Browsing by Author "Mitchell-Olds, Thomas"
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Item Open Access Beyond QTL cloning.(PLoS Genet, 2010-11-11) Anderson, Jill T; Mitchell-Olds, ThomasItem Open Access Ecological contexts of balancing selection in nature(2020) Carley, Lauren NicoleHow genetic variation is maintained in the face of persistent natural selection is a central question in evolutionary biology. Here, I leverage a focal polymorphism, leaf chemical profile in a perennial wildflower (Boechera stricta, Brassicaceae) to investigate the ecological and genetic mechanisms that may influence the maintenance of variation in this trait.
In the first chapter, I present data from a suite of common garden and greenhouse experiments showing that the alleles underlying variation in chemical profile have contrasting fitness effects across environments. I identify two putative selective drivers on chemical profiles, and utilize phenotype-environment associations and molecular genetic analyses to test for additional evidence of past selection by these drivers. Together, these data are consistent with balancing selection on chemical profile, likely caused by pleiotropic effects of genes that influence secondary chemical biosynthesis on herbivore defense and drought response.
In the second chapter, I utilize a multi-year, manipulative field experiment to test for the effects of variation in selective drivers on genotypes conferring contrasting chemical profiles. I integrate variable effects of the environment on fitness components across life history and across environments to assess patterns of lifetime fitness. These data suggest that environmental conditions in which contrasting genotypes can both persist may be widespread.
Together, these chapters provide complementary perspectives on the question of persistent natural variation, suggesting that variation in secondary metabolic profiles in B. stricta may persist at present due to balancing selection, and may continue to persist in the future under variable environmental scenarios.
Item Open Access Exploring the Genetic Basis of Branching Variation in a Wild Mustard Boechera stricta(2018) Chan, Emily LaiiGrazing herbivores can significantly reduce plant fitness by causing apical meristem damage and completely removing reproductive structures. Compensation is a type of tolerance to grazing herbivores by which plants replace the removed reproductive structures. However compensation is possibly costly because of resource allocation to new reproductive structures, which can cause a tradeoff in survival probability overwinter in perennial plants. We show that variation in compensation is heritable and correlated with the environment from which the accessions originated in B. stricta. Specifically, length of lateral branches produced upon apical meristem damage when flowering was associated with climatic variables that change along an elevation gradient. Genotypes originating from low elevations— where the temperature is warmer and growing seasons are longer — produce longer lateral branches. Genotypes from high elevation sites — where the temperature is cooler and growing seasons are shorter — produce shorter lateral branches. This study suggests that compensation in the form of lateral branch length is affected by natural selection, which is potentially the result of tradeoffs between survival and reproduction.
Item Open Access QTL Mapping in Three Rice Populations Uncovers Major Genomic Regions Associated with African Rice Gall Midge Resistance.(PLoS One, 2016) Yao, Nasser; Lee, Cheng-Ruei; Semagn, Kassa; Sow, Mounirou; Nwilene, Francis; Kolade, Olufisayo; Bocco, Roland; Oyetunji, Olumoye; Mitchell-Olds, Thomas; Ndjiondjop, Marie-NoëlleAfrican rice gall midge (AfRGM) is one of the most destructive pests of irrigated and lowland African ecologies. This study aimed to identify the quantitative trait loci (QTL) associated with AfRGM pest incidence and resistance in three independent bi-parental rice populations (ITA306xBW348-1, ITA306xTOG7106 and ITA306xTOS14519), and to conduct meta QTL (mQTL) analysis to explore whether any genomic regions are conserved across different genetic backgrounds. Composite interval mapping (CIM) conducted on the three populations independently uncovered a total of 28 QTLs associated with pest incidence (12) and pest severity (16). The number of QTLs per population associated with AfRGM resistance varied from three in the ITA306xBW348-1 population to eight in the ITA306xTOG7106 population. Each QTL individually explained 1.3 to 34.1% of the phenotypic variance. The major genomic region for AfRGM resistance had a LOD score and R2 of 60.0 and 34.1% respectively, and mapped at 111 cM on chromosome 4 (qAfrGM4) in the ITA306xTOS14519 population. The meta-analysis reduced the number of QTLs from 28 to 17 mQTLs, each explaining 1.3 to 24.5% of phenotypic variance, and narrowed the confidence intervals by 2.2 cM. There was only one minor effect mQTL on chromosome 1 that was common in the TOS14519 and TOG7106 genetic backgrounds; all other mQTLs were background specific. We are currently fine-mapping and validating the major effect genomic region on chromosome 4 (qAfRGM4). This is the first report in mapping the genomic regions associated with the AfRGM resistance, and will be highly useful for rice breeders.Item Open Access Young inversion with multiple linked QTLs under selection in a hybrid zone(Nature Ecology & Evolution, 2017-04-03) Lee, Cheng-Ruei; Wang, Baosheng; Mojica, Julius P; Mandáková, Terezie; Prasad, Kasavajhala VSK; Goicoechea, Jose Luis; Perera, Nadeesha; Hellsten, Uffe; Hundley, Hope N; Johnson, Jenifer; Grimwood, Jane; Barry, Kerrie; Fairclough, Stephen; Jenkins, Jerry W; Yu, Yeisoo; Kudrna, Dave; Zhang, Jianwei; Talag, Jayson; Golser, Wolfgang; Ghattas, Kathryn; Schranz, M Eric; Wing, Rod; Lysak, Martin A; Schmutz, Jeremy; Rokhsar, Daniel S; Mitchell-Olds, Thomas