权益分类	功能权益	普通用户	{{item.name}}会员
{{category.name}}	{{benefitItem.name}}

Unified Culex assemblies for improved population-level analysis

统一库蚊组件以改进群体水平分析

基本信息

批准号：
9221966
负责人：
Scott Emrich
金额：
$ 19.13万
依托单位：
UNIVERSITY OF NOTRE DAME
依托单位国家：
美国
项目类别：
财政年份：
2016
资助国家：
美国
起止时间：
2016-02-15 至 2019-01-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/9221966
关键词：
Advanced Development Aedes Affect Algorithms Anopheles Genus Base Sequence Bioinformatics Biology Chromosomes Communicable Diseases Communities Computing Methodologies Culex (Genus)Culicidae Cytogenetic Map Cytogenetics Development Encephalitis Viruses Environment Family Filarial Elephantiases Fluorescent in Situ Hybridization Fostering Fruit Funding Generations Genetic Polymorphism Genome Genome Mappings Genomics Goals Grant Hybrids Inbreeding Information Dissemination Insecticides Institution Link Maps Methods Mitotic Chromosome National Institute of Allergy and Infectious Disease Optics Phlebotominae Ploidies Population Public Health Quantitative Trait Loci Research Residual state Resources Risk Simuliidae Students United States National Institutes of Health Variant West Nile virus Work base comparative comparative genomics experience human disease improved innovation multidisciplinary novel physical mapping public health relevance scaffold training opportunity trait vector vector control vector mosquito

项目摘要

DESCRIPTION (provided by applicant): Mosquitoes are vectors of numerous infectious diseases. To foster the development of advanced genome- based strategies for vector control, over thirty species have been sequenced and their genomes made publically available through the NIAID funded Bioinformatics Resource Center (BRC) VectorBase. The genome assembly of Culex quinquefasciatus, the major vector of the lymphatic filariasis worm and encephalitis viruses, however remains the most highly fragmented of the major mosquitoes with only 13% of its genome placed onto chromosomes. The lack of a high-quality, chromosome-based genome assembly for Cx. quinquefasciatus remains a substantial impediment to further progress in Culex biology and vector comparative genomics. Using PacBio sequencing, for which we have already assembled two Anopheles genomes de novo, we will reassemble Cx. quinquefasciatus and produce a significantly more contiguous assembly aided by both novel computational innovations and traditional physical mapping. The total number of scaffolds (pieces, also called supercontigs) will be reduced from 3171 to at most ~1750. In addition, this increase in assembly continuity will greatly augment the current cytogenetic map for Cx. quinquefasciatus and help anchor the majority of the genomic scaffolds (old, new or hybrid) to chromosomes. Although the primary goal of this R21 proposal is to significantly improve the genome assembly for Cx. quinquefasciatus, we undertake it with the long-term goal of piloting the sequencing and bioinformatics required to improve other important vectors (e.g., ongoing sandfly and black fly community efforts). The specific aims for this project are to: 1) improve the quality of the Cx. quinquefasciatus genome assembly through PacBio sequencing; 2) augment and improve this assembly using multicolor fluorescent in situ hybridization; and 3) innovate assembly improvement and comparison within and across mosquitoes. The availability of a high quality genome assembly for Cx. quinquefasciatus through VectorBase will greatly enhance research in vector biology.