tetano
Editor, Senior Moderator
Virus Research
Available online 13 September 2012
In Press, Accepted Manuscript ? Note to users
Cover image
BAYESIAN COALESCENT ANALYSIS OF PANDEMIC H1N1 INFLUENZA A VIRUS CIRCULATING IN THE SOUTH AMERICAN REGION
Natalia Go?ia, b,
Gonzalo Moratorioa, c,
Leticia Coppolab,
Viviana Ramasb,
Victoria Comasa,
Martin So?oraa,
Hector Chiparellib,
Juan Cristinaa, Corresponding author contact information, E-mail the corresponding author
a Laboratorio de Virolog?a Molecular, Centro de Investigaciones Nucleares, Facultad de Ciencias, Universidad de la Rep?blica, Igua 4225, 11400 Montevideo, Uruguay
b Centro Nacional de Referencia de Influenza, Departamento de Laboratorios de Salud P?blica, Ministerio de Salud P?blica, Alfredo Navarro 3051 acceso norte, 11200 Montevideo, Uruguay
c Unidad de Biof?sica de Prote?nas, Institut Pasteur-Montevideo, Mataojo 2020, 11400 Montevideo, Uruguay
http://dx.doi.org/10.1016/j.virusres.2012.09.002, How to Cite or Link Using DOI
Abstract
The first influenza pandemic of this century was declared in April of 2009, with the emergence of a novel H1N1 Influenza A virus strain (H1N1pdm). Understanding the evolution of H1N1pdm populations within the South American region is essential for studying global diversification, emergence, resistance and vaccine efficacy. In order to gain insight into these matters, we have performed a Bayesian coalescent Markov Chain Monte Carlo analysis of hemagglutinin (HA) and neuraminidase (NA) gene sequences of all available and comparable HA and NA sequences obtained from H1N1pdm IAV circulating in the South American region. High evolutionary rates and fast population growths characterize the population dynamics of H1N1pdm strains in this region of the world. A significant contribution of first codon position to the mean evolutionary rate was found for both genes studied, revealing a high contribution of non-synonymous substitutions to the mean substitution rate. In the 178 days period covered by these studies, substitutions in all HA epitope regions can be observed. HA substitutions D239G/N and Q310H have been observed only in Brazilian patients. While substitution D239G/N is not particularly associated to a specific genetic lineage, all strains bearing substitution Q310H were assigned to clade 6, suggesting a founder effect. None of the substitutions found in the NA proteins of H1N1pdm strains isolated in South America appears sufficiently close to affect the drug binding pocket for the three NA inhibitor antivirals tested. A more detailed analysis of NA proteins revealed epitope differences among 2010 vaccine and H1N1pdm IAV strains circulating in the South American region.
Highlights
► We have performed a Bayesian coalescent analysis of South American Influenza viruses. ► The population dynamics is characterized by high evolutionary rates and fast growths. ► There is a significant contribution of first codon position to the evolutionary rate. ► Substitutions in all Hemagglutinin epitope regions were found in a 178 days period. ► Analysis of Neuraminidase proteins revealed epitope differences with vaccine strain.
http://www.sciencedirect.com/science/article/pii/S0168170212003206
Available online 13 September 2012
In Press, Accepted Manuscript ? Note to users
Cover image
BAYESIAN COALESCENT ANALYSIS OF PANDEMIC H1N1 INFLUENZA A VIRUS CIRCULATING IN THE SOUTH AMERICAN REGION
Natalia Go?ia, b,
Gonzalo Moratorioa, c,
Leticia Coppolab,
Viviana Ramasb,
Victoria Comasa,
Martin So?oraa,
Hector Chiparellib,
Juan Cristinaa, Corresponding author contact information, E-mail the corresponding author
a Laboratorio de Virolog?a Molecular, Centro de Investigaciones Nucleares, Facultad de Ciencias, Universidad de la Rep?blica, Igua 4225, 11400 Montevideo, Uruguay
b Centro Nacional de Referencia de Influenza, Departamento de Laboratorios de Salud P?blica, Ministerio de Salud P?blica, Alfredo Navarro 3051 acceso norte, 11200 Montevideo, Uruguay
c Unidad de Biof?sica de Prote?nas, Institut Pasteur-Montevideo, Mataojo 2020, 11400 Montevideo, Uruguay
http://dx.doi.org/10.1016/j.virusres.2012.09.002, How to Cite or Link Using DOI
Abstract
The first influenza pandemic of this century was declared in April of 2009, with the emergence of a novel H1N1 Influenza A virus strain (H1N1pdm). Understanding the evolution of H1N1pdm populations within the South American region is essential for studying global diversification, emergence, resistance and vaccine efficacy. In order to gain insight into these matters, we have performed a Bayesian coalescent Markov Chain Monte Carlo analysis of hemagglutinin (HA) and neuraminidase (NA) gene sequences of all available and comparable HA and NA sequences obtained from H1N1pdm IAV circulating in the South American region. High evolutionary rates and fast population growths characterize the population dynamics of H1N1pdm strains in this region of the world. A significant contribution of first codon position to the mean evolutionary rate was found for both genes studied, revealing a high contribution of non-synonymous substitutions to the mean substitution rate. In the 178 days period covered by these studies, substitutions in all HA epitope regions can be observed. HA substitutions D239G/N and Q310H have been observed only in Brazilian patients. While substitution D239G/N is not particularly associated to a specific genetic lineage, all strains bearing substitution Q310H were assigned to clade 6, suggesting a founder effect. None of the substitutions found in the NA proteins of H1N1pdm strains isolated in South America appears sufficiently close to affect the drug binding pocket for the three NA inhibitor antivirals tested. A more detailed analysis of NA proteins revealed epitope differences among 2010 vaccine and H1N1pdm IAV strains circulating in the South American region.
Highlights
► We have performed a Bayesian coalescent analysis of South American Influenza viruses. ► The population dynamics is characterized by high evolutionary rates and fast growths. ► There is a significant contribution of first codon position to the evolutionary rate. ► Substitutions in all Hemagglutinin epitope regions were found in a 178 days period. ► Analysis of Neuraminidase proteins revealed epitope differences with vaccine strain.
http://www.sciencedirect.com/science/article/pii/S0168170212003206