Supporting data for "Evolutionary history, population genomics, and novel genomic tools for mosquitoes and mosquito-borne pathogens"

This item contains the data used in the thesis entitled "Evolutionary history, population genomics, and novel genomic tools for mosquitoes and mosquito-borne pathogens", authored by Mac Phillips Pierce.The data consists of raw illumina sequencing reads in FastQ format.The data was used for several projects:Phylogenetics and evolutionary history of mosquitoes. This project re-examined the evolutionary history of mosquitoes using genome wide DNA markers generated through targeted enrichment of ultraconserved elements.Population genomics of Aedes albopictus. This project examined the population structure of Aedes albopictus throughout its native range in Asia, and at a fine scale within Hong Kong, using genome wide genomic data generated through ddRAD sequencing. It also evaluated ultraconserved elements as markers for population genomic analyses, comparing them with the more commonly used ddRAD.Design and validation of target enrichment panels for mosquito epidemiology. This project designed several probe panels for use in target enrichment of mosquitoes, Haemosporidian parasites, and mosquito-borne viruses in the families Togaviridae and Flaviviridae.Details regarding the data sets can be found in the thesis entitled "Evolutionary history, population genomics, and novel genomic tools for mosquitoes and mosquito-borne pathogens".本数据集包含麦克·菲利普斯·皮尔斯（Mac Phillips Pierce）所著题为《蚊类及蚊媒病原体的演化历史、群体基因组学与新型基因组工具》的学位论文中使用的相关数据。数据采用FastQ格式存储原始Illumina测序读段。本数据集应用于以下三项研究项目：1. 蚊类系统发育与演化历史研究：本项目通过靶向富集超保守元件（ultraconserved elements）获得全基因组DNA标记，重新解析了蚊类的演化历史。2. 白纹伊蚊（Aedes albopictus）群体基因组学研究：本项目利用ddRAD测序获得的全基因组数据，分析了白纹伊蚊在其原生分布区亚洲的群体结构，以及香港地区的精细尺度群体结构；同时评估了超保守元件作为群体基因组学分析标记的适用性，并将其与更为常用的ddRAD标记进行了对比。3. 蚊类流行病学靶向富集探针组的设计与验证：本项目设计了多套探针组，用于靶向富集蚊类、血孢子虫（Haemosporidian）寄生虫以及披膜病毒科（Togaviridae）和黄病毒科（Flaviviridae）中的蚊传病毒。有关本数据集的详细信息，请参阅题为《蚊类及蚊媒病原体的演化历史、群体基因组学与新型基因组工具》的学位论文。