Era of molecular diagnosis for pathogen identification of unexplained pneumonia, lessons to be learned
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 2...
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2020-01-01
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| Series: | Emerging Microbes and Infections |
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| Online Access: | https://www.tandfonline.com/doi/10.1080/22221751.2020.1738905 |
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| author | Jing-Wen Ai Yi Zhang Hao-Cheng Zhang Teng Xu Wen-Hong Zhang |
| author_facet | Jing-Wen Ai Yi Zhang Hao-Cheng Zhang Teng Xu Wen-Hong Zhang |
| author_sort | Jing-Wen Ai |
| collection | DOAJ |
| description | 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. |
| format | Article |
| id | doaj-art-1fbb040ccb934cc2a6e062882d253381 |
| institution | OA Journals |
| issn | 2222-1751 |
| language | English |
| publishDate | 2020-01-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Emerging Microbes and Infections |
| spelling | doaj-art-1fbb040ccb934cc2a6e062882d2533812025-08-20T02:15:52ZengTaylor & Francis GroupEmerging Microbes and Infections2222-17512020-01-019159760010.1080/22221751.2020.1738905Era of molecular diagnosis for pathogen identification of unexplained pneumonia, lessons to be learnedJing-Wen Ai0Yi Zhang1Hao-Cheng Zhang2Teng Xu3Wen-Hong Zhang4Department of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Huashan Hospital, State Key Laboratory of Genetic Engineering, School of Life Science, Key Laboratory of Medical Molecular Virology (MOE/MOH) and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University, Shanghai, People’s Republic of ChinaDepartment of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Huashan Hospital, State Key Laboratory of Genetic Engineering, School of Life Science, Key Laboratory of Medical Molecular Virology (MOE/MOH) and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University, Shanghai, People’s Republic of ChinaDepartment of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Huashan Hospital, State Key Laboratory of Genetic Engineering, School of Life Science, Key Laboratory of Medical Molecular Virology (MOE/MOH) and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University, Shanghai, People’s Republic of ChinaVision Medicals Co., Ltd, Guangzhou, People’s Republic of ChinaDepartment of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Huashan Hospital, State Key Laboratory of Genetic Engineering, School of Life Science, Key Laboratory of Medical Molecular Virology (MOE/MOH) and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University, Shanghai, People’s Republic of ChinaUnexplained 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.https://www.tandfonline.com/doi/10.1080/22221751.2020.1738905Unexplained pneumoniadiagnosisSARS-CoV-2COVID-19molecular |
| spellingShingle | Jing-Wen Ai Yi Zhang Hao-Cheng Zhang Teng Xu Wen-Hong Zhang Era of molecular diagnosis for pathogen identification of unexplained pneumonia, lessons to be learned Emerging Microbes and Infections Unexplained pneumonia diagnosis SARS-CoV-2 COVID-19 molecular |
| title | Era of molecular diagnosis for pathogen identification of unexplained pneumonia, lessons to be learned |
| title_full | Era of molecular diagnosis for pathogen identification of unexplained pneumonia, lessons to be learned |
| title_fullStr | Era of molecular diagnosis for pathogen identification of unexplained pneumonia, lessons to be learned |
| title_full_unstemmed | Era of molecular diagnosis for pathogen identification of unexplained pneumonia, lessons to be learned |
| title_short | Era of molecular diagnosis for pathogen identification of unexplained pneumonia, lessons to be learned |
| title_sort | era of molecular diagnosis for pathogen identification of unexplained pneumonia lessons to be learned |
| topic | Unexplained pneumonia diagnosis SARS-CoV-2 COVID-19 molecular |
| url | https://www.tandfonline.com/doi/10.1080/22221751.2020.1738905 |
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