Blood metagenomics next-generation sequencing has advantages in detecting difficult-to-cultivate pathogens, and mixed infections: results from a real-world cohort
BackgroundBlood is a common sample source for metagenomics next-generation sequencing (mNGS) in clinical practice. In this study, we aimed to detect the diagnostic value of blood mNGS in a large real-world cohorts.MethodsBlood mNGS results of 1,046 cases were collected and analyzed along with other...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2023-12-01
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| Series: | Frontiers in Cellular and Infection Microbiology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fcimb.2023.1268281/full |
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| author | Mengjia Qian Chang Li Miaomiao Zhang Yanxia Zhan Bijun Zhu Lingyan Wang Qi Shen Lei Yue Hao Chen Yunfeng Cheng Yunfeng Cheng Yunfeng Cheng Yunfeng Cheng |
| author_facet | Mengjia Qian Chang Li Miaomiao Zhang Yanxia Zhan Bijun Zhu Lingyan Wang Qi Shen Lei Yue Hao Chen Yunfeng Cheng Yunfeng Cheng Yunfeng Cheng Yunfeng Cheng |
| author_sort | Mengjia Qian |
| collection | DOAJ |
| description | BackgroundBlood is a common sample source for metagenomics next-generation sequencing (mNGS) in clinical practice. In this study, we aimed to detect the diagnostic value of blood mNGS in a large real-world cohorts.MethodsBlood mNGS results of 1,046 cases were collected and analyzed along with other laboratory tests. The capabilities and accuracy of blood mNGS were compared with other conventional approaches.ResultsBoth the surgical department and the intensive care unit had a positive rate of over 80% in blood mNGS. The positive rate of mNGS was consistent with clinical manifestations. Among the 739 positive samples, 532 were detected as mixed infections. Compared to pathogen cultures, the negative predictive value of blood mNGS for bacteria and fungi detection was 98.9% [95%CI, 96.9%-100%], with an accuracy rate of 89.39%. When compared with polymer chain reaction, the consistency rates of blood mNGS for virus identification were remarkably high.ConclusionsBlood mNGS have significant advantages in detecting difficult-to-cultivate bacteria or fungi, viruses, and mixed infections, which benefits patients of surgery department the most. Samples other than blood are recommended for mNGS test if a specific infection is suspected. The reporting threshold and reporting criteria of blood mNGS need to be optimized. |
| first_indexed | 2024-03-08T21:33:44Z |
| format | Article |
| id | doaj.art-f69794f134ed4e259c0c9048b60ab3b9 |
| institution | Directory Open Access Journal |
| issn | 2235-2988 |
| language | English |
| last_indexed | 2024-03-08T21:33:44Z |
| publishDate | 2023-12-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Cellular and Infection Microbiology |
| spelling | doaj.art-f69794f134ed4e259c0c9048b60ab3b92023-12-21T04:46:19ZengFrontiers Media S.A.Frontiers in Cellular and Infection Microbiology2235-29882023-12-011310.3389/fcimb.2023.12682811268281Blood metagenomics next-generation sequencing has advantages in detecting difficult-to-cultivate pathogens, and mixed infections: results from a real-world cohortMengjia Qian0Chang Li1Miaomiao Zhang2Yanxia Zhan3Bijun Zhu4Lingyan Wang5Qi Shen6Lei Yue7Hao Chen8Yunfeng Cheng9Yunfeng Cheng10Yunfeng Cheng11Yunfeng Cheng12Institute of Clinical Science, Zhongshan Hospital, Fudan University, Shanghai, ChinaInstitute of Clinical Science, Zhongshan Hospital, Fudan University, Shanghai, ChinaInstitute of Clinical Science, Zhongshan Hospital, Fudan University, Shanghai, ChinaDepartment of Hematology, Zhongshan Hospital, Fudan University, Shanghai, ChinaInstitute of Clinical Science, Zhongshan Hospital, Fudan University, Shanghai, ChinaInstitute of Clinical Science, Zhongshan Hospital, Fudan University, Shanghai, ChinaInstitute of Clinical Science, Zhongshan Hospital, Fudan University, Shanghai, ChinaInstitute of Clinical Science, Zhongshan Hospital, Fudan University, Shanghai, ChinaDepartment of Thoracic Surgery, Zhongshan-Xuhui Hospital, Fudan University, Shanghai, ChinaInstitute of Clinical Science, Zhongshan Hospital, Fudan University, Shanghai, ChinaDepartment of Hematology, Zhongshan Hospital, Fudan University, Shanghai, ChinaCenter for Tumor Diagnosis & Therapy, Jinshan Hospital, Fudan University, Shanghai, ChinaDepartment of Hematology, Zhongshan Hospital Qingpu Branch, Fudan University, Shanghai, ChinaBackgroundBlood is a common sample source for metagenomics next-generation sequencing (mNGS) in clinical practice. In this study, we aimed to detect the diagnostic value of blood mNGS in a large real-world cohorts.MethodsBlood mNGS results of 1,046 cases were collected and analyzed along with other laboratory tests. The capabilities and accuracy of blood mNGS were compared with other conventional approaches.ResultsBoth the surgical department and the intensive care unit had a positive rate of over 80% in blood mNGS. The positive rate of mNGS was consistent with clinical manifestations. Among the 739 positive samples, 532 were detected as mixed infections. Compared to pathogen cultures, the negative predictive value of blood mNGS for bacteria and fungi detection was 98.9% [95%CI, 96.9%-100%], with an accuracy rate of 89.39%. When compared with polymer chain reaction, the consistency rates of blood mNGS for virus identification were remarkably high.ConclusionsBlood mNGS have significant advantages in detecting difficult-to-cultivate bacteria or fungi, viruses, and mixed infections, which benefits patients of surgery department the most. Samples other than blood are recommended for mNGS test if a specific infection is suspected. The reporting threshold and reporting criteria of blood mNGS need to be optimized.https://www.frontiersin.org/articles/10.3389/fcimb.2023.1268281/fullmetagenomics next-generation sequencing (mNGS)diagnosisinfectionbloodreal-worldlarge cohort |
| spellingShingle | Mengjia Qian Chang Li Miaomiao Zhang Yanxia Zhan Bijun Zhu Lingyan Wang Qi Shen Lei Yue Hao Chen Yunfeng Cheng Yunfeng Cheng Yunfeng Cheng Yunfeng Cheng Blood metagenomics next-generation sequencing has advantages in detecting difficult-to-cultivate pathogens, and mixed infections: results from a real-world cohort Frontiers in Cellular and Infection Microbiology metagenomics next-generation sequencing (mNGS) diagnosis infection blood real-world large cohort |
| title | Blood metagenomics next-generation sequencing has advantages in detecting difficult-to-cultivate pathogens, and mixed infections: results from a real-world cohort |
| title_full | Blood metagenomics next-generation sequencing has advantages in detecting difficult-to-cultivate pathogens, and mixed infections: results from a real-world cohort |
| title_fullStr | Blood metagenomics next-generation sequencing has advantages in detecting difficult-to-cultivate pathogens, and mixed infections: results from a real-world cohort |
| title_full_unstemmed | Blood metagenomics next-generation sequencing has advantages in detecting difficult-to-cultivate pathogens, and mixed infections: results from a real-world cohort |
| title_short | Blood metagenomics next-generation sequencing has advantages in detecting difficult-to-cultivate pathogens, and mixed infections: results from a real-world cohort |
| title_sort | blood metagenomics next generation sequencing has advantages in detecting difficult to cultivate pathogens and mixed infections results from a real world cohort |
| topic | metagenomics next-generation sequencing (mNGS) diagnosis infection blood real-world large cohort |
| url | https://www.frontiersin.org/articles/10.3389/fcimb.2023.1268281/full |
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