ReviewThe clinical respiratory journal2022
Advantages and challenges of metagenomic sequencing for the diagnosis of pulmonary infectious diseases.
Review in The clinical respiratory journal, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers, 1 of them a synthesis that pooled it.
What it found
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The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
41 citing papers in PubMed, 1 synthesis or guideline pooled it, 63 citations in OpenAlex.
- Tick-Borne Diseases in Sub-Saharan Africa: A Systematic Review of Pathogens, Research Focus, and Implications for Public Health.Pathogens (Basel, Switzerland) · 2024Pooled it
- Salivary Microbiome Differences in Stunted and Healthy Children: A Metagenomic Analysis.European journal of dentistry · 2026Article
- A clinical scoring system for the early identification of superinfections in patients with severe fever with thrombocytopenia syndrome: An ambispective multicentre cohort study.PLoS neglected tropical diseases · 2026Article
- Pathogens and clinical characteristics of type 2 diabetes mellitus in patients with community-acquired pneumonia via bronchoalveolar lavage fluid (BALF) metagenomic next-generation sequencing: a comparative observational study.Journal of thoracic disease · 2026Article
- Pilot Surveillance Program on Pneumonia with Public Health Risk - Shanghai Municipality, China, 2024-2025.China CDC weekly · 2026Article
- Neotropical bats as sentinels for emerging zoonoses in Central America: A case study identifying Trypanosoma cruzi in bats from Belize using metagenomic next-generation sequencing.PLoS neglected tropical diseases · 2026Article
- Comparison of short nasal swab and deep nasopharyngeal swab sampling methods to describe BRD-associated viruses and bacteria detected using a metagenomics approach optimized for virus recovery in fall-placed beef calves shortly after feedlot arrival.Veterinary and animal science · 2026Article
- Rapid Metagenomic Detection ofVeterinary sciences · 2026Article
- Characterization of the vaginal microbiome and its metabolic potential in Colombian patients with recurrent vulvovaginal candidiasis.Medical mycology · 2026Article
- Spatiotemporal distribution and diversity of pathogenicApplied and environmental microbiology · 2026Article
- BCS2.0: a capture sequencing platform for rapid differential diagnosis of bacterial infections and antimicrobial resistance.Frontiers in microbiology · 2026Article
- Development and evaluation of a hybrid capture-based NGS panel for comprehensive detection of respiratory pathogens.Scientific reports · 2025Article
- China Expert consensus on the application of metagenomic next-generation sequencing for the etiological diagnosis of infections in hematological disorders (2024).Blood science (Baltimore, Md.) · 2025Article
- The Trans-Kingdom Spectrum of Mpox-like Lesion Pustules of Suspect Patients in the Mpox Clade Ib Outbreak in Eastern Democratic Republic of the Congo.Microorganisms · 2025Article
- Article
- Psittacosis in Focus: A Review Addressing the Risks and Management Challenges in Outbreak Scenarios.Health science reports · 2025Article
- Academic and clinical perspectives of metagenome sequencing as a diagnostic tool for infectious disease: an interpretive phenomenological study.BMC infectious diseases · 2025Article
- Metagenomics: a new frontier for routine pathology testing of gastrointestinal pathogens.Gut pathogens · 2025Article
- Application of targeted next-generation sequencing for pathogens diagnosis and drug resistance prediction in bronchoalveolar lavage fluid of pulmonary infections.Frontiers in cellular and infection microbiology · 2025Article
- Evidence of multiple bacterial, viral, and parasitic infectious disease agents inInfection ecology & epidemiology · 2025Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
objectiveWe aim to familiarize the application status of metagenomic sequencing in diagnosing pulmonary infections, to compare metagenomic sequencing with traditional diagnostic methods, to conclude the advantages and limitations of metagenomic sequencing, and to provide some advice for clinical practice and some inspiration for associated researches. DATA SOURCES: The data were obtained from peer-reviewed literature, white papers, and meeting reports.
resultsThis review focused on the applications of untargeted metagenomic sequencing in lungs infected by bacteria, viruses, fungi, chlamydia pneumoniae, Mycoplasma pneumoniae, parasites, and other pathogens. Compared with conventional diagnostic methods, metagenomic sequencing is better in detecting novel, rare, and unexpected pathogens and being applied in co-infections. Meanwhile, it can also provide more comprehensive information about pathogens. However, metagenomic sequencing still has limitations. Also, the situations that should be applied in and how the results should be interpreted are discussed in this review.
conclusionMetagenomic sequencing improves efficiency to identify pathogens compared with traditional diagnostic methods and can be applied in clinical diagnosis. However, the technology of metagenomic sequencing still needs to be improved. Also, clinicians should learn more about when to use metagenomic sequencing and how to interpret its results.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.