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Sequence data for the nucleocapsid protein (N) gene of the porpoise morbillivirus including the very conserved middle section of the protein and the hypervariable C terminus are reported. Analysis of dissimilarity indices based on an alignment of the N proteins of various morbilliviruses identifies a variable region of the N protein from amino acids residues 121 to 145 and a hypervariable part from amino acids 400 to 517. This type of analysis can be usefully applied when protein sequences of five or more morbillivirus species are available. Regions of variability between species identified by this index also represent regions of variation within one species e.g. measles virus (MV). Hence, comparative analysis of different morbilliviruses provides an insight into the potentially variable parts of viral proteins. From the great and unexplained nucleotide sequence conservation observed within MV, it would appear that the various morbilliviruses have diverged from each other a very long time ago. However, the data do not yet allow us to estimate the time span of these divergences. The relatedness and the number of different morbillivirus species provides a unique database for study of the evolution of RNA viruses.

Morbilliviruses have been isolated from stranded dolphins and porpoises. The present paper describes the cloning and sequencing of the porpoise morbillivirus (PMV) F gene and of the dolphin morbillivirus (DMV) M and F genes and their flanking regions. The gene order of the DMV genome appeared to be identical to that of other morbilliviruses. A genomic untranslated region of 837 nucleotides was found between the translated DMV M and F gene regions. The predicted DMV M protein were highly conserved with those of other morbilliviruses. Both the deduced PMV and DMV F0 proteins exhibited three major hydrophobic regions as well as a cysteine rich region, a leucine zipper motif and a cleavage motif allowing cleavage of the F0 protein into F1 and F2 subunits. Apparently the DMV F0 cleavage motif was not modified by adaptation of DMV to Vero cells. The predicted PMV and DMV F proteins were 94% identical. Comparisons with the corresponding sequences of other morbilliviruses demonstrated that the cetacean morbillivirus does not derive from any known morbillivirus but represents an independent morbillivirus lineage.