1887

Abstract

The complete genome of a novel adult diarrhoea rotavirus strain J19 was cloned and sequenced using an improved single-primer sequence-independent method. The complete genome is 17 961 bp and is AU-rich (66.49 %). Northern blot analysis and genomic sequence analysis indicated that segments 1–11 encode 11 viral proteins, respectively. Protein alignments with the corresponding proteins of J19 with B219, and groups A, B and C rotaviruses, produced higher per cent sequence identities to B219. Among groups A, B and C rotaviruses, 10 proteins from group B rotaviruses exhibited slightly higher amino acid sequence identity to the J19 proteins, but proteins of J19 showed low amino acid sequence identity with groups A and C rotaviruses. Construction of unrooted phylogenetic trees using a set of known proteins and representatives of three known rotavirus groups revealed that six structural proteins were positioned close to B219 and the basal nodes of groups A, B and C lineages, although with a preferred association with group B lineages. Phylogenetic analysis of the five non-structural proteins showed a similar trend. The results of the serological analysis, protein sequence analysis and phylogenetic analysis suggested that J19 would be a novel rotavirus strain with great significance to the evolution and origin of group B rotaviruses.

Loading

Article metrics loading...

/content/journal/jgv/10.1099/vir.0.2008/001933-0
2008-10-01
2020-08-08
Loading full text...

Full text loading...

/deliver/fulltext/jgv/89/10/2622.html?itemId=/content/journal/jgv/10.1099/vir.0.2008/001933-0&mimeType=html&fmt=ahah

References

  1. Adah M. I., Wade A., Oset M., Kuzuya M., Taniguchi K. 2002; Detection of human group C rotaviruses in Nigeria and sequence analyses of their genes encoding VP4, VP6 and VP7 proteins. J Med Virol 66:269–275 [CrossRef]
    [Google Scholar]
  2. Ahmed M. U., Kobayashi N., Wakuda M., Sanekata T., Taniguchi K., Kader A., Naik T. N., Ishino M., Alam M. M. other authors 2004; Genetic analysis of group B human rotaviruses detected in Bangladesh in 2000 and 2001. J Med Virol 72:149–155 [CrossRef]
    [Google Scholar]
  3. Alam M. M., Kobayashi N., Ishino M., Ahmed M. S., Ahmed M. U., Paul S. K., Muzumdar B. K., Hussain Z., Wang Y. H., Naik T. N. 2007; Genetic analysis of an ADRV-N like novel rotavirus strain B219 detected in a sporadic case of adult diarrhea in Bangladesh. Arch Virol 152:199–208 [CrossRef]
    [Google Scholar]
  4. Ando T., Monroe S. S., Gentsch J. R., Jin Q., Lewis D. C., Glass R. I. 1995; Detection and differentiation of antigenically distinct small round structured viruses (Norwalk-like viruses) by reverse transcription-PCR and Southern hybridization. J Clin Microbiol 33:64–71
    [Google Scholar]
  5. Both G. W., Bellamy A. R., Siegman L. J. 1984; Nucleotide sequence of the dsRNA genomic segment 7 of simian 11 rotavirus. Nucleic Acids Res 12:1621–1626 [CrossRef]
    [Google Scholar]
  6. Brodsky L. I., Vasiliev A. V., , Kalaidzidis, Ya. L., Osipov, Yu. S., Tatuzov R. L., Feranchuk S. I. 1992; GeneBee: the program package for biopolymer structure analysis. Dimacs 8:127–139
    [Google Scholar]
  7. Brodsky L. I., Ivanov V. V., , Kalaidzidis, Ya. L., Leontovich A. M., Nikolaev V. K., Feranchuk S. I., Drachev V. A. 1995; GeneBee-NET: internet-based server for analyzing biopolymers structure. Biochemistry 60:923–928
    [Google Scholar]
  8. Cashdollar L. W., Chemelo R., Esparza J., Hudson G. R., Joklik W. K. 1984; Molecular cloning of the complete genome of reovirus serotype 3. Virology 133:191–196 [CrossRef]
    [Google Scholar]
  9. Caul E. O., Ashley C. R., Darville J. M., Bridger J. C. 1990; Group C rotavirus associated with fatal enteritis in a family outbreak. J Med Virol 30:201–205 [CrossRef]
    [Google Scholar]
  10. Chen C. M., Huang T., Bridger J. C., McCrae M. A. 1985; Chinese adult rotavirus is a group B rotavirus. Lancet 2:1123–1124
    [Google Scholar]
  11. Chen G. M., Hung T., Mackow E. R. 1990; cDNA cloning of each genomic segment of the group B rotavirus ADRV: molecular characterization of the 11th RNA segment. Virology 175:605–609 [CrossRef]
    [Google Scholar]
  12. Chen G. M., Werner-Eckert R., Hung T., Machow E. R. 1991; Expression of the major inner capsid protein of the group B rotavirus ADRV: primary characterization of genome segment 5. Virology 182:820–829 [CrossRef]
    [Google Scholar]
  13. Chen Z., Lambden P. R., Lau J., Caul E. O., Clarke L. N. 2002; Human group C rotavirus: completion of the genome sequence and gene coding assignments of a non-cultivatable rotavirus. Virus Res 83:179–187 [CrossRef]
    [Google Scholar]
  14. Eiden J., Vonderfecht S., Yolken R. H. 1985; Evidence that a novel rotavirus-like agent of rats can cause gastroenteritis in man. Lancet 2:8–11
    [Google Scholar]
  15. Estes M. 2001; Rotaviruses and their replication. In Fields Virology . , 4th edn. pp 1747–1786Edited by Knipe D. M., Howley P. M. Philadelphia, PA: Lippincott Williams & Wilkins;
  16. Estes M. K., Cohen J. 1989; Rotavirus gene structure and function. Microbiol Rev 53:410–449
    [Google Scholar]
  17. Estes M. K., Mason B. B., Crawford S., Cohen J. 1984; Cloning and nucleotide sequence of the simian rotavirus gene 6 that codes for the major inner capsid protein. Nucleic Acids Res 12:1875–1887 [CrossRef]
    [Google Scholar]
  18. Gouvea V., Glass R. I., Woods P., Taniguchi K., Clark H. F., Forrester B., Fang Z. Y. 1990; Polymerase chain reaction amplification and typing of rotavirus nucleic acid from stool specimens. J Clin Microbiol 28:276–282
    [Google Scholar]
  19. Hung T., Chen G. M., Wang C. G., Chou Z. Y., Chao T. X., Ye W. W., Yao H. L., Meng K. H. 1983; Rotavirus-like agent in adult nonbacterial diarrhea in China. Lancet 2:1078–1079
    [Google Scholar]
  20. Hung T., Chen G. M., Wang C. G., Yao H. L., Fang Z. Y., Chao T. X., Chou Z. Y., Ye W., Chang X. J. 1984; Waterborne outbreak of rotavirus diarrhea in adults in China caused by a novel rotavirus. Lancet 1:1139–1142
    [Google Scholar]
  21. Imai M., Richardson M. A., Ikegami N., Shaiki A. J., Furuichi Y. 1983; Molecular cloning of double-stranded RNA viruses genomes. Proc Natl Acad Sci U S A 80:373–377 [CrossRef]
    [Google Scholar]
  22. Ji S., Bi Y., Yang H. Y., Yang F. R., Song J. Q., Tao X. X., Cui X. Y. 2002; Cultivation and serial propagation of a new rotavirus causing adult diarrhea in primary human embryo kidney cells. Zhonghua Yi Xue Za Zhi 82:14–18 (in Chinese
    [Google Scholar]
  23. Jiang B., Dennehy P. H., Spangenberger S., Gentsch J. R., Glass R. L. 1995; First detection of group C rotavirus in fecal specimens of children with diarrhea in the United States. J Infect Dis 172:45–50 [CrossRef]
    [Google Scholar]
  24. Jiang B., Wang Y., Glass R. I., Fang Z. Y. 2005; The evolution of human group B rotaviruses: correction and an update. J Clin Virol 34:158–159 [CrossRef]
    [Google Scholar]
  25. Jiang S. J., Ji S. Z., Tang Q., Yang H. Y., Cui X. Y., Bi Y., Kan B., Gao S. Y. 2006; An improved method to amplify and clone large genome segments of a novel adult diarrhea rotavirus strain J19. Chinese Journal of Microbiology and Immunology 26:781–785
    [Google Scholar]
  26. Kobayashi N., Naik T. N., Kushhara Y., Krishnan T., Sen A., Bhattacharya S. K., Taniguchi K., Alam M. M., Urassawa T., Urasawa S. 2001; Sequence analysis of genes encoding structural and nonstructural proteins of a human group B rotavirus detected in Calcutta. J Med Virol 64:583–588 [CrossRef]
    [Google Scholar]
  27. Krishnan T., Sen A., Choudhury J. S., Das S., Naik T. N., Bhattacharya S. K. 1999; Emergence of adult diarrhea rotavirus in Calcutta, India. Lancet 353:380–381
    [Google Scholar]
  28. Kuzuya M., Fuji R., Hamano M., Nakamura J., Yamada M., Nii S., Mori T. 1996; Molecular analysis of outer capsid glycoprotein (VP7) genes from two isolates of human group C rotaviruses with different genome electropherotypes. J Clin Microbiol 34:3185–3189
    [Google Scholar]
  29. Lambden P. R., Cooke S. J., Caul E. O., Clarke I. N. 1992; Cloning of noncultivatable human rotaviruses by single primer amplification. J Virol 66:1817–1822
    [Google Scholar]
  30. Maan S., Rao S., Maan N. S., Anthony S. J., Attoui H., Samuel A. R., Mertens P. P. C. 2007; Rapid cDNA synthesis and sequencing techniques for the genetic study of bluetongue and other dsRNA viruses. J Virol Methods 143:132–139 [CrossRef]
    [Google Scholar]
  31. Mitchell D. B., Both G. W. 1990; Completion of the genomic sequence of the simian rotavirus SA11: nucleotide sequences of segments 1, 2, and 3. Virology 177:324–331 [CrossRef]
    [Google Scholar]
  32. Nilsson M., Svenungsson B., Hedlund K. O., Uhnoo I., Lagergren A., Akre T., Svensson L. 2000; Incidence and genetic diversity of group C rotavirus among adults. J Infect Dis 182:678–684 [CrossRef]
    [Google Scholar]
  33. Potgieter A. C., Steele A. D., Van Dijk A. A. 2002; Cloning of complete genome sets of six dsRNA viruses using an improved cloning method for large dsRNA genes. J Gen Virol 83:2215–2223
    [Google Scholar]
  34. Ramig R. F., Ciarlet M., Mertens P. P. C., Dermody T. S. 2005; Rotavirus. In Virus Taxonomy, Eighth Report of the ICTV pp 484–496Edited by Fauquet C. M., Mayo M. A., Maniloff J., Desselberger U., Ball. Amsterdam: Elsevier Academic Press;
    [Google Scholar]
  35. Rodger S. M., Bishop R. F., Holmes I. H. 1982; Detection of a rotavirus-like agent associated with diarrhea in an infant. J Clin Microbiol 16:724–726
    [Google Scholar]
  36. Saif L. J., Jiang B. 1994; Nongroup A rotaviruses of humans and animals. Curr Top Microbiol Immunol 185:339–371
    [Google Scholar]
  37. Sanekata T., Ahmed M. U., Kaderet A., Taniguchi K., Kobayashi N. 2003; Human group B rotavirus infectious cause severe diarrhea in children and adults in Bangladesh. J Clin Microbiol 41:2187–2190 [CrossRef]
    [Google Scholar]
  38. Schnagl R. D., Boniface K., Cardwell P., McCarthy D., Ondracek C., Coulson B., Erlich J., Morey F. 2004; Incidence of group C human rotavirus in central Australia and sequence variation of the VP7 and VP4 genes. J Clin Microbiol 42:2127–2133 [CrossRef]
    [Google Scholar]
  39. Sen A., Kobayashi N., Das S., Krishnan T., Bhatachaya S. K., Naik T. N. 2001; The evolution of human group B rotaviruses. Lancet 357:198–199 [CrossRef]
    [Google Scholar]
  40. Vreede F. T., Clote M., Napier G. B., Vand Dijk A. A., Viljoen G. J. 1998; Sequence-independent amplification and cloning of large dsRNA virus genome segments by poly(dA)-oligonucleotide ligation. J Virol Methods 72:243–247 [CrossRef]
    [Google Scholar]
  41. Wang C., Hu C., Hung F., Chen X., Huang T. 1987; A novel discovered rotavirus from adult acute diarrhea particles in China. Chinese Journal of Virology 3:321–325
    [Google Scholar]
  42. Yang H., Chen S., Ji S. Z., Meng Z., Kang B., Zhang Z., Qi S. 1998; A novel rotavirus causing a large scale of adult diarrhea in Shi Jiazhuang. Zhonghua Liu Xing Bing Xue Za Zhi 19:336–338 (in Chinese
    [Google Scholar]
  43. Yang H., Makeyev E. V., Kang Z., Ji S., Bamford D. H., van Dijk A. A. 2004a; Cloning and sequence analysis of dsRNA segments 5, 6 and 7 of a novel non-group A, B, C adult rotavirus that caused an outbreak of gastroenteritis in China. Virus Res 106:15–26 [CrossRef]
    [Google Scholar]
  44. Yang J. H., Kobayashi N., Wang Y. H., Zhou X., Li Y., Zhou D. J., Hu Z. H., Ishino M., Alam M. M. other authors 2004b; Phylogenetic analysis of a human group B rotavirus WH-1 detected in China in 2002. J Med Virol 74:662–667 [CrossRef]
    [Google Scholar]
  45. Zhang Y. P., Rowhani A. 2000; A strategy for rapid cDNA cloning from double-stranded RNA templates isolated from plants infected with RNA viruses by using Taq DNA polymerase. J Virol Methods 84:59–63 [CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/jgv/10.1099/vir.0.2008/001933-0
Loading
/content/journal/jgv/10.1099/vir.0.2008/001933-0
Loading

Data & Media loading...

Most cited this month Most Cited RSS feed

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error