Rapid detection and subtyping of European swine influenza viruses in porcine clinical samples by haemagglutinin‐ and neuraminidase‐specific tetra‐ and triplex real‐time RT‐PCRs
Identifieur interne : 001B73 ( Ncbi/Curation ); précédent : 001B72; suivant : 001B74Rapid detection and subtyping of European swine influenza viruses in porcine clinical samples by haemagglutinin‐ and neuraminidase‐specific tetra‐ and triplex real‐time RT‐PCRs
Auteurs : Dinah Henritzi ; Na Zhao ; Elke Starick ; Gaelle Simon ; Jesper S. Krog ; Lars Erik Larsen ; Scott M. Reid ; Ian H. Brown ; Chiara Chiapponi ; Emanuela Foni ; Silke Wacheck ; Peter Schmid ; Martin Beer ; Bernd Hoffmann ; Timm C. HarderSource :
- Influenza and Other Respiratory Viruses [ 1750-2640 ] ; 2016.
Descripteurs français
- KwdFr :
- Amorces ADN (génétique), Animaux, Europe (épidémiologie), Grippe humaine (transmission), Grippe humaine (virologie), Grippe humaine (épidémiologie), Humains, Hémagglutinines (génétique), Infections à Orthomyxoviridae (diagnostic), Infections à Orthomyxoviridae (médecine vétérinaire), Infections à Orthomyxoviridae (virologie), Infections à Orthomyxoviridae (épidémiologie), Maladies des porcs (diagnostic), Maladies des porcs (virologie), Oiseaux (virologie), Réaction de polymérisation en chaine multiplex, Sialidase (génétique), Suidae, Virus de la grippe A (), Virus de la grippe A (génétique), Virus de la grippe A (isolement et purification), Épidémiosurveillance (médecine vétérinaire).
- MESH :
- diagnostic : Infections à Orthomyxoviridae, Maladies des porcs.
- génétique : Amorces ADN, Hémagglutinines, Sialidase, Virus de la grippe A.
- isolement et purification : Virus de la grippe A.
- médecine vétérinaire : Infections à Orthomyxoviridae, Épidémiosurveillance.
- virologie : Grippe humaine, Infections à Orthomyxoviridae, Maladies des porcs, Oiseaux.
- épidémiologie : Europe, Grippe humaine, Infections à Orthomyxoviridae.
- Animaux, Humains, Réaction de polymérisation en chaine multiplex, Suidae, Virus de la grippe A.
English descriptors
- KwdEn :
- Animals, Birds (virology), DNA Primers (genetics), Epidemiological Monitoring (veterinary), Europe (epidemiology), Hemagglutinins (genetics), Humans, Influenza A virus (classification), Influenza A virus (genetics), Influenza A virus (isolation & purification), Influenza, Human (epidemiology), Influenza, Human (transmission), Influenza, Human (virology), Multiplex Polymerase Chain Reaction, Neuraminidase (genetics), Orthomyxoviridae Infections (diagnosis), Orthomyxoviridae Infections (epidemiology), Orthomyxoviridae Infections (veterinary), Orthomyxoviridae Infections (virology), Swine, Swine Diseases (diagnosis), Swine Diseases (virology).
- MESH :
- chemical , genetics : DNA Primers, Hemagglutinins, Neuraminidase.
- classification : Influenza A virus.
- diagnosis : Orthomyxoviridae Infections, Swine Diseases.
- epidemiology : Europe, Influenza, Human, Orthomyxoviridae Infections.
- genetics : Influenza A virus.
- isolation & purification : Influenza A virus.
- transmission : Influenza, Human.
- veterinary : Epidemiological Monitoring, Orthomyxoviridae Infections.
- virology : Birds, Influenza, Human, Orthomyxoviridae Infections, Swine Diseases.
- Animals, Humans, Multiplex Polymerase Chain Reaction, Swine.
Abstract
A diversifying pool of mammalian‐adapted influenza A viruses (
Efficient
New
A diagnostic algorithm is proposed for the combined detection in clinical samples and subtyping of
These new multiplex
Url:
DOI: 10.1111/irv.12407
PubMed: 27397600
PubMed Central: 5059951
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PMC:5059951Le document en format XML
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<series><title level="j">Influenza and Other Respiratory Viruses</title>
<idno type="ISSN">1750-2640</idno>
<idno type="eISSN">1750-2659</idno>
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<term>DNA Primers (genetics)</term>
<term>Epidemiological Monitoring (veterinary)</term>
<term>Europe (epidemiology)</term>
<term>Hemagglutinins (genetics)</term>
<term>Humans</term>
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<term>Influenza A virus (genetics)</term>
<term>Influenza A virus (isolation & purification)</term>
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<term>Influenza, Human (virology)</term>
<term>Multiplex Polymerase Chain Reaction</term>
<term>Neuraminidase (genetics)</term>
<term>Orthomyxoviridae Infections (diagnosis)</term>
<term>Orthomyxoviridae Infections (epidemiology)</term>
<term>Orthomyxoviridae Infections (veterinary)</term>
<term>Orthomyxoviridae Infections (virology)</term>
<term>Swine</term>
<term>Swine Diseases (diagnosis)</term>
<term>Swine Diseases (virology)</term>
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<keywords scheme="KwdFr" xml:lang="fr"><term>Amorces ADN (génétique)</term>
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<term>Europe (épidémiologie)</term>
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<term>Grippe humaine (virologie)</term>
<term>Grippe humaine (épidémiologie)</term>
<term>Humains</term>
<term>Hémagglutinines (génétique)</term>
<term>Infections à Orthomyxoviridae (diagnostic)</term>
<term>Infections à Orthomyxoviridae (médecine vétérinaire)</term>
<term>Infections à Orthomyxoviridae (virologie)</term>
<term>Infections à Orthomyxoviridae (épidémiologie)</term>
<term>Maladies des porcs (diagnostic)</term>
<term>Maladies des porcs (virologie)</term>
<term>Oiseaux (virologie)</term>
<term>Réaction de polymérisation en chaine multiplex</term>
<term>Sialidase (génétique)</term>
<term>Suidae</term>
<term>Virus de la grippe A ()</term>
<term>Virus de la grippe A (génétique)</term>
<term>Virus de la grippe A (isolement et purification)</term>
<term>Épidémiosurveillance (médecine vétérinaire)</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA Primers</term>
<term>Hemagglutinins</term>
<term>Neuraminidase</term>
</keywords>
<keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Influenza A virus</term>
</keywords>
<keywords scheme="MESH" qualifier="diagnosis" xml:lang="en"><term>Orthomyxoviridae Infections</term>
<term>Swine Diseases</term>
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<term>Influenza, Human</term>
<term>Orthomyxoviridae Infections</term>
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<front><div type="abstract" xml:lang="en"><sec id="irv12407-sec-0001"><title>Background</title>
<p>A diversifying pool of mammalian‐adapted influenza A viruses (<styled-content style="fixed-case">IAV</styled-content>
) with largely unknown zoonotic potential is maintained in domestic swine populations worldwide. The most recent human influenza pandemic in 2009 was caused by a virus with genes originating from <styled-content style="fixed-case">IAV</styled-content>
isolated from swine. Swine influenza viruses (<styled-content style="fixed-case">SIV</styled-content>
) are widespread in European domestic pig populations and evolve dynamically. Knowledge regarding occurrence, spread and evolution of potentially zoonotic <styled-content style="fixed-case">SIV</styled-content>
in Europe is poorly understood.</p>
</sec>
<sec id="irv12407-sec-0002"><title>Objectives</title>
<p>Efficient <styled-content style="fixed-case">SIV</styled-content>
surveillance programmes depend on sensitive and specific diagnostic methods which allow for cost‐effective large‐scale analysis.</p>
</sec>
<sec id="irv12407-sec-0003"><title>Methods</title>
<p>New <styled-content style="fixed-case">SIV</styled-content>
haemagglutinin (<styled-content style="fixed-case">HA</styled-content>
) and neuraminidase (<styled-content style="fixed-case">NA</styled-content>
) subtype‐ and lineage‐specific multiplex real‐time <styled-content style="fixed-case">RT</styled-content>
‐<styled-content style="fixed-case">PCR</styled-content>
s (<styled-content style="fixed-case">RT</styled-content>
‐<styled-content style="fixed-case">qPCR</styled-content>
) have been developed and validated with reference virus isolates and clinical samples.</p>
</sec>
<sec id="irv12407-sec-0004"><title>Results</title>
<p>A diagnostic algorithm is proposed for the combined detection in clinical samples and subtyping of <styled-content style="fixed-case">SIV</styled-content>
strains currently circulating in Europe that is based on a generic, M‐gene‐specific influenza A virus <styled-content style="fixed-case">RT</styled-content>
‐<styled-content style="fixed-case">qPCR</styled-content>
. In a second step, positive samples are examined by tetraplex <styled-content style="fixed-case">HA</styled-content>
‐ and triplex <styled-content style="fixed-case">NA</styled-content>
‐specific <styled-content style="fixed-case">RT</styled-content>
‐<styled-content style="fixed-case">qPCR</styled-content>
s to differentiate the porcine subtypes H1, H3, N1 and N2. Within the <styled-content style="fixed-case">HA</styled-content>
subtype H1, lineages “av” (European avian‐derived), “hu” (European human‐derived) and “pdm” (human pandemic A/H1N1, 2009) are distinguished by <styled-content style="fixed-case">RT</styled-content>
‐<styled-content style="fixed-case">qPCR</styled-content>
s, and within the <styled-content style="fixed-case">NA</styled-content>
subtype N1, lineage “pdm” is differentiated. An <styled-content style="fixed-case">RT</styled-content>
‐<styled-content style="fixed-case">PCR</styled-content>
amplicon Sanger sequencing method of small fragments of the <styled-content style="fixed-case">HA</styled-content>
and <styled-content style="fixed-case">NA</styled-content>
genes is also proposed to safeguard against failure of multiplex <styled-content style="fixed-case">RT</styled-content>
‐<styled-content style="fixed-case">qPCR</styled-content>
subtyping.</p>
</sec>
<sec id="irv12407-sec-0005"><title>Conclusions</title>
<p>These new multiplex <styled-content style="fixed-case">RT</styled-content>
‐<styled-content style="fixed-case">qPCR</styled-content>
assays provide adequate tools for sustained <styled-content style="fixed-case">SIV</styled-content>
monitoring programmes in Europe.</p>
</sec>
</div>
</front>
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