Plusieurs insectes se développant dans des milieux nutritionnellement déficients vivent en symbiose durable avec des bactéries intracellulaires (endosymbiotes) qui complémentent leur alimentation et améliorent leur pouvoir adaptatif. Alors que ces associations ont été largement étudiées sur les plans physiologiques et évolutifs, peu de travaux se sont consacrés à l’étude des mécanismes impliqués dans la tolérance et le contrôle des endosymbiotes par l’hôte. L’objectif de cette thèse est d’étudier, chez les charançons des céréales du genre Sitophilus, les particularités moléculaires et immunitaires du bactériome, un organe que l’insecte développe pour héberger les symbiotes et les isoler de sa réponse immunitaire systémique. Le bactériome du charançon exprime une réponse immunitaire modulée : des études transcriptomiques ont montré que les effecteurs de l’immunité sont peu exprimés dans cet organe, à l’exception d’un gène codant un peptide antimicrobien, la coléoptéricine A. Cette dernière interagit avec les endosymbiotes et participe à leur confinement intracellulaire. Dans une première partie, j’ai montré avec une approche d’interférence à l’ARN que l’expression du gène colA serait contrôlée par un système original qui impliquerait les gènes relish et tollip. Cette régulation « interne » au bactériome semble assurer le maintien des endosymbiotes et l’homéostasie de l’organe. Afin de comprendre comment le bactériome répond à une infection par les bactéries exogènes, j’ai suivi par RT-qPCR l’expression de gènes effecteurs de l’immunité dans le bactériome après injection systémique de bactéries à Gram positif ou négatif. Ceci a mis en évidence une réponse « externe », induite en cas d’infection, et qui aurait un rôle de protection des endosymbiotes contre les bactéries exogènes. Enfin, je me suis consacré à l’étude des changements de régulation accompagnant le passage du stade larvaire au stade adulte, marqué par une symbiose très dynamique. Le nombre d’endosymbiotes augmente fortement pendant les premiers jours de vie imaginale, puis diminue jusqu’à leur élimination complète par recyclage autophagique. Une analyse RNAseq a permis d’identifier les voies de signalisation dont l’activité accompagne cette dynamique. Une approche de RT-qPCR a également montré que l’immunité du bactériome est maintenue à un faible niveau d’activation pendant tout le processus de recyclage. Ce travail montre qu’au cours de leur évolution, les insectes ont sélectionné plusieurs stratégies pour assurer le maintien et l’ajustement de leur charge endosymbiotique en fonction de leurs besoins physiologiques : une signalisation immunitaire assurerait le confinement intracellulaire des endosymbiotes, et un ensemble de processus cellulaires incluant l’apoptose et l’autophagie semble être en associé aux voies métaboliques pour assurer le contrôle de la dynamique bactérienne et garantir le compromis bénéfice/coût de la symbiose. / Many insect species living on nutritionally unbalanced media depend on intracellular mutualistic bacteria, called obligatory endosymbionts, for their development and reproduction. Endosymbionts are housed in specialized host cells called bacteriocytes, that group together to form the bacteriome organ. Although such associations have been widely investigated on a physiological and evolutionary point of view, little is known about the mechanisms involved in the tolerance and the control of endosymbionts by the host. This work aims at deciphering the molecular and immune specificities of the bacteriome using the model system Sitophilus oryzae, the cereal weevil, and its obligate endosymbiont Sodalis pierantonius. The weevil bacteriome expresses a modulated immune response: transcriptomic studies showed that immune effector genes were lowly expressed despite the massive bacterial presence, with the exception of colA, a gene encoding for Coleoptericin A, an antimicrobial peptide. Coleoptericin A interacts with endosymbionts and participates in their intracellular seclusion. In a first chapter, I used RNA interference to demonstrate that colA gene expression may be controlled by an original system involving the genes relish and tollip. This “internal” regulation for endosymbiont control seems to maintain bacteriome homeostasis. In a second chapter, in order to understand how the bacteriome responds to an infection by exogenous bacteria, I followed up by RT-qPCR the expression of immune effector genes in the bacteriome after injection of Gram positive and Gram negative bacteria. This highlighted an “external” immune response, inducible upon infections, which may enable endosymbiont protection against exogenous intruders. In a third and last chapter, I focused on the regulation changes that accompany the switch from the larval stage to the imaginal stage, the latter being characterized by a very dynamic symbiosis. Endosymbiont load drastically increases during the first days of imaginal life, then rapidly decreases until complete elimination of the bacteria by autophagic recycling. RNAseq analysis allowed the identification of signaling pathways linked to this dynamic. A complementary RT-qPCR approach also showed that bacteriome immunity was laid low during the whole recycling process. This work shows that several strategies have been selected during host-symbiont coevolution to ensure the maintenance of the endosymbionts and the adjustment of their population depending on the insects physiological needs: immunity allows the intracellular seclusion in the bacteriocytes, and cell processes including autophagy and apoptosis are associated to metabolic pathways to control the endosymbiotic dynamics and secure the cost and benefit trade-off of symbiosis.

Dans un contexte où l’utilisation de substance chimique en agriculture est de plus en plus décriée, il est nécessaire de trouver de nouveaux moyens de protections des cultures, tout en maintenant une agriculture économiquement performante. Ainsi, un peptide extrait de graines de pois nommée PA1b (Pea Albumin 1 sous-unité b), présentant une forte activité insecticide a été découvert au laboratoire. PA1b provoque chez l’insecte modèle du laboratoire, le charançon des céréales Sitophilus sp., 100% de mortalité. L’action de PA1b passe par la liaison à un récepteur présent chez les charançons sensibles, et cette liaison est absente chez les charançons résistants ; ce récepteur est une pompe à protons nommée V-ATPase pour Vacuolar ATPase. Elle est composée de 14 sous-unités organisées en deux complexes protéiques nommés V1 (intracellulaire) et V0 (membranaire). PA1b agissant à l’extérieur des cellules seul le complexe V0 composé des sous - unités a, c, d et e pouvait être le récepteur de notre toxine. Mon premier objectif de thèse a été de comprendre le mode d’action de PA1b, en identifiant d’abord la ou les sous-unités réceptrices de PA1b, puis en recherchant par quel mécanisme la liaison de PA1b induit la mort de l’insecte. Nous avons cloné chez le charançon tous les gènes du complexe Vo, puis j’ai complémenté des levures déficientes pour ces gènes. Ce travail, mais également celui réalisé en collaboration avec d’autres équipes, nous a permis de proposer un modèle de perception de PA1b qui implique les sous-unités c et e de la V-ATPase, et permet également de proposer des hypothèses pour les différentes résistances au peptide. Par des méthodes d’immunohistologie et de biochimie, j’ai ensuite montré de manière concordante que la liaison de PA1b à la V-ATPase déclenche un phénomène d’apoptose qui conduit à la mort cellulaire, puis à la mort de l’insecte. Le second objectif de ma thèse était la mise en place d’un système de production hétérologue de PA1b. Grâce à l’expression hétérologue par infiltration de feuille de tabac (Nicotiana benthamiana) nous avons mis en place une technique de production efficace de la protéine PA1b. Après avoir déterminé les parties du gène codant PA1b nécessaires à la production de la protéine fonctionnelle, le système de production a ensuite été simplifié par la construction d’une cassette d’expression. Ainsi six isoformes de PA1b présents chez le pois, dont l’activité individuelle restait inconnue, ont été produits et testés, permettant de montrer que le caractère amphiphile de PA1b était primordial pour son activité. Par cette technique nous avons mis en place un système de production rapide et efficace permettant de tester la toxicité de nombreux isoformes de PA1b. Ce travail sera une aide précieuse pour le projet, dont l’un des objectifs majeurs est l’optimisation de PA1b, c’est-à-dire de déterminer la séquence peptidique la plus toxique. / In a context where chemical pesticides are increasingly criticized, new crops protection strategies that do not affect agriculture efficiency and productivity, must be found. A new peptide extracted from pea (Pisum sativum) seeds, named PA1b (Pea albumin 1 subunit b), and showing an important insecticide activity, was discovered in our laboratory. PA1b induces 100% mortality in our insect model, the cereal weevil, Sitophilus sp. PA1b acts by interacting with a receptor, this interaction is present in sensitive weevil, but not present in resistant weevil. The PA1b receptor is the vacuolar H+ -ATPase (V-ATPase), a multi-subunit proton pump. The V-ATPase is composed of two functional protein complexes named V1 (in the cytoplasm) and V0 (in the membrane). As PA1b is known to act only in the extracellular space, thus only the V0 complex, composed on the subunits a, c, d and e, can be the toxin receptor. The first aim of this thesis is to understand the PA1b mode of action: (i) identifying the subunit(s) acting as the receptor(s), (ii) understanding how the binding mechanism of PA1b on the receptor lead to the insect death. The weevil V0 complex genes were cloned and we used them for a functional complementation tests in yeasts strains deleted for these genes. Our data, together with those obtained through collaboration, lead to the proposal of model for the PA1b perception signaling which would involve subunits c and e of the V-ATPase. The identification of the PA1b receptor allows us to propose a hypothetical model explaining resistance mechanism to the peptide. Using immunohistology and biochemistry methods, we showed that PA1b-receptor interaction induced cells death triggered by apoptosis thus leading to insect death. The second aim of this thesis was the development of a PA1b heterologous production system. Through Agrobacterium tumefaciens mediated transient transformation by infiltration in tobacco leaves (Nicotiana benthamiana) an efficient system for PA1b production was developed. After identification of the essential parts of the complex PA1 gene necessary for efficient PA1b production, we created an expression cassette to simplify our heterologous production system. We used the system to produce six pea PA1b-isoformes with unknown individual toxic activity. The isoforms toxicity was experimentally determined, and our data showed that the amphiphilic properties of PA1b are essential for the maintenance of its toxic activity. For the first time, we implemented a quick and efficient production system, which allows to produce and to test many naturals or synthetics PA1b isoforms. This work will be useful to achieve one of the most important objectives of the research on this molecule, that is the identification.

Le système de sécrétion de type II (T2SS) est largement répandu chez les bactéries à Gram négatif. Il permet la sécrétion d’enzymes lytiques et de toxines. Chez la bactérie phytopathogène Erwinia chrysanthemi, les pectinases, sécrétées par ce système appelé Out, dégradent la pectine, provoquant les symptômes de pourriture molle. La sécrétion par le T2SS se passe en 2 étapes : les protéines traversent la membrane interne par le système Sec ou le système Tat. Une fois dans le périplasme, elles sont repliées et transloquées par le T2SS à travers la membrane externe. Le système Out est composé de 14 protéines intégrées ou associées à l’une des deux membranes. Son assemblage et son fonctionnement restent obscurs. Une plateforme serait formée dans la membrane interne par OutE, -F, -L, -M et –C. Ces trois derniers composants sont des protéines bitopiques dont la stœchiométrie et le rôle sont inconnus. Pour identifier des interactions entre ses composants, nous avons utilisé le double-hybride bactérien, basé sur la reconstitution de l’activité d’adénylate cyclase. Nous avons démontré que le domaine de type ferrédoxine, situé en C-terminus d’OutL et d’OutM, est directement impliqué dans l’homo- et l’hétérodimérisation de ces protéines. Une interaction entre les régions périplasmiques d’OutC et d’OutD a été aussi détectée (Login et al., 2010). Pour mieux analyser les multiples interactions au sein du T2SS, des expériences de triple-hybride ont été réalisées en co-exprimant différentes combinaisons des régions solubles de trois composants. Nos résultats suggèrent qu’OutL empêche l’interaction entre OutC et OutD. Par ailleurs, OutL est impliquée dans l’activation de l’ATPase OutE, le moteur du système (Camberg et al., 2007). OutL serait donc impliquée dans la transmission du signal entre le périplasme et le cytoplasme et pourrait intervenir dans la dissociation du complexe OutD/OutC. Afin d’analyser le rôle des segments transmembranaires (TMS) de composants du T2SS, nous avons adapté la technique du double-hybride. Le domaine de la protéine rapporteur Cya a été fusionné au N-terminus du TMS et BlaM au C-terminus. BlaM sert à contrôler la topologie correcte des fusions dans la membrane. Plusieurs interactions bi-partenaires entre les TMS d’OutC, OutL et OutM ont été ainsi détectées. Ce travail a été complété par une étude in vitro (pull-down) et par mutagenèse dirigée. Ces interactions TMS-TMS pourraient intervenir dans la transmission du signal du périplasme vers le cytoplasme à travers la membrane interne. / The type II secretion system (T2SS) is widely used to secrete toxins and lytic enzymes by animal and plant pathogenic Gram-negative bacteria. The phytopathogen bacterium Erwinia chrysanthemi secretes several pectinases by the T2SS called Out and causes soft rot disease. The exoproteins cross the cytoplasmic membrane either by the Sec or Tat systems. Once in the periplasm, the folded exoproteins are translocated across the outer membrane by the T2S machinery. The Out system is composed of 14 proteins integrated in or associated with the two bacterial membranes. The molecular organization and the mode of action of the T2SS remain unclear. Several components of this T2SS, OutC, -L, -M, -F and -E, are thought to form a platform in the inner membrane OutC, -Land -M are bitopic inne membrane but their stoichiometry and role in secretion are unknown. We used a bacterial two-hybrid system to detect protein interactions We have shawn that the ferredoxin-like domain at the C-terminus of OutL and OutM allows homo- and - heterodimerization of these proteins. An interaction between OutC and OutD periplasmic regions has been detected (Login et al., 201 0). Three-hybrid has been performed and our results suggest that OutL would destabilize the interaction between OutC and OutD. Also, OutL is implicated in the activation of ATPase OutE, which is thought to be the motor of the system (Cam berg et al., 2007). Thus, OutL could be implicated in the signal transduction from periplasme to cytoplasm and could dissociate the OutC/ OutD complex. To analyse protein-protein interactions within bacterial membranes, we developed a system specially adapted from the bacterial two-hybrid. One of the sub-domain of Cya has been fused to the N-terminus of TMS and BlaM to the C-terminus. Correct topology of fusions can be controlled using BlaM properties. B using this assay znd site-directed mutagenesis, we detected multiple bi-partner interactions between the TMS of OutC, OutL and OutM.

<b>Background</b>: The world is at risk of epidemics of novel and reemerging infectious diseases. These may be national, regional or international as in the case of Nipah, African Viral Haemorrhagic Fevers, SARS and H1N1 respectively. It is crucial that public health and clinical research is conducted in such epidemics. Yet the conduct of heath research during rapidly evolving epidemics or disasters represents an enormous challenge. In addition to the large number of practical challenges to undertaking such research there are also major ethical issues to consider. However, there is very little understanding of these ethical issues and very little empirical evidence of the views of patients, their families, society and key stakeholders. <b>Objective</b>: To collect and analyse data on ethical considerations arising in the setting of research on rapidly evolving epidemics posed by the urgent and unpredictable nature of epidemics. <b>Design</b>: The study was conducted in Oxford University Clinical Research Unit (OUCRU), Viet Nam and 3 other hospitals in Viet Nam with experience of epidemics. Data were collected by semi-structured interviews with key stakeholders representing research staff, IRB members, patients/family members and study sponsors/funders who have participated in or reviewed research projects on infectious diseases including SARS, H5N1, H1N1, dengue and Hand, Foot, Mouth disease. <b>Result</b>: A total of 64 interviews with all key stakeholders were conducted. Analysis of the ethical problems/challenges discussed in the interviews led to the identification of three themes 1) International research collaboration, 2) IRB review and 3) Consent. These tended to arise at three levels of relationship: macro (between institutions internationally), meso (within and between institutions nationally) and micro (within institutions and between health professionals and patients). <b>Conclusion</b>: The issues and types of considerations and their relative importance were raised and/or valued differently by the members of different key stakeholder groups due to their role and experience in research participation. Some of the issues raised also related to health research in other settings. However, many were unique to the setting of rapidly evolving epidemics. Addressing these issues is crucial for successful and appropriate research in the context of epidemics. It is inevitable that epidemics of emerging and reemerging infectious diseases will occur in the future and there is a clear need to undertake crucial scientific research in such settings. It is therefore imperative that we understand the challenges and ethical issues surrounding such research. It is desirable that further research into the ethical challenges identified in this thesis takes place in the inter-epidemic period in order to better prepare for the next epidemic.

<p>The transport of drugs across the blood-brain barrier (BBB) has been investigated in different species using morphine and morphine-6-glucuronide (M6G) as model compounds. The influence of probenecid on the BBB transport of morphine and M6G was investigated, and the consequences of meningitis and severe brain injury on the concentrations of morphine in the brain were examined. All data were obtained by microdialysis, and data analysis using mathematical models was emphasised.</p><p>Morphine is exposed to active efflux at the BBB in rats, pigs and humans. In addition, the half-life of morphine is longer in the brain than in blood in these species. These interspecies similarities show the predictive potential of the two animal models for the BBB transport of morphine in humans. In the pig the exposure of the brain to morphine was higher in the presence of meningitis than when healthy. This was interpreted as a decrease in the active efflux and an increase in the passive diffusion over the injured BBB. In contrast, there was no significant difference in the concentrations of morphine in the “better” (uninjured) or the “worse” (injured) brain tissue in brain trauma patients. The extent of the transport across the BBB is similar for morphine and M6G. However, co-administration of probenecid only increased the brain concentrations of morphine, demonstrating that morphine and M6G are substrates for different efflux transporters at the BBB. An integrated model for the analysis of data obtained by microdialysis was developed. This model makes fewer assumptions about the recovery, the protein binding and the time of the dialysate observation than a previous model and traditional non-compartmental analysis and should, therefore, yield more reliable parameter estimates.</p><p>Knowledge of the consequences of efflux transporters and disease on the brain concentrations of a drug can be useful for individualising the dosing regimen in patients. </p>

<p>To increase the proportion of patients with successful drug treatment, dose individualisation on the basis of one or several patient characteristics, <i>a priori</i> individualisation, and/or on the basis of feedback observations from the patient following an initial dose, <i>a posteriori</i> individualisation, is an option. Efficient tools in optimising individualised dosing strategies are population models describing pharmacokinetics (PK) and the relation between pharmacokinetics and pharmacodynamics (PK/PD).</p><p>Methods for estimating optimal dosing strategies, with a discrete number of doses, for dose individualisation <i>a priori</i> and <i>a posteriori</i> were developed and explored using simulated data. The methods required definitions of (<i>i</i>) the therapeutic target, <i>i.e. </i>the value of the target variable and a risk function quantifying the seriousness of deviation from the target, (<i>ii</i>) a population PK/PD model relating dose input to the target variable in the patients to be treated, and (<i>iii</i>) distributions of relevant patient factors. Optimal dosing strategies, in terms of dose sizes and individualisation conditions, were estimated by minimising the overall risk. Factors influencing the optimal dosing strategies were identified. Consideration of those will have implications for study design, data collection, population model development and target definition.</p><p>A dosing strategy for <i>a priori</i> individualisation was estimated for NXY-059, a drug under development. Applying the estimated dosing strategy in a clinical study resulted in reasonable agreement between observed and expected outcome, supporting the developed methodology.</p><p>Estimation of a dosing strategy for <i>a posteriori</i> individualisation for oxybutynin, a drug marketed for the treatment of overactive bladder, illustrated the implementation of the method when defining the therapeutic target in terms of utility and responder probability, that is, as a combination of the desired and adverse effects.</p><p>The proposed approach provides an estimate of the maximal benefit expected from individualisation and, if individualisation is considered clinically superior, the optimal conditions for individualisation. The main application for the methods is in drug development where the methods can be generally employed in the establishment of dosing strategies for individualisation with relevant extensions regarding population model complexity and individualisation conditions.</p>

<p>During the last years, drugs that prolong the repolarisation phase of the myocardial action potential, due to inhibition of the rapid component of the delayed-rectifying potassium channel (I_Kr) have been in focus. In addition to arrhythmogenic potential, selective Ikr-blockers have also been shown to be embryotoxic and teratogenic in animal studies. The aim of this thesis was to investigate a theory that these developmental toxic results from pharmacologically induced episodes of embryonic cardiac arrhythmias leading to hypoxia related damage in the embryo. Almokalant (ALM) was used as a model compound for selective Ikr-blockers. ALM induced embryonic cardiac arrhythmia, and in similarity with results obtained by maternal hypoxia, ALM induced embryonic death and growth retardation in both rats, and mice. </p><p>The theory of a hypoxia-related mechanism was strengthened by the results that ALM induce phase specific external and visceral defects (e.g. cleft lip/palate, distal digital, cardiovascular, and urogenital defects), and that the skeletal defects (not shown before) showed a clear trend; the later the treatment the more caudal was the site of the defect, which is in accordance with results from maternal hypoxia induced by e.g. lowering of the O₂ content in the air. The spin trapping agent PBN decreased almokalant induced malformations, suggesting that the defects mainly are caused by reoxygenation damage after episodes of severe embryonic dysrhythmia, rather than "pure hypoxia".</p><p>Sotalol was tested in a third species, the rabbit who expresses functional I_Kr channels both in the embryo and in the adult, where it induced developmental toxicity, and indicating that the embryo is more sensitive than the adult towards arrhythmia caused by I_Kr-blockers. </p>

<p>Transposons of the Mu superfamily are widespread and have been shown to play an important role in the dissemination of antibiotic resistance among microorganisms. One of these elements, Tn<i>5090</i>/Tn<i>402</i> is the basal vehicle of the type 1 integrons in which mobile resistance gene cassettes are inserted to form clusters and operons. The transposon was shown to preferentially target recombination sites of the serine family of recombinases that occur in many plasmids and transposons. Mutation analysis revealed that DNA-binding of the targeting factor, a serine recombinase, is essential for efficient transposition, while the recombination activity is not required. Truncated elements were frequently observed and in one instance borne on a composite transposon flanked by IS<i>6100</i>. This new transposon, Tn<i>5089</i>, has allowed the translocation of the integron to small mobilizable IncQ-plasmids that lack the targeting factor and thus are incompetent for insertion of Tn<i>5090</i>/Tn<i>402</i>. Another small replicon, by contrast targeting-positive, was completely sequenced.</p><p>The transposon Tn<i>5090</i>/Tn<i>402 </i>carries arrayed transposase-binding sites at the ends, which are supposed to arrange the transposase TniA in the appropriate geometry in a recombinationally active complex with DNA. Footprinting showed that transposase, TniA, binds to four 19 bp repeats on one end and to two 19 bp repeats on the other end.</p><p>Site-specific resolution of Tn<i>5090</i>/Tn<i>402</i> co-integrates<i> </i>was analysed in an <i>in vitro </i>system. The<i> res</i> site was found to be composed of three unusually organized subsites and expression of TniC was shown to be autoregulated by TniC acting as repressor due to an overlap of the <i>res</i> site with the promoter. </p><p>The data presented show several aspects of cooperation between transposition and site-specific recombination. This cooperation has enriched genes and combinations of genes that mediate resistance to antibiotic drugs and promotes lateral transfer of these genes. The organization of sites and subsites in the DNA is a subtle genetic code for the formation of the molecule complexes controlling these genetic events. </p>

<p>Artemisinin is the parent compound of a novel family of antimalarials. Repetitive administrations of artemisinin to both healthy volunteers and malaria patients have been shown to result in decreased plasma concentrations of the compound, most probably due to an autoinduction of different CYP450 enzymes. The aim of this thesis was to investigate the clinical pharmacokinetics and efficacy of different dosage regimens of the drug, and study the kinetics of the enzyme induction. Moreover, the putative interaction of the compound with blood components was investigated in vitro. </p><p>Artemisinin was found to distribute into red blood cells, competing with oxygen for binding to hemoglobin. The compound was stable in plasma and, in contrast to previous reports, did not bind to red blood cell membranes. </p><p>To circumvent the logistical and ethical problems associated with plasma sampling, suitability of saliva as substitute was investigated. Moreover, due to the large number of collected samples, an HPLC method, enabling a direct injection of saliva and plasma samples, was developed. </p><p>Saliva artemisinin concentrations were found to correlate with its unbound plasma levels, making saliva a suitable body fluid for pharmacokinetic studies of the compound. Based on saliva samples, artemisinin was shown to exhibit a dose-dependent kinetics and efficacy in malaria patients, with a possible sex-effect on the metabolism of the compound during the first treatment day. Moreover, the time-dependent kinetics of the compound was observed in both malaria patients and healthy subjects. A physiological approach was utilized to model the autoinduction in the latter group. A model with a feedback mechanism of enzymes was able to describe the data, with estimations of the half-lives of induction (3.15 hrs) and elimination of enzymes (32.9 hrs), as well as pharmacokinetic parameters of artemisinin. </p><p>In conclusion, artemisinin was found to exhibit a fast induction of enzymes, with time- and dose-dependent drug kinetics and dose-dependent antimalarial efficacy. </p>

<p>Pharmacometrics uses models based on pharmacology, physiology and disease for quantitative analysis of interactions between drugs and patients. The availability of software implementing modern statistical methods is important for efficient model building and evaluation throughout pharmacometric data analyses.</p><p>The aim of this thesis was to facilitate the practical use of available and new statistical methods in the area of pharmacometric data analysis. This involved the development of suitable software tools that allows for efficient use of these methods, characterisation of basic properties and demonstration of their usefulness when applied to real world data. The thesis describes the implementation of a set of statistical methods (the bootstrap, jackknife, case-deletion diagnostics, log-likelihood profiling and stepwise covariate model building), made available as tools through the software Perl-speaks-NONMEM (PsN). The appropriateness of the methods and the consistency of the software tools were evaluated using a large selection of clinical and nonclinical data. Criteria based on clinical relevance were found to be useful components in automated stepwise covariate model building. Their ability to restrict the number of included parameter-covariate relationships while maintaining the predictive performance of the model was demonstrated using the antiarrythmic drug dofetilide. Log-likelihood profiling was shown to be equivalent to the bootstrap for calculating confidence intervals for fixed-effects parameters if an appropriate estimation method is used. The condition number of the covariance matrix for the parameter estimates was shown to be a good indicator of how well resampling methods behave when applied to pharmacometric data analyses using NONMEM. The software developed in this thesis equips modellers with an enhanced set of tools for efficient pharmacometric data analysis. </p>