Pramesh D, Baranwal Virendra K
Plant Virology Unit, Division of Plant Pathology, Indian Agricultural Research Institute, New Delhi 110012, India.
Virus Genes. 2013 Aug;47(1):189-93. doi: 10.1007/s11262-013-0909-z. Epub 2013 Apr 4.
The coat protein (CP) gene of five Indian Garlic common latent virus (GarCLV) isolates was sequenced and it was 960 bp long in all the five isolates, encoding a protein of 319 amino acids. Comparative nucleotide sequence analysis revealed diversity of 4.3% among the Indian isolates and of 11.9% among all isolates worldwide. Amino acid sequence comparison showed a significant variability in the N-terminal of CP of GarCLV. Various protein analysis tools identified thirteen conserved domains and motifs including Carlavirus and Potexvirus-specific Flexi CP and Flexi N CP. Phylogenetic analysis clustered GarCLV isolates in the subgroup II with isolates from Australia, Brazil, Japan, and South Korea. Intraspecies recombination study revealed that only one of the Indian isolates was a recombinant. Interspecies recombination study suggested the absence of genetic exchange from Carlavirus species to GarCLV; conversely, GarCLV was identified as a putative donor for at least two other Carlavirus species. This is the first report of molecular variability and recombination in GarCLV isolates.
对五个印度大蒜普通潜隐病毒（GarCLV）分离株的外壳蛋白（CP）基因进行了测序，所有五个分离株的该基因长度均为960 bp，编码一个由319个氨基酸组成的蛋白质。比较核苷酸序列分析显示，印度分离株之间的差异为4.3%，全球所有分离株之间的差异为11.9%。氨基酸序列比较表明，GarCLV CP的N端存在显著变异性。各种蛋白质分析工具鉴定出13个保守结构域和基序，包括香石竹潜隐病毒属和马铃薯X病毒属特异性的Flexi CP和Flexi N CP。系统发育分析将GarCLV分离株与来自澳大利亚、巴西、日本和韩国的分离株聚类在亚组II中。种内重组研究表明，只有一个印度分离株是重组体。种间重组研究表明，香石竹潜隐病毒属物种与GarCLV之间不存在基因交换；相反，GarCLV被确定为至少另外两个香石竹潜隐病毒属物种的推定供体。这是关于GarCLV分离株分子变异性和重组的首次报道。
