A universal microarray for detection of SARS coronavirus.
Identifieur interne : 002B78 ( PubMed/Curation ); précédent : 002B77; suivant : 002B79A universal microarray for detection of SARS coronavirus.
Auteurs : Wei-Hong Long [République populaire de Chine] ; Hua-Sheng Xiao ; Xiao-Mei Gu ; Qing-Hua Zhang ; Hong-Jun Yang ; Guo-Ping Zhao ; Jian-Hua LiuSource :
- Journal of virological methods [ 0166-0934 ] ; 2004.
Descripteurs français
- KwdFr :
- Génotype, Humains, Hybridation d'acides nucléiques, Mutation ponctuelle, RT-PCR, Réaction en chaîne par ligase, Substitution d'acide aminé, Syndrome respiratoire aigu sévère (diagnostic), Syndrome respiratoire aigu sévère (virologie), Séquençage par oligonucléotides en batterie, Techniques de diagnostic moléculaire, Variation génétique, Virus du SRAS (génétique), Virus du SRAS (isolement et purification), Épidémiologie moléculaire.
- MESH :
- diagnostic : Syndrome respiratoire aigu sévère.
- génétique : Virus du SRAS.
- isolement et purification : Virus du SRAS.
- virologie : Syndrome respiratoire aigu sévère.
- Génotype, Humains, Hybridation d'acides nucléiques, Mutation ponctuelle, RT-PCR, Réaction en chaîne par ligase, Substitution d'acide aminé, Séquençage par oligonucléotides en batterie, Techniques de diagnostic moléculaire, Variation génétique, Épidémiologie moléculaire.
English descriptors
- KwdEn :
- Amino Acid Substitution, Genetic Variation, Genotype, Humans, Ligase Chain Reaction, Molecular Diagnostic Techniques, Molecular Epidemiology, Nucleic Acid Hybridization, Oligonucleotide Array Sequence Analysis, Point Mutation, Reverse Transcriptase Polymerase Chain Reaction, SARS Virus (genetics), SARS Virus (isolation & purification), Severe Acute Respiratory Syndrome (diagnosis), Severe Acute Respiratory Syndrome (virology).
- MESH :
- diagnosis : Severe Acute Respiratory Syndrome.
- genetics : SARS Virus.
- isolation & purification : SARS Virus.
- virology : Severe Acute Respiratory Syndrome.
- Amino Acid Substitution, Genetic Variation, Genotype, Humans, Ligase Chain Reaction, Molecular Diagnostic Techniques, Molecular Epidemiology, Nucleic Acid Hybridization, Oligonucleotide Array Sequence Analysis, Point Mutation, Reverse Transcriptase Polymerase Chain Reaction.
Abstract
Severe acute respiratory syndrome (SARS) is caused by the SARS coronavirus (SARS-CoV). There are many point mutations among SARS-CoV genome sequences. Previous studies suggested that the mutations are correlated closely with the SARS epidemic. It was found that the bases of six nucleotide positions (nt9404, nt9479, nt19838, nt21721, nt22222 and nt27827) with high-mutation rate have an important relationship with the SARS epidemic. For viral detection as well as genotyping, a universal microarray system was developed that combines RT-PCR and ligase detection reaction (LDR). The Zip Codes attached covalently to a slide remain constant and their complementary Zip Codes (cZip Codes) can be used for tagging target sequence, making the microarrays universal. The discriminating oligonucleotides contain on the 5' end "cZip Codes" that are used to direct LDR product to specific Zip Codes attached covalently to a slide. Since Zip Codes have no homology to either the target sequence or to other sequences in the genomes of both human host and SARS-CoV, there was no false signal due to mismatch hybridizations. 20 samples assayed with the universal microarray were confirmed by DNA sequencing, demonstrating that this microarray system is a promising diagnostic tool for detection and genotyping of the SARS-CoV.
DOI: 10.1016/j.jviromet.2004.06.016
PubMed: 15350733
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Qing Hua" sort="Zhang, Qing Hua" uniqKey="Zhang Q" first="Qing-Hua" last="Zhang">Qing-Hua Zhang</name></author><author><name sortKey="Yang, Hong Jun" sort="Yang, Hong Jun" uniqKey="Yang H" first="Hong-Jun" last="Yang">Hong-Jun Yang</name></author><author><name sortKey="Zhao, Guo Ping" sort="Zhao, Guo Ping" uniqKey="Zhao G" first="Guo-Ping" last="Zhao">Guo-Ping Zhao</name></author><author><name sortKey="Liu, Jian Hua" sort="Liu, Jian Hua" uniqKey="Liu J" first="Jian-Hua" last="Liu">Jian-Hua Liu</name></author></analytic><series><title level="j">Journal of virological methods</title><idno type="ISSN">0166-0934</idno><imprint><date when="2004" type="published">2004</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Amino Acid Substitution</term><term>Genetic Variation</term><term>Genotype</term><term>Humans</term><term>Ligase Chain Reaction</term><term>Molecular Diagnostic Techniques</term><term>Molecular Epidemiology</term><term>Nucleic Acid Hybridization</term><term>Oligonucleotide Array Sequence Analysis</term><term>Point Mutation</term><term>Reverse Transcriptase Polymerase Chain Reaction</term><term>SARS Virus (genetics)</term><term>SARS Virus (isolation & purification)</term><term>Severe Acute Respiratory Syndrome (diagnosis)</term><term>Severe Acute Respiratory Syndrome (virology)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Génotype</term><term>Humains</term><term>Hybridation d'acides nucléiques</term><term>Mutation ponctuelle</term><term>RT-PCR</term><term>Réaction en chaîne par ligase</term><term>Substitution d'acide aminé</term><term>Syndrome respiratoire aigu sévère (diagnostic)</term><term>Syndrome respiratoire aigu sévère (virologie)</term><term>Séquençage par oligonucléotides en batterie</term><term>Techniques de diagnostic moléculaire</term><term>Variation génétique</term><term>Virus du SRAS (génétique)</term><term>Virus du SRAS (isolement et purification)</term><term>Épidémiologie moléculaire</term></keywords><keywords scheme="MESH" qualifier="diagnosis" xml:lang="en"><term>Severe Acute Respiratory Syndrome</term></keywords><keywords scheme="MESH" qualifier="diagnostic" xml:lang="fr"><term>Syndrome respiratoire aigu sévère</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="isolation & purification" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Virus du SRAS</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Syndrome respiratoire aigu sévère</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Severe Acute Respiratory Syndrome</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Amino Acid Substitution</term><term>Genetic Variation</term><term>Genotype</term><term>Humans</term><term>Ligase Chain Reaction</term><term>Molecular Diagnostic Techniques</term><term>Molecular Epidemiology</term><term>Nucleic Acid Hybridization</term><term>Oligonucleotide Array Sequence Analysis</term><term>Point Mutation</term><term>Reverse Transcriptase Polymerase Chain Reaction</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Génotype</term><term>Humains</term><term>Hybridation d'acides nucléiques</term><term>Mutation ponctuelle</term><term>RT-PCR</term><term>Réaction en chaîne par ligase</term><term>Substitution d'acide aminé</term><term>Séquençage par oligonucléotides en batterie</term><term>Techniques de diagnostic moléculaire</term><term>Variation génétique</term><term>Épidémiologie moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Severe acute respiratory syndrome (SARS) is caused by the SARS coronavirus (SARS-CoV). There are many point mutations among SARS-CoV genome sequences. Previous studies suggested that the mutations are correlated closely with the SARS epidemic. It was found that the bases of six nucleotide positions (nt9404, nt9479, nt19838, nt21721, nt22222 and nt27827) with high-mutation rate have an important relationship with the SARS epidemic. For viral detection as well as genotyping, a universal microarray system was developed that combines RT-PCR and ligase detection reaction (LDR). The Zip Codes attached covalently to a slide remain constant and their complementary Zip Codes (cZip Codes) can be used for tagging target sequence, making the microarrays universal. The discriminating oligonucleotides contain on the 5' end "cZip Codes" that are used to direct LDR product to specific Zip Codes attached covalently to a slide. Since Zip Codes have no homology to either the target sequence or to other sequences in the genomes of both human host and SARS-CoV, there was no false signal due to mismatch hybridizations. 20 samples assayed with the universal microarray were confirmed by DNA sequencing, demonstrating that this microarray system is a promising diagnostic tool for detection and genotyping of the SARS-CoV.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">15350733</PMID><DateCompleted><Year>2005</Year><Month>02</Month><Day>08</Day></DateCompleted><DateRevised><Year>2020</Year><Month>04</Month><Day>03</Day></DateRevised><Article PubModel="Print"><Journal><ISSN IssnType="Print">0166-0934</ISSN><JournalIssue CitedMedium="Print"><Volume>121</Volume><Issue>1</Issue><PubDate><Year>2004</Year><Month>Oct</Month></PubDate></JournalIssue><Title>Journal of virological methods</Title><ISOAbbreviation>J. Virol. Methods</ISOAbbreviation></Journal><ArticleTitle>A universal microarray for detection of SARS coronavirus.</ArticleTitle><Pagination><MedlinePgn>57-63</MedlinePgn></Pagination><Abstract><AbstractText>Severe acute respiratory syndrome (SARS) is caused by the SARS coronavirus (SARS-CoV). There are many point mutations among SARS-CoV genome sequences. Previous studies suggested that the mutations are correlated closely with the SARS epidemic. It was found that the bases of six nucleotide positions (nt9404, nt9479, nt19838, nt21721, nt22222 and nt27827) with high-mutation rate have an important relationship with the SARS epidemic. For viral detection as well as genotyping, a universal microarray system was developed that combines RT-PCR and ligase detection reaction (LDR). The Zip Codes attached covalently to a slide remain constant and their complementary Zip Codes (cZip Codes) can be used for tagging target sequence, making the microarrays universal. The discriminating oligonucleotides contain on the 5' end "cZip Codes" that are used to direct LDR product to specific Zip Codes attached covalently to a slide. Since Zip Codes have no homology to either the target sequence or to other sequences in the genomes of both human host and SARS-CoV, there was no false signal due to mismatch hybridizations. 20 samples assayed with the universal microarray were confirmed by DNA sequencing, demonstrating that this microarray system is a promising diagnostic tool for detection and genotyping of the SARS-CoV.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Long</LastName><ForeName>Wei-Hong</ForeName><Initials>WH</Initials><AffiliationInfo><Affiliation>School of Life Science and Technology, Shanghai JiaoTong University, 1954 Hua-Shan Road, Shanghai 200030, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Xiao</LastName><ForeName>Hua-Sheng</ForeName><Initials>HS</Initials></Author><Author ValidYN="Y"><LastName>Gu</LastName><ForeName>Xiao-Mei</ForeName><Initials>XM</Initials></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Qing-Hua</ForeName><Initials>QH</Initials></Author><Author ValidYN="Y"><LastName>Yang</LastName><ForeName>Hong-Jun</ForeName><Initials>HJ</Initials></Author><Author ValidYN="Y"><LastName>Zhao</LastName><ForeName>Guo-Ping</ForeName><Initials>GP</Initials></Author><Author ValidYN="Y"><LastName>Liu</LastName><ForeName>Jian-Hua</ForeName><Initials>JH</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D023362">Evaluation Study</PublicationType><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList></Article><MedlineJournalInfo><Country>Netherlands</Country><MedlineTA>J Virol Methods</MedlineTA><NlmUniqueID>8005839</NlmUniqueID><ISSNLinking>0166-0934</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D019943" 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