The Diagnostic Value of Metagenomic Next-Generation Sequencing in Lower Respiratory Tract Infection

被引:87
作者
Zheng, Yan [1 ]
Qiu, Xiaojian [1 ]
Wang, Ting [1 ]
Zhang, Jie [1 ]
机构
[1] Capital Med Univ, Beijing Tian Tan Hosp, Dept Resp & Critical Care, Beijing, Peoples R China
关键词
metagenome; next-generation sequencing technology; lower respiratory tract infection; sampling methods; diagnostic value; COMMUNITY-ACQUIRED PNEUMONIA; RAPID PATHOGEN IDENTIFICATION; CLINICAL UTILITY; BACTERIAL; VIRUSES; FUNGAL; IMMUNODEFICIENCY; TUBERCULOSIS; PERSISTENCE; RHINOVIRUS;
D O I
10.3389/fcimb.2021.694756
中图分类号
R392 [医学免疫学]; Q939.91 [免疫学];
学科分类号
100102 ;
摘要
Lower respiratory tract infections are associated with high morbidity and mortality and significant clinical harm. Due to the limited ability of traditional pathogen detection methods, anti-infective therapy is mostly empirical. Therefore, it is difficult to adopt targeted drug therapy. In recent years, metagenomic next-generation sequencing (mNGS) technology has provided a promising means for pathogen-specific diagnosis and updated the diagnostic strategy for lower respiratory tract infections. This article reviews the diagnostic value of mNGS for lower respiratory tract infections, the impact of different sampling methods on the detection efficiency of mNGS, and current technical difficulties in the clinical application of mNGS.
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页数:10
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共 104 条
[1]   Blood Cultures for Community-Acquired Pneumonia: Are They Worthy of Two Quality Measures? A Systematic Review [J].
Afshar, Nima ;
Tabas, Jeffrey ;
Afshar, Kia ;
Silbergleit, Robert .
JOURNAL OF HOSPITAL MEDICINE, 2009, 4 (02) :112-123
[2]  
Afshinnekoo Ebrahim, 2017, J Biomol Tech, V28, P40, DOI 10.7171/jbt.17-2801-007
[3]   A virus discovery method incorporating DNase treatment and its application to the identification of two bovine parvovirus species [J].
Allander, T ;
Emerson, SU ;
Engle, RE ;
Purcell, RH ;
Bukh, J .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2001, 98 (20) :11609-11614
[4]   Use of Shotgun Metagenome Sequencing To Detect Fecal Colonization with Multidrug-Resistant Bacteria in Children [J].
Andersen, Heidi ;
Connolly, Natalia ;
Bangar, Hansraj ;
Staat, Mary ;
Mortensen, Joel ;
Deburger, Barbara ;
Haslam, David B. .
JOURNAL OF CLINICAL MICROBIOLOGY, 2016, 54 (07) :1804-1813
[5]   DeepARG: a deep learning approach for predicting antibiotic resistance genes from metagenomic data [J].
Arango-Argoty, Gustavo ;
Garner, Emily ;
Prudent, Amy ;
Heath, Lenwood S. ;
Vikesland, Peter ;
Zhang, Liqing .
MICROBIOME, 2018, 6
[6]   Diagnosis of severe respiratory infections in immunocompromised patients [J].
Azoulay, Elie ;
Russell, Lene ;
Van de Louw, Andry ;
Metaxa, Victoria ;
Bauer, Philippe ;
Povoa, Pedro ;
Garnacho Montero, Jose ;
Loeches, Ignacio Martin ;
Mehta, Sangeeta ;
Puxty, Kathryn ;
Schellongowski, Peter ;
Rello, Jordi ;
Mokart, Djamel ;
Lemiale, Virginie ;
Mirouse, Adrien .
INTENSIVE CARE MEDICINE, 2020, 46 (02) :298-314
[7]  
Bialek R, 2002, AM J CLIN PATHOL, V117, P597
[8]   Pavian: interactive analysis of metagenomics data for microbiome studies and pathogen identification [J].
Breitwieser, Florian P. ;
Salzberg, Steven L. .
BIOINFORMATICS, 2020, 36 (04) :1303-1304
[9]   Analysis of the virus population present in equine faeces indicates the presence of hundreds of uncharacterized virus genomes [J].
Cann, AJ ;
Fandrich, SE ;
Heaphy, S .
VIRUS GENES, 2005, 30 (02) :151-156
[10]   Review of cytomegalovirus seroprevalence and demographic characteristics associated with infection [J].
Cannon, Michael J. ;
Schmid, D. Scott ;
Hyde, Terri B. .
REVIEWS IN MEDICAL VIROLOGY, 2010, 20 (04) :202-213