About: A RT-PCR Assay for the Detection of Coronaviruses from Four Genera

Facets (new session)
Description
Metadata
Settings
- owl:sameAs
- Inference Rule:

About: A RT-PCR Assay for the Detection of Coronaviruses from Four Genera Goto Sponge NotDistinct Permalink

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

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	A RT-PCR Assay for the Detection of Coronaviruses from Four Genera
Creator	Gray, Gregory Toh, Teck-Hock Xiu, Leshan Erdman, Dean Coleman, Kristen Bailey, Emily Alarja, Natalie Binder, Raquel Bui, Vuong Kochek, Kara Than, Thé
source	Elsevier; Medline; PMC
abstract	BACKGROUND: During the past two decades, three novel coronaviruses (CoVs) have emerged to cause international human epidemics with severe morbidity. CoVs have also emerged to cause severe epidemics in animals. A better understanding of the natural hosts and genetic diversity of CoVs are needed to help mitigate these threats. OBJECTIVE: To design and evaluate a molecular diagnostic tool for detection and identification of all currently recognized and potentially future emergent CoVs from the Orthocoronavirinae subfamily. STUDY DESIGN AND RESULTS: We designed a semi-nested, reverse transcription RT-PCR assay based upon 38 published genome sequences of human and animal CoVs. We evaluated this assay with 14 human and animal CoVs and 11 other non-CoV respiratory viruses. Through sequencing the assay's target amplicon, the assay correctly identified each of the CoVs; no cross-reactivity with the 11 common respiratory viruses was observed. The limits of detection ranged from 4 to 4 × 102 copies/reaction, depending on the CoV species tested. To assess the assay's clinical performance, we tested a large panel of previously studied specimens: 192 human respiratory specimens from pneumonia patients, 5 clinical specimens from COVID-19 patients, 81 poultry oral secretion specimens, 109 pig slurry specimens, and 31 aerosol samples from a live bird market. The amplicons of all RT-PCR-positive samples were confirmed by Sanger sequencing. Our assay performed well with all tested specimens across all sample types. CONCLUSIONS: This assay can be used for detection and identification of all previously recognized CoVs, including SARS-CoV-2, and potentially any emergent CoVs in the Orthocoronavirinae subfamily.
has issue date	2020-04-30(xsd:dateTime)
bibo:doi	10.1016/j.jcv.2020.104391
bibo:pmid	32403008
has license	no-cc
sha1sum (hex)	7bd1b1e6f4db991366f50e65f716fd47b2b1130b
schema:url	https://doi.org/10.1016/j.jcv.2020.104391
resource representing a document's title	A RT-PCR Assay for the Detection of Coronaviruses from Four Genera
has PubMed Central identifier	PMC7192118
has PubMed identifier	32403008
schema:publication	J Clin Virol
resource representing a document's body	covid:7bd1b1e6f4db991366f50e65f716fd47b2b1130b#body_text
is schema:about of	named entity 'Writing' named entity 'RT-PCR' named entity 'Detection' named entity 'Assay' named entity 'Journal' named entity 'SPECIMENS' named entity 'ASSESSMENT' named entity 'ASSISTED' named entity 'TST' named entity 'DDE' named entity 'RAB' named entity 'field studies' named entity 'assay' named entity 'manuscript' named entity 'specimens' named entity 'assay' named entity 'Investigation' named entity 'Reagents' named entity 'Assay' named entity 'Assay' named entity 'Coronaviruses' named entity 'Coronaviridae' named entity 'Clustal W' named entity 'Negative control' named entity 'nested RT-PCR' named entity 'pneumonia' named entity '2019-nCoV' named entity 'Phylogenetic trees' named entity 'MERS-CoV' named entity 'diagnostic assays' named entity 'immunological assays' named entity 'viruses' named entity 'nested RT-PCR' named entity 'degenerate primers' named entity 'bat' named entity 'SARS-CoV' named entity 'nested RT-PCR' named entity 'diagnostic tool' named entity 'Orthocoronavirinae' named entity 'GenBank' named entity 'Singapore' named entity 'nested PCR' named entity 'RdRp' named entity 'morbidity' named entity 'RT-PCR' named entity 'human cell lines' named entity 'molecular methods' named entity 'saliva' named entity 'genome sequencing' named entity 'nasopharyngeal swabs' named entity 'coronavirus' named entity 'rRT-PCR' named entity 'recombinant' named entity 'poultry' named entity 'viruses' named entity 'viruses' named entity 'evolutionary history' named entity 'data processing' named entity 'genome' named entity 'diagnostic tests' named entity 'COVID-19' named entity 'nested RT-PCR' named entity 'nucleic acid' named entity 'livestock' named entity 'Orthocoronavirinae' named entity 'poultry' named entity 'respiratory illness' named entity 'MERS' named entity 'RdRp' named entity 'genome sequences' named entity 'primers'

Faceted Search & Find service v1.13.91 as of Mar 24 2020

Alternative Linked Data Documents: Sponger | ODE Content Formats:

RDF

ODATA

Microdata

About

OpenLink Virtuoso version 07.20.3229 as of Jul 10 2020, on Linux (x86_64-pc-linux-gnu), Single-Server Edition (94 GB total memory)
Data on this page belongs to its respective rights holders.
Virtuoso Faceted Browser Copyright © 2009-2025 OpenLink Software