Cytosine deamination and selection of CpG suppressed clones are the two major independent biological forces that shape codon usage bias in coronaviruses.
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ABSTRACT:
SUBMITTER: Woo PC
PROVIDER: S-EPMC7103290 | biostudies-literature | 2007 Dec
REPOSITORIES: biostudies-literature
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Cytosine deamination and selection of CpG suppressed clones are the two major independent biological forces that shape codon usage bias in coronaviruses.
Woo Patrick C Y PC Wong Beatrice H L BH Huang Yi Y Lau Susanna K P SK Yuen Kwok-Yung KY
Virology 20070919 2
Using the complete genome sequences of 19 coronavirus genomes, we analyzed the codon usage bias, dinucleotide relative abundance and cytosine deamination in coronavirus genomes. Of the eight codons that contain CpG, six were markedly suppressed. The mean NNU/NNC ratio of the six amino acids using either NNC or NNU as codon is 3.262, suggesting cytosine deamination. Among the 16 dinucleotides, CpG was most markedly suppressed (mean relative abundance 0.509). No correlation was observed between Cp ...[more]
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