A simple and rapid approach for screening of SARS-coronavirus genotypes: an evaluation study.
Identifieur interne : 002852 ( PubMed/Checkpoint ); précédent : 002851; suivant : 002853A simple and rapid approach for screening of SARS-coronavirus genotypes: an evaluation study.
Auteurs : Grace T Y. Chung [Hong Kong] ; Rossa W K. Chiu ; Jo L K. Cheung ; Yongjie Jin ; Stephen S C. Chim ; Paul K S. Chan ; Y M Dennis LoSource :
- BMC infectious diseases [ 1471-2334 ] ; 2005.
Descripteurs français
- KwdFr :
- Allèles, Facteurs temps, Gènes viraux (génétique), Génotype, Humains, Phylogénie, Sondes oligonucléotidiques (analyse), Sondes oligonucléotidiques (génétique), Syndrome respiratoire aigu sévère (virologie), Syndrome respiratoire aigu sévère (épidémiologie), Virus du SRAS (génétique), Évolution moléculaire.
- MESH :
- analyse : Sondes oligonucléotidiques.
- génétique : Gènes viraux, Sondes oligonucléotidiques, Virus du SRAS.
- virologie : Syndrome respiratoire aigu sévère.
- épidémiologie : Syndrome respiratoire aigu sévère.
- Allèles, Facteurs temps, Génotype, Humains, Phylogénie, Évolution moléculaire.
English descriptors
- KwdEn :
- MESH :
- chemical , analysis : Oligonucleotide Probes.
- epidemiology : Severe Acute Respiratory Syndrome.
- genetics : Genes, Viral, Oligonucleotide Probes, SARS Virus.
- virology : Severe Acute Respiratory Syndrome.
- Alleles, Evolution, Molecular, Genotype, Humans, Phylogeny, Time Factors.
Abstract
The Severe Acute Respiratory Syndrome (SARS) was a newly emerged infectious disease which caused a global epidemic in 2002-2003. Sequence analysis of SARS-coronavirus isolates revealed that specific genotypes predominated at different periods of the epidemic. This information can be used as a footprint for tracing the epidemiology of infections and monitor viral evolution. However, direct sequencing analysis of a large number of clinical samples is cumbersome and time consuming. We present here a simple and rapid assay for the screening of SARS-coronavirus genotypes based on the use of fluorogenic oligonucleotide probes for allelic discrimination.
DOI: 10.1186/1471-2334-5-87
PubMed: 16229749
Affiliations:
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pubmed:16229749Le document en format XML
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<term>Genotype</term>
<term>Humans</term>
<term>Oligonucleotide Probes (analysis)</term>
<term>Oligonucleotide Probes (genetics)</term>
<term>Phylogeny</term>
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<term>Sondes oligonucléotidiques (génétique)</term>
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<term>Syndrome respiratoire aigu sévère (épidémiologie)</term>
<term>Virus du SRAS (génétique)</term>
<term>Évolution moléculaire</term>
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<front><div type="abstract" xml:lang="en">The Severe Acute Respiratory Syndrome (SARS) was a newly emerged infectious disease which caused a global epidemic in 2002-2003. Sequence analysis of SARS-coronavirus isolates revealed that specific genotypes predominated at different periods of the epidemic. This information can be used as a footprint for tracing the epidemiology of infections and monitor viral evolution. However, direct sequencing analysis of a large number of clinical samples is cumbersome and time consuming. We present here a simple and rapid assay for the screening of SARS-coronavirus genotypes based on the use of fluorogenic oligonucleotide probes for allelic discrimination.</div>
</front>
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<ArticleTitle>A simple and rapid approach for screening of SARS-coronavirus genotypes: an evaluation study.</ArticleTitle>
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<Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">The Severe Acute Respiratory Syndrome (SARS) was a newly emerged infectious disease which caused a global epidemic in 2002-2003. Sequence analysis of SARS-coronavirus isolates revealed that specific genotypes predominated at different periods of the epidemic. This information can be used as a footprint for tracing the epidemiology of infections and monitor viral evolution. However, direct sequencing analysis of a large number of clinical samples is cumbersome and time consuming. We present here a simple and rapid assay for the screening of SARS-coronavirus genotypes based on the use of fluorogenic oligonucleotide probes for allelic discrimination.</AbstractText>
<AbstractText Label="METHODS" NlmCategory="METHODS">Thirty SARS patients were recruited. Allelic discrimination assays were developed based on the use of fluorogenic oligonucleotide probes (TaqMan). Genotyping of the SARS-coronavirus isolates obtained from these patients were carried out by the allelic discrimination assays and confirmed by direct sequencing.</AbstractText>
<AbstractText Label="RESULTS" NlmCategory="RESULTS">Genotyping based on the allelic discrimination assays were fully concordant with direct sequencing. All of the 30 SARS-coronavirus genotypes studied were characteristic of genotypes previously documented to be associated with the latter part of the epidemic. Seven of the isolates contained a previously reported major deletion but in patients not epidemiologically related to the previously studied cohort.</AbstractText>
<AbstractText Label="CONCLUSION" NlmCategory="CONCLUSIONS">We have developed a simple and accurate method for the characterization and screening of SARS-coronavirus genotypes. It is a promising tool for the study of epidemiological relationships between documented cases during an outbreak.</AbstractText>
</Abstract>
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<ForeName>Grace T Y</ForeName>
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<AffiliationInfo><Affiliation>Centre for Emerging Infectious Diseases, The Chinese University of Hong Kong, Prince of Wales Hospital, Hong Kong. gracehung@cuhk.edu.hk</Affiliation>
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