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 Recruitment of novel symbiont is a key strategy for hosts to escape dependence on outdated, inefficient symbiont.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 Prior work has indicated that, in many cicada lineages, the obligate symbiont Hodgkinia has been replaced by yeast-like fungal symbionts (YLS), and YLS replacement by another fungus or YLS has also occurred repeatedly.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...