Este trabalho enfatiza o estabelecimento de parâmetros relacionados ao estado de estresse oxidativo em uma população de idosos, avaliando-se: níveis de antioxidantes de baixo peso molecular no plasma, vitC, αTC e βCT assim como a sua ingestão alimentar diária; atividade das enzimas antioxidantes eritrocitárias (CuZn-SOD, CAT e GPX) níveis de produtos derivados da oxidação de lipídios, mais especificamente as substâncias reativas ao ácido tiobarbitúrico (SRAT) e a atividade do burst oxidativo em neutrófilos sanguíneos. Foram estudados 90 idosos, residentes na comunidade, com idade igual ou superior a 65 anos, selecionados a partir de uma sub-amostra do projeto EPIDOSO sob acompanhamento regular no Centro de Estudos do Envelhecimento da Universidade Federal de São Paulo. Os parâmetros acima foram comparados aos de uma população adulta jovem saudável (40-49 anos). A ingestão alimentar diária de vitC, vitE e βCT, na população idosa é bastante superior em relação ao grupo de adultos jovens e, também, superior às RDA (recomendações dietéticas diárias). Isto, provavelmente, se deve à orientação clínica e nutricional a que esta população idosa vem sendo submetida, ao longo do tempo. Este dado reforça a importância de um acompanhamento clínico sistemático e diferenciado para o indivíduo idoso. Apesar da adequada ingestão diária de antioxidantes, pela dieta, as concentrações plasmáticas encontradas não se correlacionam com a ingestão, e são inferiores, às concentrações plasmáticas encontradas na população de adultos jovens. Estes resultados indicam que, uma dieta ainda que equilibrada e adequada, não proporciona, concentrações plasmáticas de antioxidantes em idosos, adequadas para controlar a atividade de espécies oxidantes. Estas baixas concentrações plasmáticas de vitC, αTC e βCT, encontradas nos idosos, podem ser atribuídas à diferenças na absorção, distribuição e biodisponibilidade destes antioxidantes, próprias do envelhecimento. A atividade específica das enzimas antioxidantes são superiores às da população de jovens. Além disso, os parâmetros oxidativos são maiores na população idosa, reforçando a idéia do estresse oxidativo presente no envelhecimento. Esses idosos (90) foram submetidos a uma suplementação vitamínico-mineral diária de 800mg de αTC, 15mg de βCT, 2g de vitC e 100 µg de selênio, para observarmos modificações nos parâmetros oxidantes. O estudo de suplementação, randomizado, duplo-cego e controlado por placebo, foi desenhado da seguinte forma: os idosos foram divididos em 2 grupos de tratamento, T1 e T2, onde T1 recebeu inicialmente a suplementação vitamínico-mineral (100 dias) e, depois do período de washout (período em que os parâmetros medidos retornam para os valores basais) recebeu suplementação com placebo (100 dias). O tratamento T2 apresentou desenho inverso (cross-over) ou seja, recebeu a suplementação placebo nos primeiros 90 dias e nos últimos 90 dias recebeu a suplementação vitamínico-mineral. A análise dos resultados após a suplementação vitamínico-mineral demonstra, para T1 e para T2, um aumento nas concentrações plasmáticas de antioxidantes acompanhado de uma diminuição na atividade das enzimas antioxidantes implicando, possivelmente, uma resposta adaptativa da célula. Os parâmetros oxidativos determinados (SRAT e burst oxidativo de neutrófilos) diminuíram com a suplementação. / This work emphasizes the setting of oxidative stress-related parameters in a population of aged individuals, evaluating: plasmatic levels of low molecular weight antioxidants, vitamin C, α-tocopherol (αTC) and β-carotene (βCT) as well as their daily intake; activity of erythrocyte antioxidant enzymes (CuZnSOD, CAT and GPX); lipid oxidation-derived products, more specifically thiobarbituric acid-reactant substances, and blood neutrophil oxidative burst activity. We studied 90 aged subjects living in the community, with ages 65 or more, selected from a subsample of EPIDOSO project under regular supervision by the Centro de Estudos do Envelhecimento of Universidade Federal de São Paulo. The parameters above mentioned were compared to those of a healthy young adult population. The daily intake of vitC, vitE and βCT of the aged population is well above that of young adults, and also above the RDA This is probably due to the clinical and nutritional orientation that has been offered to this aged group. This fact attests to the importance of systematic and specific clinical counseling to the elderly. Despite the proper daily intake of antioxidants, the plasmatic concentrations of these antioxidants do not correlate to their intake, being lower than the plasmatic concentrations in young adults. These results suggest that even a balanced and adequate diet is not enough, in the elderly, to promote the plasmatic antioxidant concentration needed to contral the activity of oxidant species. These low plasma levels of vitC, vitE and βCT in the elderly can be attributed to changes in absorption, distribution, and bioavailability of these antioxidants, which are common in the aging process. The specific activities of the antioxidant enzymes are higher than those of the younger population. Additionally, the oxidative parameters are higher in the aged group, supporting the idea that oxidative stress is involved in the aging process. These aged subjects received a vitamin-mineral supplementation (800 mg αTC, 15 mg βCT, 2g vitC and 100 µg selenium) aiming to modify the oxidative parameters. The randomized, double blind and placebo-controlled supplementation study was thus designed: the aged subjects were divided in 2 treatment groups, T1 and T2, where T1 received, first the vitamin-mineral supplementation (100 days) and then, after a washout period, a placebo treatment (100 days). The T2 group received the same treatment, but in inverse order (cross-over). The result analysis shows an increase in the plasmatic antioxidant concentrations in both treated groups, as well as a decrease in the activities of the antioxidant enzymes, hinting to an adaptive cellular response. The supplementation also decreased the assessed oxidative parameters (SRAT and neutrophil oxidative burst).

Este trabalho enfatiza o estabelecimento de parâmetros relacionados ao estado de estresse oxidativo em uma população de idosos, avaliando-se: níveis de antioxidantes de baixo peso molecular no plasma, vitC, αTC e βCT assim como a sua ingestão alimentar diária; atividade das enzimas antioxidantes eritrocitárias (CuZn-SOD, CAT e GPX) níveis de produtos derivados da oxidação de lipídios, mais especificamente as substâncias reativas ao ácido tiobarbitúrico (SRAT) e a atividade do burst oxidativo em neutrófilos sanguíneos. Foram estudados 90 idosos, residentes na comunidade, com idade igual ou superior a 65 anos, selecionados a partir de uma sub-amostra do projeto EPIDOSO sob acompanhamento regular no Centro de Estudos do Envelhecimento da Universidade Federal de São Paulo. Os parâmetros acima foram comparados aos de uma população adulta jovem saudável (40-49 anos). A ingestão alimentar diária de vitC, vitE e βCT, na população idosa é bastante superior em relação ao grupo de adultos jovens e, também, superior às RDA (recomendações dietéticas diárias). Isto, provavelmente, se deve à orientação clínica e nutricional a que esta população idosa vem sendo submetida, ao longo do tempo. Este dado reforça a importância de um acompanhamento clínico sistemático e diferenciado para o indivíduo idoso. Apesar da adequada ingestão diária de antioxidantes, pela dieta, as concentrações plasmáticas encontradas não se correlacionam com a ingestão, e são inferiores, às concentrações plasmáticas encontradas na população de adultos jovens. Estes resultados indicam que, uma dieta ainda que equilibrada e adequada, não proporciona, concentrações plasmáticas de antioxidantes em idosos, adequadas para controlar a atividade de espécies oxidantes. Estas baixas concentrações plasmáticas de vitC, αTC e βCT, encontradas nos idosos, podem ser atribuídas à diferenças na absorção, distribuição e biodisponibilidade destes antioxidantes, próprias do envelhecimento. A atividade específica das enzimas antioxidantes são superiores às da população de jovens. Além disso, os parâmetros oxidativos são maiores na população idosa, reforçando a idéia do estresse oxidativo presente no envelhecimento. Esses idosos (90) foram submetidos a uma suplementação vitamínico-mineral diária de 800mg de αTC, 15mg de βCT, 2g de vitC e 100 µg de selênio, para observarmos modificações nos parâmetros oxidantes. O estudo de suplementação, randomizado, duplo-cego e controlado por placebo, foi desenhado da seguinte forma: os idosos foram divididos em 2 grupos de tratamento, T1 e T2, onde T1 recebeu inicialmente a suplementação vitamínico-mineral (100 dias) e, depois do período de washout (período em que os parâmetros medidos retornam para os valores basais) recebeu suplementação com placebo (100 dias). O tratamento T2 apresentou desenho inverso (cross-over) ou seja, recebeu a suplementação placebo nos primeiros 90 dias e nos últimos 90 dias recebeu a suplementação vitamínico-mineral. A análise dos resultados após a suplementação vitamínico-mineral demonstra, para T1 e para T2, um aumento nas concentrações plasmáticas de antioxidantes acompanhado de uma diminuição na atividade das enzimas antioxidantes implicando, possivelmente, uma resposta adaptativa da célula. Os parâmetros oxidativos determinados (SRAT e burst oxidativo de neutrófilos) diminuíram com a suplementação. / This work emphasizes the setting of oxidative stress-related parameters in a population of aged individuals, evaluating: plasmatic levels of low molecular weight antioxidants, vitamin C, α-tocopherol (αTC) and β-carotene (βCT) as well as their daily intake; activity of erythrocyte antioxidant enzymes (CuZnSOD, CAT and GPX); lipid oxidation-derived products, more specifically thiobarbituric acid-reactant substances, and blood neutrophil oxidative burst activity. We studied 90 aged subjects living in the community, with ages 65 or more, selected from a subsample of EPIDOSO project under regular supervision by the Centro de Estudos do Envelhecimento of Universidade Federal de São Paulo. The parameters above mentioned were compared to those of a healthy young adult population. The daily intake of vitC, vitE and βCT of the aged population is well above that of young adults, and also above the RDA This is probably due to the clinical and nutritional orientation that has been offered to this aged group. This fact attests to the importance of systematic and specific clinical counseling to the elderly. Despite the proper daily intake of antioxidants, the plasmatic concentrations of these antioxidants do not correlate to their intake, being lower than the plasmatic concentrations in young adults. These results suggest that even a balanced and adequate diet is not enough, in the elderly, to promote the plasmatic antioxidant concentration needed to contral the activity of oxidant species. These low plasma levels of vitC, vitE and βCT in the elderly can be attributed to changes in absorption, distribution, and bioavailability of these antioxidants, which are common in the aging process. The specific activities of the antioxidant enzymes are higher than those of the younger population. Additionally, the oxidative parameters are higher in the aged group, supporting the idea that oxidative stress is involved in the aging process. These aged subjects received a vitamin-mineral supplementation (800 mg αTC, 15 mg βCT, 2g vitC and 100 µg selenium) aiming to modify the oxidative parameters. The randomized, double blind and placebo-controlled supplementation study was thus designed: the aged subjects were divided in 2 treatment groups, T1 and T2, where T1 received, first the vitamin-mineral supplementation (100 days) and then, after a washout period, a placebo treatment (100 days). The T2 group received the same treatment, but in inverse order (cross-over). The result analysis shows an increase in the plasmatic antioxidant concentrations in both treated groups, as well as a decrease in the activities of the antioxidant enzymes, hinting to an adaptive cellular response. The supplementation also decreased the assessed oxidative parameters (SRAT and neutrophil oxidative burst).

<p dir="ltr">Tuberculosis remains a global health challenge, ranking as the second leading cause of mortality worldwide in 2022. The resilience of <i>Mycobacterium tuberculosis</i>, the causative agent of tuberculosis, is enhanced by the high expression of efflux pumps that confer antibiotic tolerance and the formation of biofilms that confer resistance to antibiotics. Carbon nanomaterials (CNMs) exhibit a broad-spectrum of antibacterial efficacy, making them promising candidates for combating drug-resistant bacterial strains. The effects of the novel carbon allotropes called fullertubes (C₉₀) on any living cell have not been studied. In our study, we employed <i>Mycobacterium smegmatis</i> as a model organism for <i>M. tuberculosis</i> and exposed it to fullertubes and fullerenes. We explored the impact of these CNMs on efflux activity and biofilm formation through biochemical assays like ethidium bromide transport assay and crystal violet assay. We also investigated their impact on lipid biosynthesis associated with log-phase growth and biofilm formation using metabolic radiolabeling studies. We also investigated the effects of the efflux pump inhibitors (EPIs) piperine, berberine, 1-(1-naphthylmethyl)-piperazine and thioridazine on efflux activity, biofilm formation, and lipid biosynthesis associated with log-phase growth and biofilm formation in <i>M. smegmatis.</i> We utilized metabolic radiolabeling methods using ¹⁴C-palmitic acid and ¹⁴C-acetic acid which are precursors of lipid biosynthesis and analyzed the lipids by silica-thin layer chromatography and autoradiography. Our studies revealed that CNMs do not influence efflux activity. However, efflux pump inhibitors effectively block efflux activity in <i>M. smegmatis</i>. Biofilm formation was decreased by CNMs and EPIs. In biofilm cells, fullertubes increased the incorporation of radiolabeled ¹⁴C-palmitic acid into glycopeptidolipids on the cell surface as well as inside the cell. Piperine and berberine affected the incorporation of the radiolabels into lipids such as trehalose monomycolate, phosphatidylethanolamine and cardiolipin in planktonic and biofilm cells. Our study provides insights into the diverse effects of CNMs and efflux pump inhibitors on <i>M. smegmatis</i>.</p>

L’odorat est le sens qui permet de percevoir des substances volatiles appelées communément odeurs. Il joue un rôle important dans la subsistance et le bien être des individus car il intervient dans la communication avec leur environnement (recherche de nourriture, de partenaire, détection des prédateurs ...). L’efficacité du système olfactif repose en grande partie sur sa sensibilité, qui dépend de l’affinité des molécules odorantes pour leurs récepteurs olfactifs mais aussi d’un mécanisme de clairance enzymatique des molécules odorantes qui évite à ces récepteurs d’être saturés et qui implique les Enzymes du Métabolisme des Odorants ou EMO. En effet, des études récentes ont démontré que dans l’épithélium olfactif, les EMO qui biotransforment les molécules odorantes conduisent à l’arrêt du signal olfactif en désactivant ces molécules, ce qui permet leur élimination et participent donc ainsi in fine à la perception olfactive. Dans ce contexte, l’objectif de ce travail de thèse est d’apporter une meilleure compréhension des mécanismes enzymatiques impliquant les EMO dans la perception olfactive des mammifères et d’étudier plus particulièrement ces mécanismes chez l’Homme.Le premier axe de ce travail, basé sur des analyses physico-chimiques, a consisté à développer une technique innovante de spectrométrie de masse par réaction de transfert de protons (PTR-MS) permettant le suivi en temps réel de la biotransformation des molécules odorantes par les EMO. Cette technique a été utilisée ex vivo sur des prélèvements d’épithélium olfactif et du mucus olfactif de rat et de lapin et également in vivo directement au sein de la cavité nasale humaine. Ainsi, il a été démontré que la biotransformation olfactive de molécules odorantes catalysée par différentes enzymes de type glutathion transférases, carboxylestérases ou dicarbonyl xylulose réductases (DCXR) est un mécanisme très rapide (de l’ordre de la milliseconde) en parfaite adéquation avec la dynamique physiologique du processus olfactif. Ces analyses ont également révélé que la biotransformation des molécules odorantes peut conduire à la production de métabolites volatils odorants pouvant potentiellement participer à la perception olfactive globale en interagissant eux aussi avec les récepteurs olfactifs. Ces différents métabolites ont été formellement identifiés par une technique de chromatographie en phase gazeuse couplée à la spectrométrie de masse (GC-MS).Le second axe de ce travail, reposant sur des analyses psychophysiques, a consisté à évaluer l’impact du métabolisme des molécules odorantes sur la perception olfactive chez l’Homme. Pour atteindre cet objectif, une stratégie originale de modulation de la perception olfactive reposant sur une compétition entre des molécules odorantes métabolisées par une même EMO, développée récemment au sein de l’équipe chez le lapin, a été transposée à l’Homme. La compétition entre des molécules odorantes de type dicétone vis-à-vis de l’enzyme DCXR a tout d’abord été démontrée in vitro par des analyses biochimiques sur l’enzyme recombinante humaine. Une méthode d’analyse par olfactométrie, appliquée à un panel de 40 sujets, a permis de démontrer que ce mécanisme de compétition entre molécules odorantes induit des modulations de la biotransformation de ces molécules conduisant ainsi à des modifications de leur biodisponibilité relative et in fine de leur perception. Ces résultats inédits démontrent que des modulations affectant la biotransformation d’un odorant conduisent instantanément à une modification de sa perception. Ces travaux de thèse précisent la fonction des EMO chez les mammifères et révèlent pour la première fois, chez l’Homme, une participation significative du métabolisme des molécules odorantes dans la perception olfactive. / The sense of smell permits the perception of volatile substances commonly known as odors. This sense plays an important role in the feeding and wellness of individuals because it involves exchanges with their environment (search for food or partners, predators detection…). The efficiency of the olfactory system mainly relies on its sensitivity depending on the odorant affinity for their olfactory receptors but also on an enzymatic clearance mechanism of odorants which involves the Odorant metabolizing Enzymes (OME) to avoid the saturation of the receptors. Recent studies have shown that the biotransformation of odorants by EMO, in the olfactory epithelium, participates in the olfactory perception. Indeed, OME catalyse the deactivation of the odorants and their subsequent elimination which led to the termination of the olfactory signal. In this context, this work aims to provide a better understanding of the enzymatic mechanisms of the OME in mammal olfactory perception and to study more specifically these mechanisms in human.The first axis of this work, based on physicochemical analysis, has consisted to develop an innovative proton transfer reaction mass spectrometry technique (PTR-MS) to allow the analysis in real time of the odorants biotransformation by OME. This technique was first applied ex vivo using rats and rabbits olfactory epithelium and olfactory mucus but also in vivo directly inside the human nasal cavity. Thus, we have demonstrated that the olfactory biotransformation of odorants catalyzed by different enzymes like glutathione transferases, carboxylesterases and dicarbonyl xylulose reductases (DCXR), is a very fast mechanism (few milliseconds). This very high velocity is perfectly consistent with the physiological dynamics of the olfactory process. Moreover, PTR-MS analyzes revealed that the odorants biotransformation could produce volatile metabolites with odorous properties which could participate in the global olfactory perception by interacting also with olfactory receptors. These various metabolites have been formally identified by a gas chromatography-mass spectrometry technique (GC-MS).The second axis, based on psychophysical method, evaluated the impact of the odorant metabolism in the human olfactory perception. For this purpose, an original approach recently developed in the lab, consisting of the modulation of the olfactory perception through a competition between odorants metabolized by the same EMO was transposed from the rabbit model to the human. The metabolic competition between several diketones toward DCXR was first demonstrated by biochemical analysis using the corresponding human recombinant enzyme. Then, an olfactometric study carried out on a 40 subjects panel demonstrated that this competition mechanism between odorants induces modulations of the biotransformation of these molecules and thus leads to modifications of their relative bioavailability and in fine of their perception. These new and significant results demonstrate that modulations impacting odorants metabolism leads immediately to changes in their olfactory perception. This thesis highlights on the function of EMO in mammals and reveals for the first time in human a significant role of the odorant metabolism in olfactory perception.

Malignant hyperthermia (MH) is a dominant skeletal muscle disorder caused by mutations in the ryanodine receptor skeletal muscle calcium release channel (RyR1). Allele-specific differences in RyR1 expression levels might provide insight into the observed incomplete penetrance and variations in MH phenotypes between individuals. Firstly, an H4833Y allele-specific PCR (AS-PCR) assay was designed that allowed for the relative quantification of the two RYR1 mRNA alleles in heterozygous samples. In four MHS skeletal muscle samples and two lymphoblastoid cell lines (LCLs), the wild type allele was found to be expressed at higher levels than the mutant RyR1 allele. These differences were not caused by variations in RYR1 mRNA stabilities. Secondly, high-throughput amplicon sequencing was employed for the quantification of both the T4826I and H4833Y causative MH mutations in heterozygous MHS samples. With the exception of one, all detected H4833Y and T4826I mutation frequencies were about 50%. This included a control, which was constructed and proven to have a 3:1 ratio of the wild type (H4833) versus the mutant (Y4833) RYR1 allele. This suggested that that the high-throughput amplicon sequencing approach as used here, was not suitable for accurate quantification of the two RyR1 alleles in heterozygous H4833Y MHS samples. To detect possible variations in RyR1 alleles at the protein level, the RyR1 was to be isolated from microsomes prepared from a H4833Y MHS frozen skeletal muscle tissue. Microsomes isolated from MHS skeletal muscle tissues lacked the immunoreactive band that was believed to be the full length RyR1. Poor muscle quality, due to long term storage was believed to be the main cause of RyR1 depletion. Faster and less expensive screening methodologies are required for the identification of genetic variants in MH research. Thus, in an additional project inexpensive and high-throughput high-resolution melting (HRM) assays were developed to allow screening of the RYR1 gene, for mutations associated with MH and/or central core disease (CCD).

Vitamin B₁₂ deficiency has been difficult to diagnose, mainly due to the vitamin's lack of biological significance in serum in which it is usually assayed. This research has investigated the marker of vitamin B₁₂/cobalt (Co) deficiency in sheep, methylmalonic acid (MMA), in comparison with serum and liver vitamin B₁₂ concentrations in farm situations where vitamin B₁₂ deficiency is expected in order to establish more accurate reference ranges for serum and liver vitamin B₁₂, and MMA. In addition, an attempt was made to ascertain the vitamin B₁₂ requirements of preruminant (PR) lambs, and to determine whether metabolic demand for vitamin B₁₂ influences tissue concentrations. Furthermore, since the vitamin is active in biological tissues in form of its coenzymes, 5’ -deoxyadenosylcobalamin and methylcobalamin, a preliminary assessment of variation in the distribution of these coenzymes in liver in different situations has been sought. The first trial was set up to find out if the addition of propionate to the PR lamb's diet stimulated the uptake and/or storage of vitamin B₁₂ in the liver as a reflection of the need to deal with the incoming propionate. Sixteen ten day old lambs (Dorset Down/Coopworth cross-bred) were housed indoors soon after birth and fed on milk replacer. For half of the lambs 7.5 % (w:w) of the milk powder was replaced by propionate. Within each group, four lambs were treated with 250 µg vitamin B₁₂ twice weekly. Supplementation with vitamin B₁₂ increased liver concentrations from ~250 to ~900 nmol/kg fresh tissue, but there was no effect of propionate. Propionate addition did, however, result in increased plasma vitamin B₁₂ concentrations in vitamin B₁₂ supplemented groups, values being 3323 and 2355 pmol/l in propionate supplemented and control groups, respectively. This suggested that diet could influence plasma vitamin B₁₂ concentrations. An attempt was made to quantify the PR lamb's ability to absorb vitamin B₁₂ from the alimentary tract by comparing the ability of intra-muscular (IM) and oral vitamin B₁₂ to raise plasma and liver vitamin B₁₂ concentrations. Twenty-seven three to four day old lambs from a farm with marginal Co status were housed indoors and fed on milk replacer. They were divided into three groups: control (n=3), IM treatment (n=12) and oral treatment (n=12). The two treatment groups were further subdivided into five sub-groups. These received, respectively, 0.2 (n=3), 0.4 (n=2), 0.8 (n=2), 1.6 (n=2) and 3.2 µg OH-cbl/d (n=3). The oral groups received tenfold the amount of the comparable IM groups, on the assumption that if oral absorption of the vitamin is about 10 % both groups would show similar increases in plasma and liver vitamin B₁₂ concentration. None of the IM groups showed any significant change in plasma or liver vitamin B₁₂. In the oral groups only the group on the highest dose of vitamin B₁₂, viz 32 µg/d, showed increases in plasma and liver concentrations. It was concluded that either absorption of vitamin B₁₂ was greater than 10 % or that the vitamin was retained better when administered orally. The amount retained in the livers of the lambs in the highest oral group was calculated to represent ~ 7.5 % of the dose. In a follow-up 24 h trial, 14 of the above lambs were divided into three groups: Control (n=3), oral (n=6) and IM (n=5) treatment. The IM group received 3.2 µg OH-cbl and the oral group tenfold the amount as single doses at 0800 h. Blood samples were taken at regular intervals throughout the 24 h period and assayed for vitamin B₁₂, Vitamin B₁₂ concentrations in the IM group rose steeply within the first hour after injection to a concentration that was calculated to reflect 100 % uptake of the vitamin. It rose more slowly over about 8 h in the oral group. From the area under the curve absorption of the oral dose was estimated to be ~ 7 %. The next experiment involved a farm where Co deficiency had been reported previously. In the first year, 50 pregnant two-tooth Half-bred ewes were divided randomly into two groups of 25. One group received a Co bullet plus 1000 µg OH-cb1 IM, the other group remained unsupplemented. In the following year the trial was repeated. Ewes from the previous year's trial (by then four-tooths) were augmented by a new cohort of pregnant two-tooths to make up numbers to 75. After lambing the lambs were divided into four groups: first by their dams' vitamin B₁₂ treatment, then half of each group received injections of vitamin B₁₂ at approximately three weekly intervals while the other half remained untreated. The trials lasted about five months, from mid-pregnancy until weaning. Pasture Co was at its lowest at lambing in both years, 0.09 and 0.10µg/g DM, respectively. In the first year, vitamin B₁₂ concentrations in the untreated ewes rose from 340 to 950 pmol/l in plasma and decreased in liver from 330 to 170 nmol/kg fresh tissue. In the Co treated group, vitamin B₁₂ concentrations in plasma rose from 500 to 1550 pmol/l and in liver from 310 to 560 nmol/kg fresh tissue. In the second year, vitamin B₁₂ concentrations in serum in the unsupplemented groups fell from 500 to 260 pmol/l around lambing before rising again to starting values at weaning, and liver vitamin B₁₂ concentrations fell from 450 at the start to 230 nmol/kg fresh tissue at the end of the trial. Serum vitamin B₁₂ concentrations in the two-tooth supplemented group rose from < 500 to > 3000 pmol/l whereas in the four-tooth supplemented group serum vitamin B₁₂ levels started at ~2800 and rose to nearly 5000 pmol/l. The supplemented four-tooths maintained higher liver vitamin B₁₂ concentrations throughout compared to the supplemented two-tooths, viz 680 compared to below 400 at the start and 900 versus 650 nmol/kg fresh tissue at weaning, respectively. MMA in the untreated groups rose to 15 and to 8 µmol/l during early lactation in the first and second years, respectively, whereas MMA in the treated groups stayed below 3 µmol/l in the first season and below 1.5 µmol/l in the second season. There was a live weight response to treatment in the ewes as the unsupplemented groups showed a significantly lower weight gain during the trials than the supplemented groups, viz 10.0 versus 13.6 kg in the first year, and 10.6 versus 13.3 kg in the four-tooths and 9.9 versus 12.1 kg in the two-tooths in the second year. There was also a significant difference in faecal egg count (FEC) in the first year. FEC in the untreated group was higher during lactation than in the treated group, viz 590 versus 170 eggs per gram wet faeces (epg), respectively. In the second year, the two-tooths had a higher FEC than the four-tooths, viz 120 versus 40 epg during the same time span, respectively. While there was a trend for treatment having an effect on FEC similar to that in the first year it was not significant. Supplementation of ewes in the first year increased mean milk vitamin B₁₂ concentrations at lambing from 800 to 1400 pmol/l and at weaning from 1750 to 4000 pmol/l. In the second year, Co bullet treatment increased milk vitamin B₁₂ concentrations in the four-tooths and two-tooths from 1500 and 2300 to 4000 and 2900 pmol/l at lambing, and from 1800 and 1400 to 6200 and 4500 pmol/l at weaning, respectively. Treatment of ewes increased vitamin B₁₂ concentrations in the lambs which were not themselves supplemented. Plasma values in the first year increased from 160 to 325 pmol/l soon after birth and from 650 to 900 pmol/l at weaning, and liver values from 75 to 140 nmol/kg fresh tissue soon after birth and from 150 to 240 nmol/kg fresh tissue at weaning. In the second year, plasma vitamin B₁₂ concentrations increased from 160 to 380 pmol/l soon after birth and from 500 to 700 pmol/l at weaning, and in liver from 130 to 260 nmol/kg fresh tissue soon after birth and from 220 to 340 nmol/kg fresh tissue at weaning. There was also a significant effect of ewe supplementation on lamb MMA in 1997/1998 when values decreased from 19 to 8 µmol/l around the time of rumen development. MMA in the second year stayed below 3 µmol/l throughout in all groups of lambs. There was no difference in LWG between any groups of lambs. FEC was lowest in the group where both ewes and lambs were supplemented and highest in the group where neither ewes nor lambs were treated. Further investigations were conducted on farms in Southland with lambs post-weaning in order to compare changes in serum and liver vitamin B₁₂ with serum MMA and LWG to determine the critical time and level of deficiency. In the first year, three farms with 50 lambs each participated. Lambs from each farm were allocated to five groups of 10 animals each. The first group received a Co bullet at weaning, and each month another group was treated with a Co bullet. The lambs were weighed monthly, and blood and liver samples were taken prior to treatment and each subsequent month from five lambs of the first supplemented group. The trial lasted about four months. Serum vitamin B₁₂ concentrations in lambs at weaning were between 500 and 1000 pmol/l. Although supplementation increased serum levels for the first month this was followed by a drop to near or below starting concentrations. An exception was Farm 3 where serum vitamin B₁₂ concentrations rose again at the end of the trial. Liver vitamin B₁₂ concentrations also showed an overall decline from starting levels (200 to 300 nmol/kg fresh tissue) to the end of the trial (100 to 200 nmol/kg fresh tissue). MMA started around 2 µmol/l and reached between 6 and 7 µmol/l in the untreated lambs on Farms 1 and 3 two months after weaning before decreasing to around 3 µmol/l at the end of the trial, whereas the treated lambs maintained MMA concentrations around 2 µmol/l. On Farm 2 MMA started just below 5 µmol/l, decreased to around 1 µmol/l for treated and untreated lambs one month later and rose again to between 2.5 and 4 µmol/l, respectively, at the end of the trial. LWG was below average for all lambs (between 0.20 and 0.04 kg/d except for Farm I in the first month after weaning) but no significant differences were noted between treated and untreated lambs on any of the farms. Another trial was conducted on one of these farms in the following year. One hundred lambs were divided into two groups of 50 each at weaning and sampled monthly for about six months. One group was treated with two Co bullets, the other group remained untreated. Pasture Co was between 0.04 and 0.07 µg/g DM, yet serum levels for the untreated group stayed ~500 pmol/l throughout the trial. Serum vitamin B₁₂ concentrations for the treated group started at ~500 pmol/l, rose to ~2500 pmol/l before falling back to ~2000 pmol/l. Liver vitamin B₁₂ concentrations for the untreated and treated groups were 529 and 427 nmol/kg fresh tissue at weaning, respectively. This decreased for both groups to ~350 nmol/kg fresh tissue one month after weaning. In the untreated lambs liver values decreased further to ~290 nmol/kg fresh tissue whereas they increased to ~450 nmol/kg fresh tissue for the treated group at the end of the trial. MMA concentrations started between 2 and 3 µmol/l for both groups and increased to 4.5 µmol/l for the untreated group one month later before falling back to 3.2 µmol/l. In the treated group MMA decreased to ~1µmol/l and stayed at that level throughout the trial. There was no difference in weight gain. In order to obtain an understanding of the distribution of corrinoids in biological tissues a High Performance Liquid Chromatography method was developed. The sensitivity of the analytical method meant that it was only practical to assay mainly liver samples because of the higher vitamin B₁₂ concentrations than in other tissues. The general finding was that the coenzyme 5’ –deoxyadenosylcobalamin (ado-cbl) constituted the highest proportion of corrinoids in liver (45 %), followed by analogues (28 %), OH-cbl (24 %) and lastly methy1cobalamin (3 %). Ado-cbl did tend to be proportionately higher in supplemented than in unsupplemented animals (56 and 42 %, respectively), whereas biologically non-active analogues tended to be higher in untreated than in treated sheep (29 and 21 %, respectively). It was concluded that in the farm trials Co deficiency was only mild or not present although deficiency would have been predicted from the low vitamin B₁₂ concentrations in serum and liver and from raised MMA values. Therefore, currently used thresholds in New Zealand appear to be too high for vitamin B₁₂, and overseas values for MMA do not seem to be appropriate. Revised marginal ranges of 100 to 200 pmol/l for serum, 100 to 200 nmol/kg fresh tissue for liver and 10 to 20 µmol/l for MMA are suggested. Further, this work shows that Co bullets were effective in elevating blood and liver vitamin B₁₂concentrations for longer than one year. In the trials with preruminant lambs it was found that maintenance requirements were met by the vitamin B₁₂ content of milk replacer. There is evidence from indoor and farm trials that vitamin B₁₂ from milk was much more readily absorbed than vitamin B₁₂ from supplements. It was estimated that suckling lambs probably require between 1200 and 4000 pmol vitamin B₁₂/d, depending on age.

<p>Deep vein thrombosis (DVT) and Pulmonary embolism (PE) are responsible for over 900,000 cases and 100,000 deaths each year in the US. Direct fibrinolytic agents such as plasmin are being investigated for their treatment. However, plasmin administration is not widely studied as low plasmin concentrations are rapidly inactivated by antiplasmin in vivo, whereas high plasmin doses would deplete endogenous antiplasmin and impose bleeding risks. Thus, a plasmin delivery system that can achieve efficient clot lysis while minimizing inactivation by antiplasmin and has reduced bleeding risks is needed. To address this, we propose using reversible inhibitors of plasmin that can sequester plasmin from antiplasmin and release it on the surface of a fibrin clot to achieve clot lysis. The inhibition must be tuned such that it is strong enough to protect plasmin from antiplasmin and weak enough to release plasmin at the clot for lysis. To achieve this, we utilize principles of multivalency to synthesize three classes of inhibitors with varying potencies and mechanisms of inhibition: (i) Multivalent benzamidines (ii) Multivalent tranexamic acids (TXA), and (iii) Hetero-multivalent inhibitors having both benzamidine and TXA. Benzamidine is a competitive inhibitor of plasmin’s active site. TXA, on the other hand, is an FDA-approved weak active site inhibitor that is primarily used to disrupt plasmin(ogen) from binding to fibrin on the clot by inhibiting plasmin’s kringle domains. Multivalent inhibitors were synthesized using amine-reactive chemistry, purified using RP-HPLC and confirmed with Mass Spectrometry. Inhibition assays were performed to assess inhibition potency by determining Ki values (inhibition constants). Lower Ki values indicate stronger inhibition. With multivalent benzamidine derivatives, it was observed that changing valency and linker length substantially impacted inhibition and resulted in Ki values ranging from 2.1 to 1,395 μM. Inhibitors of higher valencies and shorter linker lengths exhibited stronger inhibition. Multivalent TXAs of valencies 1 to 16 were also tested and they exhibited Ki values varying from 2.5 to 21,370 μM indicating up to 8,548-fold improvement in inhibition due to valency. It was found that monovalent TXA, primarily a kringle inhibitor, can be converted into a stronger active site inhibitor by multivalency. With hetero-bivalent TXA-dPEG36-AMB, simultaneous binding of benzamidine to the active site and TXA to the kringle domains was achieved to attain improved inhibition. These results indicate that multivalency can significantly alter the potency of inhibitors and can modulate plasmin inhibition for drug delivery.</p>

<p>A significant development in mass spectrometry instrumentation and software in the past decade has led to its application in solving complex biological problems. One of the emerging areas is Chemical Proteomics that involves design and use of chemical reagents to probe protein functions in ‘a live cell’ environment. Another aspect of Chemical Proteomics is the identification of target proteins of a drug or small molecule. This is assisted by photoreactive groups, which on exposure to UV light, covalently link the target proteins that can be purified by affinity-based enrichment followed by mass-spectrometric identification. This phenomenon of Photoaffinity labeling (PAL) has been widely used in a broad range of applications. Herein, we have designed chemical tools to study Zika endocytosis and phosphoproteomics.</p> <p>Zika virus has attracted the interest of researchers globally, following its outbreak in 2016. While a significant development has been made in understanding the structure and pathogenesis, the actual mechanism of Zika entry into host cells is largely unknown. We designed a chemical probe to tag the live virus, leading to the identification of the virus receptors and other host factors involved in viral entry. We further validated neural cell adhesion molecule (NCAM1) as a host protein involved in early phase entry of Zika virus into Vero cells.</p> <p>The second aspect is the development of the DIGE (Difference Gel Electrophoresis) technology for phosphoproteomics. Phosphoproteins are known to be involved in various signaling pathways and implicated in multiple diseased states. We designed chemical reagents composed of titanium (IV) ion, diazirine and a fluorophore, to covalently label the phosphoproteins. Cyanine3 and cyanine5 fluorophores were employed to reveal the difference in phosphorylation between samples for the comparative proteomics. Thus far, we have successfully demonstrated the labeling of standard phosphoproteins in both simple and complex protein mixtures, and the future efforts are towards applying the technology to identify phosphoproteins in a cell lysate.</p>

<p>The rapid analysis of complex samples using mass spectrometry (MS) provides valuable information in both point-of-care (e.g. drug testing) and laboratory-based applications, including the generation of spectral libraries for classification of biosamples, the identification of biomarkers through large-scale studies, as well as the synthesis and bioactivity assessments of large compound sets necessary for drug discovery. In all these cases, the inherent speed of MS is attractive, but rarely fully utilized due to the widespread use of sample purification techniques prior to analysis. Ambient ionization methodologies can help circumvent this drawback by facilitating high-throughput qualitative and quantitative analysis directly from the complex samples without any need for work-up. For instance, the use of swabs or paper substrates allows for rapid identification, quantification, and confirmation, of drugs of abuse from biofluids or surfaces of forensic interest in a matter of minutes, as described in the first two chapters of this dissertation. Faster analysis can be achieved using an automated desorption electrospray ionization (DESI) platform which allows for the rapid and direct screening of complex-sample microarrays with throughputs better than 1 sample per second, giving access to rich spectral information from tens of thousands of samples per day. The development of the bioanalytical capabilities of this platform, particularly within the context of drug discovery (e.g. bioactivity assays, biosample analysis), is described across most other chapters of this dissertation. The use of DESI, a contactless ambient ionization method developed in our laboratory and whose 20 years of history are overviewed in the introduction of this document, provides an additional advantage as the secondary microdroplets generated through the DESI process act as reaction vessels that can accelerate organic reactions by up to six orders of magnitude, facilitating on-the-fly synthesis of new compounds from arrays of starting materials. Unique implications of this microdroplet chemistry in the prebiotic synthesis of peptides and spontaneous redox chemistry at air-solution interfaces, together with its practical applications to the synthesis of new drug molecules, are also overviewed. The success obtained with the first automated DESI-MS system, developed within the DARPA Make It program, led to increased interest in a new-generation platform which was designed over the past year, as overviewed in the last section of this dissertation, and which is currently being installed for validation prior to the transfer of the technology to NCATS, where we anticipate it will make a significant impact through the consolidation and acceleration of the early drug discovery workflow.</p>

<p> Mass spectrometry imaging (MSI) is an advanced analytical technique that renders spatially defined images of complex label-free samples. Nanospray desorption electrospray ionization (nano-DESI) MSI is an ambient ionization direct liquid extraction technique in which analytes are extracted by means of a continuous liquid flow between two fused-silica capillaries. The droplet generated between the two capillaries is controlled by a delicate balance of solvent flow, solvent aspiration, capillary angles, and distance from the surface. This technique produces reproducible ion images with up to 10 µm resolution and can be used to identify and quantify multiple analytes on a given surface.  This thesis discusses some of the applications of this technique to biological systems, as well as the work done to develop methodology to further improve this technique’s specificity and sensitivity. Herein, applications that push the limits of the current capabilities of nano-DESI are presented, such as the high-resolution imaging of lipid species in skeletal muscle at the single-fiber level, and the quantification of low-abundance drug metabolites.  The second theme of this thesis, developing new capabilities, introduces ion mobility mass spectrometry imaging. This integrated technique increases the selectivity previously possible with MSI. To support these efforts, the work in this thesis has generated data analysis workflows that not only make these experiments possible but also further endeavor to increase sensitivity and combat instrument limitations on mobility resolution. Finally, this thesis present streamlined workflows for tandem MS experiments and modifications to a recently introduced microfluidic variant of the nano-DESI technique. In all, this thesis showcases the current capabilities of the nano-DESI technique and lays the groundwork for future improvements and capabilities.      </p>