Comparative study of synonymous codon usage variations between the nucleocapsid and spike genes of coronavirus, and C-type lectin domain genes of human and mouse

다국어 초록 (Multilingual Abstract)

Coronaviruses (CoVs) are single-stranded RNA viruses
which contain the largest RNA genomes, and severe
acute respiratory syndrome coronavirus
(SARS-CoV), a newly found group 2 CoV, emerged as
infectious disease with high mortality rate. In this
study, we compared the synonymous codon usage
patterns between the nucleocapsid and spike genes of
CoVs, and C-type lectin domain (CTLD) genes of human
and mouse on the codon basis. Findings indicate
that the nucleocapsid genes of CoVs were affected
from the synonymous codon usage bias than spike
genes, and the CTLDs of human and mouse partially
overlapped with the nucleocapsid genes of CoVs. In
addition, we observed that CTLDs which showed the
similar relative synonymous codon usage (RSCU) patterns
with CoVs were commonly derived from the human
chromosome 12, and mouse chromosome 6 and
12, suggesting that there might be a specific genomic
region or chromosomes which show a more similar
synonymous codon usage pattern with viral genes.
Our findings contribute to developing the codon-optimization
method in DNA vaccines, and further study is
needed to determine a specific correlation between the
codon usage patterns and the chromosomal locations
in higher organisms.

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