Synonymous Codon Pattern of Cowpea Mild Mottle Virus Sheds Light on Its Host Adaptation and Genome Evolution

Pathogens

Siqi Yang¹  Xiaoyun Wu¹  Ye Liu¹  Xiaofei Cheng¹  Xiaoxia Wu² 

[1] Key Laboratory of Germplasm Enhancement, Physiology and Ecology of Food Crops in Cold Region of Chinese Education Ministry, College of Agriculture, Northeast Agricultural University, Harbin 150030, China;Key Laboratory of Soybean Biology of Chinese Education Ministry, College of Agriculture, Northeast Agricultural University, Harbin 150030, China;

关键词: cowpea mild mottle virus;    codon pattern;    dinucleotide bias;    codon adaptation;    nucleotide composition;   

DOI  :  10.3390/pathogens11040419

来源: DOAJ

【 摘 要 】

Cowpea mild mottle virus (CpMMV) is an economically significant virus that causes severe disease on several legume crops. Aside from recombination, other factors driving its rapid evolution are elusive. In this study, the synonymous codon pattern of CpMMV and factors shaping it were analyzed. Phylogeny and nucleotide composition analyses showed that isolates of different geography or hosts had very similar nucleotide compositions. Relative synonymous codon usage (RSCU) and neutrality analyses suggest that CpMMV prefers A/U-ending codons and natural selection is the dominative factor that affects its codon bias. Dinucleotide composition and codon adaptation analyses indicate that the codon pattern of CpMMV is mainly shaped by the requirement of escaping of host dinucleotide-associated antiviral responses and translational efficiency.

【 授权许可】

Unknown