Dataset for co-phylogenetic analysis of Cicadas and their symbionts

Throughout the lengthy process of evolution, various animals have formed symbiotic associations with diverse microbes. Symbiotic associations between insects and microorganisms enable insects to adapt to a variety of ecological niches and exploit diverse food resources. In most cases, the host insects have evolved specialized cells and organs, called bacteriocytes and bacteriomes, in particular of the plant sap-feeding auchenorrhynchan insects of Hemiptera, to accommodate their bacterial symbionts. Recruitment of novel symbiont is a key strategy for hosts to escape dependence on outdated, inefficient symbiont. However, symbiont replacement is a dynamic process, and its occurrence – from emergence to eventual disappearance – is extremely difficult to ascertain. Prior work has indicated that, in many cicada lineages, the obligate symbiont Hodgkinia has been replaced by yeast-like fungal symbionts (YLS), and YLS replacement by another fungus or YLS has also occurred repeatedly. Considerabl..., , , # Dataset for the Co-phylogeny of Cicadas and Their Symbionts [https://doi.org/10.5061/dryad.dbrv15fbj](https://doi.org/10.5061/dryad.dbrv15fbj) ## Description of the data and file structure The dissected bacteriomes and feet of cicadas were flash-frozen in liquid nitrogen, ground with a pestle in a plastic tube, and mixed with a lysis buffer of the DNeasy Blood and Tissue Kit (QIAGEN). Subsequently, proteinase K was added to the lysate and the DNA extraction proceeded following the manufacturer’s kit protocol. Sequencing libraries were generated using the TruSeq DNA Sample Preparation Kit (Illumina, USA) and the Template Prep Kit (Pacific Biosciences, USA) with an average insert size of approximately 400 bp following the manufacturer’s protocol. The genome sequencing was then performed by Personal Biotechnology Co., Ltd (Shanghai, China) by using the Illumina Novaseq platform. A minimum of 8 Gb of raw reads (paired-end, 150 bp each) was produced from each DNA sample through metageno...在漫长的演化历程中，多种动物与各类微生物形成了共生关系（symbiotic associations）。昆虫与微生物之间的共生关系可帮助昆虫适应多种生态位并利用多样的食物资源。在多数情况下，宿主昆虫演化出了特化的细胞与器官，即含菌细胞（bacteriocytes）和含菌体（bacteriomes），尤其在以植物汁液为食的半翅目（Hemiptera）头喙亚目（auchenorrhynchan）昆虫中，以此容纳其细菌共生菌。招募新型共生菌是宿主摆脱对老旧、低效共生菌依赖的关键策略。然而，共生菌替换是一个动态过程，其从出现到最终消失的整个发生过程极难确定。已有研究表明，在诸多蝉类支系中，专性共生菌霍奇金菌属（Hodgkinia）已被类酵母真菌共生体（YLS）替代，且类酵母真菌共生体被其他真菌或自身再次替换的现象也反复出现。Considerabl..., , , # 蝉与其共生菌的共系统发育（co-phylogeny）数据集 [https://doi.org/10.5061/dryad.dbrv15fbj](https://doi.org/10.5061/dryad.dbrv15fbj) ## 数据与文件结构说明 研究人员将解剖得到的蝉类含菌体与足部置于液氮中快速冷冻，随后在塑料离心管中用研钵研磨，并与QIAGEN公司的DNeasy血液与组织试剂盒（DNeasy Blood and Tissue Kit）的裂解缓冲液混合。随后向裂解液中加入蛋白酶K（proteinase K），按照试剂盒制造商的操作流程完成DNA提取。利用美国Illumina公司的TruSeq DNA样本制备试剂盒（TruSeq DNA Sample Preparation Kit）以及美国Pacific Biosciences公司的模板制备试剂盒（Template Prep Kit）构建测序文库，平均插入片段长度约为400 bp，操作流程遵循制造商指导。随后由中国上海的派森诺生物科技股份有限公司（Personal Biotechnology Co., Ltd）基于Illumina NovaSeq平台完成基因组测序。每个DNA样本通过metageno...方法至少产出8 Gb的原始读段（raw reads，双端测序，单端读长150 bp）……