Blood and Bronchoalveolar Lavage Fluid Metagenomic Next-Generation Sequencing in Pneumonia

Xu Chen; Shuizi Ding; Cheng Lei; Jieli Qin; Ting Guo; Danhui Yang; Min Yang; Jie Qing; Wenlong He; Min Song; Yan Zhang; Huihui Zeng; Qingwu Qin; Lizhen Yang; Yingjiao Long; Yan Chen; Bingyin Ma; Ruoyun Ouyang; Ping Chen; Hong Luo

doi:10.1155/2020/6839103

Canadian Journal of Infectious Diseases and Medical Microbiology (Jan 2020)

Blood and Bronchoalveolar Lavage Fluid Metagenomic Next-Generation Sequencing in Pneumonia

Xu Chen,
Shuizi Ding,
Cheng Lei,
Jieli Qin,
Ting Guo,
Danhui Yang,
Min Yang,
Jie Qing,
Wenlong He,
Min Song,
Yan Zhang,
Huihui Zeng,
Qingwu Qin,
Lizhen Yang,
Yingjiao Long,
Yan Chen,
Bingyin Ma,
Ruoyun Ouyang,
Ping Chen,
Hong Luo

Affiliations

Xu Chen: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Shuizi Ding: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Cheng Lei: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Jieli Qin: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Ting Guo: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Danhui Yang: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Min Yang: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Jie Qing: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Wenlong He: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Min Song: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Yan Zhang: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Huihui Zeng: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Qingwu Qin: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Lizhen Yang: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Yingjiao Long: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Yan Chen: BGI Genomics, BGI-Shenzhen, Shenzhen 518083, China
Bingyin Ma: Tianjin Medical Laboratory, BGI-Tianjin, BGI-Shenzhen, Tianjin, China
Ruoyun Ouyang: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Ping Chen: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China
Hong Luo: Department of Pulmonary and Critical Care Medicine, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, China

DOI: https://doi.org/10.1155/2020/6839103
Journal volume & issue: Vol. 2020

Abstract

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Background. Metagenomic next-generation sequencing (mNGS) has made a revolution in the mode of pathogen identification. We decided to explore the diagnostic value of blood and bronchoalveolar lavage fluid (BALF) as mNGS samples in pneumonia. Methods. We retrospectively reviewed 467 mNGS results and assessed the diagnostic performance of paired blood and BALF mNGS in 39 patients with pneumonia. Results. For bacteria and fungi, 16 patients had culture-confirmed pathogen diagnosis, while 13 patients were culture-negative. BALF mNGS was more sensitive than blood mNGS (81.3% vs. 25.0%, p=0.003), and the specificity in BALF and blood mNGS was not statistically significant different (76.9% vs. 84.6%, p=0.317). For 10 patients without culture test, treatments were changed in 2 patients. For viruses, Epstein-Barr virus was positive in blood mNGS in 9 patients. Human adenovirus was detected in both BALF and blood mNGS in 3 patients. Conclusion. Our study suggests that BALF mNGS is more sensitive than blood mNGS in detecting bacteria and fungi, but blood also has advantages to identify the pathogens of pneumonia, especially for some viruses.

Published in Canadian Journal of Infectious Diseases and Medical Microbiology

ISSN: 1712-9532 (Print); 1918-1493 (Online)
Publisher: Wiley
Country of publisher: United Kingdom
LCC subjects: Medicine: Internal medicine: Infectious and parasitic diseases; Science: Microbiology
Website: https://onlinelibrary.wiley.com/journal/9575

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