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Updated: Apr 9, 2026
11:40
Simplified Reverse Genetics Method to Recover Recombinant Rotaviruses Expressing Reporter Proteins
Published on: April 17, 2020
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Analysis of codon usage pattern evolution in avian rotaviruses and their preferred host
Jobin Jose Kattoor1, Yashpal Singh Malik1, Aravind Sasidharan2
1Indian Veterinary Research Institute, Izatnagar 243 122, Uttar Pradesh, India.
Summary
Avian rotaviruses (AvRVs) exhibit distinct codon usage patterns influenced by host selection, revealing evolutionary dynamics and host adaptation. This study analyzed codon bias in avian rotavirus VP6 genes, impacting expression systems.
Area of Science:
- Virology
- Evolutionary Biology
- Genetics
Background:
- Rotavirus infections pose a global health challenge, with diverse viral species (A-H) identified.
- Avian rotaviruses (AvRVs) are a significant concern, preferentially affecting avian species.
Purpose of the Study:
- To assess the evolutionary codon usage patterns in avian rotavirus (AvRV) species (RVA, RVD, RVF, RVG).
- To investigate the influence of host natural selection on AvRV codon bias and genetic diversity.
Main Methods:
- Analysis of nucleotide content, codon usage bias (CUB), relative synonymous codon usage (RSCU), and effective number of codons (ENCs) for the VP6 gene.
- Application of multivariate statistical procedures and phylogenetic analysis (RSCU trees) on AvRV coding gene sequences.
- Evaluation of codon adaptation index (CAI) to determine host adaptation.
Main Results:
- AvRV codon usage patterns are significantly influenced by host evolutionary characteristics and natural selection.
- RSCU trees and CAI results demonstrate a strong adaptation of AvRVs to chicken host genes.
- The VP6 gene shows proficient expression in yeast but may require codon optimization for expression in *Escherichia coli* and *Homo sapiens*.
Conclusions:
- The study provides fundamental insights into the evolutionary dynamics and host adaptation of avian rotaviruses.
- Understanding codon usage patterns is crucial for optimizing viral protein expression in different biological systems.
- Findings support further research into avian rotavirus evolution and host interactions.
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