y.-F. & Yu, J.-L (2005). Analysis of nucleotide sequences and multimeric forms of a novel satellite RNA associated with beet black scorch virus. J Virol 79, 3664-3674.
24. Hacker, D. L., Petty, I. T. D., Wei, N. & Morris, T. J. (1992). Turnip crinkle virus genes required for RNA replication and virus movement. Virology 186, 1-8.
25. Hearne, P. Q., Knorr, D. A., Hillman, B. I. & Morris, T. J. (1990). The complete genome structure and synthesis of infectious RNA from clones of tomato bushy stunt virus. Virology 177, 141-151.
26. Ho, S. N., Hunt, H. D., Horton, R. M., Pullen, J. K. & Pease, L. R. (1989). Site-directed mutagenesis by overlap extension using the polymerase chain reaction. Gene 77, 51-59,
27. Jiang, J.-X., Zhang, J.-F., Che, S.-C., Yang, D.-J., Yu, J.-L., Cai, Z.-N. & Liu, Y. (1999). Transmission of beet black scorch virus by Olpidium brassicae. J Jiangxi Agric Univ 21, 525-528.
28. Lakatos, L., Szittya, G., Silhavy, D. & Burgyin, J. (2004). Molecular mechanism of RNA silencing suppression mediated by p19 protein of tombusviruses. EMBO J 23, 876-884.
29. Li, W.-Z., Qu, F. & Morris, T. J. (1998). Cell-to-cell movement of turnip crinkle virus is controlled by two small open reading frames that function in trans. Virology 244, 405-416.
30. Lin, H.-X. & White, K. A. (2004). A complex network of RNA-RNA interactions controls subgenomic mRNA transcription in a tombusvirus. EMBO J 23, 3365-3374.
31. Liu, J.-X. & Man, H.-Q. (1995). Preliminary report on Beet black scorch virus. China Sugarbeet 3, 30-31.
32. Lommel, S. A., Martelli, G. P., Rubino, L. & Russo, M. (2005). Tombusviridae. In Virus Taxonomy. Eighth Report of the International Committee on Taxonomy of Viruses, pp. 906-936. Edited by C. M. Fauquet, M. A. Mayo, J. Maniloff, U. Desselberger & L. A. Ball. London: Elsevier/ Academic Press.
33. Lot, H., Rubino, L., Delecolle, B., Jacquemond, M., Turturo, C. & Russo, M. (1996). Characterization, nucleotide sequence and genome organization of leek white stripe virus, a putative new species of the genus Necrovirus. Arch Virol 141, 2375-2386.
34. Lu, R., Folimonov, A., Shintaku, M., Li, W.-X, Falk B. W., Dawson, W. O. & Ding, S.-W. (2004). Three distinct suppressors of RNA silencing encoded by a 20-kb viral RNA genome. Proc Natl Acad Sci U S A 101, 15742-15747.
35. Mérai, Z., Kerényi, Z., Moinár, A., Barta, E., Válćozi, A., Bisztray, G., Havelda, Z., Burgyán, J. & Silhavy, D. (2005). Aureusvirus P14 is an efficient RNA silencing suppressor that binds double-stranded RNAs without size specificity. J Viral 79, 7217-7226.
36. Meulewaeter, F., Seurinck J. & van Emmelo, J. (1990). Genomic structure of tobacco necrosis virus strain A. Virology 177, 699-709.
37. Meulewaeter, F., Comelissen, M. & van Emmelo, J. (1992). Subgenomic RNAs mediate expression of cistrons located internally on the genomic RNA of tobacco necrosis virus strain A. J Virol 66, 6419-6428.
38. Meulewaeter, F., van Lipzig, R., Gultyaev, A. P., Pleij, C. W. A., van Damme, D., Comelissen, M. & van Eldik G. (2004). Conservation of RNA structures enables TNV and BYDV 5′ and 3′ elements to cooperate synergistically in cap-independent translation. Nucleic Acids Res 32, 1721-1730.
39. Miller, W. A. & Koev, G. (2000). Synthesis of subgenomic RNAs by positive-strand RNA viruses. Virology 273, 1-8.
40. H and genes required for RNA replication and virus movement. J Gen Virol 78, 1235-1239.
41. Morozov, S. Y. & Solovyev, A. G. (2003). Triple gene block: modular design of a multifunctional machine for plant virus movement. J Gen Virol 84, 1351-1366.
42. Offei, S. K & Coutts, R. H. A. (1996). Location of the 5′ termini of tobacco necrosis virus strain D subgenomic mRNAs. J Phytopathol 144, 13-17.
43. Offei, S. K., Coffin, R. S. & Coutts, R. H. (1995). The tobacco necrosis virus p7a protein is a nucleic acid-binding protein. J Gen Virol 76, 1493-1496.
44. Percy, M. E. & Buchwald, B. M. (1972). A manual method of sequential Edman degradation followed by dansylation for the determination of protein sequences. Anal Biochem 45, 60-67.
45. Qu, F., Ren, T. & Morris, T. J. (2003). The coat protein of turnip crinkle virus suppresses posttranscriptional gene silencing at an early initiation step. J Virol 77, 511-522.
46. Quillet, L., Guilley, H., Jonard, G. & Richards, K. (1989). In vitro synthesis of biologically active beet necrotic yellow vein virus RNA. Virology 172, 293-301.
47. Rubino, L. & Russo, M. (1997). Molecular analysis of the pothos latent virus genome. J Gen Virol 78, 1219-1226.
48. Sanger, F., Nicklen, S. & Coulson, A. R. (1977). DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A 74, 5463-5467.
49. Scheets, K. (2000). Maize chlorotic mottle machlomovirus expresses its coat protein from a 1.47-kb subgenomic RNA and makes a 0.34-kb subgenomic RNA. Virology 267, 90-101.
50. Thomas, C. L., Leh, V., Lederer, C. & Maule, A. J. (2003). Turnip crinkle virus coat protein mediates suppression of RNA silencing in Nicotiana benthamiana. Virology 306, 33-41.
51. Turina, M., Desvoyes, B. & Scholthof, K.-B. G. (2000). A gene cluster encoded by Panicum mosaic virus is associated with virus movement. Virology 266, 120-128.
52. Wu, B. & White, K. A. (1999). A primary determinant of cap-independent translation is located in the 3′-proximal region of the tomato bushy stunt virus genome. J Virol 73, 8982-8988.
53. Zhang, K.-W., Wang, S.-L., Cai, Z.-N. & Zhang, H.-S. (1996). Preliminary study on beet black scorch disease in Ningxia Province. China Beet Sugar 2, 3-8.