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Chromosome scale genome assemblies for Culex pipiens mosquitoes

淡色库蚊的染色体规模基因组组装

基本信息

批准号：
10302318
负责人：
Maria Sharakhova
金额：
$ 18.82万
依托单位：
VIRGINIA POLYTECHNIC INST AND ST UNIV
依托单位国家：
美国
项目类别：
财政年份：
2020
资助国家：
美国
起止时间：
2020-11-16 至 2023-10-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10302318
关键词：
Advanced Development Aedes Anopheles Genus Anopheles gambiae Arbovirus Infections Behavioral Castanea dentata Chicago Chromosomal Rearrangement Chromosome inversion Chromosomes Complementary DNA Complex Culex (Genus)Culex pipiens Culicidae DNA Probes DNA amplification Development Disease Drosophila genus Encephalitis Viruses Ensure Environment Epidemiology Evolution Exhibits Family Filarial Elephantiases Fluorescent in Situ Hybridization Genes Genetic Genetic Structures Genome Genomics Geography Goals Hi-C Human In Situ Hybridization Individual Inferior Laboratories Location Maps Methods Molecular Nomenclature North America Optics Physiological Population Research Personnel Role Taxonomy Technology Testing Third Generation Sequencing Washington West Nile virus agricultural region base comparative genomics experience genome-wide human disease improved member nanopore novel strategies pathogen physical mapping scaffold trait transmission process vector vector control

项目摘要

PROJECT SUMMARY Mosquitoes from the Cx. pipiens complex are principal vectors of lymphatic filariasis worms and encephalitis viruses, including West Nile virus, which is now the most common arboviral disease in the USA. To facilitate the development of advanced genome-based strategies for vector control, high-quality genome assemblies, based on third-generation sequencing technologies, were developed for species of the Anopheles gambiae complex, as well as for Aedes aegypti and Aedes albopictus. However, the genome assembly for Cx. pipiens, the type species in the complex, is still missing. Our project will develop high-quality genome assemblies for two members of the complex, Cx. p. pipiens and Cx. p. molestus. Ecological, behavioral, and physiological differences between closely related taxa are often associated with chromosomal inversions. However, very few chromosomal inversions have been described in Culex mosquitoes due to the inferior quality of their polytene chromosomes. Our project will test whether any of the chromosomal rearrangements are taxa-specific or related to local adaptation of Cx. pipiens mosquitoes to the environment. Specific aims for this project are to: 1) develop high-quality genome assemblies for Cx. p. pipiens and Cx. p. molestus; 2) create physical maps of the genomes of Cx. p. pipiens and Cx. p. molestus; and 3) identify chromosomal rearrangements in Cx. p. pipiens and Cx. p. molestus. We will utilize the cutting-edge genomic technologies of Oxford Nanopore Technology sequencing, BioNano optical mapping, Hi-C scaffolding, and cDNA-based physical mapping. The Hi-C approach and fluorescence in situ hybridization will be used to identify chromosomal inversions in Cx. p. pipiens and Cx. p. molestus. We envision that development of high- quality genome assemblies for two members of the Cx. pipiens complex, and identification of their chromosomal rearrangements, will further stimulate the development of new strategies for vector control.

项目总结