Era of molecular diagnosis for pathogen identification of unexplained pneumonia, lessons to be learned.
Identifieur interne : 000784 ( an2020/Analysis ); précédent : 000783; suivant : 000785Era 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 :
- MESH :
- diagnostic : Infections à coronavirus, Pneumopathie virale.
- épidémiologie : Infections à coronavirus, Pneumopathie virale.
- Humains, Phylogénie, Techniques de diagnostic moléculaire.
English descriptors
- KwdEn :
- Betacoronavirus (genetics), Betacoronavirus (isolation & purification), 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.
- 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.
DOI: 10.1080/22221751.2020.1738905
PubMed: 32174267
Affiliations:
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Viral</term></keywords><keywords scheme="MESH" qualifier="diagnostic" xml:lang="fr"><term>Infections à coronavirus</term><term>Pneumopathie virale</term></keywords><keywords scheme="MESH" qualifier="epidemiology" xml:lang="en"><term>Coronavirus Infections</term><term>Pneumonia, Viral</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Betacoronavirus</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Betacoronavirus</term></keywords><keywords scheme="MESH" qualifier="transmission" xml:lang="en"><term>Coronavirus Infections</term><term>Pneumonia, Viral</term></keywords><keywords scheme="MESH" qualifier="épidémiologie" xml:lang="fr"><term>Infections à coronavirus</term><term>Pneumopathie virale</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Humans</term><term>Molecular Diagnostic Techniques</term><term>Phylogeny</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Humains</term><term>Phylogénie</term><term>Techniques de diagnostic moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">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.</div></front></TEI><affiliations><list><country><li>République populaire de Chine</li></country><region><li>Guangdong</li></region><settlement><li>Jiangmen</li></settlement></list><tree><country name="République populaire de Chine"><noRegion><name sortKey="Ai, Jing Wen" sort="Ai, Jing Wen" uniqKey="Ai J" first="Jing-Wen" last="Ai">Jing-Wen Ai</name></noRegion><name sortKey="Xu, Teng" sort="Xu, Teng" uniqKey="Xu T" first="Teng" last="Xu">Teng Xu</name><name sortKey="Zhang, Hao Cheng" sort="Zhang, Hao Cheng" uniqKey="Zhang H" first="Hao-Cheng" last="Zhang">Hao-Cheng Zhang</name><name sortKey="Zhang, Wen Hong" sort="Zhang, Wen Hong" uniqKey="Zhang W" first="Wen-Hong" last="Zhang">Wen-Hong Zhang</name><name sortKey="Zhang, Yi" sort="Zhang, Yi" uniqKey="Zhang Y" first="Yi" last="Zhang">Yi Zhang</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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