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Updated: Jun 28, 2026
18:10
Isolation of Fidelity Variants of RNA Viruses and Characterization of Virus Mutation Frequency
Published on: June 16, 2011
Analysis of synonymous codon usage in classical swine fever virus
Pan Tao1, Li Dai, Mengcheng Luo
1State Key Laboratory of Virology, College of Life Sciences, Wuhan University, Wuhan, Hubei, 430072, China.
Virus Genes
|October 30, 2008
Summary
Mutational pressure, not natural selection, drives codon usage bias in classical swine fever viruses (CSFV). This comprehensive analysis reveals CSFV
Area of Science:
- Virology
- Genomics
- Molecular Biology
Background:
- Classical swine fever virus (CSFV) poses a significant threat to swine populations globally.
- Understanding CSFV genome evolution is crucial for disease control and prevention.
- Synonymous codon usage and dinucleotide abundance are key factors influencing viral genome dynamics.
Purpose of the Study:
- To comprehensively analyze synonymous codon usage patterns in CSFV.
- To investigate the relative abundance of dinucleotides within the CSFV genome.
- To determine the primary factors influencing codon usage bias in CSFV.
Main Methods:
- Analysis of complete genome sequences from 35 diverse CSFV isolates.
- Examination of synonymous codon usage across different CSFV genotypes and virulence types.
- Assessment of relative dinucleotide abundance and its correlation with base composition.
Main Results:
- A strong correlation between base composition and codon usage bias was observed.
- Mutational pressure was identified as the primary driver of codon usage bias in CSFV.
- Dinucleotide abundance is independent of overall base composition but shaped by mutational pressure.
- Subgenotypes and aromaticity also contribute to codon usage variation.
Conclusions:
- Mutational pressure is the dominant force shaping codon usage bias in CSFV.
- Dinucleotide composition is influenced by mutational pressure, impacting viral genome characteristics.
- This study provides foundational insights into the evolutionary mechanisms governing CSFV genomes.
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