CovidV2, new, Analysis, bibRecord, 000772

Rapid detection and non-subjective characterisation of infectious bronchitis virus isolates using high-resolution melt curve analysis and a mathematical model

Identifieur interne : 000772 ( new/Analysis ); précédent : 000771; suivant : 000773

Rapid detection and non-subjective characterisation of infectious bronchitis virus isolates using high-resolution melt curve analysis and a mathematical model

Auteurs : Kylie Hewson [Australie] ; Amir H. Noormohammadi [Australie] ; Joanne M. Devlin [Australie] ; Karim Mardani [Iran] ; Jagoda Ignjatovic [Australie]

Source :

Archives of Virology [ 0304-8608 ] ; 2009-04-01.

RBID : ISTEX:CD3971F4CE7B20CDF3AF32E446E699D8310CDFF9

Abstract

Abstract: Infectious bronchitis virus (IBV) is a coronavirus that causes upper respiratory, renal and/or reproductive diseases with high morbidity in poultry. Classification of IBV is important for implementation of vaccination strategies to control the disease in commercial poultry. Currently, the lengthy process of sequence analysis of the IBV S1 gene is considered the gold standard for IBV strain identification, with a high nucleotide identity (e.g. ≥95%) indicating related strains. However, this gene has a high propensity to mutate and/or undergo recombination, and alone it may not be reliable for strain identification. A real-time polymerase chain reaction (RT-PCR) combined with high-resolution melt (HRM) curve analysis was developed based on the 3′UTR of IBV for rapid detection and classification of IBV from commercial poultry. HRM curves generated from 230 to 435-bp PCR products of several IBV strains were subjected to further analysis using a mathematical model also developed during this study. It was shown that a combination of HRM curve analysis and the mathematical model could reliably group 189 out of 190 comparisons of pairs of IBV strains in accordance with their 3′UTR and S1 gene identities. The newly developed RT-PCR/HRM curve analysis model could detect and rapidly identify novel and vaccine-related IBV strains, as confirmed by S1 gene and 3′UTR nucleotide sequences. This model is a rapid, reliable, accurate and non-subjective system for detection of IBVs in poultry flocks.

Url:

DOI: 10.1007/s00705-009-0357-1

Affiliations:

Links to Exploration step

ISTEX:CD3971F4CE7B20CDF3AF32E446E699D8310CDFF9

Le document en format XML

<record><TEI wicri:istexFullTextTei="biblStruct"><teiHeader><fileDesc><titleStmt><title xml:lang="en">Rapid detection and non-subjective characterisation of infectious bronchitis virus isolates using high-resolution melt curve analysis and a mathematical model</title>
<author><name sortKey="Hewson, Kylie" sort="Hewson, Kylie" uniqKey="Hewson K" first="Kylie" last="Hewson">Kylie Hewson</name>
</author>
<author><name sortKey="Noormohammadi, Amir H" sort="Noormohammadi, Amir H" uniqKey="Noormohammadi A" first="Amir H." last="Noormohammadi">Amir H. Noormohammadi</name>
</author>
<author><name sortKey="Devlin, Joanne M" sort="Devlin, Joanne M" uniqKey="Devlin J" first="Joanne M." last="Devlin">Joanne M. Devlin</name>
</author>
<author><name sortKey="Mardani, Karim" sort="Mardani, Karim" uniqKey="Mardani K" first="Karim" last="Mardani">Karim Mardani</name>
</author>
<author><name sortKey="Ignjatovic, Jagoda" sort="Ignjatovic, Jagoda" uniqKey="Ignjatovic J" first="Jagoda" last="Ignjatovic">Jagoda Ignjatovic</name>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">ISTEX</idno>
<idno type="RBID">ISTEX:CD3971F4CE7B20CDF3AF32E446E699D8310CDFF9</idno>
<date when="2009" year="2009">2009</date>
<idno type="doi">10.1007/s00705-009-0357-1</idno>
<idno type="url">https://api.istex.fr/ark:/67375/VQC-SF6830NZ-P/fulltext.pdf</idno>
<idno type="wicri:Area/Istex/Corpus">000718</idno>
<idno type="wicri:explorRef" wicri:stream="Istex" wicri:step="Corpus" wicri:corpus="ISTEX">000718</idno>
<idno type="wicri:Area/Istex/Curation">000685</idno>
<idno type="wicri:Area/Istex/Checkpoint">000128</idno>
<idno type="wicri:explorRef" wicri:stream="Istex" wicri:step="Checkpoint">000128</idno>
<idno type="wicri:doubleKey">0304-8608:2009:Hewson K:rapid:detection:and</idno>
<idno type="wicri:source">PMC</idno>
<idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7086978</idno>
<idno type="RBID">PMC:7086978</idno>
<idno type="wicri:Area/Pmc/Corpus">000174</idno>
<idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000174</idno>
<idno type="wicri:Area/Pmc/Curation">000174</idno>
<idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000174</idno>
<idno type="wicri:Area/Pmc/Checkpoint">000874</idno>
<idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000874</idno>
<idno type="wicri:Area/Ncbi/Merge">000171</idno>
<idno type="wicri:Area/Ncbi/Curation">000171</idno>
<idno type="wicri:Area/Ncbi/Checkpoint">000171</idno>
<idno type="wicri:doubleKey">0304-8608:2009:Hewson K:rapid:detection:and</idno>
<idno type="wicri:Area/Main/Merge">001548</idno>
<idno type="wicri:Area/Main/Curation">001546</idno>
<idno type="wicri:Area/Main/Exploration">001546</idno>
<idno type="wicri:Area/new/Extraction">000772</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title level="a" type="main" xml:lang="en">Rapid detection and non-subjective characterisation of infectious bronchitis virus isolates using high-resolution melt curve analysis and a mathematical model</title>
<author><name sortKey="Hewson, Kylie" sort="Hewson, Kylie" uniqKey="Hewson K" first="Kylie" last="Hewson">Kylie Hewson</name>
<affiliation wicri:level="4"><country xml:lang="fr">Australie</country>
<wicri:regionArea>Department of Veterinary Science, The University of Melbourne, 250 Princes Highway Werribee, 3030, Melbourne, VIC</wicri:regionArea>
<orgName type="university">Université de Melbourne</orgName>
<placeName><settlement type="city">Melbourne</settlement>
<region type="état">Victoria (État)</region>
</placeName>
</affiliation>
<affiliation wicri:level="1"><country wicri:rule="url">Australie</country>
</affiliation>
</author>
<author><name sortKey="Noormohammadi, Amir H" sort="Noormohammadi, Amir H" uniqKey="Noormohammadi A" first="Amir H." last="Noormohammadi">Amir H. Noormohammadi</name>
<affiliation wicri:level="4"><country xml:lang="fr">Australie</country>
<wicri:regionArea>Department of Veterinary Science, The University of Melbourne, 250 Princes Highway Werribee, 3030, Melbourne, VIC</wicri:regionArea>
<orgName type="university">Université de Melbourne</orgName>
<placeName><settlement type="city">Melbourne</settlement>
<region type="état">Victoria (État)</region>
</placeName>
</affiliation>
</author>
<author><name sortKey="Devlin, Joanne M" sort="Devlin, Joanne M" uniqKey="Devlin J" first="Joanne M." last="Devlin">Joanne M. Devlin</name>
<affiliation wicri:level="4"><country xml:lang="fr">Australie</country>
<wicri:regionArea>Department of Veterinary Science, The University of Melbourne, Parkville, 3010, Melbourne, VIC</wicri:regionArea>
<orgName type="university">Université de Melbourne</orgName>
<placeName><settlement type="city">Melbourne</settlement>
<region type="état">Victoria (État)</region>
</placeName>
</affiliation>
</author>
<author><name sortKey="Mardani, Karim" sort="Mardani, Karim" uniqKey="Mardani K" first="Karim" last="Mardani">Karim Mardani</name>
<affiliation wicri:level="1"><country xml:lang="fr">Iran</country>
<wicri:regionArea>Faculty of Veterinary Medicine, The University of Urmia, Nazloo, Urmia, West Azarbaijan</wicri:regionArea>
<wicri:noRegion>West Azarbaijan</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Ignjatovic, Jagoda" sort="Ignjatovic, Jagoda" uniqKey="Ignjatovic J" first="Jagoda" last="Ignjatovic">Jagoda Ignjatovic</name>
<affiliation wicri:level="4"><country xml:lang="fr">Australie</country>
<wicri:regionArea>Department of Veterinary Science, The University of Melbourne, 250 Princes Highway Werribee, 3030, Melbourne, VIC</wicri:regionArea>
<orgName type="university">Université de Melbourne</orgName>
<placeName><settlement type="city">Melbourne</settlement>
<region type="état">Victoria (État)</region>
</placeName>
</affiliation>
</author>
</analytic>
<monogr></monogr>
<series><title level="j">Archives of Virology</title>
<title level="j" type="sub">Official Journal of the Virology Division of the International Union of Microbiological Societies</title>
<title level="j" type="abbrev">Arch Virol</title>
<idno type="ISSN">0304-8608</idno>
<idno type="eISSN">1432-8798</idno>
<imprint><publisher>Springer Vienna</publisher>
<pubPlace>Vienna</pubPlace>
<date type="published" when="2009-04-01">2009-04-01</date>
<biblScope unit="volume">154</biblScope>
<biblScope unit="issue">4</biblScope>
<biblScope unit="page" from="649">649</biblScope>
<biblScope unit="page" to="660">660</biblScope>
</imprint>
<idno type="ISSN">0304-8608</idno>
</series>
</biblStruct>
</sourceDesc>
<seriesStmt><idno type="ISSN">0304-8608</idno>
</seriesStmt>
</fileDesc>
<profileDesc><textClass></textClass>
<langUsage><language ident="en">en</language>
</langUsage>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en">Abstract: Infectious bronchitis virus (IBV) is a coronavirus that causes upper respiratory, renal and/or reproductive diseases with high morbidity in poultry. Classification of IBV is important for implementation of vaccination strategies to control the disease in commercial poultry. Currently, the lengthy process of sequence analysis of the IBV S1 gene is considered the gold standard for IBV strain identification, with a high nucleotide identity (e.g. ≥95%) indicating related strains. However, this gene has a high propensity to mutate and/or undergo recombination, and alone it may not be reliable for strain identification. A real-time polymerase chain reaction (RT-PCR) combined with high-resolution melt (HRM) curve analysis was developed based on the 3′UTR of IBV for rapid detection and classification of IBV from commercial poultry. HRM curves generated from 230 to 435-bp PCR products of several IBV strains were subjected to further analysis using a mathematical model also developed during this study. It was shown that a combination of HRM curve analysis and the mathematical model could reliably group 189 out of 190 comparisons of pairs of IBV strains in accordance with their 3′UTR and S1 gene identities. The newly developed RT-PCR/HRM curve analysis model could detect and rapidly identify novel and vaccine-related IBV strains, as confirmed by S1 gene and 3′UTR nucleotide sequences. This model is a rapid, reliable, accurate and non-subjective system for detection of IBVs in poultry flocks.</div>
</front>
</TEI>
<affiliations><list><country><li>Australie</li>
<li>Iran</li>
</country>
<region><li>Victoria (État)</li>
</region>
<settlement><li>Melbourne</li>
</settlement>
<orgName><li>Université de Melbourne</li>
</orgName>
</list>
<tree><country name="Australie"><region name="Victoria (État)"><name sortKey="Hewson, Kylie" sort="Hewson, Kylie" uniqKey="Hewson K" first="Kylie" last="Hewson">Kylie Hewson</name>
</region>
<name sortKey="Devlin, Joanne M" sort="Devlin, Joanne M" uniqKey="Devlin J" first="Joanne M." last="Devlin">Joanne M. Devlin</name>
<name sortKey="Hewson, Kylie" sort="Hewson, Kylie" uniqKey="Hewson K" first="Kylie" last="Hewson">Kylie Hewson</name>
<name sortKey="Ignjatovic, Jagoda" sort="Ignjatovic, Jagoda" uniqKey="Ignjatovic J" first="Jagoda" last="Ignjatovic">Jagoda Ignjatovic</name>
<name sortKey="Noormohammadi, Amir H" sort="Noormohammadi, Amir H" uniqKey="Noormohammadi A" first="Amir H." last="Noormohammadi">Amir H. Noormohammadi</name>
</country>
<country name="Iran"><noRegion><name sortKey="Mardani, Karim" sort="Mardani, Karim" uniqKey="Mardani K" first="Karim" last="Mardani">Karim Mardani</name>
</noRegion>
</country>
</tree>
</affiliations>
</record>

Pour manipuler ce document sous Unix (Dilib)

EXPLOR_STEP=$WICRI_ROOT/Wicri/Sante/explor/CovidV2/Data/new/Analysis

HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000772 | SxmlIndent | more

HfdSelect -h $EXPLOR_AREA/Data/new/Analysis/biblio.hfd -nk 000772 | SxmlIndent | more

Pour mettre un lien sur cette page dans le réseau Wicri

{{Explor lien
   |wiki=    Wicri/Sante
   |area=    CovidV2
   |flux=    new
   |étape=   Analysis
   |type=    RBID
   |clé=     ISTEX:CD3971F4CE7B20CDF3AF32E446E699D8310CDFF9
   |texte=   Rapid detection and non-subjective characterisation of infectious bronchitis virus isolates using high-resolution melt curve analysis and a mathematical model
}}

This area was generated with Dilib version V0.6.33.
Data generation: Sat Mar 28 17:51:24 2020. Site generation: Sun Jan 31 15:35:48 2021

Serveur d'exploration Covid (26 mars)

Rapid detection and non-subjective characterisation of infectious bronchitis virus isolates using high-resolution melt curve analysis and a mathematical model

Rapid detection and non-subjective characterisation of infectious bronchitis virus isolates using high-resolution melt curve analysis and a mathematical model

Source :

Abstract

Links toward previous steps (curation, corpus...)

Links to Exploration step

Le document en format XML

Pour manipuler ce document sous Unix (Dilib)

Pour mettre un lien sur cette page dans le réseau Wicri

	Serveur d'exploration Covid (26 mars)
	Attention, ce site est en cours de développement ! Attention, site généré par des moyens informatiques à partir de corpus bruts. Les informations ne sont donc pas validées.