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Codon usage bias in the N gene of rabies virus
- Source :
- Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases. 54
- Publication Year :
- 2017
-
Abstract
- Since its emergence, rabies virus (RABV) has been a major worldwide concern especially in developing countries. The nucleoprotein (N) of RABV is highly conserved and key for genetic typing, thus a better understanding of the N gene evolutionary trajectory can assist the development of control measures. We found that the N gene of RABV has a low codon usage bias with a mean effective number of codons (ENC) value of 56.33 influenced by both mutation pressure and natural selection. However, neutrality analysis indicated that natural selection dominates over mutation pressure. Additionally, we found that dinucleotide bias partly contributed to RABV codon usage bias. On the other hand, based on the clades of phylogenetic tree, we found that the evolutionary rate of the Africa 2 clade was the highest with a mean value of 3.75 × 10− 3 substitutions per site per year. Above all, our results regarding N gene of RABV codon usage will serve future RABV evolution research.
- Subjects :
- 0301 basic medicine
Microbiology (medical)
Biology
medicine.disease_cause
Microbiology
Evolution, Molecular
03 medical and health sciences
Mutation Rate
Genetics
medicine
Selection, Genetic
Clade
Codon
Molecular Biology
Ecology, Evolution, Behavior and Systematics
Phylogeny
Natural selection
Phylogenetic tree
Nucleotides
Rabies virus
Nucleoprotein
030104 developmental biology
Infectious Diseases
Genetic typing
Ribonucleoproteins
Codon usage bias
Mutation (genetic algorithm)
Mutation
Subjects
Details
- ISSN :
- 15677257
- Volume :
- 54
- Database :
- OpenAIRE
- Journal :
- Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases
- Accession number :
- edsair.doi.dedup.....4f594622b0d017c135fb59a297f644b0