Department of Entomology and Nematology, University of California, Davis.
Contained Research Facility, University of California, Davis.
Genome Biol Evol. 2023 Apr 6;15(4). doi: 10.1093/gbe/evad060.
Tuta absoluta is one of the largest threats to tomato agriculture worldwide. Native to South America, it has rapidly spread throughout Europe, Africa, and Asia over the past two decades. To understand how T. absoluta has been so successful and to improve containment strategies, high-quality genomic resources and an understanding of population history are critical. Here, we describe a highly contiguous annotated genome assembly, as well as a genome-wide population analysis of samples collected across Latin America. The new genome assembly has an L50 of 17 with only 132 contigs. Based on hundreds of thousands of single nucleotide polymorphisms, we detect three major population clusters in Latin America with some evidence of admixture along the Andes Mountain range. Based on coalescent simulations, we find these clusters diverged from each other tens of thousands of generations ago prior to domestication of tomatoes. We further identify several genomic loci with patterns consistent with positive selection and that are related to insecticide resistance, immunity, and metabolism. This data will further future research toward genetic control strategies and inform future containment policies.
烟粉虱是全球范围内对番茄农业的最大威胁之一。它原产于南美洲，在过去的二十年中迅速传播到欧洲、非洲和亚洲。为了了解烟粉虱为何如此成功，并改进控制策略，高质量的基因组资源和对种群历史的了解至关重要。在这里，我们描述了一个高度连续的注释基因组组装，以及对拉丁美洲各地采集的样本进行的全基因组种群分析。新的基因组组装 L50 为 17，只有 132 个 contigs。基于数十万的单核苷酸多态性，我们在拉丁美洲检测到三个主要的种群聚类，沿着安第斯山脉有一些混合的证据。基于合并模拟，我们发现这些聚类在番茄驯化之前的数万代就已经彼此分化。我们进一步鉴定了几个与杀虫剂抗性、免疫和代谢相关的具有正选择模式的基因组位点。这些数据将进一步推动针对遗传控制策略的未来研究，并为未来的控制政策提供信息。
