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Sequence diversity and evolution of an iflavirus family associated with ticks
bioRxiv - Evolutionary Biology Pub Date : 2020-06-03 , DOI: 10.1101/2020.06.02.129551 Romain Daveu , Caroline Hervet , Louane Sigrist , Davide Sassera , Aaron Jex , Karine Labadie , Jean-Marc Aury , Olivier Plantard , Claude Rispe
bioRxiv - Evolutionary Biology Pub Date : 2020-06-03 , DOI: 10.1101/2020.06.02.129551 Romain Daveu , Caroline Hervet , Louane Sigrist , Davide Sassera , Aaron Jex , Karine Labadie , Jean-Marc Aury , Olivier Plantard , Claude Rispe
We studied a family of iflaviruses, a group of RNA viruses frequently found in arthropods, focusing on viruses associated with ticks. Our aim was to bring insight on the evolutionary dynamics of this group of viruses, which may interact with the biology of ticks. We explored systematically de novo RNA-Seq assemblies available for species of ticks which allowed to identify nine new genomes of iflaviruses. The phylogeny of virus sequences was not congruent with that of the tick hosts, suggesting recurrent host changes across tick genera along evolution. We identified five different variants with a complete or near-complete genome in Ixodes ricinus. These sequences were closely related, which allowed a fine-scale estimation of patterns of substitutions: we detected a strong excess of synonymous mutations suggesting evolution under strong positive selection. ISIV, a sequence found in the ISE6 cell line of Ixodes scapularis, was unexpectedly near-identical with I. ricinus variants, suggesting a contamination of this cell line by I. ricinus material. Overall, our work constitutes a step in the understanding of the interactions between this family of viruses and ticks.
中文翻译:
与壁虱相关的ifla病毒家族的序列多样性和进化
我们研究了一种节肢病毒家族,一种在节肢动物中经常发现的RNA病毒,主要研究与s相关的病毒。我们的目的是使人们对这组病毒的进化动力学有深入的了解,这可能与壁虱的生物学相互作用。我们系统地探索了可用于壁虱物种的从头RNA RNA-Seq程序集,这些序列允许识别if病毒的九个新基因组。病毒序列的系统发育与壁虱宿主的系统发育不完全一致,表明壁虱属在进化过程中宿主反复发生变化。我们在蓖麻(Ixodes ricinus)中鉴定出具有完整或接近完整的基因组的五个不同变体。这些序列密切相关,从而可以对替换模式进行精细评估:我们检测到大量同义突变,表明在强阳性选择下进化。ISIV是在肩x骨ISE6细胞系中发现的序列,出乎意料地与蓖麻毒素变种几乎相同,这表明该细胞系受到了蓖麻毒素的污染。总体而言,我们的工作构成了对该病毒家族和壁虱家族之间相互作用的理解的一步。
更新日期:2020-06-03
中文翻译:
与壁虱相关的ifla病毒家族的序列多样性和进化
我们研究了一种节肢病毒家族,一种在节肢动物中经常发现的RNA病毒,主要研究与s相关的病毒。我们的目的是使人们对这组病毒的进化动力学有深入的了解,这可能与壁虱的生物学相互作用。我们系统地探索了可用于壁虱物种的从头RNA RNA-Seq程序集,这些序列允许识别if病毒的九个新基因组。病毒序列的系统发育与壁虱宿主的系统发育不完全一致,表明壁虱属在进化过程中宿主反复发生变化。我们在蓖麻(Ixodes ricinus)中鉴定出具有完整或接近完整的基因组的五个不同变体。这些序列密切相关,从而可以对替换模式进行精细评估:我们检测到大量同义突变,表明在强阳性选择下进化。ISIV是在肩x骨ISE6细胞系中发现的序列,出乎意料地与蓖麻毒素变种几乎相同,这表明该细胞系受到了蓖麻毒素的污染。总体而言,我们的工作构成了对该病毒家族和壁虱家族之间相互作用的理解的一步。