Retrospective phylogenetic analysis of circulating BA genotype of human respiratory syncytial virus with 60 bp duplication from New Delhi, India during 2007–2010
- 88 Downloads
Human respiratory syncytial virus (hRSV) is the most common viral pathogen of acute lower respiratory tract infection in infants and young children. The G protein of hRSV is the trans-membrane glycoprotein that is involved in the attachment of virion with the host cell. The nasopharyngeal aspirates were subjected to RT-PCR for the second hypervariable region of the G protein gene in the present investigation. Sequencing and phylogenetic analysis revealed that all the study strains clustered within the BA genotype. The study sequences further clustered in BA-9, BA-7, BA-10 and BA-12 subgroups within the BA genotype. The G proteins of the study sequences were predicted to encode 312 and 319 amino acids. Three different N-linked glycosylation sites were observed in the deduced 93–100 amino acid region. There were 40–43 serine and threonine residues that are the potential O-linked glycosylation sites. The non-synonymous/synonymous (dN/dS) ratio was less than one indicating negative selection pressure for amino acid change in the analyzed region of the G protein. The present investigation provides information on circulating strains of BA genotype from New Delhi, India. Further elaborate investigations of the BA viruses from different regions of the world will establish the basis of the rapid global spread and evolutionary pattern of this expanding genotype.
KeywordsBA genotype G protein gene Human respiratory syncytial virus Phylogenetic analysis
We would like to thank Department of Biotechnology and Indian Council of Medical Research, Government of India for their financial assistance.
- 1.Agoti CN, Mwihuri AG, Sande CJ, Onyango CO, Medley GF, Cane PA, et al. Genetic relatedness of infecting and reinfecting respiratory syncytial virus strains identified in a birth cohort from rural Kenya. J Infect Dis. 2012;206(10):1532–41. doi: 10.1093/infdis/jis570.PubMedCentralCrossRefPubMedGoogle Scholar
- 2.Agoti CN, Gitahi CW, Medley GF, Cane PA, Nokes DJ. Identification of group B respiratory syncytial viruses that lackthe 60-nucleotide duplication after six consecutive epidemics of total BA dominance at coastal Kenya. Influenza Other Respir Viruses. 2013;7(6):1008–12. doi: 10.1111/irv.12131.PubMedCentralCrossRefPubMedGoogle Scholar
- 3.Agrawal AS, Sarkar M, Ghosh S, Chawla-Sarkar M, Chakraborty N, Basak M, et al. Prevalence of respiratory syncytial virus group B genotype BA-IV strains among children with acute respiratory tract infection in Kolkata, Eastern India. J Clin Virol. 2009;45(4):358–61. doi: 10.1016/j.jcv.2009.05.013.CrossRefPubMedGoogle Scholar
- 5.Arnott A, Vong S, Mardy S, Chu S, Naughtin M, Sovann L, et al. A study of the genetic variability of human respiratory syncytial virus (HRSV) in Cambodia reveals the existence of a new HRSV group B genotype. J Clin Microbiol. 2011;49(10):3504–13. doi: 10.1128/JCM.01131-11.PubMedCentralCrossRefPubMedGoogle Scholar
- 8.Cui G, Zhu R, Qian Y, Deng J, Zhao L, Sun Y, et al. Genetic variation in attachment glycoprotein genes of human respiratory syncytial virus subgroups A and B in children in recent five consecutive years. PLoS One. 2013;8(9):e75020. doi: 10.1371/journal.pone.0075020.PubMedCentralCrossRefPubMedGoogle Scholar
- 21.Trento A, Viegas M, Galiano M, Videla C, Carballal G, Mistchenko AS, et al. Natural history of human respiratory syncytial virus inferred from phylogenetic analysis of the attachment (G) glycoprotein with a 60-nucleotide duplication. J Virol. 2006;80(2):975–84. doi: 10.1128/JVI.80.2.975-984.2006.PubMedCentralCrossRefPubMedGoogle Scholar
- 22.Trento A, Casas I, Calderon A, Garcia-Garcia ML, Calvo C, Perez-Brena P, et al. Ten years of global evolution of the human respiratory syncytial virus BA genotype with a 60-nucleotide duplication in the G protein gene. J Virol. 2010;84(15):7500–12. doi: 10.1128/JVI.00345-10.PubMedCentralCrossRefPubMedGoogle Scholar
- 24.WHO 2005, Integrated management of childhood illness handbook. In: World Health Organization: WHO/FCH/CAH/0012.Google Scholar
- 25.Zhang ZY, Du LN, Chen X, Zhao Y, Liu EM, Yang XQ, et al. Genetic variability of respiratory syncytial viruses (RSV) prevalent in Southwestern China from 2006 to 2009: emergence of subgroup B and A RSV as dominant strains. J Clin Microbiol. 2010;48(4):1201–7. doi: 10.1128/JCM.02258-09.PubMedCentralCrossRefPubMedGoogle Scholar