Evaluation of the pooling of swabs for real-time PCR detection of low titre shedding of low pathogenicity avian influenza in turkeys.
Identifieur interne : 000894 ( Main/Exploration ); précédent : 000893; suivant : 000895Evaluation of the pooling of swabs for real-time PCR detection of low titre shedding of low pathogenicity avian influenza in turkeys.
Auteurs : M E Arnold [Royaume-Uni] ; M J Slomka ; V J Coward ; S. Mahmood ; P J Raleigh ; I H BrownSource :
- Epidemiology and infection [ 1469-4409 ] ; 2013.
Descripteurs français
- KwdFr :
- Animaux, Bouche (virologie), Chaines de Markov, Cloaque (virologie), Dindons (microbiologie), Excrétion virale, Grippe chez les oiseaux (microbiologie), Grippe chez les oiseaux (épidémiologie), Maladies de la volaille (microbiologie), Maladies de la volaille (épidémiologie), Méthodes épidémiologiques (médecine vétérinaire), Réaction de polymérisation en chaine en temps réel (), Réaction de polymérisation en chaine en temps réel (médecine vétérinaire), Sous-type H2N2 du virus de la grippe A (pathogénicité), Sous-type H2N2 du virus de la grippe A (physiologie).
- MESH :
- microbiologie : Dindons, Grippe chez les oiseaux, Maladies de la volaille.
- médecine vétérinaire : Méthodes épidémiologiques, Réaction de polymérisation en chaine en temps réel.
- pathogénicité : Sous-type H2N2 du virus de la grippe A.
- physiologie : Sous-type H2N2 du virus de la grippe A.
- virologie : Bouche, Cloaque.
- épidémiologie : Grippe chez les oiseaux, Maladies de la volaille.
- Animaux, Chaines de Markov, Excrétion virale, Réaction de polymérisation en chaine en temps réel.
English descriptors
- KwdEn :
- Animals, Cloaca (virology), Epidemiologic Methods (veterinary), Influenza A Virus, H2N2 Subtype (pathogenicity), Influenza A Virus, H2N2 Subtype (physiology), Influenza in Birds (epidemiology), Influenza in Birds (microbiology), Markov Chains, Mouth (virology), Poultry Diseases (epidemiology), Poultry Diseases (microbiology), Real-Time Polymerase Chain Reaction (methods), Real-Time Polymerase Chain Reaction (veterinary), Turkeys (microbiology), Virus Shedding.
- MESH :
- epidemiology : Influenza in Birds, Poultry Diseases.
- methods : Real-Time Polymerase Chain Reaction.
- microbiology : Influenza in Birds, Poultry Diseases, Turkeys.
- pathogenicity : Influenza A Virus, H2N2 Subtype.
- physiology : Influenza A Virus, H2N2 Subtype.
- veterinary : Epidemiologic Methods, Real-Time Polymerase Chain Reaction.
- virology : Cloaca, Mouth.
- Animals, Markov Chains, Virus Shedding.
Abstract
The purpose of this study was to determine whether pooling avian influenza (AI)-positive swabs with negative swabs has a detrimental effect on the sensitivity of AI real-time reverse transcription-polymerase chain reactions (rRT-PCRs). Cloacal and buccal swabs were sampled daily from 12 turkeys infected with A/goose/England/07(H2N2). For half the turkeys, each swab was mixed with four swabs from known AI-negative turkeys, and for the other half the swabs were tested individually. Bayesian modelling was used to (i) determine whether pooling the positive swabs compromised the cycle threshold (C(t)) value obtained from the rRT-PCRs, and (ii) estimate the likelihood of detection of an H2N2 infected turkey flock via rRT-PCR for pooled and individually tested swabs (cloacal and buccal) vs. the number of days post-infection of the flock. Results indicated that there was no significant effect of compromising AI rRT-PCR sensitivity by pooling a weak positive swab with negative swabs on the Ct values which were obtained. Pooled sampling was able to widen the detection window compared to individual sampling, for the same number of rRT-PCR tests. This indicates that pooled sampling would be an effective method of reducing the number of tests to be performed to determine flock status during an AI outbreak and for surveillance.
DOI: 10.1017/S0950268812001811
PubMed: 22939242
Affiliations:
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Le document en format XML
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Mahmood</name></author><author><name sortKey="Raleigh, P J" sort="Raleigh, P J" uniqKey="Raleigh P" first="P J" last="Raleigh">P J Raleigh</name></author><author><name sortKey="Brown, I H" sort="Brown, I H" uniqKey="Brown I" first="I H" last="Brown">I H Brown</name></author></analytic><series><title level="j">Epidemiology and infection</title><idno type="eISSN">1469-4409</idno><imprint><date when="2013" type="published">2013</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term><term>Cloaca (virology)</term><term>Epidemiologic Methods (veterinary)</term><term>Influenza A Virus, H2N2 Subtype (pathogenicity)</term><term>Influenza A Virus, H2N2 Subtype (physiology)</term><term>Influenza in Birds (epidemiology)</term><term>Influenza in Birds (microbiology)</term><term>Markov Chains</term><term>Mouth (virology)</term><term>Poultry Diseases (epidemiology)</term><term>Poultry Diseases (microbiology)</term><term>Real-Time Polymerase Chain Reaction (methods)</term><term>Real-Time Polymerase Chain Reaction (veterinary)</term><term>Turkeys (microbiology)</term><term>Virus Shedding</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Animaux</term><term>Bouche (virologie)</term><term>Chaines de Markov</term><term>Cloaque (virologie)</term><term>Dindons (microbiologie)</term><term>Excrétion virale</term><term>Grippe chez les oiseaux (microbiologie)</term><term>Grippe chez les oiseaux (épidémiologie)</term><term>Maladies de la volaille (microbiologie)</term><term>Maladies de la volaille (épidémiologie)</term><term>Méthodes épidémiologiques (médecine vétérinaire)</term><term>Réaction de polymérisation en chaine en temps réel ()</term><term>Réaction de polymérisation en chaine en temps réel (médecine vétérinaire)</term><term>Sous-type H2N2 du virus de la grippe A (pathogénicité)</term><term>Sous-type H2N2 du virus de la grippe A (physiologie)</term></keywords><keywords scheme="MESH" qualifier="epidemiology" xml:lang="en"><term>Influenza in Birds</term><term>Poultry Diseases</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Real-Time Polymerase Chain Reaction</term></keywords><keywords scheme="MESH" qualifier="microbiologie" xml:lang="fr"><term>Dindons</term><term>Grippe chez les oiseaux</term><term>Maladies de la volaille</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Influenza in Birds</term><term>Poultry Diseases</term><term>Turkeys</term></keywords><keywords scheme="MESH" qualifier="médecine vétérinaire" xml:lang="fr"><term>Méthodes épidémiologiques</term><term>Réaction de polymérisation en chaine en temps réel</term></keywords><keywords scheme="MESH" qualifier="pathogenicity" xml:lang="en"><term>Influenza A Virus, H2N2 Subtype</term></keywords><keywords scheme="MESH" qualifier="pathogénicité" xml:lang="fr"><term>Sous-type H2N2 du virus de la grippe A</term></keywords><keywords scheme="MESH" qualifier="physiologie" xml:lang="fr"><term>Sous-type H2N2 du virus de la grippe A</term></keywords><keywords scheme="MESH" qualifier="physiology" xml:lang="en"><term>Influenza A Virus, H2N2 Subtype</term></keywords><keywords scheme="MESH" qualifier="veterinary" xml:lang="en"><term>Epidemiologic Methods</term><term>Real-Time Polymerase Chain Reaction</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Bouche</term><term>Cloaque</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Cloaca</term><term>Mouth</term></keywords><keywords scheme="MESH" qualifier="épidémiologie" xml:lang="fr"><term>Grippe chez les oiseaux</term><term>Maladies de la volaille</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Markov Chains</term><term>Virus Shedding</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Animaux</term><term>Chaines de Markov</term><term>Excrétion virale</term><term>Réaction de polymérisation en chaine en temps réel</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The purpose of this study was to determine whether pooling avian influenza (AI)-positive swabs with negative swabs has a detrimental effect on the sensitivity of AI real-time reverse transcription-polymerase chain reactions (rRT-PCRs). Cloacal and buccal swabs were sampled daily from 12 turkeys infected with A/goose/England/07(H2N2). For half the turkeys, each swab was mixed with four swabs from known AI-negative turkeys, and for the other half the swabs were tested individually. Bayesian modelling was used to (i) determine whether pooling the positive swabs compromised the cycle threshold (C(t)) value obtained from the rRT-PCRs, and (ii) estimate the likelihood of detection of an H2N2 infected turkey flock via rRT-PCR for pooled and individually tested swabs (cloacal and buccal) vs. the number of days post-infection of the flock. Results indicated that there was no significant effect of compromising AI rRT-PCR sensitivity by pooling a weak positive swab with negative swabs on the Ct values which were obtained. Pooled sampling was able to widen the detection window compared to individual sampling, for the same number of rRT-PCR tests. This indicates that pooled sampling would be an effective method of reducing the number of tests to be performed to determine flock status during an AI outbreak and for surveillance.</div></front></TEI><affiliations><list><country><li>Royaume-Uni</li></country></list><tree><noCountry><name sortKey="Brown, I H" sort="Brown, I H" uniqKey="Brown I" first="I H" last="Brown">I H Brown</name><name sortKey="Coward, V J" sort="Coward, V J" uniqKey="Coward V" first="V J" last="Coward">V J Coward</name><name sortKey="Mahmood, S" sort="Mahmood, S" uniqKey="Mahmood S" first="S" last="Mahmood">S. Mahmood</name><name sortKey="Raleigh, P J" sort="Raleigh, P J" uniqKey="Raleigh P" first="P J" last="Raleigh">P J Raleigh</name><name sortKey="Slomka, M J" sort="Slomka, M J" uniqKey="Slomka M" first="M J" last="Slomka">M J Slomka</name></noCountry><country name="Royaume-Uni"><noRegion><name sortKey="Arnold, M E" sort="Arnold, M E" uniqKey="Arnold M" first="M E" last="Arnold">M E Arnold</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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