ArticleMicroorganisms2020
Comparison of Nucleic Acid Extraction Methods for a Viral Metagenomics Analysis of Respiratory Viruses.
Article in Microorganisms, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
What it found
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Who cites it
22 citing papers in PubMed, 32 citations in OpenAlex.
- Article
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- A comparison of methods for the optimal recovery of the human fecal virome.ISME communications · 2026Article
- Whole genome sequencing of hepatitis A virus: adapting Illumina protocols for foodborne investigation.NPJ science of food · 2025Article
- Acute Respiratory Infections (ARIs): Current Etiological Perspectives and Advances in Viral Metagenomics-A Review.Viruses · 2025Review
- Deciphering the impact of contaminating microbiota in DNA extraction reagents on metagenomic next-generation sequencing workflows.Microbiology spectrum · 2025Article
- Low Prevalence of Middle East Respiratory Syndrome Coronavirus Infection in Camel-Exposed Patients Presenting with Respiratory Symptoms in Northern Kenya.The American journal of tropical medicine and hygiene · 2025Article
- Negativeome characterization and decontamination in early-life virome studies.Nature communications · 2025Article
- Metagenomic Next-generation Sequencing in Patients With Infectious Meningoencephalitis: A Comprehensive Systematic Literature Review and Meta-analysis.Open forum infectious diseases · 2025Article
- Three-year nationwide survey of microbiology laboratory equipment conditions in China's CDC: setting new benchmarks.Frontiers in public health · 2025Article
- Comprehensive Review on Viral RNA Extraction Strategies for Enhanced Molecular Diagnostics.Interdisciplinary perspectives on infectious diseases · 2025Review
- Comparison between metatranscriptomics and viral metagenomics, 16S, and host transcriptomics for comprehensive profiling of the respiratory microbiome and host response.Frontiers in microbiology · 2025Article
- The gut and circulating virome: emerging players in aging and longevity.Frontiers in aging · 2025Review
- SARS-CoV-2 Variants May Affect Saliva RT-PCR Assay Sensitivity.The journal of applied laboratory medicine · 2024Article
- Metagenomic Identification of Novel Eukaryotic Viruses with Small DNA Genomes in Pheasants.Animals : an open access journal from MDPI · 2024Article
- Evaluation of extraction and enrichment methods for recovery of respiratory RNA viruses in a metagenomics approach.Journal of virological methods · 2023Article
- Viral Metagenomics Reveals a Putative Novel HPV Type in Anogenital Wart Tissues.Pathogens (Basel, Switzerland) · 2022Article
- Next Generation Sequencing Approaches to Characterize the Respiratory Tract Virome.Microorganisms · 2022Review
- Comparability of CMV DNA Extraction Methods and Validation of Viral Load.Methods and protocols · 2022Article
- Explorative assessment of coronavirus-like short sequences from host-associated and environmental metagenomes.The Science of the total environment · 2021Article
Corrections and comments
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Authors and funding
11 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Viral metagenomics next-generation sequencing (mNGS) is increasingly being used to characterize the human virome. The impact of viral nucleic extraction on virome profiling has been poorly studied. Here, we aimed to compare the sensitivity and sample and reagent contamination of three extraction methods used for viral mNGS: two automated platforms (eMAG; MagNA Pure 24, MP24) and the manual QIAamp Viral RNA Mini Kit (QIAamp). Clinical respiratory samples (positive for Respiratory Syncytial Virus or Herpes Simplex Virus), one mock sample (including five viruses isolated from respiratory samples), and a no-template control (NTC) were extracted and processed through an mNGS workflow. QIAamp yielded a lower proportion of viral reads for both clinical and mock samples. The sample cross-contamination was higher when using MP24, with up to 36.09% of the viral reads mapping to mock viruses in the NTC (vs. 1.53% and 1.45% for eMAG and QIAamp, respectively). The highest number of viral reads mapping to bacteriophages in the NTC was found with QIAamp, suggesting reagent contamination. Our results highlight the importance of the extraction method choice for accurate virome characterization.
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Registered trials
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