Conserved and non-conserved regions in the Sendai virus genome: evolution of a gene possessing overlapping reading frames

We have sequenced the entire genome of a virulent field isolate of Sendai virus, the Hamamatsu strain, and compared the sequence with that of a distant related strain, the Z strain. Calculation of synonymous and non-synonymous (amino acid changing) nucleotide substitutions revealed regions where cha...

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Bibliographic Details
Published in:Virus genes 2001-01, Vol.22 (1), p.47-52
Main Authors: Fujii, Y, Kiyotani, K, Yoshida, T, Sakaguchi, T
Format: Article
Language:English
Subjects:
AC protein
AP gene
Base Sequence
C protein
Conserved Sequence
Evolution, Molecular
Genome, Viral
Molecular Sequence Data
Nucleocapsid Proteins - genetics
P gene
Phosphoproteins - genetics
Promoter Regions, Genetic - genetics
Respirovirus - classification
Respirovirus - genetics
Sendai virus
Sequence Analysis, DNA
Viral Proteins - genetics
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Summary:We have sequenced the entire genome of a virulent field isolate of Sendai virus, the Hamamatsu strain, and compared the sequence with that of a distant related strain, the Z strain. Calculation of synonymous and non-synonymous (amino acid changing) nucleotide substitutions revealed regions where changes were permissive and non-permissive, and the experimentally determined functional region were found to be conserved, showing that important regions for function were conserved during evolution. In the cistron-overlapping regions in the P gene, one reading frame was conserved, whereas the other overlapping frame was flexible. The priority of one frame could be a strategy for evolution of an overlapping gene of RNA viruses. We found that the carboxyl two thirds of the C protein was conserved over the amino-terminal one third, possessing priority to the overlapping P polypeptide. This suggests that the carboxyl two thirds of the C protein have a functional importance. We also found a highly variable region between the L coding frame and the 5' trailer sequence. The relevance of these findings to actual viral replication should be clarified in the future.
ISSN:0920-8569
1572-994X
DOI:10.1023/a:1008130318633