Era of molecular diagnosis for pathogen identification of unexplained pneumonia, lessons to be learned
Identifieur interne : 000665 ( Main/Curation ); précédent : 000664; suivant : 000666Era of molecular diagnosis for pathogen identification of unexplained pneumonia, lessons to be learned
Auteurs : Jing-Wen Ai [République populaire de Chine] ; Yi Zhang [République populaire de Chine] ; Hao-Cheng Zhang [République populaire de Chine] ; Teng Xu [République populaire de Chine] ; Wen-Hong Zhang [République populaire de Chine]Source :
- Emerging Microbes & Infections [ 2222-1751 ] ; 2020.
Descripteurs français
- KwdFr :
- Humains, Infections à coronavirus (diagnostic), Infections à coronavirus (transmission), Infections à coronavirus (épidémiologie), Phylogénie, Pneumopathie virale (diagnostic), Pneumopathie virale (transmission), Pneumopathie virale (épidémiologie), Techniques de diagnostic moléculaire, Techniques de laboratoire clinique.
- MESH :
- diagnostic : Infections à coronavirus, Pneumopathie virale.
- épidémiologie : Infections à coronavirus, Pneumopathie virale.
- Humains, Phylogénie, Techniques de diagnostic moléculaire, Techniques de laboratoire clinique.
English descriptors
- KwdEn :
- Betacoronavirus (genetics), Betacoronavirus (isolation & purification), Clinical Laboratory Techniques, Coronavirus Infections (diagnosis), Coronavirus Infections (epidemiology), Coronavirus Infections (transmission), Humans, Molecular Diagnostic Techniques, Phylogeny, Pneumonia, Viral (diagnosis), Pneumonia, Viral (epidemiology), Pneumonia, Viral (transmission).
- MESH :
- diagnosis : Coronavirus Infections, Pneumonia, Viral.
- epidemiology : Coronavirus Infections, Pneumonia, Viral.
- genetics : Betacoronavirus.
- isolation & purification : Betacoronavirus.
- transmission : Coronavirus Infections, Pneumonia, Viral.
- Clinical Laboratory Techniques, Humans, Molecular Diagnostic Techniques, Phylogeny.
Abstract
Unexplained pneumonia (UP) caused by a novel coronavirus SARS-CoV-2 (severe acute respiratory syndrome coronavirus 2) emerged in China in late December 2019 and has infected more than 9000 cases by 31 January 2020. Shanghai reported the first imported case of COVID-19 (Coronavirus Disease 2019) in 20 January 2020. A combinative approach of real-time RT–PCR, CRISPR-based assay and metagenomic next-generation sequencing (mNGS) were used to diagnose this unexplained pneumonia patient. Real-time RT–PCR and CRISPR-based assay both reported positive. This sample belonged to Betacoronavirus and shared a more than 99% nucleotide (nt) identity with the Wuhan SARS-CoV-2 isolates. We further compared pros and cons of common molecular diagnostics in UP. In this study, we illustrated the importance of combining molecular diagnostics to rule out common pathogens and performed mNGS to obtain unbiased potential pathogen result for the diagnosis of UP.
Url:
DOI: 10.1080/22221751.2020.1738905
PubMed: 32174267
PubMed Central: 7144283
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PMC:7144283Le document en format XML
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<front><div type="abstract" xml:lang="en"><title>ABSTRACT</title>
<p>Unexplained pneumonia (UP) caused by a novel coronavirus SARS-CoV-2 (severe acute respiratory syndrome coronavirus 2) emerged in China in late December 2019 and has infected more than 9000 cases by 31 January 2020. Shanghai reported the first imported case of COVID-19 (Coronavirus Disease 2019) in 20 January 2020. A combinative approach of real-time RT–PCR, CRISPR-based assay and metagenomic next-generation sequencing (mNGS) were used to diagnose this unexplained pneumonia patient. Real-time RT–PCR and CRISPR-based assay both reported positive. This sample belonged to Betacoronavirus and shared a more than 99% nucleotide (nt) identity with the Wuhan SARS-CoV-2 isolates. We further compared pros and cons of common molecular diagnostics in UP. In this study, we illustrated the importance of combining molecular diagnostics to rule out common pathogens and performed mNGS to obtain unbiased potential pathogen result for the diagnosis of UP.</p>
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