ArticleDiagnostic pathology2020
Potential utility of targeted Nanopore sequencing for improving etiologic diagnosis of bacterial and fungal respiratory infection.
Article in Diagnostic pathology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- Current status and prospects of nanopore sequencing technology in the detection of pathogenic microorganisms.Frontiers in microbiology · 2026Review
- Clinical application value of nanopore-targeted sequencing technology for primary spine infection: a mulicenter, retrospective observational study.BMC infectious diseases · 2025Observational
- Accurate and Cost-Efficient Whole Genome Sequencing of Hepatitis B Virus Using Nanopore.Journal of medical virology · 2025Article
- Nanopore targeted sequencing-based diagnosis of central nervous system infections in HIV-infected patients.Annals of clinical microbiology and antimicrobials · 2024Article
- Etiology of lower respiratory tract in pneumonia based on metagenomic next-generation sequencing: a retrospective study.Frontiers in cellular and infection microbiology · 2023Article
- Detection of Pathogens and Antimicrobial Resistance Genes in Ventilator-Associated Pneumonia by Metagenomic Next-Generation Sequencing Approach.Infection and drug resistance · 2023Article
- The utilization of nanopore targeted sequencing proves to be advantageous in the identification of infections present in deceased donors.Frontiers in microbiology · 2023Article
- Nanopore-based metagenomic sequencing for the rapid and precise detection of pathogens among immunocompromised cancer patients with suspected infections.Frontiers in cellular and infection microbiology · 2022Article
- The application of targeted nanopore sequencing for the identification of pathogens and resistance genes in lower respiratory tract infections.Frontiers in microbiology · 2022Article
- Improving the Diagnosis of Bacterial Infections: Evaluation of 16S rRNA Nanopore Metagenomics in Culture-Negative Samples.Frontiers in microbiology · 2022Article
- Rapid identification of pathogens associated with ventilator-associated pneumonia by Nanopore sequencing.Respiratory research · 2021Article
- Article
- The impact of smoking different tobacco types on the subgingival microbiome and periodontal health: a pilot study.Scientific reports · 2021Article
- Long-Reads-Based Metagenomics in Clinical Diagnosis With a Special Focus on Fungal Infections.Frontiers in microbiology · 2021Review
- The Applications of Nanopore Sequencing Technology in Pathogenic Microorganism Detection.The Canadian journal of infectious diseases & medical microbiology = Journal canadien des maladies infectieuses et de la microbiologie medicale · 2020Review
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundDiversified etiology of lower respiratory tract infection renders diagnosis challenging. The mainstay microbial culture is time-consuming and constrained by variable growth requirements. In this study, we explored the use of Nanopore sequencing as a supplementary tool to alleviate this diagnostic bottleneck.
methodsWe developed a targeted Nanopore method based on amplification of bacterial 16S rRNA gene and fungal internal transcribed spacer region. The performance was compared with routine infectious disease workups on 43 respiratory specimens.
resultsNanopore successfully identified majority of microbes (47/54, 87.04%) and 7 possible pathogens not detected by routine workups, which were attributable to the content of microbiological investigations (n = 5) and negative culture (n = 2). The average sequencing time for first target reads was 7 min (1-43 min) plus 5 h of pre-sequencing preparation.
conclusionsThe Nanopore method described here was rapid, economical and hypothesis-free, which might provide valuable hints to further microbiological follow-up for opportunistic pathogens missed or not detectable by conventional tests.
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