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ARS Home » Plains Area » Manhattan, Kansas » Center for Grain and Animal Health Research » ABADRU » Research » Research Project #431284

Research Project: Genomics, Transcriptomics, and Microbiome Analysis of Dipteran Pests Affecting Livestock and Humans

Location: Arthropod-borne Animal Diseases Research

Project Number: 3020-32000-007-12-S
Project Type: Non-Assistance Cooperative Agreement

Start Date: Aug 1, 2016
End Date: Jul 31, 2021

Objective:
Generate and analyze genomes, transcriptomes, and microbiomes for dipteran pests including muscoid flies, biting midges and mosquitoes to better characterize the biology, evolution, and ecology of these insects.

Approach:
(1) Sequencing, assembly and annotation of transcriptomes for adult and larval house flies and other related muscoid flies will be performed with particular focus on the evolution and differential expression of innate immune genes over life history and during fly-bacteria interactions. (2) Temporal microbiome analysis of manure using 16S rDNA sequencing of viable (cultured) bacterial isolates to characterize utilization of developmental substrate by muscoid larvae and trans-stadial carriage of bacteria. (3) miSeq analysis of Culicoides spp. (biting midge) developmental substrates from 70 natural breeding sites across 2 seasons and 2 years to correlate fungal, protist, and bacterial microflora with habitat preferences. (4) Sequencing, assembly and annotation of reference genome for Culex tarsalis, to be used as resource for population level and gene expression analyses including: RNAseq of C. tarsalis across development, with focus on genes involved in diapause; RAD-seq analysis of population level data from 50 widespread C. tarsalis populations; Comparative analyses with pitcher plant mosquitoes, Wyeomyia smithii, both biting and nonbiting strains. (5) Sequencing amplification products to identify innate immune response gene transcripts associated with infection of Culex tarsalis mosquitoes and cells.