Predominance of unusual rotavirus G1P[6] strain in North India: An evidence from hospitalized children and adult diarrheal patients

• Published in: Infection, genetics and evolution genetics and evolution, 2016-12, Vol.46, p.65-70
• Main Authors: Jain, Swapnil, Thakur, Nutan, Vashistt, Jitendraa, Grover, Neelam, Krishnan, Triveni, Changotra, Harish
• Format: Article
• Language: English
• Subjects: Adolescent; Adult; Child; Child, Preschool; Diarrhea; ELISA; Enzyme-Linked Immunosorbent Assay; Feces - virology; G1P; Gastroenteritis - epidemiology; Gastroenteritis - virology; Genotypes; Humans; India - epidemiology; Infant; Infant, Newborn; Phylogeny; Polymerase Chain Reaction; Prevalence; Rotavirus; Rotavirus - classification; Rotavirus - genetics; Rotavirus Infections - epidemiology; Rotavirus Infections - virology; RT-PCR; Young Adult
• ISSN: 1567-1348; 1567-7257
• DOI: 10.1016/j.meegid.2016.10.021

Group A Rotavirus remains the leading cause of gastroenteritis in children and accounts for 0.2 million fatalities each year; out of which, approximately 47,100 deaths occur in India. In adults also, rotavirus is reported to be responsible for diarrhea severe enough to require hospitalizations. India has recently introduced rotavirus vaccine in the Universal Immunization Programme and Himachal Pradesh became the first Indian state to implement this project. This study is an attempt to provide the pre-vaccination data on rotavirus gastroenteritis burden and circulating genotypes in Himachal Pradesh, India. A total of 607 faecal specimens (247 children ≤5years, 50 older children and 310 adults) from hospitalized diarrheal patients from Himachal Pradesh, India were screened for rotavirus using ELISA and RT-PCR. The positive samples were further G/P genotyped using semi-nested PCR. Rotavirus was detected in 25.2% and 28.3% of samples with ELISA and RT-PCR, respectively. In children, rotavirus frequency was significantly high with positivity in 49.0% cases whereas 14.0% adult samples have rotavirus in them. Genotyping of the positive samples revealed predominance of G1 (66.0%) and P[6] (66.7%) genotypes. The most common G and P combination was G1P[6] (62.8%) followed by G1P[8] (16.5%), G9P[6] (7.4%) and G12P[6] (5.0%). Molecular analysis reveals the belonging of P[6] strains in Lineage 1a. This pre-vaccination data on rotavirus prevalence and diversity would be helpful for assessing the affect of vaccination on the disease burden and its comparison with post-vaccination data of circulating genotypes would help in studying the effect on diversity of rotavirus strains possibly due to vaccine selection pressure. •Rotavirus positivity was observed in 49% children and 14% adult samples.•Unusual G1P[6] combination emerged as the predominant genotype.•The unusual G-P combinations, G9P[6] and G12P[6] detected in significant fractions•Sensitivity and specificity of ELISA came out to be 84.5% and 98.6%, respectively.