ArticleGenome research2020
Assembly-free single-molecule sequencing recovers complete virus genomes from natural microbial communities.
Article in Genome research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 73 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
73 citing papers in PubMed, 130 citations in OpenAlex.
- Omics-Level Approaches to Studying Gammaherpesvirus Infection.Pathogens (Basel, Switzerland) · 2026Review
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- Complete genome sequence of the phage UNICOR_HM-QL, aMicrobiology resource announcements · 2026Article
- High-throughput detection of microeukaryotic parasites in insects using Nanopore sequencing.Microbial genomics · 2026Article
- Characterization of phage AbpL with a terminally redundant genome and its therapeutic potential against drug-resistantFrontiers in cellular and infection microbiology · 2026Article
- Effect of sorghum-based diets on the abundance and diversity of ruminal methanogenic archaea in Mashona goats.Frontiers in microbiology · 2026Article
- Limited consensus of marine viral diversity observed across techniques.Environmental microbiome · 2025Article
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- Marine Autographiviridae phages exhibit high genetic diversity and global-scale biogeographic patterns.Communications biology · 2025Article
- Interactions and evolutionary relationships among bacterial mobile genetic elements.Nature reviews. Microbiology · 2025Review
- A review of neural networks for metagenomic binning.Briefings in bioinformatics · 2025Review
- Distinct horizontal gene transfer potential of extracellular vesicles versus viral-like particles in marine habitats.Nature communications · 2025Article
- Towards a unifying phylogenomic framework for tailed phages.PLoS genetics · 2025Article
- Virseqimprover: an integrated pipeline for viral contig error correction, extension, and annotation.PeerJ · 2025Article
- Complementary insights into gut viral genomes: a comparative benchmark of short- and long-read metagenomes using diverse assemblers and binners.Microbiome · 2024Article
- Comparative Evaluation of Open-Source Bioinformatics Pipelines for Full-Length Viral Genome Assembly.Viruses · 2024Article
- Strainy: phasing and assembly of strain haplotypes from long-read metagenome sequencing.Nature methods · 2024Article
- The coral Oculina patagonica holobiont and its response to confinement, temperature, and Vibrio infections.Microbiome · 2024Article
- Article
- Targeted whole-genome recovery of single viral species in a complex environmental sample.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
13 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
11 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Viruses are the most abundant biological entities on Earth and play key roles in host ecology, evolution, and horizontal gene transfer. Despite recent progress in viral metagenomics, the inherent genetic complexity of virus populations still poses technical difficulties for recovering complete virus genomes from natural assemblages. To address these challenges, we developed an assembly-free, single-molecule nanopore sequencing approach, enabling direct recovery of complete virus genome sequences from environmental samples. Our method yielded thousands of full-length, high-quality draft virus genome sequences that were not recovered using standard short-read assembly approaches. Additionally, our analyses discriminated between populations whose genomes had identical direct terminal repeats versus those with circularly permuted repeats at their termini, thus providing new insight into native virus reproduction and genome packaging. Novel DNA sequences were discovered, whose repeat structures, gene contents, and concatemer lengths suggest they are phage-inducible chromosomal islands, which are packaged as concatemers in phage particles, with lengths that match the size ranges of co-occurring phage genomes. Our new virus sequencing strategy can provide previously unavailable information about the genome structures, population biology, and ecology of naturally occurring viruses and viral parasites.
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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.