ArticleDiagnostic microbiology and infectious disease2015
Unbiased metagenomic sequencing complements specific routine diagnostic methods and increases chances to detect rare viral strains.
Article in Diagnostic microbiology and infectious disease, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed, 34 citations in OpenAlex.
- MetaAll: integrative bioinformatics workflow for analysing clinical metagenomic data.Briefings in bioinformatics · 2024Article
- Clinical application value of metagenome next-generation sequencing in pulmonary diffuse exudative lesions: a retrospective study.Frontiers in cellular and infection microbiology · 2024Article
- Impact of SARS-CoV-2-Related Hygiene Measures on Community-Acquired Respiratory Virus Infections in Lung Transplant Recipients in Switzerland.Medicina (Kaunas, Lithuania) · 2023Article
- Advantages and challenges of metagenomic sequencing for the diagnosis of pulmonary infectious diseases.The clinical respiratory journal · 2022Review
- Histopathological Findings and Metagenomic Analysis of Esophageal Papillary Proliferation Identified in Laying Broiler Breeders.Veterinary sciences · 2022Article
- Exploring a prolonged enterovirus C104 infection in a severely ill patient using nanopore sequencing.Virus evolution · 2022Article
- Metagenomic Pathogen Sequencing in Resource-Scarce Settings: Lessons Learned and the Road Ahead.Frontiers in epidemiology · 2022Article
- Article
- Enteric Virome and Carcinogenesis in the Gut.Digestive diseases and sciences · 2020Review
- Enhanced Detection of DNA Viruses in the Cerebrospinal Fluid of Encephalitis Patients Using Metagenomic Next-Generation Sequencing.Frontiers in microbiology · 2020Article
- Two Years of Viral Metagenomics in a Tertiary Diagnostics Unit: Evaluation of the First 105 Cases.Genes · 2019Article
- Article
- Meningitis and epididymitis caused by Toscana virus infection imported to Switzerland diagnosed by metagenomic sequencing: a case report.BMC infectious diseases · 2019Article
- Detection of Viruses in Clinical Samples by Use of Metagenomic Sequencing and Targeted Sequence Capture.Journal of clinical microbiology · 2018Article
- Persistent mammalian orthoreovirus, coxsackievirus and adenovirus co-infection in a child with a primary immunodeficiency detected by metagenomic sequencing: a case report.BMC infectious diseases · 2018Article
- Article
- Limited Correlation of Shotgun Metagenomics Following Host Depletion and Routine Diagnostics for Viruses and Bacteria in Low Concentrated Surrogate and Clinical Samples.Frontiers in cellular and infection microbiology · 2018Article
- Highlighting Clinical Metagenomics for Enhanced Diagnostic Decision-making: A Step Towards Wider Implementation.Computational and structural biotechnology journal · 2018Review
- Surveillance and laboratory detection for non-polio enteroviruses in the European Union/European Economic Area, 2016.Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin · 2017Article
- The Human Virome: Implications for Clinical Practice in Transplantation Medicine.Journal of clinical microbiology · 2017Review
Corrections and comments
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Authors and funding
12 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Multiplex PCR assays for respiratory viruses are widely used in routine diagnostics, as they are highly sensitive, rapid, and cost effective. However, depending on the assay system, cross-reactivity between viruses that share a high sequence homology as well as detection of rare virus isolates with sequence variations can be problematic. Virus sequence-independent metagenomic high-throughput sequencing allows for accurate detection of all virus species in a given sample, as we demonstrate here for human Enterovirus and Rhinovirus in a lung transplant patient. While early in infection a commercial PCR assay recorded Rhinovirus, high-throughput sequencing correctly identified human Enterovirus C104 as the source of infection, highlighting the potential of the technology and the benefit of applying open assay formats in complex diagnostic situations.
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Registered trials
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.