ArticleGenes2019
Two Years of Viral Metagenomics in a Tertiary Diagnostics Unit: Evaluation of the First 105 Cases.
Article in Genes, 2019. 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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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
24 citing papers in PubMed.
- Masking recurrent contaminants in reference sequences improves specificity of clinical metagenomic sequencing.Journal of clinical microbiology · 2026Article
- Oral HPV detection and genotyping by next-generation sequencing in a healthy Palestinian cohort: pilot study.Scientific reports · 2026Article
- Metagenomic Next-generation Sequencing in Patients With Infectious Meningoencephalitis: A Comprehensive Systematic Literature Review and Meta-analysis.Open forum infectious diseases · 2025Article
- Retrospective Genotyping of Enteroviruses Using a Diagnostic Nanopore Sequencing Workflow.Pathogens (Basel, Switzerland) · 2024Article
- Metagenomic and Molecular Detection of Novel Fecal Viruses in Free-Ranging Agile Wallabies.EcoHealth · 2023Article
- Parkinsonism due to Coxsackie B Virus Infection-Case Report and Literature Review.Movement disorders clinical practice · 2023Article
- Fulminant echovirus 11 hepatitis in male non-identical twins in northern Italy, April 2023.Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin · 2023Article
- Application of next-generation sequencing to identify different pathogens.Frontiers in microbiology · 2023Review
- Metagenomic Next-Generation Sequencing in the Diagnosis of Infectious Fever During Myelosuppression Among Pediatric Patients with Hematological and Neoplastic Diseases.Infection and drug resistance · 2022Article
- Benchmark of thirteen bioinformatic pipelines for metagenomic virus diagnostics using datasets from clinical samples.Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology · 2021Article
- Subacute cerebellar ataxia following respiratory symptoms of COVID-19: a case report.BMC infectious diseases · 2021Article
- SARS-CoV-2 variants reveal features critical for replication in primary human cells.PLoS biology · 2021Article
- Evaluating Infectious, Neoplastic, Immunological, and Degenerative Diseases of the Central Nervous System with Cerebrospinal Fluid-Based Next-Generation Sequencing.Molecular diagnosis & therapy · 2021Review
- High-Throughput Metagenomics for Identification of Pathogens in the Clinical Settings.Small methods · 2021Review
- Contamination Issue in Viral Metagenomics: Problems, Solutions, and Clinical Perspectives.Frontiers in microbiology · 2021Review
- Does respiratory co-infection facilitate dispersal of SARS-CoV-2? investigation of a super-spreading event in an open-space office.Antimicrobial resistance and infection control · 2020Article
- Large and Small Cerebral Vessel Involvement in Severe COVID-19: Detailed Clinical Workup of a Case Series.Stroke · 2020Article
- Search for Viral Infections in Cerebrospinal Fluid From Patients With Autoimmune Encephalitis.Open forum infectious diseases · 2020Article
- Potential Applications of Human Viral Metagenomics and Reference Materials: Considerations for Current and Future Viruses.Applied and environmental microbiology · 2020Review
- Comparison of Nucleic Acid Extraction Methods for a Viral Metagenomics Analysis of Respiratory Viruses.Microorganisms · 2020Article
Corrections and comments
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Metagenomic next-generation sequencing (mNGS) can capture the full spectrum of viral pathogens in a specimen and has the potential to become an all-in-one solution for virus diagnostics. To date, clinical application is still in an early phase and limitations remain. Here, we evaluated the impact of viral mNGS for cases analyzed over two years in a tertiary diagnostics unit. High throughput mNGS was performed upon request by the treating clinician in cases where the etiology of infection remained unknown or the initial differential diagnosis was very broad. The results were compared to conventional routine testing regarding outcome and workload. In total, 163 specimens from 105 patients were sequenced. The main sample types were cerebrospinal fluid (34%), blood (33%) and throat swabs (10%). In the majority of the cases, viral encephalitis/meningitis or respiratory infection was suspected. In parallel, conventional virus diagnostic tests were performed (mean 18.5 individually probed targets/patients). mNGS detected viruses in 34 cases (32%). While often confirmatory, in multiple cases, the identified viruses were not included in the selected routine diagnostic tests. Two years of mNGS in a tertiary diagnostics unit demonstrated the advantages of a single, untargeted approach for comprehensive, rapid and efficient virus diagnostics, confirming the utility of mNGS in complementing current routine tests.
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