A preliminary evaluation of targeted nanopore sequencing technology for the detection of Mycobacterium tuberculosis in bronchoalveolar lavage fluid specimens
ObjectiveTo evaluate the efficacy of targeted nanopore sequencing technology for the detection of Mycobacterium tuberculosis(M.tb.) in bronchoalveolar lavage fluid(BALF) specimens.MethodsA prospective study was used to select 58 patients with suspected pulmonary tuberculosis(PTB) at Henan Chest Hosp...
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Frontiers Media S.A.
2023-11-01
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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.2023.1107990/full |
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| author | Xiaoke Sun Xiaoke Sun Jingchao Song Jingchao Song Xia Leng Xia Leng Fuli Li Fuli Li Haojie Wang Haojie Wang Jiaqian He Jiaqian He Wenhua Zhai Zhenjing Wang Zhenjing Wang Qingqing Wu Qingqing Wu Zheng Li Zheng Li Xianglin Ruan Xianglin Ruan |
| author_facet | Xiaoke Sun Xiaoke Sun Jingchao Song Jingchao Song Xia Leng Xia Leng Fuli Li Fuli Li Haojie Wang Haojie Wang Jiaqian He Jiaqian He Wenhua Zhai Zhenjing Wang Zhenjing Wang Qingqing Wu Qingqing Wu Zheng Li Zheng Li Xianglin Ruan Xianglin Ruan |
| author_sort | Xiaoke Sun |
| collection | DOAJ |
| description | ObjectiveTo evaluate the efficacy of targeted nanopore sequencing technology for the detection of Mycobacterium tuberculosis(M.tb.) in bronchoalveolar lavage fluid(BALF) specimens.MethodsA prospective study was used to select 58 patients with suspected pulmonary tuberculosis(PTB) at Henan Chest Hospital from January to October 2022 for bronchoscopy, and BALF specimens were subjected to acid-fast bacilli(AFB) smear, Mycobacterium tuberculosis MGIT960 liquid culture, Gene Xpert MTB/RIF (Xpert MTB/RIF) and targeted nanopore sequencing (TNS) for the detection of M.tb., comparing the differences in the positive rates of the four methods for the detection of patients with different classifications.ResultsAmong 58 patients with suspected pulmonary tuberculosis, there were 48 patients with a final diagnosis of pulmonary tuberculosis. Using the clinical composite diagnosis as the reference gold standard, the sensitivity of AFB smear were 27.1% (95% CI: 15.3-41.8); for M.tb culture were 39.6% (95% CI: 25.8-54.7); for Xpert MTB/RIF were 56.2% (95% CI: 41.2-70.5); for TNS were 89.6% (95% CI: 77.3-96.5). Using BALF specimens Xpert MTB/RIF and/or M.tb. culture as the reference standard, TNS showed 100% (30/30) sensitivity. The sensitivity of NGS for pulmonary tuberculosis diagnosis was significantly higher than Xpert MTB/RIF, M.tb. culture, and AFB smear. Besides, P values of <0.05 were considered statistically significant.ConclusionUsing a clinical composite reference standard as a reference gold standard, TNS has the highest sensitivity and consistency with clinical diagnosis, and can rapidly and efficiently detect PTB in BALF specimens, which can aid to improve the early diagnosis of suspected tuberculosis patients. |
| first_indexed | 2024-03-11T10:53:24Z |
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| id | doaj.art-a7ad88dbe04e401c88c3dea8622e867d |
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| language | English |
| last_indexed | 2024-03-11T10:53:24Z |
| publishDate | 2023-11-01 |
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| series | Frontiers in Cellular and Infection Microbiology |
| spelling | doaj.art-a7ad88dbe04e401c88c3dea8622e867d2023-11-13T12:36:59ZengFrontiers Media S.A.Frontiers in Cellular and Infection Microbiology2235-29882023-11-011310.3389/fcimb.2023.11079901107990A preliminary evaluation of targeted nanopore sequencing technology for the detection of Mycobacterium tuberculosis in bronchoalveolar lavage fluid specimensXiaoke Sun0Xiaoke Sun1Jingchao Song2Jingchao Song3Xia Leng4Xia Leng5Fuli Li6Fuli Li7Haojie Wang8Haojie Wang9Jiaqian He10Jiaqian He11Wenhua Zhai12Zhenjing Wang13Zhenjing Wang14Qingqing Wu15Qingqing Wu16Zheng Li17Zheng Li18Xianglin Ruan19Xianglin Ruan20Department of Tuberculosis, Henan Provincial Chest Hospital, Zhengzhou University, Zhengzhou, Henan, ChinaTuberculosis Clinical Research Center of Henan Province, Zhengzhou, Henan, ChinaTuberculosis Clinical Research Center of Henan Province, Zhengzhou, Henan, ChinaThoracic Surgery Department, Department of Cerebral Surgery, Henan Provincial Chest Hospital, Zhengzhou University, Zhengzhou, ChinaDepartment of Tuberculosis, Henan Provincial Chest Hospital, Zhengzhou University, Zhengzhou, Henan, ChinaTuberculosis Clinical Research Center of Henan Province, Zhengzhou, Henan, ChinaDepartment of Tuberculosis, Henan Provincial Chest Hospital, Zhengzhou University, Zhengzhou, Henan, ChinaTuberculosis Clinical Research Center of Henan Province, Zhengzhou, Henan, ChinaDepartment of Tuberculosis, Henan Provincial Chest Hospital, Zhengzhou University, Zhengzhou, Henan, ChinaTuberculosis Clinical Research Center of Henan Province, Zhengzhou, Henan, ChinaDepartment of Tuberculosis, Henan Provincial Chest Hospital, Zhengzhou University, Zhengzhou, Henan, ChinaTuberculosis Clinical Research Center of Henan Province, Zhengzhou, Henan, ChinaDepartment of Infectious Diseases, Xixian People's Hospital, Xixian, Xinyang, ChinaTuberculosis Clinical Research Center of Henan Province, Zhengzhou, Henan, ChinaDepartment of Endoscope Clinic, Henan Provincial Chest Hospital, Zhengzhou University, Zhengzhou, Henan, ChinaTuberculosis Clinical Research Center of Henan Province, Zhengzhou, Henan, ChinaDepartment of Endoscope Clinic, Henan Provincial Chest Hospital, Zhengzhou University, Zhengzhou, Henan, ChinaTuberculosis Clinical Research Center of Henan Province, Zhengzhou, Henan, ChinaDepartment of Laboratory Medicine, Henan Provincial Chest Hospital, Zhengzhou University, Zhengzhou, Henan, ChinaDepartment of Tuberculosis, Henan Provincial Chest Hospital, Zhengzhou University, Zhengzhou, Henan, ChinaTuberculosis Clinical Research Center of Henan Province, Zhengzhou, Henan, ChinaObjectiveTo evaluate the efficacy of targeted nanopore sequencing technology for the detection of Mycobacterium tuberculosis(M.tb.) in bronchoalveolar lavage fluid(BALF) specimens.MethodsA prospective study was used to select 58 patients with suspected pulmonary tuberculosis(PTB) at Henan Chest Hospital from January to October 2022 for bronchoscopy, and BALF specimens were subjected to acid-fast bacilli(AFB) smear, Mycobacterium tuberculosis MGIT960 liquid culture, Gene Xpert MTB/RIF (Xpert MTB/RIF) and targeted nanopore sequencing (TNS) for the detection of M.tb., comparing the differences in the positive rates of the four methods for the detection of patients with different classifications.ResultsAmong 58 patients with suspected pulmonary tuberculosis, there were 48 patients with a final diagnosis of pulmonary tuberculosis. Using the clinical composite diagnosis as the reference gold standard, the sensitivity of AFB smear were 27.1% (95% CI: 15.3-41.8); for M.tb culture were 39.6% (95% CI: 25.8-54.7); for Xpert MTB/RIF were 56.2% (95% CI: 41.2-70.5); for TNS were 89.6% (95% CI: 77.3-96.5). Using BALF specimens Xpert MTB/RIF and/or M.tb. culture as the reference standard, TNS showed 100% (30/30) sensitivity. The sensitivity of NGS for pulmonary tuberculosis diagnosis was significantly higher than Xpert MTB/RIF, M.tb. culture, and AFB smear. Besides, P values of <0.05 were considered statistically significant.ConclusionUsing a clinical composite reference standard as a reference gold standard, TNS has the highest sensitivity and consistency with clinical diagnosis, and can rapidly and efficiently detect PTB in BALF specimens, which can aid to improve the early diagnosis of suspected tuberculosis patients.https://www.frontiersin.org/articles/10.3389/fcimb.2023.1107990/fulltargeted nanopore sequencingMycobacterium tuberculosisbronchoalveolar lavage fluiddetectionpulmonary tuberculosis |
| spellingShingle | Xiaoke Sun Xiaoke Sun Jingchao Song Jingchao Song Xia Leng Xia Leng Fuli Li Fuli Li Haojie Wang Haojie Wang Jiaqian He Jiaqian He Wenhua Zhai Zhenjing Wang Zhenjing Wang Qingqing Wu Qingqing Wu Zheng Li Zheng Li Xianglin Ruan Xianglin Ruan A preliminary evaluation of targeted nanopore sequencing technology for the detection of Mycobacterium tuberculosis in bronchoalveolar lavage fluid specimens Frontiers in Cellular and Infection Microbiology targeted nanopore sequencing Mycobacterium tuberculosis bronchoalveolar lavage fluid detection pulmonary tuberculosis |
| title | A preliminary evaluation of targeted nanopore sequencing technology for the detection of Mycobacterium tuberculosis in bronchoalveolar lavage fluid specimens |
| title_full | A preliminary evaluation of targeted nanopore sequencing technology for the detection of Mycobacterium tuberculosis in bronchoalveolar lavage fluid specimens |
| title_fullStr | A preliminary evaluation of targeted nanopore sequencing technology for the detection of Mycobacterium tuberculosis in bronchoalveolar lavage fluid specimens |
| title_full_unstemmed | A preliminary evaluation of targeted nanopore sequencing technology for the detection of Mycobacterium tuberculosis in bronchoalveolar lavage fluid specimens |
| title_short | A preliminary evaluation of targeted nanopore sequencing technology for the detection of Mycobacterium tuberculosis in bronchoalveolar lavage fluid specimens |
| title_sort | preliminary evaluation of targeted nanopore sequencing technology for the detection of mycobacterium tuberculosis in bronchoalveolar lavage fluid specimens |
| topic | targeted nanopore sequencing Mycobacterium tuberculosis bronchoalveolar lavage fluid detection pulmonary tuberculosis |
| url | https://www.frontiersin.org/articles/10.3389/fcimb.2023.1107990/full |
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