Rapid diagnosis of fatal Nocardia kroppenstedtii bacteremic pneumonia and empyema thoracis by next-generation sequencing: a case report
Nocardia species do not replicate as rapidly as other pyogenic bacteria and nocardial infections can be highly fatal, particularly in immunocompromised patients. Here, we present the first report of fatal Nocardia kroppenstedtii bacteremic pneumonia and empyema thoracis diagnosed by next-generation...
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Frontiers Media S.A.
2023-07-01
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| Series: | Frontiers in Medicine |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fmed.2023.1226126/full |
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| author | Fanfan Xing Yao Xia Qianyun Lu Simon K. F. Lo Susanna K. P. Lau Patrick C. Y. Woo Patrick C. Y. Woo Patrick C. Y. Woo |
| author_facet | Fanfan Xing Yao Xia Qianyun Lu Simon K. F. Lo Susanna K. P. Lau Patrick C. Y. Woo Patrick C. Y. Woo Patrick C. Y. Woo |
| author_sort | Fanfan Xing |
| collection | DOAJ |
| description | Nocardia species do not replicate as rapidly as other pyogenic bacteria and nocardial infections can be highly fatal, particularly in immunocompromised patients. Here, we present the first report of fatal Nocardia kroppenstedtii bacteremic pneumonia and empyema thoracis diagnosed by next-generation sequencing (NGS) using the Oxford Nanopore Technologies' MinION device. The bacterium was not identified by matrix-assisted laser desorption ionization-time of flight mass spectrometry. Due to its low equipment cost, short turn-around-time, and portable size, the Oxford Nanopore Technologies' MinION device is a useful platform for NGS in routine clinical microbiology laboratories. |
| first_indexed | 2024-03-12T23:08:46Z |
| format | Article |
| id | doaj.art-8f1c6ac74a6640c2a2bc866e94a1aeb7 |
| institution | Directory Open Access Journal |
| issn | 2296-858X |
| language | English |
| last_indexed | 2024-03-12T23:08:46Z |
| publishDate | 2023-07-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Medicine |
| spelling | doaj.art-8f1c6ac74a6640c2a2bc866e94a1aeb72023-07-18T10:03:23ZengFrontiers Media S.A.Frontiers in Medicine2296-858X2023-07-011010.3389/fmed.2023.12261261226126Rapid diagnosis of fatal Nocardia kroppenstedtii bacteremic pneumonia and empyema thoracis by next-generation sequencing: a case reportFanfan Xing0Yao Xia1Qianyun Lu2Simon K. F. Lo3Susanna K. P. Lau4Patrick C. Y. Woo5Patrick C. Y. Woo6Patrick C. Y. Woo7Department of Clinical Microbiology and Infection Control, The University of Hong Kong—Shenzhen Hospital, Shenzhen, ChinaDepartment of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong SAR, ChinaDepartment of Clinical Microbiology and Infection Control, The University of Hong Kong—Shenzhen Hospital, Shenzhen, ChinaDepartment of Clinical Microbiology and Infection Control, The University of Hong Kong—Shenzhen Hospital, Shenzhen, ChinaDepartment of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong SAR, ChinaDepartment of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong SAR, ChinaDoctoral Program in Translational Medicine and Department of Life Sciences, National Chung Hsing University, Taichung, TaiwanThe iEGG and Animal Biotechnology Research Center, National Chung Hsing University, Taichung, TaiwanNocardia species do not replicate as rapidly as other pyogenic bacteria and nocardial infections can be highly fatal, particularly in immunocompromised patients. Here, we present the first report of fatal Nocardia kroppenstedtii bacteremic pneumonia and empyema thoracis diagnosed by next-generation sequencing (NGS) using the Oxford Nanopore Technologies' MinION device. The bacterium was not identified by matrix-assisted laser desorption ionization-time of flight mass spectrometry. Due to its low equipment cost, short turn-around-time, and portable size, the Oxford Nanopore Technologies' MinION device is a useful platform for NGS in routine clinical microbiology laboratories.https://www.frontiersin.org/articles/10.3389/fmed.2023.1226126/fullNocardia kroppenstedtiiimmunocompromised patientsnext-generation sequencingOxford NanoporeMinION |
| spellingShingle | Fanfan Xing Yao Xia Qianyun Lu Simon K. F. Lo Susanna K. P. Lau Patrick C. Y. Woo Patrick C. Y. Woo Patrick C. Y. Woo Rapid diagnosis of fatal Nocardia kroppenstedtii bacteremic pneumonia and empyema thoracis by next-generation sequencing: a case report Frontiers in Medicine Nocardia kroppenstedtii immunocompromised patients next-generation sequencing Oxford Nanopore MinION |
| title | Rapid diagnosis of fatal Nocardia kroppenstedtii bacteremic pneumonia and empyema thoracis by next-generation sequencing: a case report |
| title_full | Rapid diagnosis of fatal Nocardia kroppenstedtii bacteremic pneumonia and empyema thoracis by next-generation sequencing: a case report |
| title_fullStr | Rapid diagnosis of fatal Nocardia kroppenstedtii bacteremic pneumonia and empyema thoracis by next-generation sequencing: a case report |
| title_full_unstemmed | Rapid diagnosis of fatal Nocardia kroppenstedtii bacteremic pneumonia and empyema thoracis by next-generation sequencing: a case report |
| title_short | Rapid diagnosis of fatal Nocardia kroppenstedtii bacteremic pneumonia and empyema thoracis by next-generation sequencing: a case report |
| title_sort | rapid diagnosis of fatal nocardia kroppenstedtii bacteremic pneumonia and empyema thoracis by next generation sequencing a case report |
| topic | Nocardia kroppenstedtii immunocompromised patients next-generation sequencing Oxford Nanopore MinION |
| url | https://www.frontiersin.org/articles/10.3389/fmed.2023.1226126/full |
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