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Detailed analysis of the genetic evolution of influenza virus during the course of an epidemic

Published online by Cambridge University Press:  29 November 2005

A. LAVENU ,
M. LERUEZ-VILLE ,
M.-L. CHAIX ,
P.-Y. BOELLE ,
S. ROGEZ ,
F. FREYMUTH ,
A. HAY ,
C. ROUZIOUX  and
F. CARRAT
A. LAVENU
Affiliation:
INSERM U707, Paris, France Université Paris 6, Paris, France
M. LERUEZ-VILLE
Affiliation:
Laboratoire de Virologie, EA 3620 Université René Descartes. CHU Necker Enfants-Malades, Paris, France
M.-L. CHAIX
Affiliation:
Laboratoire de Virologie, EA 3620 Université René Descartes. CHU Necker Enfants-Malades, Paris, France
P.-Y. BOELLE
Affiliation:
INSERM U707, Paris, France Université Paris 6, Paris, France Assistance Publique des Hôpitaux de Paris, Hôpital Saint Antoine, Paris, France
S. ROGEZ
Affiliation:
Laboratoire de Bactériologie, Virologie et Hygiène, CHU Dupuytren, Limoges, France
F. FREYMUTH
Affiliation:
Laboratoire de Virologie humaine et moléculaire, CHU Côte de Nâcre, Caen, France
A. HAY
Affiliation:
Virology Division, National Institute for Medical Research, The Ridgeway, London, UK
C. ROUZIOUX
Affiliation:
Laboratoire de Virologie, EA 3620 Université René Descartes. CHU Necker Enfants-Malades, Paris, France
F. CARRAT
Affiliation:
INSERM U707, Paris, France Université Paris 6, Paris, France Assistance Publique des Hôpitaux de Paris, Hôpital Saint Antoine, Paris, France
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Abstract

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The genetic variability of influenza virus is usually studied with sequences selected over numerous years and countries, and rarely within a single season. Here we examined the viral evolution and the correlation between genetic and clinical features during an epidemic. From a French prospective household-based study in 1999–2000, 99 infected patients were randomly selected. The HA1 genomic domain was sequenced. Phylogenetic analysis showed the existence of two groups of A/H3N2 viruses. We found no distinct pattern of genomic evolution within either group according to time. A spatial correlation with the nucleotide distances was shown. The average nucleotide diversity was 3·4×10−3 nucleotides per site, and did not differ between the groups. A lower number of segregating sites was observed in patients who experienced influenza-like symptoms during the previous epidemic. These results suggest that the influenza virus undergoes regular HA1 nucleotide changes, but without clonal expansion of mutant strains within a single epidemic.

Type
Research Article
Information
Epidemiology & Infection , Volume 134 , Issue 3 , June 2006 , pp. 514 - 520
Copyright
2005 Cambridge University Press