Molecular characterization of a trisegmented chrysovirus isolated from the radish Raphanus sativus

Virus Research

Volumn 176, Issue 1-2, 2013, Pages 169-178

  Li, Liqiang ^a   Liu, Jianning ^b   Xu, Aixia ^b   Wang, Ting ^b   Chen, Jishuang ^a,b,c   Zhu, Xiwu ^b  

^a ZHEJIANG UNIVERSITY   (China)

^b ZHEJIANG SCI TECH UNIVERSITY   (China)

^c NANJING TECH UNIVERSITY   (China)

Author keywords

Chrysoviridae; Double stranded RNA; Raphanus sativus; Raphanus sativus chrysovirus 1

Indexed keywords

CAPSID PROTEIN; TRYPAN BLUE;

ARTEMISIA ANNUA; ARTICLE; ASPERGILLUS FUMIGATUS; BARREL MEDIC; BOOTSTRAPPING; CHRYSOVIRIDAE; CHRYSOVIRUS; CONTROLLED STUDY; EUDICOT; FUSARIUM GRAMINEARUM; FUSARIUM OXYSPORUM; HYPHOMYCETES; MAGNAPORTHE ORYZAE; MOLECULAR BIOLOGY; MONOCOT; NONHUMAN; NORTHERN BLOTTING; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PHYLOGENY; PLANT GENOME; PLANT LEAF; PLANT VIRUS; PRIORITY JOURNAL; RADISH; SACCHAROMYCES CEREVISIAE; SEQUENCE ALIGNMENT; USTILAGO MAYDIS; VERTICILLIUM DAHLIAE; VIRUS LIKE AGENT;

ANTHURIUM; CHRYSOVIRIDAE; CHRYSOVIRUS; FUNGI; MIRIDAE; RAPHANUS SATIVUS;

EID: 84881372148     PISSN: 01681702     EISSN: 18727492     Source Type: Journal    
DOI: 10.1016/j.virusres.2013.06.004     Document Type: Article

References (44)

1. Al Rwahnih M., Daubert S., Urbez-Torres J., Cordero F., Rowhani A. Deep sequencing evidence from single grapevine plants reveals a virome dominated by mycoviruses. Archives of Virology 2011, 156:397-403.
2. Altschul S.F., Gish W., Miller W., Myers E.W., Lipman D.J. Basic local alignment search tool. Journal of Molecular Biology 1990, 215:403-410.
3. Balakirev M.Y., Tcherniuk S.O., Jaquinod M., Chroboczek J. Otubains: a new family of cysteine proteases in the ubiquitin pathway. EMBO Reports 2003, 4:517-522.
4. Bruenn J. Genes from Double-Stranded RNA Viruses in the Nuclear Genomes of Fungi 2012, 71-83. Biocommunication of Fungi.
5. Bruenn J.A. A structural and primary sequence comparison of the viral RNA-dependent RNA polymerases. Nucleic Acids Research 2003, 31:1821-1829.
6. Cao Y., Zhu X., Xiang Y., Li D., Yang J., Mao Q., Chen J. Genomic characterization of a novel dsRNA virus detected in the phytopathogenic fungus Verticillium dahliae Kleb. Virus Research 2011, 159:73-78.
7. Castón J.R., Ghabrial S.A., Jiang D., Rivas G., Alfonso C., Roca R., Luque D., Carrascosa J.L. Three-dimensional structure of Penicillium chrysogenum virus: a double-stranded RNA virus with a genuine T=1 capsid. Journal of Molecular Biology 2003, 331:417-431.
8. Chen L., Chen J., Liu L., Yu X., Yu S., Fu T., Liu W. Complete nucleotide sequences and genome characterization of double-stranded RNA 1 and RNA 2 in the Raphanus sativus-root cv. Yipinghong. Archives of Virology 2006, 151:849-859.
9. Chen L., Chen J., Zhang H., Chen S. Complete nucleotide sequences of three dsRNA segments from Raphanus sativus-root cv. Yipinghong with leaf yellow edge symptoms. Archives of Virology 2006, 151:2077-2083.
10. Chiba S., Kondo H., Tani A., Saisho D., Sakamoto W., Kanematsu S., Suzuki N. Widespread endogenization of genome sequences of non-retroviral RNA viruses into plant genomes. PLoS Pathogens 2011, 7:e1002146.
11. Chung C.L., Longfellow J.M., Walsh E.K., Kerdieh Z., Van Esbroeck G., Balint-Kurti P., Nelson R.J. Resistance loci affecting distinct stages of fungal pathogenesis: use of introgression lines for QTL mapping and characterization in the maize-Setosphaeria turcica pathosystem. BMC Plant Biology 2010, 10:103-127.
12. Coetzee B., Freeborough M.J., Maree H.J., Celton J.M., Rees D.J.G., Burger J.T. Deep sequencing analysis of viruses infecting grapevines: virome of a vineyard. Virology 2010, 400:157-163.
13. Covelli L., Coutts R.H.A., Serio F.D., Citir A., Açikgöz S., Hernández C., Ragozzino A., Flores R. Cherry chlorotic rusty spot and Amasya cherry diseases are associated with a complex pattern of mycoviral-like double-stranded RNAs. I. Characterization of a new species in the genus Chrysovirus. Journal of General Virology 2004, 85:3389-3397.
14. Darissa O., Willingmann P., Sch fer W., Adam G. A novel double-stranded RNA mycovirus from Fusarium graminearum: nucleic acid sequence and genomic structure. Archives of Virology 2011, 156:1-12.
15. Frias-Staheli N., Giannakopoulos N.V., Kikkert M., Taylor S.L., Bridgen A., Paragas J., Richt J.A., Rowland R.R., Schmaljohn C.S., Lenschow D.J. Ovarian tumor domain-containing viral proteases evade ubiquitin-and ISG15-dependent innate immune responses. Cell Host & Microbe 2007, 2:404-416.
16. Gómez-Blanco J., Luque D., González J.M., Carrascosa J.L., Alfonso C., Trus B., Havens W.M., Ghabrial S.A., Castón J.R. Cryphonectria nitschkei virus 1 structure shows that the capsid protein of chrysoviruses is a duplicated helix-rich fold conserved in fungal double-stranded RNA viruses. Journal of Virology 2012, 86:8314-8318.
17. Ghabrial, S., Jiang, D., Castón, J., 2005. Family Chrysoviridae. Virus Taxonomy: Eighth Report of the International Committee on Taxonomy of Viruses, pp. 591-595.
18. Ghabrial S., Suzuki N. Fungal viruses. Encyclopedia of Virology 2008, 2:284-291.
19. Ghabrial S., Suzuki N. Viruses of plant pathogenic fungi. Annual Review of Phytopathology 2009, 47:353-384.
20. Hall, T.A., 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Vol. 41, 95-98.
21. Huang S., Soldevila A.I., Webb B.A., Ghabrial S.A. Expression, assembly, and proteolytic processing of Helminthosporium victoriae 190S totivirus capsid protein in insect cells. Virology 1997, 234:130-137.
22. Jamal A., Bignell E.M., Coutts R.H.A. Complete nucleotide sequences of four dsRNAs associated with a new chrysovirus infecting Aspergillus fumigatus. Virus Research 2010, 153:64-70.
23. Jiang D., Ghabrial S.A. Molecular characterization of Penicillium chrysogenum virus: reconsideration of the taxonomy of the genus Chrysovirus. Journal of General Virology 2004, 85:2111-2121.
24. Kassanis B., White R., Woods R. Beet cryptic virus. Journal of Phytopathology 1977, 90:350-360.
25. Lambden P., Cooke S., Caul E., Clarke I. Cloning of noncultivatable human rotavirus by single primer amplification. Journal of Virology 1992, 66:1817-1822.
26. Li L. The study of double-stranded RNAs in Raphanus sativus cv. Yidianhong 2009, 1-51. Master thesis of Zhejiang Sci-tech University.
27. Liu H., Fu Y., Jiang D., Li G., Xie J., Cheng J., Peng Y., Ghabrial S.A., Yi X. Widespread horizontal gene transfer from double-stranded RNA viruses to eukaryotic nuclear genomes. Journal of Virology 2010, 84:11876-11887.
28. Liu H., Fu Y., Xie J., Cheng J., Ghabrial S.A., Li G., Peng Y., Yi X., Jiang D. Evolutionary genomics of mycovirus-related dsRNA viruses reveals cross-family horizontal gene transfer and evolution of diverse viral lineages. BMC Evolutionary Biology 2012, 12:91.
29. Liu W., Chen J. A double-stranded RNA as the genome of a potential virus infecting Vicia faba. Virus Genes 2009, 39:126-131.
30. Luque D., González J.M., Garriga D., Ghabrial S.A., Havens W.M., Trus B., Verdaguer N., Carrascosa J.L., Castón J.R. The T=1 capsid protein of Penicillium chrysogenum virus is formed by a repeated helix-rich core indicative of gene duplication. Journal of Virology 2010, 84:7256-7266.
31. Márquez L.M., Redman R.S., Rodriguez R.J., Roossinck M.J. A virus in a fungus in a plant: three-way symbiosis required for thermal tolerance. Science 2007, 315:513-515.
32. Martin R.R., Zhou J., Tzanetakis I.E. Blueberry latent virus: an amalgam of the Partitiviridae and Totiviridae. Virus Research 2011, 155(1):175-180.
33. Makarova K.S., Aravind L., Koonin E.V. A novel superfamily of predicted cysteine proteases from eukaryotes, viruses and Chlamydia pneumoniae. Trends in Biochemical Sciences 2000, 25:50-52.
34. Morris T., Dodds J. Isolation and analysis of double-stranded RNA from virus-infected plant and fungal tissue. Phytopathology 1979, 69:854-858.
35. Natsuaki T., Yamashita S., Doi Y., Okuda S., Teranaka M. Radish yellow edge virus, a seed-borne virus with double-stranded RNA, of a possible new group. Annals of the Phytopathological Society of Japan 1983, 49:593-599.
36. Natsuaki T., Yamashita S., Doi Y., Okuda S., Teranaka M. Two seed-borne double-stranded RNA viruses, beet temperate virus and spinach temperate virus. Annals of the Phytopathological Society of Japan 1983, 49:709-712.
37. Natsuaki T., Yamashita S., Doi Y., Yora K. Radish yellow edge virus, a seed-borne small spherical virus newly recognized in Japanese radish (Raphanus sativus L.). Annals of the Phytopathological Society of Japan 1979, 45:313-320.
38. Roossinck M.J. Plant virus metagenomics: biodiversity and ecology. Annual Review of Genetics 2012, 46:359-369.
39. Sabanadzovic S., Valverde R.A., Brown J.K., Martin R.R., Tzanetakis I.E. Southern tomato virus: The link between the families Totiviridae and Partitiviridae. Virus Research 2009, 140(1-2):130-137.
40. Sambrook J., Fritsch E.F., Maniatis T. Molecular Cloning 2001, vol. 2. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
41. Tamura K., Dudley J., Nei M., Kumar S. MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Molecular Biology and Evolution 2007, 24:1596-1599.
42. Thompson J.D., Higgins D.G., Gibson T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Research 1994, 22:4673-4680.
43. Urayama S., Kato S., Suzuki Y., Aoki N., Le M.T., Arie T., Teraoka T., Fukuhara T., Moriyama H. Mycoviruses related to chrysovirus affect vegetative growth in the rice blast fungus Magnaporthe oryzae. Journal of General Virology 2010, 91:3085-3094.
44. Urayama S., Ohta T., Onozuka N., Sakoda H., Fukuhara T., Arie T., Teraoka T., Moriyama H. Characterization of Magnaporthe oryzae chrysovirus 1 structural proteins and their expression in Saccharomyces cerevisiae. Journal of Virology 2012, 86:8287-8295.