title: Linking Virus Genomes with Host Taxonomy.
abstract: Environmental genomics can describe all forms of organisms--cellular and viral--present in a community. The analysis of such eco-systems biology data relies heavily on reference databases, e.g., taxonomy or gene function databases. Reference databases of symbiosis sensu lato, although essential for the analysis of organism interaction networks, are lacking. By mining existing databases and literature, we here provide a comprehensive and manually curated database of taxonomic links between viruses and their cellular hosts.
authors.affiliation: Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan. mihara@kuicr.kyoto-u.ac.jp.
authors.forename: Tomoko
authors.initials: T
authors.lastname: Mihara
authors.affiliation: Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan. yosuke@kuicr.kyoto-u.ac.jp.
authors.forename: Yosuke
authors.initials: Y
authors.lastname: Nishimura
authors.affiliation: Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan. shimizu@kuicr.kyoto-u.ac.jp.
authors.forename: Yugo
authors.initials: Y
authors.lastname: Shimizu
authors.affiliation: Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan. hiroki@kuicr.kyoto-u.ac.jp.
authors.forename: Hiroki
authors.initials: H
authors.lastname: Nishiyama
authors.affiliation: Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan. yos@kuicr.kyoto-u.ac.jp.
authors.forename: Genki
authors.initials: G
authors.lastname: Yoshikawa
authors.affiliation: SGI Japan, Ltd., Yebisu Garden Place Tower 31F, 4-20-3 Ebisu Shibuya-ku, Tokyo 150-6031, Japan. uehara@sgi.com.
authors.forename: Hideya
authors.initials: H
authors.lastname: Uehara
authors.affiliation: Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan. pascal.hingamp@univ-amu.fr.|Aix Marseille Université, CNRS, IGS UMR 7256, 13288 Marseille, France. pascal.hingamp@univ-amu.fr.
authors.forename: Pascal
authors.initials: P
authors.lastname: Hingamp
authors.affiliation: Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan. goto@kuicr.kyoto-u.ac.jp.
authors.forename: Susumu
authors.initials: S
authors.lastname: Goto
authors.affiliation: Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan. ogata@kuicr.kyoto-u.ac.jp.
authors.forename: Hiroyuki
authors.initials: H
authors.lastname: Ogata
mesh_terms: D019295:Computational Biology / Q000379:methods*; D016208:Databases, Factual; D030541:Databases, Genetic; D054884:Host-Pathogen Interactions; D013559:Symbiosis; D018406:Virus Physiological Phenomena
keywords: GenomeNet; KEGG; database; genomes; taxonomy; virus-host interactions