Even though alstroemeria mosaic virus (AlMV) is one of the most important viruses affecting alstroemeria plants, its genome is only partially available in public sequence databases. High throughput sequencing (HTS) of RNA from alstroemeria plants with symptoms of mosaic and streaking, collected in Lasso-Ecuador, indicated the presence of AlMV and lily symptomless virus. In this study, we aimed to assemble and characterize the complete genome sequence of AlMV. Reads from Illumina sequencing of ribosomal RNA-depleted total RNA were assembled into contigs that were mapped to the sunflower chlorotic mottle virus genome, revealing the 9774 [corrected] bp complete genome sequence of AlMV. Multiple sequence alignment of the AlMV polyprotein with close homologs allowed the identification of ten mature proteins P1, HC-Pro, P3, 6K1, CI, 6K2, NIa-VPg, NIa-Pro, NIb and CP. Furthermore, several potyvirus motifs were identified in the AlMV polyprotein including those related to potyvirus aphid transmission 334KMTC337, 592PTK594 and 2800DAG2802. Phylogenetic analysis based in the polyprotein showed that AlMV belongs to the potato virus Y clade and its closest relative is sunflower ring blotch virus. This study describes the first complete genome of AlMV and its placement within the genus Potyvirus, providing valuable information for future studies on this economically important virus.

中文翻译：

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六出花叶病毒（AlMV）的分子特征和完整基因组。

尽管六出花叶病毒（AlMV）是影响六出植物的最重要病毒之一，但其基因组仅在公共序列数据库中部分可用。在拉索-厄瓜多尔收集的六出有花叶和条纹症状的六出植物的RNA高通量测序（HTS）表明存在AlMV和百合无症状病毒。在这项研究中，我们旨在组装和表征AlMV的完整基因组序列。将从核糖体RNA缺失的总RNA的Illumina测序读取的序列组装成重叠群，将其定位到向日葵绿叶斑驳病毒基因组，揭示AlMV的9774 [校正] bp完整基因组序列。AlMV多蛋白与紧密同源物的多序列比对可鉴定出十种成熟蛋白P1，HC-Pro，P3、6K1，CI，6K2，NIa-VPg，NIa-Pro，NIb和CP。此外，在AlMV多蛋白中鉴定出几种马铃薯病毒基序，包括与马铃薯病毒蚜虫传播334KMTC337、592PTK594和2800DAG2802有关的那些。基于多蛋白的系统发育分析表明，AlMV属于马铃薯病毒Y进化枝，其最接近的亲戚是向日葵环斑点病毒。这项研究描述了AlMV的第一个完整基因组及其在马铃薯病毒属中的位置，为对该病毒具有重要经济意义的未来研究提供了有价值的信息。基于多蛋白的系统发育分析表明，AlMV属于马铃薯病毒Y进化枝，其最接近的亲戚是向日葵环斑点病毒。这项研究描述了AlMV的第一个完整基因组及其在马铃薯病毒属中的位置，为对该病毒具有重要经济意义的未来研究提供了有价值的信息。基于多蛋白的系统发育分析表明，AlMV属于马铃薯病毒Y进化枝，其最接近的亲戚是向日葵环斑点病毒。这项研究描述了AlMV的第一个完整基因组及其在马铃薯病毒属中的位置，为对该病毒具有重要经济意义的未来研究提供了有价值的信息。