Conserved amino acid markers from past influenza pandemic strains
Identifieur interne : 000869 ( Ncbi/Curation ); précédent : 000868; suivant : 000870Conserved amino acid markers from past influenza pandemic strains
Auteurs : Jonathan E. Allen [États-Unis] ; Shea N. Gardner [États-Unis] ; Elizabeth A. Vitalis [États-Unis] ; Tom R. Slezak [États-Unis]Source :
- BMC Microbiology [ 1471-2180 ] ; 2009.
Descripteurs français
- KwdFr :
- Alignement de séquences, Animaux, Flambées de maladies, Grippe chez les oiseaux (virologie), Grippe chez les oiseaux (épidémiologie), Grippe humaine (virologie), Grippe humaine (épidémiologie), Génome viral, Humains, Marqueurs génétiques, Mutation, Oiseaux (virologie), Protéines virales (génétique), Protéomique, Sous-type H1N1 du virus de la grippe A (génétique), Sous-type H5N1 du virus de la grippe A (génétique), Spécificité d'espèce, Suidae, Séquence conservée, Séquence d'acides aminés, Virus recombinants (génétique), Évolution moléculaire.
- MESH :
- génétique : Protéines virales, Sous-type H1N1 du virus de la grippe A, Sous-type H5N1 du virus de la grippe A, Virus recombinants.
- virologie : Grippe chez les oiseaux, Grippe humaine, Oiseaux.
- épidémiologie : Grippe chez les oiseaux, Grippe humaine.
- Alignement de séquences, Animaux, Flambées de maladies, Génome viral, Humains, Marqueurs génétiques, Mutation, Protéomique, Spécificité d'espèce, Suidae, Séquence conservée, Séquence d'acides aminés, Évolution moléculaire.
English descriptors
- KwdEn :
- Amino Acid Sequence, Animals, Birds (virology), Conserved Sequence, Disease Outbreaks, Evolution, Molecular, Genetic Markers, Genome, Viral, Humans, Influenza A Virus, H1N1 Subtype (genetics), Influenza A Virus, H5N1 Subtype (genetics), Influenza in Birds (epidemiology), Influenza in Birds (virology), Influenza, Human (epidemiology), Influenza, Human (virology), Mutation, Proteomics, Reassortant Viruses (genetics), Sequence Alignment, Species Specificity, Swine, Viral Proteins (genetics).
- MESH :
- chemical , genetics : Viral Proteins.
- chemical : Genetic Markers.
- epidemiology : Influenza in Birds, Influenza, Human.
- genetics : Influenza A Virus, H1N1 Subtype, Influenza A Virus, H5N1 Subtype, Reassortant Viruses.
- virology : Birds, Influenza in Birds, Influenza, Human.
- Amino Acid Sequence, Animals, Conserved Sequence, Disease Outbreaks, Evolution, Molecular, Genome, Viral, Humans, Mutation, Proteomics, Sequence Alignment, Species Specificity, Swine.
Abstract
Finding the amino acid mutations that affect the severity of influenza infections remains an open and challenging problem. Of special interest is better understanding how current circulating influenza strains could evolve into a new pandemic strain. Influenza proteomes from distinct viral phenotype classes were searched for class specific amino acid mutations conserved in past pandemics, using reverse engineered linear classifiers.
Thirty-four amino acid markers associated with host specificity and high mortality rate were found. Some markers had little impact on distinguishing the functional classes by themselves, however in combination with other mutations they improved class prediction. Pairwise combinations of influenza genomes were checked for reassortment and mutation events needed to acquire the pandemic conserved markers. Evolutionary pathways involving H1N1 human and swine strains mixed with avian strains show the potential to acquire the pandemic markers with a double reassortment and one or two amino acid mutations.
The small mutation combinations found at multiple protein positions associated with viral phenotype indicate that surveillance tools could monitor genetic variation beyond single point mutations to track influenza strains. Finding that certain strain combinations have the potential to acquire pandemic conserved markers through a limited number of reassortment and mutation events illustrates the potential for reassortment and mutation events to lead to new circulating influenza strains.
Url:
DOI: 10.1186/1471-2180-9-77
PubMed: 19386124
PubMed Central: 2685398
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PMC:2685398Le document en format XML
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<term>Animals</term>
<term>Birds (virology)</term>
<term>Conserved Sequence</term>
<term>Disease Outbreaks</term>
<term>Evolution, Molecular</term>
<term>Genetic Markers</term>
<term>Genome, Viral</term>
<term>Humans</term>
<term>Influenza A Virus, H1N1 Subtype (genetics)</term>
<term>Influenza A Virus, H5N1 Subtype (genetics)</term>
<term>Influenza in Birds (epidemiology)</term>
<term>Influenza in Birds (virology)</term>
<term>Influenza, Human (epidemiology)</term>
<term>Influenza, Human (virology)</term>
<term>Mutation</term>
<term>Proteomics</term>
<term>Reassortant Viruses (genetics)</term>
<term>Sequence Alignment</term>
<term>Species Specificity</term>
<term>Swine</term>
<term>Viral Proteins (genetics)</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr"><term>Alignement de séquences</term>
<term>Animaux</term>
<term>Flambées de maladies</term>
<term>Grippe chez les oiseaux (virologie)</term>
<term>Grippe chez les oiseaux (épidémiologie)</term>
<term>Grippe humaine (virologie)</term>
<term>Grippe humaine (épidémiologie)</term>
<term>Génome viral</term>
<term>Humains</term>
<term>Marqueurs génétiques</term>
<term>Mutation</term>
<term>Oiseaux (virologie)</term>
<term>Protéines virales (génétique)</term>
<term>Protéomique</term>
<term>Sous-type H1N1 du virus de la grippe A (génétique)</term>
<term>Sous-type H5N1 du virus de la grippe A (génétique)</term>
<term>Spécificité d'espèce</term>
<term>Suidae</term>
<term>Séquence conservée</term>
<term>Séquence d'acides aminés</term>
<term>Virus recombinants (génétique)</term>
<term>Évolution moléculaire</term>
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<term>Influenza A Virus, H5N1 Subtype</term>
<term>Reassortant Viruses</term>
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<term>Sous-type H1N1 du virus de la grippe A</term>
<term>Sous-type H5N1 du virus de la grippe A</term>
<term>Virus recombinants</term>
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<keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Grippe chez les oiseaux</term>
<term>Grippe humaine</term>
<term>Oiseaux</term>
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<term>Conserved Sequence</term>
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<front><div type="abstract" xml:lang="en"><sec><title>Background</title>
<p>Finding the amino acid mutations that affect the severity of influenza infections remains an open and challenging problem. Of special interest is better understanding how current circulating influenza strains could evolve into a new pandemic strain. Influenza proteomes from distinct viral phenotype classes were searched for class specific amino acid mutations conserved in past pandemics, using reverse engineered linear classifiers.</p>
</sec>
<sec><title>Results</title>
<p>Thirty-four amino acid markers associated with host specificity and high mortality rate were found. Some markers had little impact on distinguishing the functional classes by themselves, however in combination with other mutations they improved class prediction. Pairwise combinations of influenza genomes were checked for reassortment and mutation events needed to acquire the pandemic conserved markers. Evolutionary pathways involving H1N1 human and swine strains mixed with avian strains show the potential to acquire the pandemic markers with a double reassortment and one or two amino acid mutations.</p>
</sec>
<sec><title>Conclusion</title>
<p>The small mutation combinations found at multiple protein positions associated with viral phenotype indicate that surveillance tools could monitor genetic variation beyond single point mutations to track influenza strains. Finding that certain strain combinations have the potential to acquire pandemic conserved markers through a limited number of reassortment and mutation events illustrates the potential for reassortment and mutation events to lead to new circulating influenza strains.</p>
</sec>
</div>
</front>
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