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Genome-wide sequencing and an open reading frame analysis of DDT susceptible (91-C) and resistant (91-R) Drosophila melanogaster laboratory populations

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Title: Genome-wide sequencing and an open reading frame analysis of DDT susceptible (91-C) and resistant (91-R) Drosophila melanogaster laboratory populations
Author(s): Steele, Laura
Advisor(s): Pittendrigh, Barry R.
Department / Program: Entomology
Discipline: Entomology
Degree Granting Institution: University of Illinois at Urbana-Champaign
Degree: M.S.
Genre: Thesis
Subject(s): Drosophila melanogaster dichlorodiphenyltrichloroethane (DDT) DDT resistance 91-R 91-C
Abstract: DDT resistance in the Drosophila melanogaster resistant (91-R) and susceptible (91-C) fly lines has been previously examined for differential expression of transcripts and proteins. Here I present the first whole genome sequencing analysis of the 91-R and 91-C fly lines to identify structural changes within the open reading frames (ORFs) to identify putative resistance loci across the entire genome. Allele fixation revealed a higher number of novel alleles going to fixation for the DDT resistant 91-R fly line under intense selective pressure as compared to the DDT susceptible 91-C fly line. Conversely the 91-C fly line, as compared to the 91-R fly line, had a higher number of mutations going to fixation for alleles previously documented in the reference Drosophila genome. These patterns of fixation were also observed on each individual chromosome. Single-nucleotide polymorphism (SNP) and deletion/insertion polymorphism (DIP) analysis yielded 710 total ORF mutations in the 91-R fly line with a total of 138 genes containing SNPs/DIPs from only the 91-R fly line. Examination of these 91-R only SNP/DIP-containing genes at the Rst(2)DDT locus identified twelve genes of potential interest for future studies to determine their potential role, if any, in DDT resistance (CG1698, CG1688, dila, Rs1, CG1773, CG8520, Cpr47Eb, CG30373, CG10459, sprt, CG30486, CG17574). This study provides a novel analysis approach to identify structural changes in the ORFs across the genome of pesticide resistant organisms.
Issue Date: 2012-06-27
URI: http://hdl.handle.net/2142/32074
Rights Information: Copyright 2012 Laura Steele
Date Available in IDEALS: 2012-06-27
Date Deposited: 2012-05
 

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