Analysis of genetic diversity and molecular evolution of human group B rotaviruses based on whole genome segments

Journal of General Virology

Volumn 91, Issue 7, 2010, Pages 1772-1781

  Yamamoto, Dai ^a   Ghosh, Souvik ^a   Ganesh, Balasubramanian ^b   Krishnan, Triveni ^b   Chawla Sarkar, Mamta ^b   Alam, Mohammed Mahbub ^c   Aung, Tin Sabai ^d   Kobayashi, Nobumichi ^a  

^a SAPPORO MEDICAL UNIVERSITY SCHOOL OF MEDICINE   (Japan)

^b NATIONAL INSTITUTE OF CHOLERA AND ENTERIC DISEASES   (India)

^c BANGLADESH AGRICULTURAL UNIVERSITY   (Bangladesh)

^d National Health Laboratory   (Myanmar)

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN VP7; VIRUS RNA; CAPSID PROTEIN; VIRUS ANTIGEN; VP7 PROTEIN, ROTAVIRUS;

AMINO ACID SEQUENCE; ARTICLE; GENETIC CONSERVATION; GENETIC VARIABILITY; HUMAN; MOLECULAR EVOLUTION; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN MOTIF; PROTEIN STRUCTURE; ROTAVIRUS; VIRUS GENE; VIRUS STRAIN; BANGLADESH; GENE EXPRESSION REGULATION; GENETICS; INDIA; METABOLISM; MOLECULAR GENETICS; MYANMAR; PHYSIOLOGY; ROTAVIRUS INFECTION; VIROLOGY; VIRUS GENOME;

LEPISOSTEIDAE; ROTAVIRUS A; ROTAVIRUS B;

AMINO ACID SEQUENCE; ANTIGENS, VIRAL; BANGLADESH; CAPSID PROTEINS; EVOLUTION, MOLECULAR; GENE EXPRESSION REGULATION, VIRAL; GENETIC VARIATION; GENOME, VIRAL; HUMANS; INDIA; MOLECULAR SEQUENCE DATA; MYANMAR; PHYLOGENY; ROTAVIRUS; ROTAVIRUS INFECTIONS;

EID: 77954154950     PISSN: 00221317     EISSN: 14652099     Source Type: Journal    
DOI: 10.1099/vir.0.020412-0     Document Type: Article

References (42)

1. 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.
2. Aung, T. S., Kobayashi, N., Nagashima, S., Ghosh, S., Aung, M. S., Oo, K. Y. & Win, N. (2009). Detecton of group B rotavirus in an adult with acute gastroenteritis in Yangon, Myanmar. J Med Virol 81, 1968-1974.
3. Barman, P., Ghosh, S., Samajdar, S., Mitra, U., Dutta, P., Bhattacharya, S. K., Krishnan, T., Kobayashi, N. & Naik, T. N. (2006). RT-PCR based diagnosis revealed importance of human group B rotavirus infection in childhood diarrhoea. J Clin Virol 36, 222-227.
4. Brown, D. W., Beards, G. M., Chen, G. M. & Flewett, T. H. (1987). Prevalence of antibody to group B (atypical) rotavirus in humans and animals. J Clin Microbiol 25, 316-319.
5. Cohen, J., Charpilienne, A., Chilmonczyk, S. & Estes, M. K. (1989). Nucleotide sequence of bovine rotavirus gene 1 and expression of the gene product in baculovirus. Virology 171, 131-140. (Pubitemid 19180780)
6. Cook, J. P. & McCrae, M. A. (2004). Sequence analysis of the guanylyltransferase (VP3) of group A rotaviruses. J Gen Virol 85, 929-932. (Pubitemid 38489558)
7. Dai, G.-Z., Sun, M.-S., Liu, S.-Q., Ding, X.-F., Chen, Y.-D., Wang, L.-C., Du, D.-P., Zhao, G., Su, Y. & other authors (1987). First report of an epidemic of diarrhoea in human neonates involving the new rotavirus and biological characteristics of the epidemic virus strain (KMB/R85). J Med Virol 22, 365-373.
8. Deo, R. C., Groft, C. M., Rajashankar, K. R. & Burley, S. K. (2002). Recognition of the rotavirus mRNA 3′ consensus by an asymmetric NSP3 homodimer. Cell 108, 71-81.
9. Dormitzer, P. R., Nason, E. B., Prasad, B. V. & Harrison, S. C. (2004). Structural rearrangements in the membrane penetration protein of a non-enveloped virus. Nature 430, 1053-1058.
10. Estes, M. K. & Kapikian, A. Z. (2007). Rotaviruses. In Fields Virology, 5th edn, pp. 1917-1974. Edited by D. M. Knipe & P. M. Howley. Philadelphia, PA: Lippincott Williams & Wilkins.
11. Fang, Z.-Y., Ye, Q., Ho, M.-S., Dong, H., Qing, S., Peneranda, M. E., Hung, T., Wen, L. & Glass, R. I. (1989). Investigation of an outbreak of adult diarrhea rotavirus in China. J Infect Dis 160, 948-953. (Pubitemid 20002761)
12. Ghosh, S., Varghese, V., Sinha, M., Kobayashi, N. & Naik, T. N. (2007). Evidence for interstate transmission and increase in prevalence of bovine group B rotavirus strains with a novel VP7 genotype among diarrhoeic calves in Eastern and Northern states of India. Epidemiol Infect 135, 1324-1330.
13. Ghosh, S., Kobayashi, N., Nagashima, S., Chawla-Sarkar, M., Krishnan, T., Ganesh, B. & Naik, T. N. (2010). Molecular characterization of the VP1, VP2, VP4, VP6, NSP1 and NSP2 genes of bovine group B rotaviruses: identification of a novel VP4 genotype. Arch Virol 155, 159-167.
14. Gouvea, V., Allen, J. R., Glass, R. I., Fang, Z. Y., Bremont, M., Cohen, J., McCrae, M. A., Saif, L. J., Sinarachatanant, P. & other authors (1991). Detection of group B and C rotaviruses by polymerase chain reaction. J Clin Microbiol 29, 519-523.
15. Heiman, E. M., McDonald, S. M., Barro, M., Taraporewala, Z. F., Bar- Magen, T. & Patton, J. T. (2008). Group A human rotavirus genomics: evidence that gene constellations are influenced by viral protein interactions. J Virol 82, 11106-11116.
16. Hua, J., Mansell, E. A. & Patton, J. T. (1993). Comparative analysis of the rotavirus NS53 gene: conservation of basic and cysteine-rich regions in the protein and possible stem-loop structures in the RNA. Virology 196, 372-378.
17. Hung, T., Chen, G., Wang, C., Chou, Z., Chao, T., Ye, W., Yao, H. & Meng, K. (1983). Rotavirus-like agent in adult non-bacterial diarrhoea in China. Lancet 2, 1078-1079.
18. Hung, T., Wang, C., Fang, Z., Chou, Z., Chang, X., Liong, X., Chen, G., Yao, H., Chao, T. & other authors (1984). Waterborne outbreak of rotavirus diarrhoea in adults in China caused by a novel rotavirus. Lancet 1, 1139-1142.
19. Ishino, M., Mise, K., Takemura, H., Ahmed, M. U., Alam, M. M., Naik, T. N. & Kobayashi, N. (2006). Comparison of NSP4 protein between group A and B human rotaviruses: detection of novel diarrhea-causing sequences in group B NSP4. Arch Virol 151, 173-182.
20. Ito, H., Sugiyama, M., Masubuchi, K., Mori, Y. & Minamoto, N. (2001). Complete nucleotide sequence of a group A avian rotavirus genome and a comparison with its counterparts of mammalian rotaviruses. Virus Res 75, 123-138.
21. Kapikian, A. Z., Hoshino, Y. & Chanock, R. M. (2001). Rotaviruses. In Fields Virology, 4th edn, pp. 1787-1833. Edited by D. M. Knipe & P. M. Howley. Philadelphia, PA: Lippincott Williams & Wilkins.
22. Kobayashi, N., Naik, T. N., Kusuhara, Y., Krishnan, T., Sen, A., Bhattacharya, S. K., Taniguchi, K., Alam, M. M. & Urasawa, S. (2001). Sequence analysis of genes encoding structural and nonstructural proteins of a human group B rotavirus detected in Calcutta, India. J Med Virol 64, 583-588.
23. Krishnan, T., Sen, A., Choudhury, J. S., Das, S., Naik, T. N. & Bhattacharya, S. K. (1999). Emergence of adult diarrhoea rotavirus in Calcutta, India. Lancet 353, 380-381. (Pubitemid 29088175)
24. Kuga, K., Miyazaki, A., Suzuki, T., Takagi, M., Hattori, N., Katsuda, K., Mase, M., Sugiyama, M. & Tsunemitsu, H. (2009). Genetic diversity and classification of the outer capsid glycoprotein VP7 of porcine group B rotaviruses. Arch Virol 154, 1785-1795.
25. Kumar, M., Jayaram, H., Vasquez-Del, C. R., Jiang, X., Taraporewala, Z. F., Jacobson, R. H., Patton, J. T. & Prasad, B. V. (2007). Crystallographic and biochemical analysis of rotavirus NSP2 with nucleotides reveals a nucleoside diphosphate kinase-like activity. J Virol 81, 12272-12284.
26. Mackow, E. R. (1995). Group B and C rotaviruses. In Infections of the Gastrointestinal Tract, pp. 983-1008. Edited by M. J. Blaser, P. D. Smith, J. I. Ravdin, H. B. Greenberg & R. L. Guerrant. New York: Raven Press.
27. Matthijnssens, J., Ciarlet, M., Heiman, E., Arijs, I., Delbeke, T., McDonald, S. M., Palombo, E. A., Iturriza-Gómara, M., Maes, P. & other authors (2008). Full genome-based classification of rotaviruses reveals a common origin between human Wa-like and porcine rotavirus strains and human DS-1-like and bovine rotavirus strains. J Virol 82, 3204-3219.
28. McDonald, S. M. & Patton, J. T. (2008). Molecular characterization of a subgroup specificity associated with the rotavirus inner capsid protein VP2. J Virol 82, 2752-2764.
29. McDonald, S. M., Aguayo, D., Gonzalez-Nilo, F. D. & Patton, J. T. (2009). Shared and group-specific features of the rotavirus RNA polymerase reveal potential determinants of gene reassortment restriction. J Virol 83, 6135-6148.
30. Nagashima, S., Kobayashi, N., Ishino, M., Alam, M. M., Ahmed, M. U., Paul, S. K., Ganesh, B., Chawla-Sarkar, M., Krishnan, T. & other authors (2008). Whole genomic characterization of a human rotavirus strain B219 belonging to a novel group of the genus Rotavirus. J Med Virol 80, 2023-2033.
31. Nakata, S., Estes, M. K., Graham, D. Y., Wang, S. S., Gary, G. W. & Melnick, J. L. (1987). Detection of antibody to group B adult diarrhea rotaviruses in humans. J Clin Microbiol 25, 812-818. (Pubitemid 17053218)
32. Paul, S. K., Kobayashi, N., Nagashima, S., Ishino, M., Watanabe, S., Alam, M. M., Ahmed, M. U., Hossain, M. A. & Naik, T. N. (2008). Phylogenetic analysis of rotaviruses with genotypes G1, G2, G9 and G12 in Bangladesh: evidence for a close relationship between rotaviruses from children and adults. Arch Virol 153, 1999-2012.
33. Rahman, M., Hassan, Z. M., Zafrul, H., Saiada, F., Banik, S., Faruque, A. S., Delbeke, T., Matthijnssens, J., Van Ranst, M. & other authors (2007). Sequence analysis and evolution of group B rotaviruses. Virus Res 125, 219-225.
34. Rao, C. D., Das, M., Ilango, P., Lalwani, R., Rao, B. S. & Gowda, K. (1995). Comparative nucleotide and amino acid sequence analysis of the sequence-specific RNA-binding rotavirus nonstructural protein NSP3. Virology 207, 327-333.
35. Sanekata, T., Ahmed, M. U., Kader, A., Taniguchi, K. & Kobayashi, N. (2003). Human group B rotavirus infections cause severe diarrhea in children and adults in Bangladesh. J Clin Microbiol 41, 2187-2190.
36. Sen, A., Sen, N. & Mackow, E. R. (2007). The formation of viroplasm-like structures by the rotavirus NSP5 protein is calcium regulated and directed by a C-terminal helical domain. J Virol 81, 11758-11767.
37. Shen, S., McKee, T. A., Wang, Z. D., Desselberger, U. & Liu, D. X. (1999). Sequence analysis and in vitro expression of genes 6 and 11 of an ovine group B rotavirus isolate, KB63: evidence for a non-defective, C-terminally truncated NSP1 and a phosphorylated NSP5. J Gen Virol 80, 2077-2085.
38. Tsunemitsu, H., Kamiyama, M., Kawashima, K., Katsuda, K., Kohmoto, M., Saif, L. J., Shouji, T. & Onodera, T. (2005). Molecular characterization of the major capsid protein VP6 of bovine group B rotavirus and its use in seroepidemiology. J Gen Virol 86, 2569-2575.
39. Vende, P., Piron, M., Castagné, N. & Poncet, D. (2000). Efficient translation of rotavirus mRNA requires simultaneous interaction of NSP3 with the eukaryotic translation initiation factor eIF4G and the mRNA 39 end. J Virol 74, 7064-7071.
40. Wang, S. S., Cai, R. F., Chen, J., Li, R. J. & Jiang, R. S. (1985). Etiologic studies of the 1983 and 1984 outbreaks epidemic diarrhea in Guangxi. Intervirology 24, 140-146. (Pubitemid 16191770)
41. Wang, Y. H., Kobayashi, N., Zhou, D. J., Yang, Z. Q., Zhou, X., Peng, J. S., Zhu, Z. R., Zhao, D. F., Liu, M. Q. & other authors (2007). Molecular epidemiologic analysis of group A rotaviruses in adults and children with diarrhea in Wuhan City, China, 2000-2006. Arch Virol 152, 669-685.
42. 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 (2004). Phylogenetic analysis of a human group B rotavirus WH-1 detected in China in 2002. J Med Virol 74, 662-667.