ArticlePeerJ2017
vConTACT: an iVirus tool to classify double-stranded DNA viruses that infect
Article in PeerJ, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 189 papers, 2 of them syntheses that pooled it.
What it found
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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
189 citing papers in PubMed, 2 syntheses or guidelines pooled it, 301 citations in OpenAlex.
- Bioinformatics Tools and Approaches for Virus Discovery in Genomic Data: A Systematic Review.Viruses · 2025Pooled it
- Pooled it
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- Jestvirus, a Novel Genus in the Family Autotranscriptaviridae Infecting Aeromonas.Current microbiology · 2026Article
- Article
- Hawaiian geothermal fumaroles contain diverse and novel viruses.Microbiology spectrum · 2026Article
- ViralQC: a tool for assessing completeness and contamination of predicted viral contigs.Bioinformatics (Oxford, England) · 2026Article
- Isolation and characterization of Enterococcus phages vB_EfaS_785CC and vB_EfaS_785CS.Functional & integrative genomics · 2026Article
- Genomic analysis of prophages from Burkholderia gladioli exposes extensive genetic diversity.BMC genomics · 2026Article
- Insights from healthy mares reveal that mammalian uteri harbor a diverse virome.Scientific reports · 2026Article
- Virome datasets and viral metagenome-assembled genomes from aquaculture-impacted freshwater environments.Scientific data · 2026Article
- Comparative genomics reveals high prophage diversity and horizontal gene transfer of effectors and phage defence systems in theMicrobial genomics · 2026Article
- Predicted and inducible prophages display contrasting virulence gene profiles within the prophage-SaPI mobilome ofmSphere · 2026Article
- Hawaiian Geothermal Fumaroles Contain Diverse and Novel Viruses.bioRxiv : the preprint server for biology · 2026Article
- Metaproteomics uncovers the functional capacity of a soil microbiome.Scientific reports · 2026Article
- Mining of food metagenomes reveals an unexplored diversity of dsDNA bacteriophages.NPJ biofilms and microbiomes · 2026Article
- Diversity, transfer potential, and transcriptional activity of virus-carried antibiotic resistance genes in global estuaries.iMetaOmics · 2026Article
- Discovery and characterization of a novelPHAGE (New Rochelle, N.Y.) · 2026Article
- Bioinformatics-Driven Systematic Molecular Typing and Rapid qPCR Detection ofPathogens (Basel, Switzerland) · 2026Article
- Viral communities from long-term anaerobic alkane-oxidizing enrichment cultures encode predicted cell surface adhesion functions.The ISME journal · 2026Article
129 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
6 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Taxonomic classification of archaeal and bacterial viruses is challenging, yet also fundamental for developing a predictive understanding of microbial ecosystems. Recent identification of hundreds of thousands of new viral genomes and genome fragments, whose hosts remain unknown, requires a paradigm shift away from traditional classification approaches and towards the use of genomes for taxonomy. Here we revisited the use of genomes and their protein content as a means for developing a viral taxonomy for bacterial and archaeal viruses. A network-based analytic was evaluated and benchmarked against authority-accepted taxonomic assignments and found to be largely concordant. Exceptions were manually examined and found to represent areas of viral genome 'sequence space' that are under-sampled or prone to excessive genetic exchange. While both cases are poorly resolved by genome-based taxonomic approaches, the former will improve as viral sequence space is better sampled and the latter are uncommon. Finally, given the largely robust taxonomic capabilities of this approach, we sought to enable researchers to easily and systematically classify new viruses. Thus, we established a tool, vConTACT, as an app at iVirus, where it operates as a fast, highly scalable, user-friendly app within the free and powerful CyVerse cyberinfrastructure.
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What OpenQuestion holds
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.