Alfaro-Fernández Ana, Taengua Rafael, Font-San-Ambrosio Isabel, Sanahuja-Edo Esmeralda, Peiró Rosa, Galipienso Luis, Rubio Luis
Instituto Agroforestal Mediterráneo (IAM), Universitat Politècnica de València (UPV), 46022 Valencia, Valencia, Spain.
Instituto Valenciano de Investigaciones Agrarias (IVIA), 46113 Moncada, Valencia, Spain.
Plants (Basel). 2024 Jan 16;13(2):250. doi: 10.3390/plants13020250.
The genetic variation and population structure of gene N (nucleocapsid) and part of gene L (replicase) from 13 eggplant mottle dwarf virus (EMDV) isolates from Spain were evaluated and compared with sequences of EMDV isolates from other countries retrieved from GenBank. Phylogenetic inference of part of gene L showed three main clades, one containing an EMDV isolate from Australia and the other two containing isolates from Iran and Europe, as well as four subclades. EMDV isolates from Spain were genetically very similar and grouped in a subclade together with one isolate from Germany and one from the UK. No new recombination events were detected in addition to one recombination previously reported, suggesting that recombination is rare for EMDV. The comparison of synonymous and non-synonymous rates showed that negative selection played an important role, and only two codons were under positive selection. Genetic differentiation (F test), phylogenetic and nucleotide diversity analyses suggest a unique introduction of EMDV to Spain and low gene flow with other countries. In contrast, Greece and Italy showed diverse populations with high gene flow between both.
对来自西班牙的13株茄子斑驳矮化病毒（EMDV）分离株的基因N（核衣壳蛋白）和部分基因L（复制酶）的遗传变异和群体结构进行了评估，并与从GenBank检索到的来自其他国家的EMDV分离株序列进行了比较。基因L部分的系统发育推断显示出三个主要分支，一个包含来自澳大利亚的EMDV分离株，另外两个包含来自伊朗和欧洲的分离株，还有四个亚分支。来自西班牙的EMDV分离株在基因上非常相似，与来自德国的一个分离株和来自英国的一个分离株一起聚集在一个亚分支中。除了先前报道的一次重组外，未检测到新的重组事件，这表明EMDV的重组很少见。同义率和非同义率的比较表明，负选择起了重要作用，只有两个密码子处于正选择之下。遗传分化（F检验）、系统发育和核苷酸多样性分析表明，EMDV是独特地引入西班牙的，并且与其他国家的基因流动较少。相比之下，希腊和意大利显示出不同的群体，两者之间有很高的基因流动。
