Molecular characterization of human respiratory syncytial virus NA1 and GA5 genotypes detected in Assam in northeast India, 2009–2012

Abstract

A significant number of children die each year from acute respiratory tract infections especially in developing countries. Human respiratory syncytial virus (RSV) is the most common virus identified in such cases. Genetic characterization and the circulation pattern of RSV is important for future selection of appropriate vaccine strains. Limited information is available on the circulation of RSV in developing countries including India. The present study aimed to provide baseline information on the genetic variability of RSV in the Dibrugarh district of Assam, northeast India. Clinical specimens collected from children aged ≤6 years for routine influenza surveillance in the Dibrugarh district of Assam during the period 2009-2012, were screened for RSV by real-time reverse transcription-polymerase chain reaction. Genotyping was based on partial sequencing of the RSV attachment glycoprotein gene. RSV was detected in 7.9% (39/493) of cases. Only RSV group A viruses were detected during the study period with predominance of NA1 genotypes (89%). Two RSV GA5 genotypes were found to be co-circulating during 2012. The specific amino acid substitutions characteristics of the NA1 genotypes were distinct from RSV strains reported from the rest of India. It is concluded that the circulating genotypes of RSV in Assam, northeast India are NA1 and GA5. To our knowledge this is the first report of circulation of the NA1 genotype in India.

Prevalence and Molecular Characterization of Circulating Respiratory Syncytial Virus (RSV) in Chennai, South India during 2011-2014

“…GA2 was the most common genotype of RSV-A found around the world and has persisted for many years 36,46,53,54 . In earlier studies from Delhi, subgroups GA2 and GA5 were prevalent among the circulating RSV- 52 . In the present study we had not described about amino acid analysis which is the drawback of our study, further studies will be performed to rectify the hitch.…”

“…Phylogenetic analysis detected, detected that all RSV-A glycoprotein sequences obtained in this study were clustered in ON1 group of NA1 subtypes. A 52 . Our present study shows that, 9.8%…”

“…To date, 11 RSV-A (ON1, GA1-GA7, SAA1, NA1& NA2) and 17 RSV-B (GB1-GB4, SAB1-SAB3& BA1-BA10) genotypes have been identified 20 . HRSV has been recognized as an important respiratory virus, there is a dearth of information on genetic diversity of HRSV strains among children in India, with few reports from North India 34-39, 52 . In south India reports on RSV molecular epidemiology is limited.…”

Clinical characterization of influenza A and human respiratory syncytial virus among patients with influenza like illness

“…The uneven incidence rate of RSV has been reported different parts of India; Kolkata (10.3%) [Agrawal et al, ], Assam(7.9%) [Biswas et al, ], and Delhi 17% [Maitreyi et al, ]. According to study, influenza A and H1N1 were more prevalent in year 2009 (48% and 21%) and RSV in year 2013 (16.3%).…”

Biophysical characterization of G protein ectodomain of group B human respiratory syncytial virus fromE. coli

“…The second variable region reflects the overall G protein gene variability and has been analyzed in most of the phylogenetic studies [12] . Strains of group A and B are genotyped by phylogenetic clustering as compared to sequences previously assigned to specific genotype [6,8,13,14] .…”