Toward genetics-based virus taxonomy: comparative analysis of a genetics-based classification and the taxonomy of picornaviruses - PubMed
Phylogeny and GENETIC classification of the Picornaviridae. Shown is a maximum likelihood phylogeny of 38 picornaviruses representing species diversity based on the family-wide conserved proteins 1B, 1C, 1D, 2C, 3C, and 3D. A Bayesian analysis resulted in an identical tree topology (data not shown). The part of the tree representing the ICTV-defined 28 species and 12 genera is drawn in black, and provisional or currently not recognized taxa are in gray. Clusters equivalent to ICTV genera are highlighted by colored ovals. A split of Aphthovirus according to the GENETIC classification is indicated (white line). Genera with identical coloring unite to in total 11 supergenera identified in this study. The viruses shown represent the following species (italics) or species-like clusters according to the GENETIC classification: Porcine sapelovirus (PSV), Simian sapelovirus (SiSV), Avian sapelovirus (AvSV), Human rhinovirus A (HRV-A), human rhinovirus Aβ (HRV-Aβ), Human rhinovirus B (HRV-B), human rhinovirus Cα (HRV-Cα), human rhinovirus Cβ (HRV-Cβ), human rhinovirus Cγ (HRV-Cγ), Human enterovirus A (HEV-A), Human enterovirus B (HEV-B), Human enterovirus C (HEV-C), Human enterovirus D (HEV-D), Simian enterovirus A (SiEV-A), Simian enterovirus B (SiEV-B), Porcine enterovirus B (PEV-B), Bovine enterovirus (BEV), Bovine kobuvirus (BKoV), Aichi virus (AiV), Salivirus A (SaliV-A), Human parechovirus (HPeV), Ljungan virus (LjV), Duck hepatitis A virus (DuHV), Aquamavirus A (AqV-A), Hepatitis A virus (HAV), Avian encephalomyelitis virus (AvEMV), Foot-and-mouth disease virus (FMDV), Bovine rhinitis B virus (BRBV), Equine rhinitis A virus (ERAV), Equine rhinitis B virus (ERBV), Theilovirus (TMEV), Encephalomyocarditis virus (EMCV), Seneca Valley virus (SVV), human cosavirus A (CosaV-A), human cosavirus B (CosaV-B), human cosavirus D (CosaV-D), human cosavirus E (CosaV-E), Porcine teschovirus (PTeV). Numbers at branch points provide support values from 1,000 nonparametric bootstraps. The scale bar represents 0.5 amino acid substitutions per site on average.