期刊
INFECTION GENETICS AND EVOLUTION
卷 97, 期 -, 页码 -出版社
ELSEVIER
DOI: 10.1016/j.meegid.2021.105165
关键词
Sugarcane mosaic virus; Dinucleotide bias; Host; Evolution
资金
- Natural Science Foundation of Jiangsu Province of China [BK20211323]
- National Natural Science Foundation of China [31601604]
- Key project at central government level: The ability establishment of sustainable use for valuable Chinese medicine resources [2060302]
- Qing Lan Project of Yangzhou University
The study conducted a comprehensive analysis on the dinucleotide composition and bias of Sugarcane mosaic virus (SCMV), revealing overrepresented and underrepresented dinucleotides in its protein coding regions. The bias in dinucleotide composition of SCMV is more strongly associated with protein coding regions rather than hosts, and a weak correlation between dinucleotide composition and SCMV lineages was observed. This analysis offers a new perspective on understanding the molecular evolutionary mechanisms of SCMV.
Sugarcane mosaic virus (SCMV), which belongs to the Potyvirus genus of the family Potyviridae, causes mosaic diseases in canna, sugarcane and maize worldwide. Previously, the genetic variations, timescale, codon usage patterns and host adaptions of SCMV were determined. However, the dinucleotide composition and the dinucleotide bias from hosts or the protein coding regions of the virus have yet to be investigated. In this study, comprehensive analyses of the dinucleotide composition and dinucleotide bias from hosts, lineages and protein coding regions of SCMV were performed using 131 complete genomic sequences. We found that UpG and CpA were largely overrepresented while UpA, CpC, and CpG were largely underrepresented in the polyprotein and 11 protein coding region data sets. SCMV dinucleotide composition bias is more strongly dependent on the protein coding regions than on hosts. A weak association between the dinucleotide composition and SCMV lineages was also observed. Our analysis provides a novel perspective on the molecular evolutionary mechanisms of SCMV and may provide a better understanding of future research on the origin and evolutionary patterns of SCMV.
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