Abstract
During 2004–2006, group A rotavirus P[8] strains were the major VP4 genotype (43.2%, n = 317) among diarrhoeic children in Eastern India. Phylogenetic analysis of VP8* amino acid sequences of 16 of these strains with other P[8] strains revealed four distinct lineages. P[8] strains from Eastern India clustered within rare OP354-like and Hun9-like lineages, pointing towards co-prevalence of divergent P[8] strains. Although it is unclear whether the observed genetic diversity might affect to some extent the efficacy of vaccines, the present study emphasized further efforts to address the much lacking information on diversity of P[8] strains across the Indian subcontinent.
References
Araújo IT, Assis RM, Fialho AM, Mascarenhas JD, Heinemann MB, Leite JP (2007) Brazilian P[8], G1, P[8], G5, P[8], G9, and P[4], G2 rotavirus strains: nucleotide sequence and phylogenetic analysis. J Med Virol 79:995–1001
Arista S, Giammanco GM, De Grazia S, Colomba C, Martella V (2005) Genetic variability among serotype G4 Italian human rotaviruses. J Clin Microbiol 43:1420–1425
Arista S, Giammanco GM, De Grazia S, Ramirez S, Lo Biundo C, Colomba C, Cascio A, Martella V (2006) Heterogeneity and temporal dynamics of evolution of G1 human rotaviruses in a settled population. J Virol 80:10724–10733
Banerjee I, Ramani S, Primrose B, Moses P, Iturriza-Gomara M, Gray JJ, Jaffar S, Monica B, Muliyil JP, Brown DW, Estes MK, Kang G (2006) Comparative study of the epidemiology of rotavirus in children from a community-based birth cohort and a hospital in South India. J Clin Microbiol 44:2468–2474
Bányai K, Gentsch JR, Schipp R, Jakab F, Bene J, Melegh B, Glass RI, Szücs G (2004) Molecular epidemiology of human P[8], G9 rotaviruses in Hungary between 1998 and 2001. J Med Microbiol 53:791–801
Cunliffe NA, Gondwe JS, Graham SM, Thindwa BD, Dove W, Broadhead RL, Molyneux ME, Hart CA (2001) Rotavirus strain diversity in Blantyre, Malawi, from 1997 to 1999. J Clin Microbiol 39:836–843
Das S, Sen A, Uma G, Varghese V, Chaudhuri S, Bhattacharya SK, Krishnan T, Dutta P, Dutta D, Bhattacharya MK, Mitra U, Kobayashi N, Naik TN (2002) Genomic diversity of group A rotavirus strains infecting humans in eastern India. J Clin Microbiol 40:146–149
Das S, Varghese V, Chaudhuri S, Barman P, Kojima K, Dutta P, Bhattacharya SK, Krishnan T, Kobayashi N, Naik TN (2004) Genetic variability of human rotavirus strains isolated from Eastern and Northern India. J Med Virol 72:156–161
Estes MK and Kapikian AZ (2006) Rotaviruses. In: DM Knipe, PM, Howley DE, Griffin (eds) Virology, 5th edn. Lippincott/Williams and Wilkins, Philadelphia, pp 1917–1974
Jain V, Das BK, Bhan MK, Glass RI, Gentsch JR, Indian Strain Surveillance Collaborating Laboratories (2001) Great diversity of group A rotavirus strains and high prevalence of mixed rotavirus infections in India. J Clin Microbiol 39:3524–3529
Kang G, Kelkar SD, Chitambar SD, Ray P, Naik T (2005) Epidemiological profile of rotaviral infection in India: challenges for the 21st century. J Infect Dis 192(Suppl 1):S120–S126
Kumar S, Nei M, Dudley J, Tamura K (2008) MEGA: a biologist-centric software for evolutionary analysis of DNA and protein sequences. Brief Bioinform 9:299–306
Laird AR, Gentsch JR, Nakagomi T, Nakagomi O, Glass RI (2003) Characterization of serotype G9 rotavirus strains isolated in the United States and India from 1993 to 2001. J Clin Microbiol 41:3100–3111
Nakagomi T, Horie Y, Koshimura Y, Greenberg HB, Nakagomi O (1999) Isolation of a Human Rotavirus Strain with a Super-Short RNA Pattern and a New P2 Subtype. J Clin Microbiol 37:1213–1216
Nguyen TA, Hoang LP, Pham LD, Hoang KT, Okitsu S, Mizuguchi M, Ushijima H (2008) Use of sequence analysis of the VP4 gene to classify recent Vietnamese rotavirus isolates. Clin Microbiol Infect 14:235–241
Padilla-Noriega L, Méndez-Toss M, Menchaca G, Contreras JF, Romero-Guido P, Puerto FI, Guiscafré H, Mota F, Herrera I, Cedillo R, Muñoz O, Calva J, Guerrero ML, Coulson BS, Greenberg HB, López S, Arias CF (1998) Antigenic and genomic diversity of human rotavirus VP4 in two consecutive epidemic seasons in Mexico. J Clin Microbiol 36:1688–1692
Parashar UD, Hummelman EG, Bresee JS, Miller MA, Glass RI (2003) Global illness and deaths caused by rotavirus disease in children. Emerg Infect Dis 9:565–572
Parashar UD, Gibson CJ, Bresse JS, Glass RI (2006) Rotavirus and severe childhood diarrhea. Emerg Infect Dis 12:304–306
Phan TG, Okitsu S, Maneekarn N, Ushijima H (2007) Genetic heterogeneity, evolution and recombination in emerging G9 rotaviruses. Infect Genet Evol 7:656–663
Ramani S, Banerjee I, Gladstone BP, Sarkar R, Selvapandian D, Le Fevre AM, Jaffar S, Iturriza-Gomara M, Gray JJ, Estes MK, Brown DW, Kang G (2007) Geographic information systems and genotyping in identification of rotavirus G12 infections in residents of an urban slum with subsequent detection in hospitalized children: emergence of G12 genotype in South India. J Clin Microbiol 45:432–437
Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
Samajdar S, Varghese V, Barman P, Ghosh S, Mitra U, Dutta P, Bhattacharya SK, Narasimham MV, Panda P, Krishnan T, Kobayashi N, Naik TN (2006) Changing pattern of human group A rotaviruses: emergence of G12 as an important pathogen among children in eastern India. J Clin Virol 36:183–188
Santos N, Hoshino Y (2005) Global distribution of rotavirus serotypes/genotypes and its implication for the development and implementation of an effective rotavirus vaccine. Rev Med Virol 15:29–56
Sharma S, Ray P, Gentsch JR, Glass RI, Kalra V, Bhan MK (2008) Emergence of G12 Rotavirus strains in Delhi, 2000–2007. J Clin Microbiol 46:1343–1348
Varghese V, Das S, Singh NB, Kojima K, Bhattacharya SK, Krishnan T, Kobayashi N, Naik TN (2004) Molecular characterization of a human rotavirus reveals porcine characteristics in most of the genes including VP6 and NSP4. Arch Virol 149:155–172
Wu H, Taniguchi K, Wakasugi F, Ukae S, Chiba S, Ohseto M, Hasegawa A, Urasawa T, Urasawa S (1994) Survey on the distribution of the gene 4 alleles of human rotaviruses by polymerase chain reaction. Epidemiol Infect 112:615–622
Acknowledgments
This study was supported by a grant from the Department of Biotechnology, Govt. of India, and Okayama University Project, Japan. S. Samajdar, S. Ghosh and D. Dutta were recipients of a Senior Research Fellowship, a Research Associateship and a Junior Research Fellowship from Council of Scientific and Industrial Research, and University Grants Commission, Govt. of India, respectively.
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Samajdar, S., Ghosh, S., Dutta, D. et al. Human group A rotavirus P[8] Hun9-like and rare OP354-like strains are circulating among diarrhoeic children in Eastern India. Arch Virol 153, 1933–1936 (2008). https://doi.org/10.1007/s00705-008-0187-6
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DOI: https://doi.org/10.1007/s00705-008-0187-6