PandemieGrippaleV1, Ncbi, Checkpoint, bibRecord, 001B73

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/Checkpoint ); précédent : 001B72; suivant : 001B74

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

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. Harder

Source :

Influenza and Other Respiratory Viruses [ 1750-2640 ] ; 2016.

RBID : PMC:5059951

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

Background

A diversifying pool of mammalian‐adapted influenza A viruses (IAV) 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 IAV isolated from swine. Swine influenza viruses (SIV) are widespread in European domestic pig populations and evolve dynamically. Knowledge regarding occurrence, spread and evolution of potentially zoonotic SIV in Europe is poorly understood.

Objectives

Efficient SIV surveillance programmes depend on sensitive and specific diagnostic methods which allow for cost‐effective large‐scale analysis.

Methods

New SIV haemagglutinin (HA) and neuraminidase (NA) subtype‐ and lineage‐specific multiplex real‐time RT‐PCRs (RT‐qPCR) have been developed and validated with reference virus isolates and clinical samples.

Results

A diagnostic algorithm is proposed for the combined detection in clinical samples and subtyping of SIV strains currently circulating in Europe that is based on a generic, M‐gene‐specific influenza A virus RT‐qPCR. In a second step, positive samples are examined by tetraplex HA‐ and triplex NA‐specific RT‐qPCRs to differentiate the porcine subtypes H1, H3, N1 and N2. Within the HA subtype H1, lineages “av” (European avian‐derived), “hu” (European human‐derived) and “pdm” (human pandemic A/H1N1, 2009) are distinguished by RT‐qPCRs, and within the NA subtype N1, lineage “pdm” is differentiated. An RT‐PCR amplicon Sanger sequencing method of small fragments of the HA and NA genes is also proposed to safeguard against failure of multiplex RT‐qPCR subtyping.

Conclusions

These new multiplex RT‐qPCR assays provide adequate tools for sustained SIV monitoring programmes in Europe.

Url:

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5059951

DOI: 10.1111/irv.12407
PubMed: 27397600
PubMed Central: 5059951

Affiliations:

Links to Exploration step

PMC:5059951

Le document en format XML

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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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<tree><noCountry><name sortKey="Beer, Martin" sort="Beer, Martin" uniqKey="Beer M" first="Martin" last="Beer">Martin Beer</name>
<name sortKey="Brown, Ian H" sort="Brown, Ian H" uniqKey="Brown I" first="Ian H." last="Brown">Ian H. Brown</name>
<name sortKey="Chiapponi, Chiara" sort="Chiapponi, Chiara" uniqKey="Chiapponi C" first="Chiara" last="Chiapponi">Chiara Chiapponi</name>
<name sortKey="Foni, Emanuela" sort="Foni, Emanuela" uniqKey="Foni E" first="Emanuela" last="Foni">Emanuela Foni</name>
<name sortKey="Harder, Timm C" sort="Harder, Timm C" uniqKey="Harder T" first="Timm C." last="Harder">Timm C. Harder</name>
<name sortKey="Henritzi, Dinah" sort="Henritzi, Dinah" uniqKey="Henritzi D" first="Dinah" last="Henritzi">Dinah Henritzi</name>
<name sortKey="Hoffmann, Bernd" sort="Hoffmann, Bernd" uniqKey="Hoffmann B" first="Bernd" last="Hoffmann">Bernd Hoffmann</name>
<name sortKey="Krog, Jesper S" sort="Krog, Jesper S" uniqKey="Krog J" first="Jesper S." last="Krog">Jesper S. Krog</name>
<name sortKey="Larsen, Lars Erik" sort="Larsen, Lars Erik" uniqKey="Larsen L" first="Lars Erik" last="Larsen">Lars Erik Larsen</name>
<name sortKey="Reid, Scott M" sort="Reid, Scott M" uniqKey="Reid S" first="Scott M." last="Reid">Scott M. Reid</name>
<name sortKey="Schmid, Peter" sort="Schmid, Peter" uniqKey="Schmid P" first="Peter" last="Schmid">Peter Schmid</name>
<name sortKey="Simon, Gaelle" sort="Simon, Gaelle" uniqKey="Simon G" first="Gaelle" last="Simon">Gaelle Simon</name>
<name sortKey="Starick, Elke" sort="Starick, Elke" uniqKey="Starick E" first="Elke" last="Starick">Elke Starick</name>
<name sortKey="Wacheck, Silke" sort="Wacheck, Silke" uniqKey="Wacheck S" first="Silke" last="Wacheck">Silke Wacheck</name>
<name sortKey="Zhao, Na" sort="Zhao, Na" uniqKey="Zhao N" first="Na" last="Zhao">Na Zhao</name>
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   |wiki=    Sante
   |area=    PandemieGrippaleV1
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   |type=    RBID
   |clé=     PMC:5059951
   |texte=   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
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Serveur d'exploration sur les pandémies grippales

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

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

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	Serveur d'exploration sur les pandémies grippales
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