title: The classification and nomenclature of endogenous viruses of the family Caulimoviridae.
abstract: Endogenous members of the family Caulimoviridae have now been found in the genomes of many plant species. Although these sequences are usually fragmented and rearranged and show varying degrees of decay, the genomes of the ancestral viruses can often be reassembled in silico, allowing classification within the existing viral taxonomic framework. In this paper, we describe analyses of endogenous members of the family Caulimoviridae in the genomes of Oryza sativa, Nicotiana tabacum and Solanum spp. and on the basis of phylogeny, genome organization and genetic distance within the pol gene, propose two new virus genera called Orendovirus and Solendovirus. A system of nomenclature for endogenous virus sequences in plants is also proposed.
authors.affiliation: Cooperative Research Centre for National Plant Biosecurity, Innovation Centre, University Drive, University of Canberra, Bruce, ACT 2617, Australia. andrew.geering@deedi.qld.gov.au
authors.forename: Andrew D W
authors.initials: AD
authors.lastname: Geering
authors.forename: Tanya
authors.initials: T
authors.lastname: Scharaschkin
authors.forename: Pierre-Yves
authors.initials: PY
authors.lastname: Teycheney
mesh_terms: D052639:Caulimoviridae / Q000737:chemistry / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification; D012321:DNA-Directed RNA Polymerases / Q000737:chemistry / Q000235:genetics; D008969:Molecular Sequence Data; D010802:Phylogeny; D010944:Plants / Q000821:virology*; D017385:Sequence Homology; D009626:Terminology as Topic; D014764:Viral Proteins / Q000737:chemistry / Q000235:genetics
chemical_list: D014764:Viral Proteins; D012321:DNA-Directed RNA Polymerases