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Article

Virosaurus A Reference to Explore and Capture Virus Genetic Diversity

1
Vital-IT Group, SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland
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Division of Infectious Diseases, Geneva University Hospitals, 1205 Geneva, Switzerland
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Laboratory of Virology, Division of Infectious Diseases and Division of Laboratory Medicine, University Hospitals of Geneva & Faculty of Medicine, University of Geneva, 1205 Geneva, Switzerland
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Bioinformatics Competence Center, University of Lausanne, 1015 Lausanne, Switzerland
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Laboratory of Microbiology, University of Neuchâtel, 2000 Neuchâtel, Switzerland
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Unité de Médecine de Précision, CHUV, 1015 Lausanne, Switzerland
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School of Life Sciences, EPFL, 1015 Lausanne, Switzerland
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Host-Pathogen Genomics Laboratory, Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland
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Center for Integrative Genomics, Faculty of Biology and Medicine, University of Lausanne, 1015 Lausanne, Switzerland
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Geneva Centre for Emerging Viral Diseases, Geneva University Hospitals, 1205 Geneva, Switzerland
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Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, 1011 Geneva, Switzerland
*
Author to whom correspondence should be addressed.
Viruses 2020, 12(11), 1248; https://doi.org/10.3390/v12111248
Received: 16 October 2020 / Revised: 29 October 2020 / Accepted: 29 October 2020 / Published: 1 November 2020
(This article belongs to the Section Animal Viruses)
The huge genetic diversity of circulating viruses is a challenge for diagnostic assays for emerging or rare viral diseases. High-throughput technology offers a new opportunity to explore the global virome of patients without preconception about the culpable pathogens. It requires a solid reference dataset to be accurate. Virosaurus has been designed to offer a non-biased, automatized and annotated database for clinical metagenomics studies and diagnosis. Raw viral sequences have been extracted from GenBank, and cleaned up to remove potentially erroneous sequences. Complete sequences have been identified for all genera infecting vertebrates, plants and other eukaryotes (insect, fungus, etc.). To facilitate the analysis of clinically relevant viruses, we have annotated all sequences with official and common virus names, acronym, genotypes, and genomic features (linear, circular, DNA, RNA, etc.). Sequences have been clustered to remove redundancy at 90% or 98% identity. The analysis of clustering results reveals the state of the virus genetic landscape knowledge. Because herpes and poxviruses were under-represented in complete genomes considering their potential diversity in nature, we used genes instead of complete genomes for those in Virosaurus. View Full-Text
Keywords: database; complete genome; bioinformatics; HTS; diagnostics; sequencing; viral infections; viruses database; complete genome; bioinformatics; HTS; diagnostics; sequencing; viral infections; viruses
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MDPI and ACS Style

Gleizes, A.; Laubscher, F.; Guex, N.; Iseli, C.; Junier, T.; Cordey, S.; Fellay, J.; Xenarios, I.; Kaiser, L.; Mercier, P.L. Virosaurus A Reference to Explore and Capture Virus Genetic Diversity. Viruses 2020, 12, 1248. https://doi.org/10.3390/v12111248

AMA Style

Gleizes A, Laubscher F, Guex N, Iseli C, Junier T, Cordey S, Fellay J, Xenarios I, Kaiser L, Mercier PL. Virosaurus A Reference to Explore and Capture Virus Genetic Diversity. Viruses. 2020; 12(11):1248. https://doi.org/10.3390/v12111248

Chicago/Turabian Style

Gleizes, Anne, Florian Laubscher, Nicolas Guex, Christian Iseli, Thomas Junier, Samuel Cordey, Jacques Fellay, Ioannis Xenarios, Laurent Kaiser, and Philippe Le Mercier. 2020. "Virosaurus A Reference to Explore and Capture Virus Genetic Diversity" Viruses 12, no. 11: 1248. https://doi.org/10.3390/v12111248

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