Virosaurus

Exploring viral genetic diversity for vertebrate metagenomics

Virosaurus (from virus thesaurus) is a curated virus genome database, aimed at facilitating clinical metagenomics analysis.
The data comprises clustered and annotated sequences of Vertebrate viruses in FASTA format. Virosaurus also provides complete genome database for all those viruses.

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NameReleaseComplete sequencesVirosaurus90Virosaurus98User_Manual
VertebrateNon-vertebrateVertebrateNon-vertebrate
Virosaurus databases 2019_10 October 2019 Complete 2019_10 V90v_2019_10 V90n_2019_10 V98v_2019_10 V98n_2019_10 User Manual
Virosaurus databases 2018_11 November 2018 Complete 2018_11 V90v_2018_11 V98v_2018_11 User manual

Description

Complete sequences: This dataset contains full-length genomes (monopartite virus) or segments (segmented virus) for all vertebrate virus families.

Virosaurus: Virus reference sequence databases for clinical metagenomics. All complete sequences were clustered at 90% to remove redundancy in Virosaurus 90 (24,717 FASTAs); or clustered at 98% in Virosaurus98 (70,186 FASTAs). Many clusters can belong to the same virus species. For example, there are 100 Lassa virus clusters in Virosaurus90, 638 in Virosaurus98. The FASTA header have been annotated with metadata to facilitate metagenomic analysis. For instance, viral nucleic acid is annotated as RNA, DNA or RNA/DNA, thereby improving interpretation from sequencing either molecule.

Figure 1: Examples of virus genome annotation. The Usual name and clinical typing should be the default output for clinical studies.
In the Virosaurus release 2019_10, herpesviridae and poxviridae sequences are split in genes rather than full genomes. This allows using incomplete genome sequences, and helps to mitigate the low number of complete genomes versus high variability for those families.

We suggest using Virosaurus90 if you need to optimize data analysis. If database size is not a problem, Virosaurus98 could be used for better resolution.

Licence

Attribution-NonCommercial-NoDerivatives 4.0 International

Authors

Anne Gleizes, Florian Laubscher, Nicolas Guex, Christian Iseli, Thomas Junier, Samuel Cordey, Jacques Fellay, Ioannis Xenarios, Laurent Kaiser and Philippe Le Mercier.

Credits

Virosaurus has been developed by a collaboration between SIB Swiss Institute of Bioinformatics (Vital-IT and Swiss-Prot groups), and Virology Laboratory of Geneva University Hospitals (HUG). The development of Virosaurus is supported by the Swiss National Science Foundation (grant 310030_189179).