Senescence is the age-related progressive deterioration of physiological processes leading to an increased likelihood of death and is a phenomenon that occurs nearly universally throughout all the world’s organisms. This thesis initially investigated the impact of ageing on the adult Drosophila melanogaster cellular immune response and demonstrated that the cellular immune response in D. melanogaster adults did experience an age-dependent decline in function. There was a striking reduction in haemocyte ability to phagocytose foreign particles with up to 30% less phagocytosis occurring in four week old flies compared to one week olds. Haemocyte number also declined in female flies by up to 32% across these ages. An exploration into the mechanisms that could underlie these observed senescent declines in haemocyte number and function revealed that the age-dependent reduction in the circulating haemocyte population occurred regardless of whether flies were unharmed, wounded or infected. The loss of phagocytosis ability in haemocytes in ageing flies was shown to be a cell autonomous process; there was an equal age-dependent decline (~13%) in haemocyte phagocytic activity in both in vivo and ex vivo assays. However, an attempt to identify phagocytic receptor systems that drove senescence in haemocyte function was unsuccessful. The contribution of the cellular immune response in determining survival following a fungal infection was not conclusively demonstrated, however flies with reduced Dif expression had significantly increased pathogen susceptibility. Although pathogen resistance can decline due to immune senescence, disease defence may also be enhanced as an animal’s life progresses through the formation of immunological memories of prior microbial encounters. This thesis revealed that the cellular immune response in D. melanogaster provides a strong, broadly specific and relatively long-lasting immunological priming response. Haemocytes phagocytosed up to 33% more microbes per cell during a secondary encounter, and up to 50% more if flies had received two homologous primes. This was not general immune upregulation as a heterologous microbial encounter caused a reduction in the phagocytic ability of haemocytes compared to controls. The level of enhancement in the phagocytic ability of haemocytes also declined with the age of the fly, meaning that the ability to develop a primed response senesced. These results are unprecedented in Drosophila and challenge our conventional interpretation of immune senescence because individual immune history has been shown to shape later cellular immune responses. Ageing is a complex and variable process. Some of the differences observed in ageing rates between populations can be due to different selection pressures. Natural selection acts on genetic variation within a population to increase fitness whereas host-parasite interactions predominantly influence genes related to immune parameters. Many genes have pleiotropic effects as well as there being potential trade-offs between investment in longevity, reproduction and immunity. To explore potential genetic variation in immune and life history traits and whether variation in immune parameters negatively influenced other life history traits related to ageing, a panel of outcrossed genotypes of D. melanogaster were assessed. As the flies were derived from individuals originally sourced from a natural population, the results suggest that a striking amount of genetic variation in immune and life history traits is present in wild populations. However no significant correlations between genetic variation in ageing and genetic variation in investment in immunity were identified. Though, perhaps not surprisingly, no key biomarker of ageing in D. melanogaster was identified; this thesis has contributed some significant findings on the effects of ageing on adult D. melanogaster especially relating to their cellular immune response.

Traditional studies of simple perceptual choice tasks in vertebrates identified behavioural characteristics of deliberate decision-making that guided the development of general mathematical models, and the search for neurophysiological correlates. Current experimental and modelling efforts aim to uncover biophysical and circuit level mechanisms of decision-making processes. However, genetic manipulability constraints and lack of high-throughput assays make further progress in vertebrate studies a steep endeavour. In this thesis I studied decision-making in Drosophila melanogaster in trained two-alternative forced-choice olfactory tasks with varying stimulus contrast, using a high-resolution single fly behavioural assay. Analysing accuracy and reaction time as a function of task difficulty (i.e., stimulus contrast) showed that flies display behavioural characteristics of evidence accumulation processes, a signature of vertebrate decision-making: reaction times increased and perceptual accuracy declined as stimulus contrast decreased. Mutants for the gene encoding the transcription factor FoxP took longer than wild-type flies to form decisions of similar or reduced accuracy, especially in difficult tasks. Using the putative FoxP promoter to ascertain FoxP expression identified subsets of mushroom body intrinsic Kenyon cells, in αβ core and γ neurons, as potential sites of FoxP action. Disrupting FoxP expression or decreasing neuronal excitability specifically in αβ core neurons mimicked the phenotype observed in FoxP mutants. FoxP expression therefore affects the development or function of αβ core neurons in the progression of a decision process towards commitment. To identify molecular processes involved in evidence integration regulated by FoxP I further screened 2nd and 3rd chromosome deficiency lines in a sensitised FoxP mutant background, uncovering genomic regions of interest for further study. Finally, analysing naive performance in tasks of increasing difficulty showed that naive discriminations are faster and less accurate than trained ones, pointing to the existence of two decision-making systems. FoxP mutants appear to engage the slower, more accurate decision making system and the mushroom body seems to be involved in naive discriminations. The molecular and neuronal players involved in olfactory decision making in Drosophila melanogaster uncovered in this thesis will allow researching decision making systems to an unprecedented level of detail.

Sexual interactions play an important role in generating sexual selection and antagonistic co-evolution. These forces can shape differences between the sexes, but also have the potential to generate population divergence and contribute to speciation. The aim in this thesis was to provide new insights into the genes involved in different stages of female sexual interactions, using Drosophila as a model system. In chapter 2 I tested whether a candidate gene (period) that influences species-specific rhythmic characteristics in male courtship song in D. melanogaster also has a pleiotropic effect on female song preference. Using mutant and transgenic strains I found support for this. In chapter 3 I examined further how females respond to the song at the level of gene expression, using microarrays. Expression profiles revealed modest changes in transcripts abundance overall, which were dominated by antennal olfactory genes, neuropeptide encoding genes and immunity genes. Many of these have previously been found to respond to mating. In chapter 4 I therefore studied further two of these genes, TurandotM and TurandotC and their role in female post-mating fitness. Using RNA interference I found that knocking down these genes influenced immediate fecundity. In chapter 5 I focused on analysing post-mating gene expression patterns in relation to sexual selection in D. pseudoobscura using microarrays. I explored the consequences of experimental variation in female promiscuity on gene expression divergence as a whole, and in response to mating. I found large-scale expression divergence between monandrous and polyandrous females after 100 generations of experimental evolution. Experimental polyandry increased the expression of genes that show female-biased expression in wild-type individuals and decreased male- biased gene expression. Females experiencing no sexual selection showed the opposite pattern. Out of the genes affected by mating, the majority showed increased expression in polyandrous compared to monandrous females, with enrichment e.g. in oogenesis-related genes.

Over the past three decades, nitric oxide (NO) has been recognised as one of the most versatile and important players in many aspects of physiology, including immune responses. More recently, S-nitrosylation, the incorporation of a NO moiety into a protein thiol group, has emerged as a major post-translational modification (PTM) during pathophysiological responses in plants and animals. The main goal of this work was to investigate the role of S-nitrosylation in physiology and innate immunity of animals using the genetic reference system, Drosophila melanogaster. The S-nitrosylated derivative of glutathione (GSH), S-nitrosoglutathione (GSNO), is the main non-protein S-nitrosothiol (SNO) in the cell and extracellular fluids. GSNO can trans-S-nitrosylate other thiols and is considered a reservoir of NO bioactivity. The levels of GSNO and total S-nitrosylation have been shown to be controlled by S-nitrosoglutathione reductase (GSNOR) in yeast, plants and mammals. By employing an overlapping deletion technique to knock-out gsnor, a role for S-nitrosylation in the immune response of D. melanogaster is proposed. Compared to wild type flies, gsnor overlapping deletion flies presented lower expression of antimicrobial peptides in response to infections, and succumbed more rapidly to both Gram-positive bacterial and fungal pathogens. As the Toll pathway mediates responses against these pathogens, key components of this network were tested for their propensity to being S-nitrosylated. Two CLIP-domain serine proteases of the Toll signalling pathway, Persephone (PSH) and Spätzle-Processing Enzyme (SPE), were shown to be S-nitrosylated both in vitro and in vivo and this process seemed to control the quaternary structure of these proteins and interfere with the immune response of D. melanogaster. At least for PSH, S-nitrosylation at C254 has an immune significance as the expression of non-Snitrosylable PSHC254S in gsnor knock-out flies partially recovered the resistance of these animals to infections with the entomopathogenic fungus Beauveria bassiana. These findings might represent a novel mechanism by which NO and S-nitrosylation regulate immunity. Further results presented in this thesis reveal an interplay between reactive oxygen species (ROS) and reactive nitrogen species (RNS) in D. melanogaster physiology and immunity. Similarly to what has been reported in Arabidopsis thaliana, gsnor knock-out flies presented higher tolerance to the herbicide paraquat, an inducer of superoxide (O2 -) production. Moreover, additional mutations in Catalase (Cat), a hydrogen peroxide (H2O2) scavenger enzyme, partially restored the immunodeficiency phenotypes of gsnor knock-out flies. These findings suggest an inter-relation between the levels of ROS and RNS during stress responses of plants and animals. In addition, CRISPR/Cas9 technology was employed to generate gsnor knock-outs in the genome of D. melanogaster. These flies were shown to have no GSNOR activity, presented lower tolerance to pharmacological-induced nitrosative stress and succumbed faster to infections with B. bassiana compared to wild type flies. These results support the role played by GSNOR in regulating NO homeostasis and immunity in D. melanogaster.

No description available.

Genome-wide binding and expression studies in Drosophila melanogaster have revealed widespread roles for Dichaete and SoxNeuro, two group B Sox proteins, during fly development. Although they have distinct target genes, these two transcription factors bind in very similar patterns across the genome and can partially compensate for each other's loss, both phenotypically and at the level of DNA binding. However, the inherent noise in genome-wide binding studies as well as the high affinity of transcription factors for DNA and the potential for non-specific binding makes it difficult to identify true functional binding events. Additionally, externalfactors such as chromatin accessibility are known to play a role in determining binding patterns in Drosophila. A comparative approach to transcription factor binding facilitates the use of evolutionary conservation to identify functional features of binding patterns. In order to discover highly conserved features of group B Sox binding, I performed DamID-seq for SoxNeuro and Dichaete in four species of Drosophila, D. melanogaster, D. simulans, D. yakuba and D. pseudoobscura. I also performed FAIRE-seq in D. pseudoobscura embryos to compare the chromatin accessibility landscape between two fly species and to examine the relationship between open chromatin and group B Sox binding. I found that, although the sequences, expression patterns and overall transcriptional regulatory targets of Dichaete and SoxNeuro are highly conserved across the drosophilids, both binding site turnover and rates of quantitative binding divergence between species increase with phylogenetic distance. Elevated rates of binding conservation can be found at bound genomic intervals overlapping functional sites, including known enhancers, direct targets of Dichaete and SoxNeuro, and core binding intervals identified in previous genome-wide studies. Sox motifs identified in intervals that show binding conservation are also more highly conserved than those in intervals that are only bound in one species. Notably, regions that are bound in common by SoxNeuro and Dichaete are more likely to be conserved between species than those bound by one protein alone. However, by examining binding intervals that are uniquely bound by one protein and conserved, I was able to identify distinctive features of the targets of each transcription factor that point to unique aspects of their functions. My comparative analysis of group B Sox binding suggests that sites that are commonly bound by Dichaete and SoxNeuro, primarily at targets in the developing nervous system, are highlyconstrained by natural selection. Uniquely bound targets have different tissue expression profiles, leading me to propose a model whereby the unique functions of Dichaete and SoxNeuro may arise from a combination of differences in their own expression patterns and the broader nuclear environment, including tissue-specific cofactors and patterns of accessible chromatin. These results shed light on the evolutionary forces that have maintained conservation of the complex functional relationships between group B Sox proteins from insects to mammals.

The development of behavioural resistance in Anopheles mosquitoes is an important threat to the sustainability of current vector interventions, which selectively target mosquitoes that are found indoors. Changes in the following behaviour have been reported in several Anopheles vectors: biting time, host preference, biting and resting behaviour. However, a critical review of the published literature reveals that behavioural resistance has not been demonstrated clearly in Anopheles, highlighting important limitations in using entomological data to investigate the evolution of behaviour. The availability of next generation sequencing and low-cost custom genotyping technologies makes it possible to investigate behavioural resistance using genetic information as an alternative approach. Using such technologies, this thesis aims to investigate whether Anopheles vectors are evolving towards outdoor-biting behaviour ('exophagy') by examining the genetic difference between the indoor- and -outdoor population of the main African malaria vectors, An. coluzzii and An. gambiae from The Gambia and Uganda, respectively. We also investigated the role of olfactory-related genes in driving the potential genetic difference between the two populations. We found limited divergence between the two populations overall, however close inspection identified SNPs potentially associated with outdoor-biting behaviour as well as genomic regions displaying elevated levels of differentiation between the two populations. Most notably, gustatory receptors, Gr11 and Gr12 and the odour receptor, OR1 were identified as well as, genes related to transcription, signal transduction and catalysis. We discuss the potential role of these genes in determining biting behaviour and suggest that further investigation of these genomic regions is required to confirm the early-stage divergence of indoor- and outdoor-biting Anopheles populations.

The mosquito Aedes aegypti is responsible for 50 million dengue fever infections in humans each year. A novel control strategy, named RIDL (Release of Insects carrying a Dominant Lethal) relies on releasing large numbers of genetically sterile male insects in order to control pest populations. This thesis describes the development of new tools to improve the efficiency of RIDL against Ae. aegypti and assessment of candidate strains for field release. <strong>Chapter 3</strong> describes a new selection system for Ae. aegypti based on ethanol susceptibility conferred by the alcohol dehydrogenase gene (Adh) from Drosophila melanogaster. I observed that the susceptibility of Ae. aegypti larvae to ethanol can be triggered by expression of Adh in larvae. <strong>Chapters 4</strong> and <strong>5</strong> focus on RIDL strains with a genetic sexing mechanism, for easy and stringent selection for males before mass-releases, eliminating disease- transmitting females. In <strong>Chapter 4</strong>, I describe the creation of a late-acting sexing strain of Ae. aegypti based on the Ae. aegypti doublesex (Aedsx) alternative splicing system. In <strong>Chapter 5</strong>, I describe an attempt to create an early-acting sexing system. Killing the females of the release generation early would free space and resources for the production of males. This was done by combining the Adh gene and the Aedsx alternative splicing system described in <strong>Chapters 3</strong> and <strong>4</strong>. <strong>Chapter 6</strong> reports the results of a comparison, in terms of quality and productivity, between an existing Ae. aegypti RIDL strain and a wild-type control. Results showed equivalent female quality and productivity between the two strains, while RIDL males were less fertile in comparison with wild-type males. RIDL eggs also seemed more susceptible to long- term storage. The results of this work show promise for development of novel RIDL strains that may be used in the field to control disease-transmitting mosquitoes.

Elaborate morphological ornaments can evolve if they increase the reproductive success of the bearer during competition for mates. However, ornament evolution is incredibly rare in females, and the type and intensity of selection required to develop female-specific ornamentation is poorly understood. The main goals of my thesis are to clarify the relationship between the type and intensity of sexual selection that drives the evolution of female ornamentation, and investigate alternative hypotheses that might be limiting or contributing to the development of female ornaments. I investigated the ecology and evolution of female-specific ornaments within and between species of dance flies from the subfamily Empidinae (Diptera: Empididae). The dance flies display incredible mating system diversity including those with elaborate female-specific ornaments, lek-like mating swarms, aerial copulation and nuptial gift giving. To elucidate the form of sexual selection involved in female-ornament evolution, I experimentally investigated the role of sexual conflict in the evolution of multiple female- specific ornaments in the species Rhamphomyia longicauda. Through manipulative field experiments, I found that variation in the attractiveness of two ornaments displayed by females indicates that sexual conflict, causing a coevolutionary arms race, is an important force in the evolution of multiple extravagant female ornaments. Using R. longicauda again, I tested for a role of functional load-lifting constraints on the aerial mating ability of males who paired with females displaying multiple large ornaments. I found no evidence of functional constraints influencing the mating opportunities of elaborately ornate females, but instead discovered a relationship consistent with positive assortative mating for mass. Biased sex ratios are predicted to increase the intensity of sexual selection in a population, which in turn, is predicted to influence the evolution of ornamentation. I measured the incidence and prevalence of vertically transmitted symbiotic bacteria that has been observed to distort the sex ratio in other Dipteran hosts. While my survey revealed that symbionts occur at high incidence and variable prevalence across dance fly hosts, I found no effect of symbiont infection levels on population sex ratios, or female- specific ornament evolution. Further investigation into the relationship between sex ratios and female-ornament evolution using the comparative method revealed that the operational sex ratio (OSR) of a population did not predict continuous measures of female ornamentation across species. However, female-ornament evolution did predict male relative testis investment across species indicating that female ornaments likely indicate increased levels of polyandry. My thesis reveals that sexual selection theory developed to describe male-specific ornament evolution cannot readily be translated to apply to females. I show that male mate choice, rather than functional constraints or ecological associations with bacteria, is likely driving the evolution of female-specific ornaments. I also identify sexual conflict as an important selective force in the evolution of female-specific ornaments.

Understanding how organisms function is central to Biology. Assessing how animals respond to fluctuations in their environment and determining inter-individual variation in phenotypic plasticity is paramount to identifying the physiology of traits, the selective pressures which have shaped them, and how we can manipulate them to benefit human life. The over-arching goal of my thesis is to understand the effects of sex, diet and pathogen exposure on the physiology of the fruit fly to assess the versatility of their individual traits in response to these natural factors. Chapter 2 investigates how the sexes utilise nutrition towards their lifespan and reproduction, providing evidence that the reproduction of males and females requires different dietary components while lifespan does not. Chapter 3 reveals that the sexes also differ in how they utilise nutrients for pathogen resistance identifying that females are highly protein-limited and more susceptible to infection than males. Chapter 4 provides the first comprehensive study of how organisms alter their dietary intake in response to infection, finding that flies behaviourally ingest less and consume higher protein:carbohydrate ratio diets when exposed to live fungal spores. Chapter 5 explores the phenomenon of trait-enhnacing external stresses, a response often termed hormesis. This study reveals that the beneficial physiological response from inactive fungal spore exposure, a potential form of hormesis, incurs immune costs. The implications of my results to the field of physiology are discussed in Chapter 6 where I also highlight the limitations of my work and potential consequences for life history research. Overall it is determined that studies investigating the natural physiological response of organisms or potentially beneficial treatments for our own species, must consider sex-specific effects, physiological consequences in a variety of traits, and how organisms may utilise variation within their environment to alter their phenotypic condition.