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Phylodynamics and Codon Usage Pattern Analysis of Broad Bean Wilt Virus 2.
Zhen He1,2, Zhuozhuo Dong1, Lang Qin1
1School of Horticulture and Plant Protection, Yangzhou University, Yangzhou 225009, China.
Viruses
|February 2, 2021
Summary
Broad bean wilt virus 2 (BBWV-2) evolution was shaped by recombination and reassortment. Natural selection drives codon usage, showing adaptation to broad bean and pepper hosts.
Area of Science:
- Virology
- Evolutionary Biology
- Genomics
Background:
- Broad bean wilt virus 2 (BBWV-2) is a significant pathogen affecting various crops globally.
- Limited understanding exists regarding BBWV-2's genetic variation, evolutionary dynamics, and host adaptation.
Purpose of the Study:
- To comprehensively analyze the phylodynamics, reassortment, genomic composition, and codon usage patterns of BBWV-2.
- To elucidate the evolutionary changes and host adaptation mechanisms of this important virus.
Main Methods:
- Phylogenetic analysis of 42 complete BBWV-2 genome sequences.
- Recombination and reassortment analyses.
- Codon usage bias analysis (ENC-plot, neutrality plot).
- Host adaptation analysis (SiD, CAI, RCDI).
Main Results:
- Recombination and reassortment significantly influenced BBWV-2 genomic evolution.
- Three and four distinct lineages were identified based on ORF1 and ORF2 sequences.
- Evolutionary rates were determined for BBWV-2 coding sequences.
- Natural selection was identified as the primary driver of codon usage patterns.
- Strong correlations indicated host adaptation to broad bean and pepper.
Conclusions:
- This study provides the first in-depth analysis of BBWV-2 phylodynamics, codon usage, and adaptive evolution within the Fabavirus genus.
- Findings offer insights into the virus's evolutionary history and host interactions.
- Results can inform strategies for managing BBWV-2 in agricultural settings.
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