Genetic characterization of circulating seasonal Influenza A viruses (2005-2009) revealed introduction of oseltamivir resistant H1N1 strains during 2009 in eastern India

Anurodh S. Agrawal, Mehuli Sarkar, Swati Ghosh, Tapasi Roy, Sekhar Chakrabarti, Renu Lal, Akhilesh C. Mishra, Mandeep S. Chadha, Mamta Chawla-Sarkar

Research output: Contribution to journalArticle

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Abstract

Influenza surveillance was implemented in Kolkata, eastern India in 2005 to identify the circulating subtypes and characterize their genetic diversity. Throat and nasal swabs were collected from outpatients with influenza-like illness (ILI). Of 2844 ILI cases identified at two referral hospitals during October 2005-September 2009, 309 (10.86%) were positive for Influenza A by real time RT-PCR, of which 110 (35.60%) were subtyped as H1N1 and 199 (64.40%) as H3N2. Comparison of the nucleotide (nt) and amino acid (aa) sequences of the HA1 gene for H1N1 and H3N2 strains showed that a subset of strains precede WHO recommended contemporary strains by 1-2 years. The Kolkata H1N1 strains clustered in Clade II, subgroup 2B with A/Brisbane/59/2007 but were distant from the corresponding vaccine strains (New Caledonia/20/99 and A/Solomon Island/3/06). The 2005-06 and 2007 H3N2 strains (15/17) clustered either A/Brisbane/10/2007-like (n=8) or A/Nepal/921/2006 like (n=7) strains, whereas 2008 strains (8/12) and 2009 strains (4/4) were similar to the 2010-11 vaccine strain A/Perth/16/2009. More aa substitutions were found in HA or NA genes of H3N2 than in H1N1 strains. No mutation conferring neuraminidase resistance was observed in any of the strain during 2005-08, however in 2009, drug resistant marker (H275Y) was present in seasonal H1N1, but not in co-circulating H3N2 strains. This is the first report of genetic characterization of circulating Influenza A strains from India. The results also highlight the importance of continuing Influenza surveillance in developing countries of Asia for monitoring unusual strains with pandemic potential and mutations conferring antiviral resistance.

Original languageEnglish (US)
Pages (from-to)1188-1198
Number of pages11
JournalInfection, Genetics and Evolution
Volume10
Issue number8
DOIs
StatePublished - Dec 2010
Externally publishedYes

Fingerprint

Oseltamivir
influenza
Influenza A virus
Human Influenza
India
virus
vaccine
mutation
Vaccines
amino acid
Melanesia
New Caledonia
Nepal
Mutation
gene
Neuraminidase
Pandemics
Amino Acid Substitution
Pharynx
Nose

Keywords

  • Amino acid
  • H275Y
  • Influenza
  • Kolkata
  • Mutation
  • Nucleotide
  • Oseltamivir
  • Resistance
  • Surveillance
  • Vaccine

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Genetics
  • Molecular Biology
  • Microbiology
  • Infectious Diseases
  • Microbiology (medical)

Cite this

Genetic characterization of circulating seasonal Influenza A viruses (2005-2009) revealed introduction of oseltamivir resistant H1N1 strains during 2009 in eastern India. / Agrawal, Anurodh S.; Sarkar, Mehuli; Ghosh, Swati; Roy, Tapasi; Chakrabarti, Sekhar; Lal, Renu; Mishra, Akhilesh C.; Chadha, Mandeep S.; Chawla-Sarkar, Mamta.

In: Infection, Genetics and Evolution, Vol. 10, No. 8, 12.2010, p. 1188-1198.

Research output: Contribution to journalArticle

Agrawal, Anurodh S. ; Sarkar, Mehuli ; Ghosh, Swati ; Roy, Tapasi ; Chakrabarti, Sekhar ; Lal, Renu ; Mishra, Akhilesh C. ; Chadha, Mandeep S. ; Chawla-Sarkar, Mamta. / Genetic characterization of circulating seasonal Influenza A viruses (2005-2009) revealed introduction of oseltamivir resistant H1N1 strains during 2009 in eastern India. In: Infection, Genetics and Evolution. 2010 ; Vol. 10, No. 8. pp. 1188-1198.
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abstract = "Influenza surveillance was implemented in Kolkata, eastern India in 2005 to identify the circulating subtypes and characterize their genetic diversity. Throat and nasal swabs were collected from outpatients with influenza-like illness (ILI). Of 2844 ILI cases identified at two referral hospitals during October 2005-September 2009, 309 (10.86{\%}) were positive for Influenza A by real time RT-PCR, of which 110 (35.60{\%}) were subtyped as H1N1 and 199 (64.40{\%}) as H3N2. Comparison of the nucleotide (nt) and amino acid (aa) sequences of the HA1 gene for H1N1 and H3N2 strains showed that a subset of strains precede WHO recommended contemporary strains by 1-2 years. The Kolkata H1N1 strains clustered in Clade II, subgroup 2B with A/Brisbane/59/2007 but were distant from the corresponding vaccine strains (New Caledonia/20/99 and A/Solomon Island/3/06). The 2005-06 and 2007 H3N2 strains (15/17) clustered either A/Brisbane/10/2007-like (n=8) or A/Nepal/921/2006 like (n=7) strains, whereas 2008 strains (8/12) and 2009 strains (4/4) were similar to the 2010-11 vaccine strain A/Perth/16/2009. More aa substitutions were found in HA or NA genes of H3N2 than in H1N1 strains. No mutation conferring neuraminidase resistance was observed in any of the strain during 2005-08, however in 2009, drug resistant marker (H275Y) was present in seasonal H1N1, but not in co-circulating H3N2 strains. This is the first report of genetic characterization of circulating Influenza A strains from India. The results also highlight the importance of continuing Influenza surveillance in developing countries of Asia for monitoring unusual strains with pandemic potential and mutations conferring antiviral resistance.",
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