Development of a single nucleotide polymorphism DNA microarray for the detection and genotyping of the SARS coronavirus.
Identifieur interne : 001013 ( PubMed/Checkpoint ); précédent : 001012; suivant : 001014Development of a single nucleotide polymorphism DNA microarray for the detection and genotyping of the SARS coronavirus.
Auteurs : Xi Guo [République populaire de Chine] ; Peng Geng ; Quan Wang ; Boyang Cao ; Bin LiuSource :
- Journal of microbiology and biotechnology [ 1738-8872 ] ; 2014.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- classification : SARS Virus.
- genetics : SARS Virus.
- methods : Genotyping Techniques, Molecular Epidemiology, Oligonucleotide Array Sequence Analysis, Virology.
- Animals, Humans, Polymorphism, Single Nucleotide.
Abstract
Severe acute respiratory syndrome (SARS), a disease that spread widely in the world during late 2002 to 2004, severely threatened public health. Although there have been no reported infections since 2004, the extremely pathogenic SARS coronavirus (SARS-CoV), as the causative agent of SARS, has recently been identified in animals, showing the potential for the re-emergence of this disease. Previous studies showed that 27 single nucleotide polymorphism (SNP) mutations among the spike (S) gene of this virus are correlated closely with the SARS pathogenicity and epidemicity. We have developed a SNP DNA microarray in order to detect and genotype these SNPs, and to obtain related information on the pathogenicity and epidemicity of a given strain. The microarray was hybridized with PCR products amplified from cDNAs obtained from different SARS-CoV strains. We were able to detect 24 SNPs and determine the type of a given strain. The hybridization profile showed that 19 samples were detected and genotyped correctly by using our microarray, with 100% accuracy. Our microarray provides a novel method for the detection and epidemiological surveillance of SARS-CoV.
DOI: 10.4014/jmb.1404.04024
PubMed: 24950883
Affiliations:
Links toward previous steps (curation, corpus...)
Links to Exploration step
pubmed:24950883Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Development of a single nucleotide polymorphism DNA microarray for the detection and genotyping of the SARS coronavirus.</title>
<author><name sortKey="Guo, Xi" sort="Guo, Xi" uniqKey="Guo X" first="Xi" last="Guo">Xi Guo</name>
<affiliation wicri:level="1"><nlm:affiliation>TEDA Institute of Biological Sciences and Biotechnology, Nankai University, TEDA, Tianjin 300457, P. R. China.</nlm:affiliation>
<country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country>
<wicri:regionArea>TEDA Institute of Biological Sciences and Biotechnology, Nankai University, TEDA, Tianjin 300457</wicri:regionArea>
<placeName><settlement type="city">Tianjin</settlement>
</placeName>
</affiliation>
</author>
<author><name sortKey="Geng, Peng" sort="Geng, Peng" uniqKey="Geng P" first="Peng" last="Geng">Peng Geng</name>
</author>
<author><name sortKey="Wang, Quan" sort="Wang, Quan" uniqKey="Wang Q" first="Quan" last="Wang">Quan Wang</name>
</author>
<author><name sortKey="Cao, Boyang" sort="Cao, Boyang" uniqKey="Cao B" first="Boyang" last="Cao">Boyang Cao</name>
</author>
<author><name sortKey="Liu, Bin" sort="Liu, Bin" uniqKey="Liu B" first="Bin" last="Liu">Bin Liu</name>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">PubMed</idno>
<date when="2014">2014</date>
<idno type="RBID">pubmed:24950883</idno>
<idno type="pmid">24950883</idno>
<idno type="doi">10.4014/jmb.1404.04024</idno>
<idno type="wicri:Area/PubMed/Corpus">000F80</idno>
<idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">000F80</idno>
<idno type="wicri:Area/PubMed/Curation">000F80</idno>
<idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">000F80</idno>
<idno type="wicri:Area/PubMed/Checkpoint">001013</idno>
<idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">001013</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en">Development of a single nucleotide polymorphism DNA microarray for the detection and genotyping of the SARS coronavirus.</title>
<author><name sortKey="Guo, Xi" sort="Guo, Xi" uniqKey="Guo X" first="Xi" last="Guo">Xi Guo</name>
<affiliation wicri:level="1"><nlm:affiliation>TEDA Institute of Biological Sciences and Biotechnology, Nankai University, TEDA, Tianjin 300457, P. R. China.</nlm:affiliation>
<country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country>
<wicri:regionArea>TEDA Institute of Biological Sciences and Biotechnology, Nankai University, TEDA, Tianjin 300457</wicri:regionArea>
<placeName><settlement type="city">Tianjin</settlement>
</placeName>
</affiliation>
</author>
<author><name sortKey="Geng, Peng" sort="Geng, Peng" uniqKey="Geng P" first="Peng" last="Geng">Peng Geng</name>
</author>
<author><name sortKey="Wang, Quan" sort="Wang, Quan" uniqKey="Wang Q" first="Quan" last="Wang">Quan Wang</name>
</author>
<author><name sortKey="Cao, Boyang" sort="Cao, Boyang" uniqKey="Cao B" first="Boyang" last="Cao">Boyang Cao</name>
</author>
<author><name sortKey="Liu, Bin" sort="Liu, Bin" uniqKey="Liu B" first="Bin" last="Liu">Bin Liu</name>
</author>
</analytic>
<series><title level="j">Journal of microbiology and biotechnology</title>
<idno type="eISSN">1738-8872</idno>
<imprint><date when="2014" type="published">2014</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term>
<term>Genotyping Techniques (methods)</term>
<term>Humans</term>
<term>Molecular Epidemiology (methods)</term>
<term>Oligonucleotide Array Sequence Analysis (methods)</term>
<term>Polymorphism, Single Nucleotide</term>
<term>SARS Virus (classification)</term>
<term>SARS Virus (genetics)</term>
<term>Virology (methods)</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr"><term>Animaux</term>
<term>Humains</term>
<term>Polymorphisme de nucléotide simple</term>
<term>Séquençage par oligonucléotides en batterie ()</term>
<term>Techniques de génotypage ()</term>
<term>Virologie ()</term>
<term>Virus du SRAS ()</term>
<term>Virus du SRAS (génétique)</term>
<term>Épidémiologie moléculaire ()</term>
</keywords>
<keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>SARS Virus</term>
</keywords>
<keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>SARS Virus</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Virus du SRAS</term>
</keywords>
<keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Genotyping Techniques</term>
<term>Molecular Epidemiology</term>
<term>Oligonucleotide Array Sequence Analysis</term>
<term>Virology</term>
</keywords>
<keywords scheme="MESH" xml:lang="en"><term>Animals</term>
<term>Humans</term>
<term>Polymorphism, Single Nucleotide</term>
</keywords>
<keywords scheme="MESH" xml:lang="fr"><term>Animaux</term>
<term>Humains</term>
<term>Polymorphisme de nucléotide simple</term>
<term>Séquençage par oligonucléotides en batterie</term>
<term>Techniques de génotypage</term>
<term>Virologie</term>
<term>Virus du SRAS</term>
<term>Épidémiologie moléculaire</term>
</keywords>
</textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en">Severe acute respiratory syndrome (SARS), a disease that spread widely in the world during late 2002 to 2004, severely threatened public health. Although there have been no reported infections since 2004, the extremely pathogenic SARS coronavirus (SARS-CoV), as the causative agent of SARS, has recently been identified in animals, showing the potential for the re-emergence of this disease. Previous studies showed that 27 single nucleotide polymorphism (SNP) mutations among the spike (S) gene of this virus are correlated closely with the SARS pathogenicity and epidemicity. We have developed a SNP DNA microarray in order to detect and genotype these SNPs, and to obtain related information on the pathogenicity and epidemicity of a given strain. The microarray was hybridized with PCR products amplified from cDNAs obtained from different SARS-CoV strains. We were able to detect 24 SNPs and determine the type of a given strain. The hybridization profile showed that 19 samples were detected and genotyped correctly by using our microarray, with 100% accuracy. Our microarray provides a novel method for the detection and epidemiological surveillance of SARS-CoV.</div>
</front>
</TEI>
<pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">24950883</PMID>
<DateCompleted><Year>2015</Year>
<Month>06</Month>
<Day>16</Day>
</DateCompleted>
<DateRevised><Year>2019</Year>
<Month>09</Month>
<Day>23</Day>
</DateRevised>
<Article PubModel="Print"><Journal><ISSN IssnType="Electronic">1738-8872</ISSN>
<JournalIssue CitedMedium="Internet"><Volume>24</Volume>
<Issue>10</Issue>
<PubDate><Year>2014</Year>
<Month>Oct</Month>
</PubDate>
</JournalIssue>
<Title>Journal of microbiology and biotechnology</Title>
<ISOAbbreviation>J. Microbiol. Biotechnol.</ISOAbbreviation>
</Journal>
<ArticleTitle>Development of a single nucleotide polymorphism DNA microarray for the detection and genotyping of the SARS coronavirus.</ArticleTitle>
<Pagination><MedlinePgn>1445-54</MedlinePgn>
</Pagination>
<Abstract><AbstractText>Severe acute respiratory syndrome (SARS), a disease that spread widely in the world during late 2002 to 2004, severely threatened public health. Although there have been no reported infections since 2004, the extremely pathogenic SARS coronavirus (SARS-CoV), as the causative agent of SARS, has recently been identified in animals, showing the potential for the re-emergence of this disease. Previous studies showed that 27 single nucleotide polymorphism (SNP) mutations among the spike (S) gene of this virus are correlated closely with the SARS pathogenicity and epidemicity. We have developed a SNP DNA microarray in order to detect and genotype these SNPs, and to obtain related information on the pathogenicity and epidemicity of a given strain. The microarray was hybridized with PCR products amplified from cDNAs obtained from different SARS-CoV strains. We were able to detect 24 SNPs and determine the type of a given strain. The hybridization profile showed that 19 samples were detected and genotyped correctly by using our microarray, with 100% accuracy. Our microarray provides a novel method for the detection and epidemiological surveillance of SARS-CoV.</AbstractText>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Guo</LastName>
<ForeName>Xi</ForeName>
<Initials>X</Initials>
<AffiliationInfo><Affiliation>TEDA Institute of Biological Sciences and Biotechnology, Nankai University, TEDA, Tianjin 300457, P. R. China.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Geng</LastName>
<ForeName>Peng</ForeName>
<Initials>P</Initials>
</Author>
<Author ValidYN="Y"><LastName>Wang</LastName>
<ForeName>Quan</ForeName>
<Initials>Q</Initials>
</Author>
<Author ValidYN="Y"><LastName>Cao</LastName>
<ForeName>Boyang</ForeName>
<Initials>B</Initials>
</Author>
<Author ValidYN="Y"><LastName>Liu</LastName>
<ForeName>Bin</ForeName>
<Initials>B</Initials>
</Author>
</AuthorList>
<Language>eng</Language>
<PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType>
<PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType>
</PublicationTypeList>
</Article>
<MedlineJournalInfo><Country>Korea (South)</Country>
<MedlineTA>J Microbiol Biotechnol</MedlineTA>
<NlmUniqueID>9431852</NlmUniqueID>
<ISSNLinking>1017-7825</ISSNLinking>
</MedlineJournalInfo>
<CitationSubset>IM</CitationSubset>
<MeshHeadingList><MeshHeading><DescriptorName UI="D000818" MajorTopicYN="N">Animals</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D060005" MajorTopicYN="N">Genotyping Techniques</DescriptorName>
<QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D006801" MajorTopicYN="N">Humans</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D017720" MajorTopicYN="N">Molecular Epidemiology</DescriptorName>
<QualifierName UI="Q000379" MajorTopicYN="N">methods</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D020411" MajorTopicYN="N">Oligonucleotide Array Sequence Analysis</DescriptorName>
<QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D020641" MajorTopicYN="Y">Polymorphism, Single Nucleotide</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D045473" MajorTopicYN="N">SARS Virus</DescriptorName>
<QualifierName UI="Q000145" MajorTopicYN="Y">classification</QualifierName>
<QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D014773" MajorTopicYN="N">Virology</DescriptorName>
<QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName>
</MeshHeading>
</MeshHeadingList>
</MedlineCitation>
<PubmedData><History><PubMedPubDate PubStatus="entrez"><Year>2014</Year>
<Month>6</Month>
<Day>22</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
<PubMedPubDate PubStatus="pubmed"><Year>2014</Year>
<Month>6</Month>
<Day>22</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
<PubMedPubDate PubStatus="medline"><Year>2015</Year>
<Month>6</Month>
<Day>17</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
</History>
<PublicationStatus>ppublish</PublicationStatus>
<ArticleIdList><ArticleId IdType="pubmed">24950883</ArticleId>
<ArticleId IdType="pii">10.4014/jmb.1404.04024</ArticleId>
<ArticleId IdType="doi">10.4014/jmb.1404.04024</ArticleId>
</ArticleIdList>
</PubmedData>
</pubmed>
<affiliations><list><country><li>République populaire de Chine</li>
</country>
<settlement><li>Tianjin</li>
</settlement>
</list>
<tree><noCountry><name sortKey="Cao, Boyang" sort="Cao, Boyang" uniqKey="Cao B" first="Boyang" last="Cao">Boyang Cao</name>
<name sortKey="Geng, Peng" sort="Geng, Peng" uniqKey="Geng P" first="Peng" last="Geng">Peng Geng</name>
<name sortKey="Liu, Bin" sort="Liu, Bin" uniqKey="Liu B" first="Bin" last="Liu">Bin Liu</name>
<name sortKey="Wang, Quan" sort="Wang, Quan" uniqKey="Wang Q" first="Quan" last="Wang">Quan Wang</name>
</noCountry>
<country name="République populaire de Chine"><noRegion><name sortKey="Guo, Xi" sort="Guo, Xi" uniqKey="Guo X" first="Xi" last="Guo">Xi Guo</name>
</noRegion>
</country>
</tree>
</affiliations>
</record>
Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/SrasV1/Data/PubMed/Checkpoint
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 001013 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/PubMed/Checkpoint/biblio.hfd -nk 001013 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien |wiki= Sante |area= SrasV1 |flux= PubMed |étape= Checkpoint |type= RBID |clé= pubmed:24950883 |texte= Development of a single nucleotide polymorphism DNA microarray for the detection and genotyping of the SARS coronavirus. }}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/PubMed/Checkpoint/RBID.i -Sk "pubmed:24950883" \ | HfdSelect -Kh $EXPLOR_AREA/Data/PubMed/Checkpoint/biblio.hfd \ | NlmPubMed2Wicri -a SrasV1
This area was generated with Dilib version V0.6.33. |