About: A simple and rapid approach for screening of SARS-coronavirus genotypes: an evaluation study

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An Entity of Type : schema:ScholarlyArticle, within Data Space : covidontheweb.inria.fr associated with source document(s)

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	A simple and rapid approach for screening of SARS-coronavirus genotypes: an evaluation study
Creator	Jin, Yongjie Chan, Paul Cheung, Jo Chim, Stephen Chiu, Rossa Chung, Grace Lo, Ym
source	Medline; PMC
abstract	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. 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. 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. CONCLUSION: 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.
has issue date	2005-10-18(xsd:dateTime)
bibo:doi	10.1186/1471-2334-5-87
bibo:pmid	16229749
has license	cc-by
sha1sum (hex)	e2b435104da658ed6518247430cff1d428aae830
schema:url	https://doi.org/10.1186/1471-2334-5-87
resource representing a document's title	A simple and rapid approach for screening of SARS-coronavirus genotypes: an evaluation study
has PubMed Central identifier	PMC1276795
has PubMed identifier	16229749
schema:publication	BMC Infect Dis
resource representing a document's body	covid:e2b435104da658ed6518247430cff1d428aae830#body_text
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