Improving Pulmonary Infection Diagnosis with Metagenomic Next Generation Sequencing
| Autor: | Yi-Yi Qian, Hong-Yu Wang, Yang Zhou, Hao-Cheng Zhang, Yi-Min Zhu, Xian Zhou, Yue Ying, Peng Cui, Hong-Long Wu, Wen-Hong Zhang, Jia-Lin Jin, Jing-Wen Ai |
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| Rok vydání: | 2020 |
| Předmět: |
0301 basic medicine
Microbiology (medical) medicine.medical_specialty China diagnosis Immunology lcsh:QR1-502 Pulmonary infection pulmonary infection medicine.disease_cause Microbiology Sensitivity and Specificity Deep sequencing DNA sequencing lcsh:Microbiology law.invention 03 medical and health sciences 0302 clinical medicine Cellular and Infection Microbiology law Epidemiology respiration tract infection medicine Humans 030212 general & internal medicine metagenomic Intensive care medicine Polymerase chain reaction Phylogeny Original Research Aged next generation sequencing business.industry Respiratory infection High-Throughput Nucleotide Sequencing Pathogenic bacteria 030104 developmental biology Infectious Diseases Metagenomics business |
| Zdroj: | Frontiers in Cellular and Infection Microbiology, Vol 10 (2021) Frontiers in Cellular and Infection Microbiology |
| ISSN: | 2235-2988 |
| Popis: | Pulmonary infections are among the most common and important infectious diseases due to their high morbidity and mortality, especially in older and immunocompromised individuals. However, due to the limitations in sensitivity and the long turn-around time (TAT) of conventional diagnostic methods, pathogen detection and identification methods for pulmonary infection with greater diagnostic efficiency are urgently needed. In recent years, unbiased metagenomic next generation sequencing (mNGS) has been widely used to detect different types of infectious pathogens, and is especially useful for the detection of rare and newly emergent pathogens, showing better diagnostic performance than traditional methods. There has been limited research exploring the application of mNGS for the diagnosis of pulmonary infections. In this study we evaluated the diagnostic efficiency and clinical impact of mNGS on pulmonary infections. A total of 100 respiratory samples were collected from patients diagnosed with pulmonary infection in Shanghai, China. Conventional methods, including culture and standard polymerase chain reaction (PCR) panel analysis for respiratory tract viruses, and mNGS were used for the pathogen detection in respiratory samples. The difference in the diagnostic yield between conventional methods and mNGS demonstrated that mNGS had higher sensitivity than traditional culture for the detection of pathogenic bacteria and fungi (95% vs 54%; p95% and a sequencing depth >100× and provided reliable phylogenetic and epidemiological information. mNGS offered extra benefits, including a shorter TAT. As a complementary approach to conventional methods, mNGS could help improving the identification of respiratory infection agents. We recommend the timely use of mNGS when infection of mixed or rare pathogens is suspected, especially in immunocompromised individuals and or individuals with severe conditions that require urgent treatment. |
| Databáze: | OpenAIRE |
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