The prevalence of both Type 2 diabetes mellitus (T2DM) and Alzheimer's disease (AD) is increasing worldwide, and the trends are unfortunately expected to continue. AD has recently been tied with mitochondrial dysfunction and insulin resistance, creating a mechanistic tie between AD and T2DM. Unfortunately, insulin resistance is often increased with aging and therefore, all individuals are at risk of brain mitochondrial dysfunction. Without proper mitochondrial function, the brain will degenerate, causing impaired cognitive function and reduced quality of life. The purpose of this study is two-fold: first, to understand the role of ceramides in insulin-induced brain mitochondrial dysfunction, and; second, to understand how ketones can restore brain mitochondrial function in aged brains. To evaluate the role of insulin resistance and ceramides in brain mitochondrial function, we induced hyperinsulinemia in ApoE4 mice. In addition to insulin, one group received myriocin injections to inhibit ceramide biosynthesis. We observed significant increases in brain ceramides in the insulin-treated group, which correlated with disrupted brain mitochondrial function. However, the group receiving myriocin alone, and, importantly, myriocin with insulin, had normal lipid profiles and normal mitochondrial bioenergetics. Altogether, these findings support the hypothesis of the key role of ceramides in insulin resistance-induced mitochondrial dysfunction within the brain. Next, young adult (5 months old) and old (28 months old) rats were assigned to either standard chow diets or very-low-carbohydrate, high-fat, ketogenic diets for 4 weeks. Following the treatment period, we analyzed brain mitochondrial function and oxidative stress. We found that the old rats fed the ketogenic diet had improved mitochondrial function in comparison to the old rats consuming standard rodent chow. In addition, the old rats fed a standard diet had significantly higher levels of oxidative stress than the aged rats on the very-low-carbohydrate, high-fat diet. These findings revealed that ketones can protect brain mitochondrial function in aging. Collectively, these results suggest that insulin resistance has a role in the development of brain mitochondrial dysfunction due to ceramide accumulation, while ketones can help mitigate some of the negative consequences of aging, perhaps some due to insulin resistance, on brain mitochondrial function.

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The Mitochondrial Pyruvate Carrier (MPC) occupies a central metabolic node by transporting cytosolic pyruvate into the mitochondrial matrix, thereby linking glycolysis with mitochondrial metabolism. Two reported human MPC1 mutations cause developmental abnormalities, neurological problems, metabolic deficits, and for one patient, early death. We aimed to understand biochemical mechanisms by which the human patient c.C289T and c.T236A MPC1 alleles disrupt MPC function. MPC1 c.C289T encodes two protein variants, a mis-spliced, truncation mutant (A58G) and full-length point mutant (R97W). MPC1 c.T236A encodes a full-length point mutant (L79H). Using human patient fibroblasts and complementation of CRISPR-deleted, MPC1 null mouse C2C12 cells, we investigated how MPC1 mutations cause MPC deficiency. Truncated MPC1 A58G protein was intrinsically unstable and failed to form MPC complexes. The MPC1 R97W protein was less stable but when overexpressed formed complexes with MPC2 that retained pyruvate transport activity. Conversely, MPC1 L79H protein formed stable complexes with MPC2, but these complexes failed to transport pyruvate. These findings inform MPC structure-function relationships and delineate three distinct biochemical pathologies resulting from human patient MPC1 mutations and inform fundamental MPC structure-function relationships. These results also demonstrate an efficient molecular genetic system using the mouse C2C12 cell line to mechanistically investigate human inborn errors in pyruvate metabolism.

Mitochondria are organelles present in eukaryotic cells that play a key role in regulating cells’ metabolic processes as well as cell death. The main function of mitochondria is to produce ATP, by oxidizing nutrients in a process called oxidative phosphorylation (OXPHOS). Besides this, mitochondria also play a critical role in calcium homeostasis, cell signaling, and apoptosis. Mitochondrial dysfunction is implicated in a plethora of diseases including neurodegenerative diseases, metabolic disorders as well as ageing and cancer. The triphenylphosphonium (TPP+) moiety has been used as a carrier to direct a wide variety of therapeutic and diagnostic cargo to mitochondria, in an effort to study and treat mitochondrial dysfunction. Studies in recent years show that TPP+ is not an inert carrier as previously thought. Many TPP+ conjugates have been shown to exert a negative effect on mitochondrial and cellular bioenergetics by decreasing the efficiency of OXPHOS. This phenomenon is called ‘mitochondrial uncoupling’. While mitochondrial uncoupling is undesirable for the TPP+ moiety to function as a carrier of cargo to mitochondria, controlled uncoupling has therapeutic applications in treatment of obesity and cancer. The extent of mitochondrial accumulation as well as potency of mitochondrial uncoupling caused by the TPP+ moiety increases with increasing length of the linker functionality in TPP+ conjugates. Most of the studies to date have focused on altering the linker length of the TPP+-linker-cargo conjugate to optimize the balance between safety and efficacy. However, very little is known about how structural modification of the TPP+ moiety itself affects mitochondrial uncoupling potency. Therefore, there is a need to understand the structure activity relationship (SAR) between modification of TPP+ structure and the effect of these structural changes on mitochondrial uncoupling and uptake. Towards this end, the first goal of this study was to understand the effect of modulating electron density on the phosphorus atom of TPP+ on the potency of uncoupling OXPHOS. Modifications to the TPP+ moiety included substitution of electron withdrawing and donating groups on the phenyl rings of TPP+, and replacing phenyl rings with bulkier napthyl rings. Modified TPP+ moieties were conjugated to five different linkers, which varied in length and lipophilicity, and the effect of these conjugates on mitochondrial bioenergetics was studied. The second goal of the study was to evaluate if the propensity of TPP+ to uncouple mitochondrial respiration can be modulated, independently of mitochondrial uptake. For this purpose, the uptake of modified TPP+-linker conjugates into isolated mitochondria and the uptake of fluorescently labeled modified TPP+-linker conjugates into mitochondria within whole cells was investigated. The ability of modified TPP+ to protect cells from oxidative stress by successfully delivering an anti-oxidant cargo to mitochondria within cells was also assessed. The results of these studies establish the first SAR for modulating TPP+ structure to either eliminate, optimize, or maximize uncoupling of mitochondrial OXPHOS, and led to identification of lead molecules for potential applications in the fields of mitochondrial delivery, anti-obesity therapy and anti-cancer therapy.

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La biogénèse des mitochondries est un processus qui implique l’importation de plus de 98% des protéines constitutives de ces organites. Les signaux protéiques impliqués dans l’importation de ces protéines dans les mitochondries sont relativement bien caractérisés. Il y a une dizaine d’année, il a été montré chez la levure et les mammifères que d’autres signaux, présents au niveau des ARNm étaient également impliqués dans l’adressage et l’importation des protéines dans les mitochondries. Ce processus d’adressage d’ARNm à la surface des mitochondries s’est montré fondamental pour la biogénèse et la fonction des mitochondries chez la levure. Au cours de cette thèse, nous avons démontré que des ARNm étaient adressés à la surface des mitochondries chez trois espèces végétales. Par la combinaison d’approches in vitro et in vivo, nous avons également identifié des éléments cis permettant l’adressage d’ARNm à la surface des mitochondries à partir d’un messager candidat : AtVDAC3. Ces éléments cis sont localisés dans une séquence de 142 nt présente dans la région 3’UTR du messager AtVDAC3. Le rôle de ce processus chez les plantes est actuellement en cours d’étude. / Mitochondria biogenesis requires the import of more than 98 % of their constitutive proteins. Proteic signals involved in mitochondrial protein import are well known today. Ten years ago, it was shown in yeast and mammals that targeting signals are also present at the level of mRNAs. Cytosolic mRNA targeting to mitochondria is an extended process concerning half of the mRNAs encoded mitochondrial proteins in yeast. Furthermore, this process is fundamental for yeast mitochondria biogenesis and functions. During this PhD, we showed that some mRNAs are also targeting to mitochondria in three different plant species. These results highlighted the conservation of this process during evolution. By using in vivo and in vitro experimental strategies, we also identified a mitochondrial cis-targeting element in one candidate mRNA: AtVDAC3. This cis-element is 142 nt long and is located in the 3’UTR of the AtVDAC3 mRNA. We are now investigating the roles of this process in mitochondria biogenesis and functions in plants.

Des mutations dans le génome mitochondrial donnent lieu à l’apparition de maladies neuro-dégénératives ou de myopathies. Pour développer des approches de thérapie génique pour prévenir de ces syndromes, nous devons mieux comprendre les mécanismes moléculaires d’import mitochondrial des ARN. Pour cela nous tentons de récapituler in vitro l’import des ARN à partir d’extraits cellulaires fractionnés par différentes méthodes telles que la chromatographie d’exclusion ou d’affinité à l’aide d’étiquettes d’ARN ou de protéines. Nos résultats affinent nos connaissances de ces mécanismes et permettent d’avancer l’idée que l’énolase, une enzyme de la glycolyse, n’agit pas seule lors de la première étape de l’import de l’ARNtLys avec anticodon CUU (tRK1). En effet nous avons montré que l’énolase ultra-purifiée ne se fixait plus à tRK1 in vitro, alors que des préparations de mitochondries de levure récapitulaient l’import lorsque diverses fractions ajoutées à l’énolase étaient testées. Les fractionnements d’extraits opérés permettent de cerner certaines protéines qui pourraient fonctionner de concert avec l’énolase pour véhiculer tRK1 vers la mitochondrie. / Mutations in the mitochondrial genome give rise to neurodegenerative diseases or myopathies. To develop gene therapy for preventing the appearance of these syndromes, we need to better understand the molecular mechanisms of mitochondrial RNA. For this purpose we try to recapitulate in vitro the import of RNA from cell extracts fractionated by different methods such as exclusion or affinity chromatography using tagged RNAs or proteins. Our results refine our knowledge of these mechanisms and allow to advance the idea that enolase, an enzyme of glycolysis, does not act alone during the first stage of import of tRNALys with anticodon CUU (tRK1). Indeed, we have shown that ultra-purified enolase no longer binds to tRK1 in vitro, while preparations of yeast mitochondria recapitulate the import when various fractions mixed with enolase were tested. The performed extracts fractionation make it possible to point to certain proteins which could work in concert with the enolase to convey tRK1 to mitochondria.

Orientador: Cleslei Fernando Zanelli / Resumo: O fator de início de tradução 5A (eIF5A) é altamente conservado em arqueas e eucariotos e essencial para a viabilidade celular. eIF5A sofre uma modificação pós-traducional exclusiva e essencial para sua função, em que um resíduo específico de lisina é convertido em uma hipusina. Apesar eIF5A já ter sido relacionado com o início da tradução, uma quantidade crescente de estudos recentes têm estabelecido sua função na etapa de elongação da tradução, mais especificamente na elongação de sequências que são capazes de induzir um stalling (atraso ou parada) do ribossomo. Entretanto, existem ainda poucos trabalhos realizados com perfil proteômico na ausência de função de eIF5A, de maneira que atualmente pouco se sabe sobre as proteínas que têm sua tradução dependente de eIF5A. Desta forma, o presente projeto visa a busca de proteínas que têm sua tradução dependente de eIF5A através da comparação de perfil proteômico entre linhagens selvagens e mutantes de eIF5A em Saccharomyces cerevisiae. Para isto, utilizamos neste trabalho uma estratégia de perfil proteômico celular in vivo por fluorescência de GFP utilizando uma coleção de 4.156 linhagens, cada uma contendo uma ORF diferente em fusão com GFP no C-terminal, e uma proteína RFP (variante E2Crimson) constitutivamente produzida como normalizador, tanto no background selvagem (HYP2) como mutante para eIF5A (hyp2-3). Esta tese apresenta a análise dos dados de GFP/RFP e a validação desta análise utilizando-se western blot. Os resultados ... (Resumo completo, clicar acesso eletrônico abaixo) / Abstract: The translation factor 5A (eIF5A) is conserved and essential for cell viability. This is the only protein known to contain the amino acid residue hypusine, essential for eIF5A function, generated by a post-translational modification. Although it was initially suggested a function for eIF5A in the translation initiation, eIF5A has been demonstrated to have a role in translation elongation. More recent studies have established that eIF5A is necessary for the elongation of specific sequences, which are able to induce a ribosome stalling. Still, there are few studies with proteomic profile in the absence of eIF5A function and the proteins which syntheses are dependent on eIF5A are not well known. Thus, the present study aims to search for the proteins which syntheses are dependent on eIF5A by proteomic profile comparison between wild-type strains and eIF5A mutants in Saccharomyces cerevisiae. We present a proteomic profile for GFP fluorescence using a 4156 collection of strains, each one containing a different ORF fused to the C-terminal GFP and a protein RFP constitutively produced as normalizing, both in the wild and eIF5A mutant background. This thesis presents GFP / RFP data analysis and data validation using western blot. Our data using an in vivo proteome profile of the ORFs-GFP collection in a hyp2-3 mutant background demonstrating that yeast eIF5A shows several mitochondrial proteins downregulated in the eIF5A mutant. To confirm eIF5A involvement with mitochondrial functi... (Complete abstract click electronic access below) / Doutor

During neuronal activity mitochondria alter cytosolic Ca2+ signaling by buffering then releasing Ca2+ in the cytosol. This calcium transport by mitochondria affects the amplitude, duration, and spacial profile of the Ca2+ signal in the cytosol of neurons. This buffering by mitochondria has been shown to affect a variety of neuronal functions including: neurotransmission, gene expression, cell excitability, and cell death. Recently, researchers discovered that the protein CCDC109A (mitochondrial Ca2+ uniporter) was the protein responsible for mitochondrial Ca2+ uptake. Using a genetic knockout (KO) mouse model for the mitochondrial Ca2+ uniporter (MCU) my research investigated the role of MCU in neuronal function. In cultured central and peripheral neurons, MCU-KO significantly reduced mitochondrial Ca2+ uptake while significantly increasing the amplitude of the cytosolic Ca2+ signal amplitude. Behaviorally, MCU-KO mice show a small but significant impairment in memory tasks: fear conditioning and Barnes maze. Using a maximal electroshock seizure threshold model of in vivo seizure activity my research found that MCU-KO significantly increases the threshold for maximal seizure activity in mice and significantly reduces seizure severity. In addition to mitochondrial Ca2+ uptake, my research also investigated the mechanisms involved in mitochondrial Ca2+ extrusion. The protein SLC8B1 (SLC24A6, NCLX) is the putative transporter responsible for the Na+/Ca2+ exchange, mitochondrial calcium extrusion. Using genetic NCLX-KO mice, our research found that in neurons NCLX contributes to cytosolic Ca2+ extrusion, but does seem to directly affect mitochondrial Ca2+ extrusion.

Sexual reproduction is expected to facilitate the removal of deleterious mutations from populations because biparental inheritance (i.e., segregation) and recombination during meiosis break down linkage disequilibria (LD), allowing mutations to be selected independently from their genetic background. Accordingly, the absence of recombination and segregation is expected to increase selective interference between loci, translating into reduced efficacy of natural selection. While there now exist multiple lines of evidence demonstrating that asexual lineages do experience accelerated accumulation of putatively harmful mutations, whether these mutations influence phenotype in a manner that could contribute to the maintenance of sex remains almost entirely unevaluated. Here, I use the New Zealand freshwater snail, Potamopyrgus antipodarum, to address these questions. In particular, I take advantage of the fact that the mitochondrial genome is expected to suffer from these mutational effects and interacts extensively with the nuclear genome to evaluate potential harmful effects of mutation accumulation in asexuals on a genome-wide scale. I present evidence that harmful mutations remain extant longer in asexual populations than in sexual populations, that the degree of functional constraint determines the extent of mutation accumulation in asexuals, that there is genetic variation for mitochondrial function in asexual lineages of P. antipodarum, and that phenotypic variation for mitochondrial function is mediated by both genetic and environmental variation. Together, these analyses provide strong evidence that asexual lineages are accumulating deleterious mutations, and that there is genetic variation, structured by lake, for mitochondrial function.