ArticleViruses2012
Genetics-based classification of filoviruses calls for expanded sampling of genomic sequences.
Article in Viruses, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- Article
- Article
- Increasing the number of available ranks in virus taxonomy from five to ten and adopting the Baltimore classes as taxa at the basal rank.Archives of virology · 2018Article
- Virus taxonomy: the database of the International Committee on Taxonomy of Viruses (ICTV).Nucleic acids research · 2018Article
- Implementation of Objective PASC-Derived Taxon Demarcation Criteria for Official Classification of Filoviruses.Viruses · 2017Article
- Neglected filoviruses.FEMS microbiology reviews · 2016Review
- Ebola virus disease: societal challenges and new treatments.Journal of internal medicine · 2015Review
- Evolution of genome size and complexity in the rhabdoviridae.PLoS pathogens · 2015Article
- Similarity-based codes sequentially assigned to ebolavirus genomes are informative of species membership, associated outbreaks, and transmission chains.Open forum infectious diseases · 2015Article
- Improvements to pairwise sequence comparison (PASC): a genome-based web tool for virus classification.Archives of virology · 2014Article
- Filovirus RefSeq entries: evaluation and selection of filovirus type variants, type sequences, and names.Viruses · 2014Article
- Clock Rooting Further Demonstrates that Guinea 2014 EBOV is a Member of the Zaïre Lineage.PLoS currents · 2014Article
- Review
- Discussions and decisions of the 2012–2014 International Committee on Taxonomy of Viruses (ICTV) Filoviridae Study Group, January 2012–June 2013.Archives of virology · 2014Article
- Ecology, evolution and classification of bat coronaviruses in the aftermath of SARS.Antiviral research · 2014Review
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We have recently developed a computational approach for hierarchical, genome-based classification of viruses of a family (DEmARC). In DEmARC, virus clusters are delimited objectively by devising a universal family-wide threshold on intra-cluster genetic divergence of viruses that is specific for each level of the classification. Here, we apply DEmARC to a set of 56 filoviruses with complete genome sequences and compare the resulting classification to the ICTV taxonomy of the family Filoviridae. We find in total six candidate taxon levels two of which correspond to the species and genus ranks of the family. At these two levels, the six filovirus species and two genera officially recognized by ICTV, as well as a seventh tentative species for Lloviu virus and prototyping a third genus, are reproduced. DEmARC lends the highest possible support for these two as well as the four other levels, implying that the actual number of valid taxon levels remains uncertain and the choice of levels for filovirus species and genera is arbitrary. Based on our experience with other virus families, we conclude that the current sampling of filovirus genomic sequences needs to be considerably expanded in order to resolve these uncertainties in the framework of genetics-based classification.
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