1. Clinical metagenomic sequencing for diagnosis of pulmonary tuberculosis
- Author
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Peng Han, Xin Yu, Zhi-Jian Ye, Peijun Tang, Hai-Yan Wu, Meng-Meng Chen, Cui-Lin Shi, Mei-Ying Wu, Jian-Ping Zhang, Jie Shen, Zhu-Qing Tan, and Guan-Hua Rao
- Subjects
0301 basic medicine ,Microbiology (medical) ,medicine.medical_specialty ,030106 microbiology ,Sensitivity and Specificity ,Mycobacterium tuberculosis ,03 medical and health sciences ,0302 clinical medicine ,Community-acquired pneumonia ,Pulmonary tuberculosis ,Internal medicine ,Humans ,Medicine ,030212 general & internal medicine ,Tuberculosis, Pulmonary ,GeneXpert MTB/RIF ,medicine.diagnostic_test ,biology ,business.industry ,Sputum ,medicine.disease ,biology.organism_classification ,Pneumonia ,Infectious Diseases ,Bronchoalveolar lavage ,Metagenomics ,Metagenome ,medicine.symptom ,business - Abstract
Summary Objectives: The aim of this study is to investigate the clinical usefulness of metagenomic Next-generation sequencing (mNGS) on bronchoalveolar lavage fluid (BALF) samples to discriminate pulmonary tuberculosis (PTB) from Non-TB community-acquired pneumonia (CAP) in PTB suspects. Methods: We investigate the performance of mNGS on BALF samples from 110 PTB suspects, in comparison with conventional microbiological testing (solid media culture, acid-fast bacilli staining (AFS), Xpert) of BALF or sputum samples and final clinical diagnosis. Results: We finally clinically diagnosed 48 cases of pulmonary tuberculosis patients and 62 cases of non-tuberculosis patients. Comparing to the final clinical diagnosis, mNGS produced a sensitivity of 47.92%, which was similar to that of Xpert (45.83%) and culture (46.81%), but much higher than that of AFS (29.17%) for TB diagnosis in BALF samples. Apart from detecting Mycobacterium tuberculosis, mNGS also identified mixed infections in PTB patients, including 3 fungal cases and 1 bacteria case. Meanwhile, mNGS efficiently identified 14 of 22 (63.63%) cases of non-tuberculous mycobacteria (NTM), 7 cases of fungi, 1 case of viral infection, and other common bacterial pathogens in Non-PTB group. Finally, mNGS identified 67.23% infection cases within 3 days, while the conventional methods identified 49.58% infection cases for over 90 days. Conclusion: Our data show that mNGS of BALF represents a potentially effective tool for the rapid diagnosis of PTB suspects.
- Published
- 2020