Diagnosis of lower respiratory tract infections using nanopore sequencing

T Charalampous, H Richardson, G Kay, R Baldan… - 2018 - Eur Respiratory Soc
Background: According to WHO, lower respiratory tract infections (LRTI) are the deadliest
communicable disease globally, causing 3.2 million deaths annually. Culture is the gold …

Rapid diagnosis of lower respiratory infection using nanopore-based clinical metagenomics

T Charalampous, H Richardson, GL Kay, R Baldan… - BioRxiv, 2018 - biorxiv.org
Lower respiratory infections (LRIs) accounted for three million deaths worldwide in 2016, the
leading infectious cause of mortality. The “gold standard” for investigation of bacterial LRIs is …

The application of targeted nanopore sequencing for the identification of pathogens and resistance genes in lower respiratory tract infections

H Zhang, M Wang, X Han, T Wang, Y Lei… - Frontiers in …, 2022 - frontiersin.org
Objectives Lower respiratory tract infections (LRTIs) are one of the causes of mortality
among infectious diseases. Microbial cultures commonly used in clinical practice are time …

Nanopore-based metagenomic sequencing in respiratory tract infection: a developing diagnostic platform

R Chapman, L Jones, A D'Angelo, A Suliman, M Anwar… - Lung, 2023 - Springer
Respiratory tract infection (RTI) remains a significant cause of morbidity and mortality across
the globe. The optimal management of RTI relies upon timely pathogen identification via …

Nanopore metagenomics enables rapid clinical diagnosis of bacterial lower respiratory infection

T Charalampous, GL Kay, H Richardson, A Aydin… - Nature …, 2019 - nature.com
The gold standard for clinical diagnosis of bacterial lower respiratory infections (LRIs) is
culture, which has poor sensitivity and is too slow to guide early, targeted antimicrobial …

Potential utility of targeted Nanopore sequencing for improving etiologic diagnosis of bacterial and fungal respiratory infection

WS Chan, CH Au, SM Leung, DN Ho, EYL Wong… - Diagnostic …, 2020 - Springer
Background Diversified etiology of lower respiratory tract infection renders diagnosis
challenging. The mainstay microbial culture is time-consuming and constrained by variable …

Comparison of third-generation sequencing technology and traditional microbiological detection in pathogen diagnosis of lower respiratory tract infection

W Luo, Y He, J Xu, S Zhang, C Li, J Lv… - Discovery …, 2023 - pubmed.ncbi.nlm.nih.gov
Background It is common to obtain a low detection rate and unsatisfactory detection results
in complex infection or rare pathogen detection. This retrospective study aimed to illustrate …

A dual-process of targeted and unbiased Nanopore sequencing enables accurate and rapid diagnosis of lower respiratory infections

Y Guo, Z Li, L Li, S Li, L Sun, X Yang, Y Dai, J Gu… - …, 2023 - thelancet.com
Background Nanopore metagenomics has been used for infectious disease diagnosis for
bacterial pathogens. However, this technology currently lacks comprehensive performance …

Clinical application of nanopore-targeted sequencing technology in bronchoalveolar lavage fluid from patients with pulmonary infections

J Ye, K Huang, Y Xu, N Chen, Y Tu, J Huang… - Microbiology …, 2024 - Am Soc Microbiol
The rapid and effective identification of pathogens in patients with pulmonary infections has
posed a persistent challenge in medicine, with conventional microbiological tests (CMTs) …

Combined nanopore adaptive sequencing and enzyme-based host depletion efficiently enriched microbial sequences and identified missing respiratory pathogens

M Gan, B Wu, G Yan, G Li, L Sun, G Lu, W Zhou - BMC genomics, 2021 - Springer
Background Enzyme-based host depletion significantly improves the sensitivity of clinical
metagenomics. Recent studies found that real-time adaptive sequencing of DNA molecules …