Kaiying Wang1,2, Xiong Liu2, Huiying Liu3, Peihan Li1,2, Yanfeng Lin1,2, Dongdong Yin4, Lang Yang2, Jinhui Li2, Shenlong Li2, Leili Jia2, Changqing Bai3, Yongqiang Jiang5, Peng Li6, Hongbin Song7. 1. Academy of Military Medical Sciences, Academy of Military Sciences, 20 Dongda Street, Fengtai District, 100071, Beijing, China. 2. Chinese PLA Center for Disease Control and Prevention, 20 Dongda Street, Fengtai District, 100071, Beijing, China. 3. Department of Respiratory and Critical Care Medicine, the Fifth Medical Center of PLA General Hospital, Beijing, China. 4. Anhui Province Key Laboratory of Veterinary Pathobiology and Disease Control College of Animal Science and Technology, Anhui Agricultural University, Hefei, China. 5. Academy of Military Medical Sciences, Academy of Military Sciences, 20 Dongda Street, Fengtai District, 100071, Beijing, China. jiangyq@bmi.ac.cn. 6. Chinese PLA Center for Disease Control and Prevention, 20 Dongda Street, Fengtai District, 100071, Beijing, China. jiekenlee@126.com. 7. Chinese PLA Center for Disease Control and Prevention, 20 Dongda Street, Fengtai District, 100071, Beijing, China. hongbinsong@263.net.
Abstract
BACKGROUND: Chlamydia psittaci is an avian pathogen that can cause lethal human infections. Diagnosis of C. psittaci pneumonia is often delayed due to nonspecific clinical presentations and limited laboratory diagnostic techniques. RESULTS: The MinION platform established the diagnosis in the shortest time, while BGISEQ-500 generated additional in-depth sequence data that included the rapid characterization of antibiotic susceptibility. Cytopathy appeared only in cell cultures of BALF. BALF yielded a higher bacterial load than sputum or blood, and may be the most suitable clinical specimen for the genomic diagnosis of severe pneumonia. CONCLUSIONS: This study indicated that the benefits of metagenomic sequencing include rapid etiologic diagnosis of unknown infections and the provision of additional relevant information regarding antibiotic susceptibility. The continued optimization and standardization of sampling and metagenomic analysis promise to enhance the clinical utility of genomic diagnosis.
BACKGROUND:Chlamydia psittaci is an avian pathogen that can cause lethal humaninfections. Diagnosis of C. psittaci pneumonia is often delayed due to nonspecific clinical presentations and limited laboratory diagnostic techniques. RESULTS: The MinION platform established the diagnosis in the shortest time, while BGISEQ-500 generated additional in-depth sequence data that included the rapid characterization of antibiotic susceptibility. Cytopathy appeared only in cell cultures of BALF. BALF yielded a higher bacterial load than sputum or blood, and may be the most suitable clinical specimen for the genomic diagnosis of severe pneumonia. CONCLUSIONS: This study indicated that the benefits of metagenomic sequencing include rapid etiologic diagnosis of unknown infections and the provision of additional relevant information regarding antibiotic susceptibility. The continued optimization and standardization of sampling and metagenomic analysis promise to enhance the clinical utility of genomic diagnosis.
Entities:
Keywords:
Chlamydia psittaci; Metagenomic Sequencing; Pathogen Identification; Severe Pneumonia
Authors: Sarah Van Lent; Jurgen R Piet; Delphine Beeckman; Arie van der Ende; Filip Van Nieuwerburgh; Patrik Bavoil; Garry Myers; Daisy Vanrompay; Yvonne Pannekoek Journal: J Bacteriol Date: 2012-12 Impact factor: 3.490
Authors: Ahmed Babiker; Heath L Bradley; Victoria D Stittleburg; Jessica M Ingersoll; Autum Key; Colleen S Kraft; Jesse J Waggoner; Anne Piantadosi Journal: J Clin Microbiol Date: 2020-12-17 Impact factor: 5.948
Authors: Jing Zhang; Lin Gao; Chi Zhu; Jiajia Jin; Chao Song; Hang Dong; Zhenzhong Li; Zheng Wang; Yubao Chen; Zhenhua Yang; Yan Tan; Li Wang Journal: Front Cell Infect Microbiol Date: 2022-09-27 Impact factor: 6.073