Heterogeneity in the capsid protein of bovine enteric caliciviruses belonging to a new genus.
Some bovine enteric caliciviruses form a new genus in the family Caliciviridae. In this study, Bayesian phylogenetic analysis of 31 full length capsid sequences from Europe, North America and Asia revealed that this new genus had four currently circulating lineages that showed both temporal and geographical distribution. These groupings were supported by the distribution of the frequency of pair-wise distances. However, the nucleotide and amino acid heterogeneity was low, with a maximum nucleotide and amino acid divergence of 16.7% and 8.4%, respectively. Most variability was found between amino acid residues 288 and 420 of the capsid protein and the sequence motifs observed in this region supported the division of the four lineages. Homology modelling using the structure of the San Miguel sea lion capsid indicated that most variation occurred in the predicted P2 domain and thus, may affect antigenic sites on the surface of the capsid of this newly described genus.
D'Mello
Felicity
F
The Royal Veterinary College, Department of Pathology and Infectious Disease, 4 Royal College Street, London NW1 0TU, UK. fdmello@rvc.ac.uk
Jervis
Sarah M
SM
Edwards
Paul M
PM
Oliver
Stefan L
SL
Bridger
Janice C
JC
D000595:Amino Acid Sequence; D000818:Animals; D002139:Caliciviridae / Q000737:chemistry / Q000145:classification* / Q000235:genetics*; D002213:Capsid / Q000737:chemistry*; D036022:Capsid Proteins / Q000737:chemistry / Q000235:genetics*; D002417:Cattle; D005243:Feces / Q000821:virology; D014644:Genetic Variation; D008958:Models, Molecular; D008969:Molecular Sequence Data; D010802:Phylogeny; D017434:Protein Structure, Tertiary; D012367:RNA, Viral / Q000235:genetics; D017386:Sequence Homology, Amino Acid; D012689:Sequence Homology, Nucleic Acid
D036022:Capsid Proteins; D012367:RNA, Viral