Comprehensive diversity analysis of viroids infecting grapevine in China and Japan

Virus Research

Volumn 169, Issue 1, 2012, Pages 237-245

  Jiang, Dongmei ^a,b   Sano, Teruo ^c   Tsuji, Masaharu ^c   Araki, Hiroyuki ^c   Sagawa, Kyota ^c   Purushothama, Charith Raj Adkar ^c   Zhang, Zhixiang ^a   Guo, Rui ^a   Xie, Lianhui ^b   Wu, Zujian ^b   Wang, Hongqing ^d   Li, Shifang ^a  

^a INSTITUTE OF PLANT PROTECTION   (China)

^b FUJIAN AGRICULTURE AND FORESTRY UNIVERSITY   (China)

^c HIROSAKI UNIVERSITY   (Japan)

^d CHINA AGRICULTURAL UNIVERSITY   (China)

Author keywords

China; Diversity; Grapevine; Japan; Viroid

Indexed keywords

ARTICLE; AUSTRALIAN GRAPEVINE VIROID; CHINA; CITRUS EXOCORTIS VIROID; GENETIC VARIABILITY; GEOGRAPHIC DISTRIBUTION; GRAPE; GRAPEVINE YELLOW SPECKLE VIROID 1; GRAPEVINE YELLOW SPECKLE VIROID 2; GRAPEVINE YELLOW SPECKLE VIROID 3; HOP STUNT VIROID; JAPAN; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; VIROID; VIROIDAL PLANT DISEASE; VIRUS IDENTIFICATION;

CHINA; GENETIC VARIATION; JAPAN; SEQUENCE ANALYSIS, DNA; VIROIDS; VITIS;

AUSTRALIAN GRAPEVINE VIROID; CITRUS EXOCORTIS VIROID; GRAPEVINE YELLOW SPECKLE VIROID; GRAPEVINE YELLOW SPECKLE VIROID 1; GRAPEVINE YELLOW SPECKLE VIROID 2; HOP STUNT VIROID; VIROIDS; VITIS;

EID: 84867221467     PISSN: 01681702     EISSN: 18727492     Source Type: Journal    
DOI: 10.1016/j.virusres.2012.08.008     Document Type: Article

References (55)

1. Bar-Joseph M. Natural history of viroids. Viroids 2003, 246-250. CSIRO, Australia. A. Hadidi, R. Flores, J.W. Randles, M. Bar-Joseph (Eds.).
2. Eiras M., Targon M.L.P.N., Fajardo T.V.M., Flores R., Kitajima E.W. Citrus exocortis viroid and Hop stunt viroid doubly infecting grapevines in Brazil. Fitopatologia Brasileira 2006, 31:440-446.
3. Elbeaino T., Kubaa R.A., Choueiri E., Michele Digiaro M., Navarro B. Occurrence of Hop stunt viroid in mulberry (Morus alba) in Lebanon and Italy. Journal of Phytopathology 2012, 160:48-51.
4. Elleuch A., Fakhfakh H., Pelchat M., Landry P., Marrakchi M., Perreault J.P. Sequencing of Australian grapevine viroid and Yellow speckle viroid isolated from a Tunisian grapevine without passage in an indicator plant. European Journal of Plant Pathology 2002, 108:815-820.
5. Fagoaga C., Duran-Vila N. Naturally occurring variants of Citrus exocortis viroid in vegetable crops. Plant Pathology 1996, 45:45-53.
6. Fagoaga C., Semancik J.S., Duran-Vila N. A Citrus exocortis viroid variant from broad bean (Vicia faba L.): infectivity and pathogenesis. Journal of General Virology 1995, 76:2271-2277.
7. Fawcett H.S., Klotz L.J. Exocortis of trifoliate orange. Citrus Leaves 1948, 28:8-9.
8. Flores R., Randles J.W., Bar-Joseph M., Diener T.O. A proposed scheme for viroid classification and nomenclature. Archives of Virology 1998, 143:623-629.
9. Flores R., Randles J.W., Owens R.A., Bar-Joseph M., Diener T.O. Subviral agents: viroids. Virus Taxonomy. Eighth Report of the International Committee on Taxonomy of Viruses 2005, 1147-1161. Elsevier Academic Press, San Diego. C.M. Fauquet, M.A. Mayo, J. Maniloff, U. Desselberger, L.A. Ball (Eds.).
10. Garcia-Arenal F., Pallas V., Flores R. The sequence of a viroid from grapevine closely related to severe isolates of Citrus exocortis viroid. Nucleic Acids Research 1987, 12:4203-4209.
11. Gazel M., Önelge N. First report of grapevine viroids in the East Mediterranean region of Turkey. New Disease Reports 2002, 6:4.
12. Guo R., Sano T., Cheng Z.M., Li S.F. Detection of Australian grapevine viroid in a grapevine more than 100 years old in Xinjiang, China. Plant Pathology 2007, 56:339.
13. Hadidi A., Flores R., Randles J.W., Bar-Joseph M. Viroids 2003, CSIRO, Australia.
14. Hajizadeh M., Navarro B., Bashir N.S., Torchetti E.M., Di Serio F. Development and validation of a multiplex RT-PCR method for the simultaneous detection of five grapevine viroids. Journal of Virological Methods 2012, 179:62-69.
15. Jiang D.M., Guo R., Wu Z.J., Wang H.Q., Li S.F. Molecular characterization of a member of a new species of grapevine viroid. Archives of Virology 2009, 154:1163-1166.
16. Jiang D.M., Peng S., Wu Z.J., Cheng Z.M., Li S.F. Genetic diversity and phylogenetic analysis of Australian grapevine viroid (AGVd) isolated from different grapevines in China. Virus Genes 2009, 38:178-183.
17. Jiang D.M., Zhang Z.X., Wu Z.J., Guo R., Wang H.Q., Fan P.G., Li S.F. Molecular characterization of Grapevine yellow speckle viroid-2 (GYSVd-2). Virus Genes 2009, 38:515-520.
18. Kawaguchi-Ito Y., Li S.F., Tagawa M., Araki H., Goshono M., Yamamoto S., Tanaka M., Narita M., Tanaka K., Liu S.X., Shikata E., Sano T. Cultivated grapevines represent a symptomless reservoir for the transmission of Hop stunt viroids to hop crops: 15 years of evolutional analysis. PLoS ONE 2009, 4(12):e8386.
19. Keese P., Symons R.H. Domains in viroids: evidence of intermolecular RNA rearrangements and their contribution to viroid evolution. Proceedings of the National Academy of Sciences of the United States of America 1985, 82:4582-4586.
20. Kofalvi S.A., Marcos J.F., Cañizares M.C., Pallás V., Candresse T. Hop stunt viroid (HSVd) sequence variants from Prunus species: evidence for recombination between HSVd isolates. Journal of General Virology 1997, 78:3177-3186.
21. Koltunow A.M., Rezaian M.A. Grapevine yellow speckle viroid: structural features of a new viroid group. Nucleic Acids Research 1988, 16:849-864.
22. Koltunow A.M., Rezaian M.A. A scheme for viroid classification. Intervirology 1989, 30:194-204.
23. Koltunow A.M., Rezaian M.A. Grapevine viroid 1B, a new member of the Apple scar skin viroid group contains the left terminal region of Tomato planta macho viroid. Virology 1989, 170:575-578.
24. Li S.F., Guo R., Peng S., Sano T. Grapevine yellow speckle viroid 1 and Grapevine yellow speckle viroid 2 isolates from China. Journal of Plant Pathology 2007, 89:572.
25. Li S.F., Guo R., Tsuji M., Sano T. First reports of two grapevine viroids in China and the possible detection of a third. Plant Pathology 2006, 55:564.
26. Li S.F., Onodera S., Sano T., Yoshida K., Wang G.P., Shikata E. Gene diagnosis of viroids: comparisons of return-PAGE and hybridization using DIG-labeled DNA and RNA probes for practical diagnosis of Hop stunt, Citrus exocortis and Apple scar skin viroids in their natural host plants. Annals of the Phytopathological Society of Japan 1995, 61(4):381-390.
27. Mishra M.D., Hammond R.W., Owens R.A., Smith D.R., Diener T.O. Indian bunchy top disease of tomato plants is caused by a distinct strain of Citrus exocortis viroid. Journal of General Virology 1991, 72:1781-1785.
28. Niblett C.L., Dickson E., Horst R.K., Romaine C.P. Additional hosts and an efficient purification procedure for four viroids. Phytopathology 1980, 70:610-615.
29. Peng S., Guo R., Jiang D.M., Li S.F. Detection of four viroids from 150-year old grapevines in Turpan, Xinjiang. Plant Protection of China 2008, 34(5):95-100.
30. Polivka H., Staub U., Gross H.J. Variation of viroid profiles in individual grapevine plants: novel Grapevine yellow speckle viroid 1 mutants show alterations of hairpin I. Journal of General Virology 1996, 77(1):155-161.
31. Rezaian M.A. Australian grapevine viroid-evidence for extensive recombination between viroids. Nucleic Acids Research 1990, 18:1813-1818.
32. Rezaian M.A., Krake L.R., Golino D.A. Common identity of grapevine viroids from USA and Australia revealed by PCR analysis. Interviroloy 1992, 34:38-43.
33. Sano T., Hataya T., Shikata E. Complete nucleotide sequence of a viroid isolated from Etrog citron, a new member of Hop stunt viroid group. Nucleic Acids Research 1988, 16(1):347.
34. Sano T., Hataya T., Terai Y., Shikata E. Hop stunt viroid strains from dapple fruit disease of plum and peach in Japan. Journal of General Virology 1989, 70:1311-1319.
35. Sano T., Kobayashi T., Ishiguro A., Motomura Y. Two types of Grapevine yellow speckle viroid 1 isolated from commercial grapevine had the nucleotide sequence of yellow speckle symptom-inducing type. Journal of General Plant Pathology 2000, 66:68-70.
36. Sano T., Mimura R., Ohshima K. Phylogenetic analysis of hop and grapevine isolates of hop stunt viroid supports a grapevine origin for hop stunt disease. Virus Genes 2001, 22(1):53-59.
37. Sano T., Ohshima K., Hataya T., Uyeda I., Shikata E., Chou T.G., Meshi T., Okada Y. A viroid resembling Hop stunt viroid in grapevines from Europe, the United States and Japan. Journal of General Virology 1986, 67:1673-1678.
38. Sano T., Uyeda I., Shikata E., Meshi T., Ohno T., Okada Y. A viroid-like RNA isolated from grapevine has high sequence homology with Hop stunt viroid. Journal of General Virology 1985, 66:333-338.
39. Sano T., Uyeda I., Shikata E., Ohno T., Okada Y. Nucleotide sequence of Cucumber pale fruit viroid: homology to Hop stunt viroid. Nucleic Acids Research 1984, 12(8):3427-3434.
40. Sasaki M., Shikata E. On some properties of hop stunt disease agent, a viroid. Proceedings of the Japan Academy - Series B: Physical & Biological Sciences 1977, 53:109-112.
41. Semancik J.S., Magnuson D.S., Weathers L.G. Potato spindle tuber disease produced by pathogenic RNA from citrus exocortis disease: evidence for the identity of causal agents. Virology 1973, 52:292-294.
42. Semancik J.S., Rivera-Bustamante R., Goheen A.C. Widespread occurrence of viroid-like RNAs in grapevines. American Journal of Enology and Viticulture 1987, 38:35-40.
43. Shikata E., Sano T., Uyeda I. An infectious low molecular weight RNA was detected in grapevines by molecular hybridization with Hop stunt viroid cDNA. Proceedings of the Japan Academy - Series B: Physical & Biological Sciences 1984, 60:202.
44. Shu J., Wang G.P., Xu W.X., Hong N. First report of Citrus exocortis viroid from grapevine in China. Plant Disease 2010, 94(8):1071.
45. Singh R.P. Experimental host range of the potato spindle tuber 'virus'. American Journal of Potato Research 1973, 50:111-123.
46. Szychowski J.A., Credi R., Reanwarakorn K., Semancik J.S. Population diversity in Grapevine yellow speckle viroid 1 and the relationship to disease expression. Virology 1998, 248:432-444.
47. Szychowski J.A., McKenry M.V., Walker M.A., Wolpert J.A., Credi R., Semancik J.S. The vein-banding disease syndrome: a synergistic reaction between grapevine viroids and fanleaf virus. Vitis 1995, 34:229-232.
48. Wan Chow Wah Y.F., Symons R.H. Transmission of viroids via grape seeds. Journal of Phytopathology 1999, 147(5):285-291.
49. Wang G.P. Fruit viorid diseases and research. Practical technologies and information. Fruit Trees 1998, 8:20-22.
50. Wang G.P., Hong N., Hadidi A. Occurrence and research progress of fruit tree viroid diseases in China. Journal of Fruit Science 2005, 22(1):51-54.
51. Wang G.P., Hong N., Zhang Z., Zhang S., Jiang X. The field investigation of virus and viroid diseases of grapevine and stone fruit trees in Shangdong and Liaoning province, China. China Fruits 1996, 4:39-41.
52. Ward L.I., Bumip G.M., Liefting L.W., Harper S.J., Clover R.G. First report of Grapevine yellow speckle viroid 1 and Hop stunt viroid in Grapevine (Vitis vinifera) in New Zealand. Plant Disease 2011, 95(5):617.
53. Wu Q.F., Wang Y., Cao M.J., Pantaleo V., Burgyan J., Li W.X., Ding S.W. Homology-independent discovery of replicating pathogenic circular RNAs by deep sequencing and a new computational algorithm. Proceedings of the National Academy of Sciences of the United States of America 2012, 10.1073/pnas.1117815109/-/DCSupplemental.
54. Yakoubi S., Elleuch A., Besaies N., Marrakchi M., Fakhfakh H. First report of Hop stunt viroid and Citrus exocortis viroid on fig with symptoms of fig mosaic disease. Journal of Phytopathology 2007, 155(2):125-128.
55. Zhang B.L., Liu G.Y., Liu C.Q., Wu Z.J., Li S.F. Identification and characterization of Hop stunt viroid isolated from jujube (Ziziphus jujub). European Journal of Plant Pathology 2009, 125:665-669.