Yin XW, Mao ZD, Zhang Q, Ou QX, Liu J, Shao Y, Liu ZG. Clinical metagenomic sequencing for rapid diagnosis of pneumonia and meningitis caused by Chlamydia psittaci. World J Clin Cases 2021; 9(26): 7693-7703 [PMID: 34621820 DOI: 10.12998/wjcc.v9.i26.7693]
Corresponding Author of This Article
Zhi-Guang Liu, MD, Doctor, Department of Respiratory and Critical Care Medicine, Changzhou Second People’s Hospital Affiliated to Nanjing Medical University, No. 68 Gehu Road, Wujin District, Changzhou 213164, Jiangsu Province, China. 545485079@qq.com
Research Domain of This Article
Infectious Diseases
Article-Type of This Article
Retrospective Study
Open-Access Policy of This Article
This article is an open-access article which was selected by an in-house editor and fully peer-reviewed by external reviewers. It is distributed in accordance with the Creative Commons Attribution Non Commercial (CC BY-NC 4.0) license, which permits others to distribute, remix, adapt, build upon this work non-commercially, and license their derivative works on different terms, provided the original work is properly cited and the use is non-commercial. See: http://creativecommons.org/licenses/by-nc/4.0/
World J Clin Cases. Sep 16, 2021; 9(26): 7693-7703 Published online Sep 16, 2021. doi: 10.12998/wjcc.v9.i26.7693
Clinical metagenomic sequencing for rapid diagnosis of pneumonia and meningitis caused by Chlamydia psittaci
Xiao-Wei Yin, Zheng-Dao Mao, Qian Zhang, Qiu-Xiang Ou, Jia Liu, Yang Shao, Zhi-Guang Liu
Xiao-Wei Yin, Zheng-Dao Mao, Qian Zhang, Zhi-Guang Liu, Department of Respiratory and Critical Care Medicine, Changzhou Second People’s Hospital Affiliated to Nanjing Medical University, Changzhou 213164, Jiangsu Province, China
Qiu-Xiang Ou, Yang Shao, Research & Development, Nanjing Geneseeq Technology Inc., Nanjing 210032, Jiangsu Province, China
Jia Liu, Research & Development, Dinfectome Inc., Nanjing 213164, Jiangsu Province, China
Yang Shao, School of Public Health, Nanjing Medical University, Nanjing 213164, Jiangsu Province, China
Author contributions: Yin XW contributed to the study concept and design and drafting of the manuscript; Mao ZD and Zhang Q contributed to the acquisition of data; Ou QX and Liu J contributed to the interpretation of data and drafting of the manuscript; Shao Y contributed to critical revision of the manuscript; Liu ZG supervised the study; all authors have read and approved the final manuscript.
Institutional review board statement: This study was reviewed and approved by the Ethics Committee of Changzhou Second People’s Hospital affiliated to Nanjing Medical University, China (approval No. 2020KY268-01).
Informed consent statement: All study participants provided informed consent prior to sample collection according to the institutional guidelines and gave permissions to the use of their clinical data and accompanying images.
Conflict-of-interest statement: Ou QX and Shao Y are employees of Nanjing Geneseeq Technology Inc; Liu J is an employee of Dinfectome Inc. The remaining authors have nothing to disclose.
Data sharing statement: The authors confirm that the data supporting the findings of this study are available within the article.
Open-Access: This article is an open-access article that was selected by an in-house editor and fully peer-reviewed by external reviewers. It is distributed in accordance with the Creative Commons Attribution NonCommercial (CC BY-NC 4.0) license, which permits others to distribute, remix, adapt, build upon this work non-commercially, and license their derivative works on different terms, provided the original work is properly cited and the use is non-commercial. See: http://creativecommons.org/Licenses/by-nc/4.0/
Corresponding author: Zhi-Guang Liu, MD, Doctor, Department of Respiratory and Critical Care Medicine, Changzhou Second People’s Hospital Affiliated to Nanjing Medical University, No. 68 Gehu Road, Wujin District, Changzhou 213164, Jiangsu Province, China. 545485079@qq.com
Received: February 18, 2021 Peer-review started: February 18, 2021 First decision: April 13, 2021 Revised: April 15, 2021 Accepted: July 2, 2021 Article in press: July 2, 2021 Published online: September 16, 2021 Processing time: 197 Days and 4.8 Hours
ARTICLE HIGHLIGHTS
Research background
Chlamydia psittaci (C. psittaci) is a gram-negative intracellular parasitic pathogenic bacterium that can infect avian and mammalian hosts, including humans. The detection of C. psittaci infections typically relies on traditional antigen-based immunoassays or serological testing that often lack sensitivity and/or specificity.
Research motivation
This study provides evidence to illustrate metagenomic next generation sequencing (mNGS) as a promising clinical-microbiology tool for pathogen detection.
Research objectives
This study aimed to demonstrate that mNGS represents a valuable tool for rapid, sensitive, and accurate pathogen detection including C. psittaci infections.
Research methods
Four cases of psittacosis pneumonia and one case of pediatric psittacosis meningitis were diagnosed using mNGS. Patients’ clinical characteristics, manifestations, and treatment histories were retrospectively evaluated.
Research results
All five patients had a history of exposure to wild (psittacine or other birds) or domesticated birds (chickens). All patients had a high fever and three of them experienced organ insufficiency during the disease. The laboratory data showed normal to slightly increased leucocyte and neutrophil counts, and elevated procalcitonin levels in all five cases, and very high C-reactive protein levels in psittacosis pneumonia patients. mNGS identified a potential pathogen, C. psittaci, in patients’ bronchoalveolar lavage fluid or cerebrospinal fluid. Computed tomography revealed lung air-space consolidation, pleural thickening, and effusion fluid buildup in psittacosis pneumonia cases, and an arachnoid cyst in the right temporal lobe of the pediatric psittacosis meningitis patient. All patients experienced complete recovery following the administration of targeted anti-Chlamydia therapy.
Research conclusions
Our data not only reinforce that mNGS represents a valuable tool for rapid, sensitive, and accurate pathogen detection, including C. psittaci, but also raise public health concerns over C. psittaci infections.
Research perspectives
Despite the complexity of different infectious diseases, mNGS technology can provide rapid and comprehensive diagnoses. The application of mNGS in disease diagnosis can be further broadened by coupling with machine learning algorithms in various aspects including the identification of suspected drug resistance genes.
