ORIGINAL RESEARCH article
Front. Cell. Infect. Microbiol.
Sec. Clinical and Diagnostic Microbiology and Immunology
Volume 15 - 2025 | doi: 10.3389/fcimb.2025.1683489
Utilization of Targeted Sequencing for Etiological Diagnosis of Pulmonary Infections in Different Samples
Provisionally accepted
- Xinjiang Uygur Autonomous Region Sixth People's Hospital, Xinjiang Uygur Autonomous Region, China
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Objective: This study aims to assess the diagnostic value of targeted next-generation sequencing (tNGS) for pathogen identification from multiple sample types in patients with pulmonary infection, and to provide an alternative diagnostic method for clinical practice. Methods: Clinical data were collected from patients with suspected of pulmonary infection at the Thoracic Surgery Center of the Xinjiang Uygur Autonomous Region Sixth People's Hospital. Samples, including bronchial lavage fluid (BALF), fresh tissue, pleural effusion, and sputum, were collected by attending physicians based on the patients' clinical conditions. A total of 166 patients were enrolled, and their samples were subjected to pathogen detection using both tNGS and traditional pathogen detection methods (TPDs). The pathogen detection performance of tNGS was then compared with that of TPDs. Result: The positive detection rate of tNGS was significantly higher than that of TPDs (81.33% vs. 32.53%, p < 0.001). Among the 166 samples, tNGS identified a total of 65 pathogens, whereas TPDs identified only 14 (11 bacterial species, 2 fungal species, and Mycoplasma pneumoniae). TPDs primarily identified bacteria (including Mycobacterium tuberculosis) and fungi, and were unable to detect viruses. In contrast, tNGS revealed a broader spectrum of pathogens, including 35 bacterial species, 10 fungal species, 18 viral species, as well as Mycoplasma pneumoniae and Chlamydia pneumoniae. Notably, tNGS demonstrated greater efficiency in detecting mixed infections and further identified 16 antibiotic resistance genes (ARGs). Conclusion: tNGS exhibits higher sensitivity, a broader pathogen detection spectrum, and enhanced capability to identify mixed infections, along with the ability to detect ARGs. These advantages establish tNGS as a promising and reliable diagnostic modality for patients with pulmonary infections.
Keywords: Targeted next-generation sequencing, pulmonary infection, Pathogen Detection, traditional pathogen detection methods, diagnostic value
Received: 11 Aug 2025; Accepted: 10 Oct 2025.
Copyright: © 2025 Guan, Gufur, Xu, Chen, Yu, Fu, Zhou and Nurmamat. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
* Correspondence: Abla Nurmamat, 18195965225@163.com
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