Molecular Evolutionary Analysis of pH1N1 2009 Influenza Virus in Reunion Island, South West Indian Ocean Region: A Cohort Study
Identifieur interne : 001A70 ( Main/Exploration ); précédent : 001A69; suivant : 001A71Molecular Evolutionary Analysis of pH1N1 2009 Influenza Virus in Reunion Island, South West Indian Ocean Region: A Cohort Study
Auteurs : Hervé Pascalis [France] ; Sarah Temmam [France] ; David A. Wilkinson [France] ; Najla Dsouli [France] ; Magali Turpin [France] ; Xavier De Lamballerie [France] ; Koussay Dellagi [France]Source :
- PLoS ONE [ 1932-6203 ] ; 2012.
Descripteurs français
- KwdFr :
- Adolescent, Adulte, Adulte d'âge moyen, Enfant, Enfant d'âge préscolaire, Femelle, Grippe humaine (virologie), Grippe humaine (épidémiologie), Génome viral (génétique), Humains, Jeune adulte, Mâle, Océan Indien (épidémiologie), Pandémies, Sous-type H1N1 du virus de la grippe A (génétique), Sous-type H1N1 du virus de la grippe A (pathogénicité), Variation génétique, Études de cohortes, Études de suivi, Évolution moléculaire.
- MESH :
- génétique : Génome viral, Sous-type H1N1 du virus de la grippe A.
- pathogénicité : Sous-type H1N1 du virus de la grippe A.
- virologie : Grippe humaine.
- épidémiologie : Grippe humaine, Océan Indien.
- Adolescent, Adulte, Adulte d'âge moyen, Enfant, Enfant d'âge préscolaire, Femelle, Humains, Jeune adulte, Mâle, Pandémies, Variation génétique, Études de cohortes, Études de suivi, Évolution moléculaire.
- Wicri :
- topic : Adulte, Enfant, Océan Indien.
English descriptors
- KwdEn :
- Adolescent, Adult, Child, Child, Preschool, Cohort Studies, Evolution, Molecular, Female, Follow-Up Studies, Genetic Variation, Genome, Viral (genetics), Humans, Indian Ocean (epidemiology), Influenza A Virus, H1N1 Subtype (genetics), Influenza A Virus, H1N1 Subtype (pathogenicity), Influenza, Human (epidemiology), Influenza, Human (virology), Male, Middle Aged, Pandemics, Young Adult.
- MESH :
- geographic , epidemiology : Indian Ocean.
- epidemiology : Influenza, Human.
- genetics : Genome, Viral, Influenza A Virus, H1N1 Subtype.
- pathogenicity : Influenza A Virus, H1N1 Subtype.
- virology : Influenza, Human.
- Adolescent, Adult, Child, Child, Preschool, Cohort Studies, Evolution, Molecular, Female, Follow-Up Studies, Genetic Variation, Humans, Male, Middle Aged, Pandemics, Young Adult.
- mix :
Abstract
Molecular epidemiology is a powerful tool to decipher the dynamics of viral transmission, quasispecies temporal evolution and origins. Little is known about the pH1N1 molecular dynamics in general population. A prospective study (CoPanFlu-RUN) was carried out in Reunion Island to characterize pH1N1 genetic variability and molecular evolution occurring in population during the pH1N1
We directly amplified pH1N1 genomes from 28 different nasal swabs (26 individuals from 21 households). Fifteen strains were fully sequenced and 13 partially. This includes pairs of sequences from different members of 5 separate households; and two pairs from individuals, collected at different times. We assessed the molecular evolution of pH1N1 by genetic variability and phylogenetic analyses.
We found that i) Reunion pH1N1 sequences stemmed from global “clade 7” but shaped two phylogenetic sub-clades; ii) D239E mutation was identified in the hemagglutinin protein of all Reunion sequences, a mutation which has been associated elsewhere with mild-, upper-respiratory tract pH1N1 infecting strains; iii) Date estimates from molecular phylogenies predicted clade emergence some time before the first detection of pH1N1 by the epidemiological surveillance system; iv) Phylogenetic relatedness was observed between Reunion pH1N1 viruses and those from other countries in South-western Indian Ocean area; v) Quasispecies populations were observed within households and individuals of the cohort-study.
Surveillance and/or prevention systems presently based on
Url:
DOI: 10.1371/journal.pone.0043742
PubMed: 22952752
PubMed Central: 3428279
Affiliations:
- France
- Auvergne-Rhône-Alpes, Provence-Alpes-Côte d'Azur, Rhône-Alpes
- Lyon, Marseille
- Université de la Méditerranée
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Le document en format XML
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Réunion</wicri:noRegion><wicri:noRegion>La Réunion</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Institut de Recherche pour le Développement (IRD), La Réunion, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Institut de Recherche pour le Développement (IRD), La Réunion</wicri:regionArea><wicri:noRegion>La Réunion</wicri:noRegion><wicri:noRegion>La Réunion</wicri:noRegion></affiliation></author><author><name sortKey="Temmam, Sarah" sort="Temmam, Sarah" uniqKey="Temmam S" first="Sarah" last="Temmam">Sarah Temmam</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>GIS CRVOI, Centre de Recherche et de Veille sur les maladies émergentes dans l’Océan Indien, Plateforme technologique CYROI, Saint-Denis, La Réunion, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>GIS CRVOI, Centre de Recherche et de Veille sur les maladies émergentes dans l’Océan Indien, Plateforme 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Wilkinson</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>GIS CRVOI, Centre de Recherche et de Veille sur les maladies émergentes dans l’Océan Indien, Plateforme technologique CYROI, Saint-Denis, La Réunion, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>GIS CRVOI, Centre de Recherche et de Veille sur les maladies émergentes dans l’Océan Indien, Plateforme technologique CYROI, Saint-Denis, La Réunion</wicri:regionArea><wicri:noRegion>La Réunion</wicri:noRegion><wicri:noRegion>La Réunion</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff4"><addr-line>Université de La Réunion, Saint-Denis, La Réunion, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Université de La Réunion, Saint-Denis, La Réunion</wicri:regionArea><wicri:noRegion>La Réunion</wicri:noRegion><wicri:noRegion>La Réunion</wicri:noRegion></affiliation></author><author><name sortKey="Dsouli, Najla" sort="Dsouli, Najla" uniqKey="Dsouli N" first="Najla" last="Dsouli">Najla Dsouli</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>GIS CRVOI, Centre de Recherche et de Veille sur les maladies émergentes dans l’Océan Indien, Plateforme technologique CYROI, Saint-Denis, La Réunion, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>GIS CRVOI, Centre de Recherche et de Veille sur les maladies émergentes dans l’Océan Indien, Plateforme technologique CYROI, Saint-Denis, La Réunion</wicri:regionArea><wicri:noRegion>La Réunion</wicri:noRegion><wicri:noRegion>La Réunion</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Institut de Recherche pour le Développement (IRD), La Réunion, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Institut de Recherche pour le Développement (IRD), La Réunion</wicri:regionArea><wicri:noRegion>La Réunion</wicri:noRegion><wicri:noRegion>La Réunion</wicri:noRegion></affiliation></author><author><name sortKey="Turpin, Magali" sort="Turpin, Magali" uniqKey="Turpin M" first="Magali" last="Turpin">Magali Turpin</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>GIS CRVOI, Centre de Recherche et de Veille sur les maladies émergentes dans l’Océan Indien, Plateforme technologique CYROI, Saint-Denis, La Réunion, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>GIS CRVOI, Centre de Recherche et de Veille sur les maladies émergentes dans l’Océan Indien, Plateforme technologique CYROI, Saint-Denis, La Réunion</wicri:regionArea><wicri:noRegion>La Réunion</wicri:noRegion><wicri:noRegion>La Réunion</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Institut de Recherche pour le Développement (IRD), La Réunion, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Institut de Recherche pour le Développement (IRD), La Réunion</wicri:regionArea><wicri:noRegion>La Réunion</wicri:noRegion><wicri:noRegion>La Réunion</wicri:noRegion></affiliation></author><author><name sortKey="De Lamballerie, Xavier" sort="De Lamballerie, Xavier" uniqKey="De Lamballerie X" first="Xavier" last="De Lamballerie">Xavier De Lamballerie</name><affiliation wicri:level="4"><nlm:aff id="aff5"><addr-line>Unité des Virus Emergents (UMR-S 190), IRD-Université de la Méditerranée, Marseille, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Unité des Virus Emergents (UMR-S 190), IRD-Université de la Méditerranée, Marseille</wicri:regionArea><placeName><region type="region">Provence-Alpes-Côte d'Azur</region><region type="old region">Provence-Alpes-Côte d'Azur</region><settlement type="city">Marseille</settlement></placeName><orgName type="university">Université de la Méditerranée</orgName></affiliation></author><author><name sortKey="Dellagi, Koussay" sort="Dellagi, Koussay" uniqKey="Dellagi K" first="Koussay" last="Dellagi">Koussay Dellagi</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>GIS CRVOI, Centre de Recherche et de Veille sur les maladies émergentes dans l’Océan Indien, Plateforme technologique CYROI, Saint-Denis, La Réunion, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>GIS CRVOI, Centre de Recherche et de Veille sur les maladies émergentes dans l’Océan Indien, Plateforme technologique CYROI, Saint-Denis, La Réunion</wicri:regionArea><wicri:noRegion>La Réunion</wicri:noRegion><wicri:noRegion>La Réunion</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Institut de Recherche pour le Développement (IRD), La Réunion, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Institut de Recherche pour le Développement (IRD), La Réunion</wicri:regionArea><wicri:noRegion>La Réunion</wicri:noRegion><wicri:noRegion>La Réunion</wicri:noRegion></affiliation></author></analytic><series><title level="j">PLoS ONE</title><idno type="eISSN">1932-6203</idno><imprint><date when="2012">2012</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Adolescent</term><term>Adult</term><term>Child</term><term>Child, Preschool</term><term>Cohort Studies</term><term>Evolution, Molecular</term><term>Female</term><term>Follow-Up Studies</term><term>Genetic Variation</term><term>Genome, Viral (genetics)</term><term>Humans</term><term>Indian Ocean (epidemiology)</term><term>Influenza A Virus, H1N1 Subtype (genetics)</term><term>Influenza A Virus, H1N1 Subtype (pathogenicity)</term><term>Influenza, Human (epidemiology)</term><term>Influenza, Human (virology)</term><term>Male</term><term>Middle Aged</term><term>Pandemics</term><term>Young Adult</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Adolescent</term><term>Adulte</term><term>Adulte d'âge moyen</term><term>Enfant</term><term>Enfant d'âge préscolaire</term><term>Femelle</term><term>Grippe humaine (virologie)</term><term>Grippe humaine (épidémiologie)</term><term>Génome viral (génétique)</term><term>Humains</term><term>Jeune adulte</term><term>Mâle</term><term>Océan Indien (épidémiologie)</term><term>Pandémies</term><term>Sous-type H1N1 du virus de la grippe A (génétique)</term><term>Sous-type H1N1 du virus de la grippe A (pathogénicité)</term><term>Variation génétique</term><term>Études de cohortes</term><term>Études de suivi</term><term>Évolution moléculaire</term></keywords><keywords scheme="MESH" type="geographic" qualifier="epidemiology" xml:lang="en"><term>Indian Ocean</term></keywords><keywords scheme="MESH" qualifier="epidemiology" xml:lang="en"><term>Influenza, Human</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Genome, Viral</term><term>Influenza A Virus, H1N1 Subtype</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Génome viral</term><term>Sous-type H1N1 du virus de la grippe A</term></keywords><keywords scheme="MESH" qualifier="pathogenicity" xml:lang="en"><term>Influenza A Virus, H1N1 Subtype</term></keywords><keywords scheme="MESH" qualifier="pathogénicité" xml:lang="fr"><term>Sous-type H1N1 du virus de la grippe A</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Grippe humaine</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Influenza, Human</term></keywords><keywords scheme="MESH" qualifier="épidémiologie" xml:lang="fr"><term>Grippe humaine</term><term>Océan Indien</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Adolescent</term><term>Adult</term><term>Child</term><term>Child, Preschool</term><term>Cohort Studies</term><term>Evolution, Molecular</term><term>Female</term><term>Follow-Up Studies</term><term>Genetic Variation</term><term>Humans</term><term>Male</term><term>Middle Aged</term><term>Pandemics</term><term>Young Adult</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Adolescent</term><term>Adulte</term><term>Adulte d'âge moyen</term><term>Enfant</term><term>Enfant d'âge préscolaire</term><term>Femelle</term><term>Humains</term><term>Jeune adulte</term><term>Mâle</term><term>Pandémies</term><term>Variation génétique</term><term>Études de cohortes</term><term>Études de suivi</term><term>Évolution moléculaire</term></keywords><keywords scheme="Wicri" type="topic" xml:lang="fr"><term>Adulte</term><term>Enfant</term><term>Océan Indien</term></keywords><keywords scheme="mix" xml:lang="en"><term>Adolescent</term><term>Adult</term><term>Child</term><term>Cohort Studies</term><term>Evolution</term><term>Female</term><term>Follow-Up Studies</term><term>Genetic Variation</term><term>Genome</term><term>H1N1 Subtype</term><term>Human</term><term>Humans</term><term>Indian Ocean</term><term>Influenza</term><term>Influenza A Virus</term><term>Male</term><term>Middle Aged</term><term>Molecular</term><term>Pandemics</term><term>Preschool</term><term>Viral</term><term>Young Adult</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background/Objectives</title><p>Molecular epidemiology is a powerful tool to decipher the dynamics of viral transmission, quasispecies temporal evolution and origins. Little is known about the pH1N1 molecular dynamics in general population. A prospective study (CoPanFlu-RUN) was carried out in Reunion Island to characterize pH1N1 genetic variability and molecular evolution occurring in population during the pH1N1 <italic>Influenza</italic> pandemic in 2009.</p></sec><sec><title>Methodology</title><p>We directly amplified pH1N1 genomes from 28 different nasal swabs (26 individuals from 21 households). Fifteen strains were fully sequenced and 13 partially. This includes pairs of sequences from different members of 5 separate households; and two pairs from individuals, collected at different times. We assessed the molecular evolution of pH1N1 by genetic variability and phylogenetic analyses.</p></sec><sec><title>Principal Findings</title><p>We found that i) Reunion pH1N1 sequences stemmed from global “clade 7” but shaped two phylogenetic sub-clades; ii) D239E mutation was identified in the hemagglutinin protein of all Reunion sequences, a mutation which has been associated elsewhere with mild-, upper-respiratory tract pH1N1 infecting strains; iii) Date estimates from molecular phylogenies predicted clade emergence some time before the first detection of pH1N1 by the epidemiological surveillance system; iv) Phylogenetic relatedness was observed between Reunion pH1N1 viruses and those from other countries in South-western Indian Ocean area; v) Quasispecies populations were observed within households and individuals of the cohort-study.</p></sec><sec><title>Conclusions</title><p>Surveillance and/or prevention systems presently based on <italic>Influenza</italic> virus sequence variation should take into account that the majority of studies of pH1N1 <italic>Influenza</italic> generate genetic data for the HA/NA viral segments obtained from hospitalized-patients, which is potentially non-representative of the overall viral diversity within whole populations. 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Andino</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>France</li></country><region><li>Auvergne-Rhône-Alpes</li><li>Provence-Alpes-Côte d'Azur</li><li>Rhône-Alpes</li></region><settlement><li>Lyon</li><li>Marseille</li></settlement><orgName><li>Université de la Méditerranée</li></orgName></list><tree><country name="France"><noRegion><name sortKey="Pascalis, Herve" sort="Pascalis, Herve" uniqKey="Pascalis H" first="Hervé" last="Pascalis">Hervé Pascalis</name></noRegion><name sortKey="De Lamballerie, Xavier" sort="De Lamballerie, Xavier" uniqKey="De Lamballerie X" first="Xavier" last="De Lamballerie">Xavier De Lamballerie</name><name sortKey="Dellagi, Koussay" sort="Dellagi, Koussay" uniqKey="Dellagi K" first="Koussay" last="Dellagi">Koussay Dellagi</name><name sortKey="Dellagi, Koussay" sort="Dellagi, Koussay" uniqKey="Dellagi K" first="Koussay" last="Dellagi">Koussay Dellagi</name><name sortKey="Dsouli, Najla" sort="Dsouli, Najla" uniqKey="Dsouli N" first="Najla" last="Dsouli">Najla Dsouli</name><name sortKey="Dsouli, Najla" sort="Dsouli, Najla" uniqKey="Dsouli N" first="Najla" last="Dsouli">Najla Dsouli</name><name sortKey="Pascalis, Herve" sort="Pascalis, Herve" uniqKey="Pascalis H" first="Hervé" last="Pascalis">Hervé Pascalis</name><name sortKey="Temmam, Sarah" sort="Temmam, Sarah" uniqKey="Temmam S" first="Sarah" last="Temmam">Sarah Temmam</name><name sortKey="Temmam, Sarah" sort="Temmam, Sarah" uniqKey="Temmam S" first="Sarah" last="Temmam">Sarah Temmam</name><name sortKey="Turpin, Magali" sort="Turpin, Magali" uniqKey="Turpin M" first="Magali" last="Turpin">Magali Turpin</name><name sortKey="Turpin, Magali" sort="Turpin, Magali" uniqKey="Turpin M" first="Magali" last="Turpin">Magali Turpin</name><name sortKey="Wilkinson, David A" sort="Wilkinson, David A" uniqKey="Wilkinson D" first="David A." last="Wilkinson">David A. Wilkinson</name><name sortKey="Wilkinson, David A" sort="Wilkinson, David A" uniqKey="Wilkinson D" first="David A." last="Wilkinson">David A. Wilkinson</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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