ArticleAdvanced science (Weinheim, Baden-Wurttemberg, Germany)2021
Targeting RNA with Next- and Third-Generation Sequencing Improves Pathogen Identification in Clinical Samples.
Article in Advanced science (Weinheim, Baden-Wurttemberg, Germany), 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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Who cites it
43 citing papers in PubMed.
- Research progress of endophytes and their secondary metabolites inPlant signaling & behavior · 2026Review
- Blood-based targeted sequencing of microbial cell-free DNA in severe pneumonia-associated sepsis.Respiratory research · 2026Article
- The role of gut microbiota-mitochondria crosstalk in neurodegeneration: Underlying mechanisms and potential therapies.Neural regeneration research · 2026Article
- Seasonal life stage changes contribute to gut bacterial community profiles of high-altitude birds.Current zoology · 2026Article
- Pathogen landscape and synergistic interactions in pediatric ARIs: implications for broad-spectrum surveillance via targeted NGS.Microbiology spectrum · 2026Article
- Clinical evaluation of probe capture-based targeted next-generation sequencing in suspected infected pancreatic necrosis: a prospective pilot diagnostic study.BMC infectious diseases · 2025Article
- Diagnostic performance of metagenomics sequencing for pulmonary fungal infections: a clinical evaluation using the Nanopore platform.Journal of thoracic disease · 2025Article
- Performance of broad-spectrum targeted next-generation sequencing in lower respiratory tract infections in ICU patients: a prospective observational study.Critical care (London, England) · 2025Observational
- DEMINERS enables clinical metagenomics and comparative transcriptomic analysis by increasing throughput and accuracy of nanopore direct RNA sequencing.Genome biology · 2025Article
- The distribution and spectrum of thalassemia variants in GUIYANG region, southern China.Orphanet journal of rare diseases · 2025Article
- The diagnostic value of RNA-mNGS and DNA-mNGS in differentiating bacterial infection from colonization in the lower respiratory tract.Frontiers in cellular and infection microbiology · 2025Article
- Targeted next-generation sequencing for pediatric lower respiratory tract infections: a retrospective study.Frontiers in cellular and infection microbiology · 2025Article
- Current research status of third-generation sequencing technology in thalassemia detection.Frontiers in pediatrics · 2025Review
- Comparative Evaluation of mNGS and Traditional Culture Methods in Pathogen Detection for Pulmonary Infections.Infection and drug resistance · 2025Article
- Third-generation sequencing reveals the spatial variation of microbial composition of airborne bacteria in an intensive dairy farm.Frontiers in microbiology · 2025Article
- Exploring vaginal microbiome: from traditional methods to metagenomic next-generation sequencing-a systematic review.Frontiers in microbiology · 2025Review
- Comparative of metagenomic and targeted next-generation sequencing in lower respiratory tract fungal infections.Frontiers in cellular and infection microbiology · 2025Article
- Case report: Clinical characteristics of anthrax meningoencephalitis: two cases diagnosed using metagenomic next-generation sequencing and literature review.Frontiers in medicine · 2025Article
- Evaluating metagenomics and targeted approaches for diagnosis and surveillance of viruses.Genome medicine · 2024Article
- Utility of next-generation sequencing for the etiological diagnosis ofInfectious medicine · 2024Article
Corrections and comments
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Authors and funding
19 authors.
Funding
Abstract
Fast and accurate identification of microbial pathogens is critical for the proper treatment of infections. Traditional culture-based diagnosis in clinics is increasingly supplemented by metagenomic next-generation-sequencing (mNGS). Here, RNA/cDNA-targeted sequencing (meta-transcriptomics using NGS (mtNGS)) is established to reduce the host nucleotide percentage in clinic samples and by combining with Oxford Nanopore Technology (ONT) platforms (meta-transcriptomics using third-generation sequencing, mtTGS) to improve the sequencing time. It shows that mtNGS improves the ratio of microbial reads, facilitates bacterial identification using multiple-strategies, and discovers fungi, viruses, and antibiotic resistance genes, and displaying agreement with clinical findings. Furthermore, longer reads in mtTGS lead to additional improvement in pathogen identification and also accelerate the clinical diagnosis. Additionally, primary tests utilizing direct-RNA sequencing and targeted sequencing of ONT show that ONT displays important potential but must be further developed. This study presents the potential of RNA-targeted pathogen identification in clinical samples, especially when combined with the newest developments in ONT.
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