ArticleJournal of virology2017
The Number of Target Molecules of the Amplification Step Limits Accuracy and Sensitivity in Ultradeep-Sequencing Viral Population Studies.
Article in Journal of virology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed, 33 citations in OpenAlex.
- Geminivirus diversity and community structure at the scale of agro-ecological systems in two localities of Burkina Faso.ISME communications · 2026Article
- Improvement of Nanopore sequencing provides access to high quality genomic data for multi-component CRESS-DNA plant viruses.Virology journal · 2025Article
- Replication-independent change in the frequencies of distinct genome segments of a multipartite virus during its transit within aphid vectors.Microbiology spectrum · 2024Article
- Robust Approaches to the Quantitative Analysis of Genome Formula Variation in Multipartite and Segmented Viruses.Viruses · 2024Article
- A new genus of alphasatellites associated with banana bunchy top virus in Southeast Asia.Virus evolution · 2024Article
- Benchmarking of virome metagenomic analysis approaches using a large, 60+ members, viral synthetic community.Journal of virology · 2023Article
- Evaluation of sequencing and PCR-based methods for the quantification of the viral genome formula.Virus research · 2023Article
- Structure-guided mutagenesis of the capsid protein indicates that a nanovirus requires assembled viral particles for systemic infection.PLoS pathogens · 2023Article
- Oral Rabies Vaccine Strain SPBN GASGAS: Genetic Stability after Serial In Vitro and In Vivo Passaging.Viruses · 2022Article
- Nonconcomitant host-to-host transmission of multipartite virus genome segments may lead to complete genome reconstitution.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Gene copy number variations at the within-host population level modulate gene expression in a multipartite virus.Virus evolution · 2022Article
- Nanopore Sequencing Is a Credible Alternative to Recover Complete Genomes of Geminiviruses.Microorganisms · 2021Article
- Within-Host Viral Diversity: A Window into Viral Evolution.Annual review of virology · 2020Review
- Applying next-generation sequencing to unravel the mutational landscape in viral quasispecies.Virus research · 2020Review
- Route of a Multipartite Nanovirus across the Body of Its Aphid Vector.Journal of virology · 2020Article
- Co-Acquired Nanovirus and Geminivirus Exhibit a Contrasted Localization within Their Common Aphid Vector.Viruses · 2020Article
- A New Method to Obtain the Complete Genome Sequence of Multiple-Component Circular ssDNA Viruses by Transcriptome Analysis.Frontiers in bioengineering and biotechnology · 2020Article
- Linking influenza virus evolution within and between human hosts.Virus evolution · 2020Article
- Exploring the diversity of Poaceae-infecting mastreviruses on Reunion Island using a viral metagenomics-based approach.Scientific reports · 2019Article
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Corrections and comments
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Authors and funding
4 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The invention of next-generation sequencing (NGS) techniques marked the coming of a new era in the detection of the genetic diversity of intrahost viral populations. A good understanding of the genetic structure of these populations requires, first, the ability to identify the different isolates or variants and, second, the ability to accurately quantify them. However, the initial amplification step of NGS studies can impose potential quantitative biases, modifying the variant relative frequencies. In particular, the number of target molecules (NTM) used during the amplification step is vastly overlooked although of primary importance, as it sets the limit of the accuracy and sensitivity of the sequencing procedure. In the present article, we investigated quantitative biases in an NGS study of populations of a multipartite single-stranded DNA (ssDNA) virus at different steps of the procedure. We studied 20 independent populations of the ssDNA virus faba bean necrotic stunt virus (FBNSV) in two host plants,
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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.