Submitted by FERNANDA DE OLIVEIRA BARBOSA null (feobarbosa@hotmail.com) on 2016-04-11T19:18:08Z No. of bitstreams: 1 DIssertação_Fernanda_de_Oliveira_Barbosa.pdf: 3283611 bytes, checksum: 0f6c2b0766490591a0e2a8457d08fef4 (MD5) / Approved for entry into archive by Juliano Benedito Ferreira (julianoferreira@reitoria.unesp.br) on 2016-04-13T12:50:17Z (GMT) No. of bitstreams: 1 barbosa_fo_me_jabo.pdf: 3283611 bytes, checksum: 0f6c2b0766490591a0e2a8457d08fef4 (MD5) / Made available in DSpace on 2016-04-13T12:50:17Z (GMT). No. of bitstreams: 1 barbosa_fo_me_jabo.pdf: 3283611 bytes, checksum: 0f6c2b0766490591a0e2a8457d08fef4 (MD5) Previous issue date: 2016-02-29 / Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP) / Salmonella Enteritidis (SE) causa o paratifo aviário em aves e frequentemente está relacionada aos surtos de infecção alimentar em seres humanos. A contribuição do flagelo versus motilidade na interação patógenohospedeiro requer estudos mais aprofundados. Para melhor entendimento da contribuição individual desses fatores de virulência em aves, pintinhos de um dia de vida foram desafiados oralmente com estirpe selvagem de SE, uma mutante não-móvel mas flagelada (SE ΔmotB) e outra mutante aflagelada (SE ΔfliC). Excreção fecal e colonização de fígado, baço e conteúdo cecal pelas estirpes de SE foram avaliadas. Além disso, também foi realizada a avaliação das alterações macroscópicas e microscópicas. Nos estágios iniciais da infecção, ambos mutantes mostraram menor capacidade de colonizar o ceco, além de menor recuperação no baço por SE ΔfliC comparando a estirpe selvagem SE. Após 7 dpi não havia diferenças na contagem das três estirpes em conteúdo cecal, fígado e baço. Análises histopatológicas demonstraram que estirpes flageladas (SE ΔmotB e SE) induziram reatividade linfóide em inglúvio, ceco, íleo e fígado. No entanto, nos estágios iniciais da infecção a estirpe SE ΔfliC não estimulou a reatividade linfóide em lâmina própria de ceco e íleo mas induziu discretos focos necróticos em fígado. Portanto, neste estudo a presença de estrutura flagelar e motilidade parece exercer um papel nos estágios iniciais da colonização intestinal e infecção sistêmica por SE nas aves. / Salmonella Enteritidis (SE) causes fowl paratyphoid in poultry often related to outbreaks of food-borne diseases in humans. The contribution of flagella and motility in host pathogen interaction require further investigation. To better understand the individual contribution of these virulence factors in poultry, one day old chickens were challenged orally with wildtype strain of SE, a nonmotile but fully flagellated (SE ΔmotB) and aflagellated mutant (SE ΔfliC). Faecal excretion and colonization of liver, spleen and cecal contents by the SE strains were assessed. Additionally, the assessment of gross and microscopic alterations was also performed. At the early stages of infection both mutants showed lower capacity to colonize the ceca, besides the lower recovering in spleen of SE ΔfliC comparing to the wild type of SE. After 7 dpi there were no differences among the counts of the three strains in ceca, liver and spleen. Histopathological analyses demonstrated that flagellated strains (wild type SE and SE ΔmotB) induced lymphoid reactivity in crop, ceca, ileum and liver. On the other hand, in the early stages of infection, SE ΔfliC strain did not stimulate lymphoid reactivity in lamina propria of ceca and ileum but induced discrete necrotic foci in liver. Thus in the present study the flagellar structure and motility seemed to play a role at the early stages of the intestinal colonization and systemic infection by SE in the chicken. / FAPESP: 2014/02014-1

Trypanosoma brucei est un parasite africain unicellulaire, responsable chez l’homme de la maladie du sommeil et chez les bovins de la Nagana. Il passe par différents stades lors de son cycle de vie, les deux principaux étant la forme sanguicole qui prolifère dans le sang des mammifères infectés, et la forme procyclique qui colonise le tube digestif du vecteur, la mouche glossine. <p>Les trypanosomes sont extracellulaires, ils possèdent un flagelle qui leur permet de se mouvoir dans les différents milieux qu’ils infestent. La structure de celui-ci contient des éléments conservés au cours de l’évolution. Il constitue donc un excellent modèle de base pour en étudier l’architecture. D’autre part, le flagelle du parasite contient des structures propres à certains kinétoplastides, offrant ainsi une cible thérapeutique aux traitements anti-trypanosomiaux.<p>Le flagelle est véritablement un organite plurifonctionnel nécessaire à la survie du parasite au sein des divers environnements qu’il rencontre lors de son cycle de développement. Outre son rôle moteur, il permet à la cellule d’échapper au système immunitaire de son hôte mammifère et de s’attacher à l’épithélium des glandes salivaires de l’insecte. Il est également requis pour le bon positionnement des organites, la morphogenèse et la division cellulaire. Enfin, il serait impliqué dans l’activité sensorielle du trypanosome. A ce jour, on ne connait quasiment rien des potentielles voies de « sensing ». Elles doivent pourtant exister, permettant l’appréhension de l’environnement, l’interaction avec les hôtes et la réception de signaux induisant la différenciation.<p><p>Cet intérêt pour les voies de signalisation du parasite a abouti à l’étude des composantes de la voie TOR. TOR-Target of Rapamycin est un contrôleur central de la croissance cellulaire qu’il régule en fonction de différents stimuli externes. Il a été démontré depuis que chez T.brucei aussi, TOR régulerait la croissance temporelle et spatiale de la cellule.<p>La kinase TOR est inhibée par sa liaison avec le complexe rapamycine-FKBP12. Nous avons identifié cette peptidyl-prolyl cis-trans isomérase chez le parasite :TbFKBP12. Elle y serait localisée au niveau du cytosquelette/flagelle. Contrairement à ce qui est observé chez la levure S.cerevisiae, l’isomérase est essentielle chez le trypanosome. Son invalidation par RNAi bloque la cytocinèse des parasites sanguicoles et provoque l’apparition d’axes de clivage internes à la cellule. Chez les formes procycliques par contre, la disparition de la protéine entraîne un défaut sévère de motilité du flagelle qui se traduit par une immobilisation partielle du parasite. <p>TbFKBP12 est donc impliquée dans l’homéostasie du flagelle chez le trypanosome africain, organite nécessaire à la motilité et à la division cellulaire. <p> / Doctorat en sciences, Spécialisation biologie moléculaire / info:eu-repo/semantics/nonPublished

Orientador: Angelo Berchieri Junior / Resumo: Salmonella Enteritidis e Salmonella Typhimurium causam infecções em seres humanos e animais que são frequentemente associadas à extensa colonização intestinal e excreção fecal. A presença de estrutura flagelar no patógeno está relacionada à indução de inflamação intestinal e atenuação de infecção sistêmica no hospedeiro. Por outro lado, a infecção por estirpes aflageladas resulta em pouca inflamação e consequente infecção sistêmica grave. No presente estudo, foi avaliada a hipótese de que a síntese de maior quantidade de flagelina em estirpes de Salmonella geneticamente modificadas poderia levar a infecção sistêmica menos intensa em aves. Para investigar as conseqüências da superprodução de flagelina, foram construídas estirpes de Salmonella Enteritidis e Typhimurium contendo deleções nos genes clpP e fliD (que levam à superexpressão de flagelina) e patogenicidade e imunogenicidade foram comparadas com as respectivas estirpes selvagens em aves infectadas. Os resultados indicaram que o aumento da síntese de flagelina por SE ΔclpPΔfliD e STM ΔclpPΔfliD culmina em déficit da taxa de multiplicação bacteriana. Porém, tais alterações não interferiram na capacidade de colonização cecal e excreção fecal das estirpes mutantes. O mesmo foi observado em fígado e baço, mas após 14 dpi as estirpes mutantes tendem a serem eliminadas destes órgãos. Mesmo com síntese mais elevada de flagelina, as estirpes mutantes recrutaram quantidades semelhantes de linfócitos e macrófagos em tonsila cecal... (Resumo completo, clicar acesso eletrônico abaixo) / Abstract: Salmonella Enteritidis and Salmonella Typhimurium cause infections in humans and animals that are often associated with extensive intestinal colonization and faecal shedding. The presence of flagellar structure in the pathogen is related to the induction of intestinal inflammation and attenuation of systemic infection in the host. On the other hand, the absence of flagellin results in severe systemic infection as a result of mild inflammatory intestinal responses provoked by aflagellated strains. The hypothesis that higher flagellin production by Salmonella strains could induce immunogenic response during infection in chickens was evaluated in the present study. To investigate the consequences of flagellin overproduction, strains of Salmonella Enteritidis and Typhimurium containing clpP and fliD deletions (which lead to flagellin overexpression) were constructed, and pathogenicity and immunogenicity were compared with their respective wild-type strains in infected chickens. The results suggested that the increase in flagellin synthesis by SE ΔclpPΔfliD and STM ΔclpPΔfliD culminates in a deficit in the bacterial multiplication rate. However, that changes did not interfere with the capacity for caecal colonization and faecal excretion of mutant strains. The same was observed in the liver and spleen, but after 14 dpi, mutant strains tend to be eliminated from these organs. Even with higher flagellin synthesis, the mutant strains recruited similar amounts of lymphocytes and macro... (Complete abstract click electronic access below) / Doutor

The class Kinetoplastea contains free-living and parasitic species. One of the most dominant group within the class is the order Trypanosomatida which includes obligate parasites (Trypanosoma, Leishmania) infecting a wide range of hosts. Some species are serious pathogens of humans and domestic animals and cause considerable losses. However, the majority of trypanosomatids belongs to monoxenous parasites of insect which are usually harmless to their hosts. Monoxenous trypanosomatids predominantly infect Hemiptera and Diptera. This diploma thesis is focused on the detection of monoxenous trypanosomatids in cockroaches captured in the Czech Republic and cockroaches from different breedings. Cockroaches are very suitable mechanical vectors of many different pathogens (including parasites) and are significant health threat for humans and animals. First trypanosomatids in cockroaches were documented at the beginning of the 20th century, but there is no study focused on this topic specifically. Another aim of this thesis is morphological and ultramicroscopic analysis and the study of the host specificity of the recently described species Herpetomonas tarakana, isolated from a cockroach. My findings were partly used in the already published study "Diversity of trypanosomatids in cockroaches and the...

The cilium/flagellum is a complex organelle protruding from the cell body and functioning in motility, sensing, and signalling. It is composed of hundreds of protein constituents, the majority of which comprise the flagellar cytoskeleton - the microtubule-based axoneme. Because the flagellum lacks ribosomes, its protein constituents have to be imported from the cell body and delivered to proper locations. Moreover, these proteins have to retain their function over a considerable length of time, despite the mechanical stress caused by flagellar beating and due to environmental exposure. This raises the question whether and where protein turnover occurs. Previously, it was established that Chlamydomonas reinhardtii flagella are dynamic structures (Marshall & Rosenbaum, 2001). In contrast, in the Trypanosoma brucei flagellum axonemal proteins are remarkably stable (Vincensini et al., 2018). However, the questions of axonemal assembly and stability were so far investigated only for a small number of proteins and during relatively short periods. Moreover, in these experiments expression of studied proteins was controlled by non-native regulatory elements. To elucidate the site of incorporation of proteins from all major axonemal complexes and to find out if and where the protein turnover occurs, T....

Das Flagellum von Salmonella enterica ist eine komplexe molekulare Nanomaschine, die zur Fortbewegung verwendet wird. Die Synthese erfordert die Sekretion extrazellulärer Bausteine durch die Zellhülle. Der Substratexport erfolgt durch ein hochkonserviertes Typ-III-Sekretionssystem. Der Kern des fT3SS ist eine komplexe Proteinsekretionsmaschine, bestehend aus den Proteinen FliPQR und FlhBA. Ziel dieser Arbeit war die molekularen Mechanismen, die eine korrekte Funktion gewährleisten, tiefergehend zu erforschen. Im ersten Kapitel wurden die molekulare Mechanismen der Qualitätskontrolle während der Synthese des fT3SS untersucht. Es wurde kürzlich gezeigt, dass die korrekte Synthese durch das fT3SS-spezifischen Chaperon FliO gewährleistet wird. Ziel war es, den molekularen Mechanismus, wie FliO an diesem Prozess beteiligt ist, aufzuklären. Die Ergebnisse zeigten, dass mehrere Aminosäuren von FliO während der Assemblierung mit FliP interagieren. Des Weiteren wurde die Relevanz des spaltbaren Signalpeptids am N-Terminus von FliP untersucht. Diese Studie zeigt, dass die Anwesenheit des Signalpeptids und seine korrekte Spaltung entscheidend, aber nicht unerlässlich für die Funktion der Flagellen sind. Das fT3SS ist in der Lage Proteine mit einer bemerkenswerten Geschwindigkeit von mehreren tausend Aminosäuren pro Sekunde zu sekretieren. Das zweite Kapitel konzentrierte sich darauf, wie das fT3SS Proteine mit hoher Geschwindigkeit sekretiert, während das Austreten kleiner Moleküle verhindert wird. Unsere Mutationsanalysen zeigten, dass eine Methioninschleife in FliP, eine sperrige Plug-Domäne in FliR und intermolekulare Salzbrücken zwischen FliQ-Untereinheiten zusammenarbeiten, um die Integrität der Membran aufrechtzuerhalten. Diese Arbeit liefert neue Einblicke in die Synthese des fT3SS Kerns und die Regulation der Substratsekretion. Beide Prozesse werden an mehreren Stellen streng kontrolliert, um eine korrekte Funktion des Flagellums sicherzustellen. / The flagellum of Salmonella enterica is a sophisticated molecular nanomachine, which is used for locomotion. Flagella synthesis requires the translocation of extracellular subunits across the cell envelop, which is mediated by a highly conserved type-III secretion system (fT3SS). The core fT3SS is a complex protein secretion machine consisting of the proteins FliPQR and FlhBA. Productive assembly is crucial for flagella function. The molecular mechanisms which ensure correct function of the fT3SS remain poorly understood. In this thesis, we aimed to gain a profound insight into the molecular mechanisms of fT3SS core assembly and function. The first chapter investigated the molecular mechanisms underlying the quality control during the assembly of the fT3SS. It was recently shown that productive assembly of the core fT3SS relies on the flagella-specific chaperone FliO. We aimed to elucidate the molecular mechanism of how FliO facilitates this process. Our results demonstrated, that several residues of FliO are interacting with FliP during the assembly process. Furthermore, we aimed to identify the relevance of the cleavable signal peptide at the N-terminus of FliP. This study showed, that the presence of the signal peptide and its correct cleavage are crucial but not essential for flagella function. The fT3SS is able to secrete proteins with a remarkable speed of several thousand amino acids per second. The second chapter focused on how the fT3SS secretes proteins at high speed while preventing the leakage of small molecules. Our mutational analyses demonstrated that a methionine loop in FliP, a bulky plug domain in FliR and intermolecular salt bridges between FliQ subunits are acting cooperatively to maintain the membrane barrier. Overall, this work provides new insights into the assembly process of the fT3SS core and the regulation of substrate secretion. Both processes are tightly controlled at multiple stages to ensure the proper functioning of the flagellum.

L’infertilité est considérée actuellement par l’organisation mondiale de la santé (OMS) comme une préoccupation majeure de santé affectant plus de 50 millions de couples dans le monde. Dans les pays occidentaux, la majorité des couples infertiles ont recours aux techniques d’assistance médicale à la procréation (AMP) pour obtenir une grossesse. Malgré le succès de ces techniques, près de la moitié des couples qui ont recours à l’AMP sortent du parcours de soin sans enfant. Une partie de ces échecs est expliquée par l’altération de la gamétogenèse. Chez l’homme, la spermatogenèse fait interagir des centaines de gènes spécifiquement exprimés dans le testicule. L’abondance de ces gènes suggère que les troubles de la spermatogenèse présentent une forte composante génétique. Récemment, les avancées techniques ont favorisé l’identification de gènes responsables de ces anomalies mais la grande majorité des cas d’infertilité masculine reste classée comme idiopathique. L’objectif de la thèse est d’identifier de nouvelles causes génétiques responsables d’infertilité masculine et d’élucider les mécanismes physiopathologiques associés à ces anomalies.Au cours de ma thèse j’ai participé avec l’équipe GETI (génétique, épigénétique et thérapies de l’infertilité) à l’exploration génétique et moléculaire de deux phénotypes distincts d’anomalies spermatiques liés à des défauts post-méiotiques de la spermatogenèse : une forme rare d’azoospermie non obstructive (ANO) et le phénotype d’anomalies morphologiques multiples du flagelle spermatique (AMMF). Enfin j’ai joué un rôle important dans la création et l’analyse de modèles murins pour caractériser la pathogénie de ces anomalies.L’analyse génétique de deux frères infertiles nés de parents consanguins et présentant une ANO idiopathique associée à un arrêt post-méiotique de la spermatogenèse nous a permis d’identifier un variant homozygote délétère dans le gène SPINK2 qui code pour un inhibiteur de sérine-protéases. L’étude des souris KO pour ce gène nous a permis d’observer que les souris mâles adultes sont infertiles et miment parfaitement les phénotypes spermatique et testiculaire observés chez nos patients. Nous avons montré que la protéine codée par ce gène est exprimée dans l’acrosome à partir du stade de spermatide ronde. En l’absence de Spink2, l’activité protéolytique non-neutralisée des protéases cibles qui transitent par le Golgi cause sa fragmentation et bloque la spermiogénèse au stade de spermatide ronde. Nous avons également pu observer que les spermatozoïdes provenant de patients et de souris hétérozygotes présentent un taux élevé d’anomalies morphologiques et une baisse de la mobilité progressive conduisant à une hypofertilité à expressivité variable. Ces résultats montrent pour la première fois que l’oligo-tératozoospermie et l’azoospermie peuvent constituer un continuum pathologique dû à une même pathogénie.Nous avons également réalisé le séquençage exomique complet d’une cohorte de 78 individus AMMF non apparentés et avons identifié chez 49 sujets des mutations bi-alléliques délétères dans 11 gènes candidats dont DNAH1, CFAP43, CFAP44, WDR66 et FSIP2, soit un rendement diagnostique de 63%. Ces résultats confirment l’hétérogénéité génétique du phénotype MMAF et l’efficacité diagnostique du séquençage haut débit dans son exploration. Nous avons également validé l’implication de certains gènes candidats (n=4) dans ce phénotype chez le modèle murin knock-out créé par la nouvelle technologie d’édition du génome, CRISPR/Cas9.Dans son ensemble, ce travail montre l’intérêt et l’efficacité de la combinaison du séquençage exomique et de la technique de CRISPR/Cas9 pour étudier les troubles de la spermatogenèse et l’infertilité masculine. / Infertility is currently considered by the World Health Organization (WHO) as a major health concern affecting more than 50 million couples worldwide. In western countries, the majority of infertile couples seek assisted reproductive technologies (ART) to achieve a pregnancy. Despite the success of these techniques, almost half of these couples fail to obtain a child. Part of these failures are explained by the alteration of gametogenesis. In humans, spermatogenesis involves hundreds of genes specifically expressed in the testis. The abundance of these genes suggests that spermatogenic defects are associated with a strong genetic component. Recently, technical advances have led to the identification of numerous causative genes, but the vast majority of male infertility cases remain idiopathic. The aim of the present thesis is to identify new genetic causes responsible for male infertility and to elucidate the physiopathological mechanisms associated with these anomalies.During my thesis, I participated with the team GETI (genetics, epigenetics and therapies of infertility) in the genetic exploration of two phenotypes of male infertility related to post-meiotic defects of spermatogenesis: a rare form of non-obstructive azoospermia and the phenotype of multiple morphological abnormalities of the sperm flagella (MMAF). I have also played a key role in creation and analysis of transgenic mice to better characterize the pathogeny of the identified genetic causes in Human.Genetic analyses performed on two infertile brothers born form consanguineous parents and presenting an-idiopathic non-obstructive azoospermia associated with a post-meiotic arrest of spermatogenesis allowed us to identify a homozygous variant in the SPINK2 gene that encodes a serine-protease inhibitor. Phenotypic analysis of Spink2-/- adult male mice showed that they are infertile and perfectly mimic the sperm and testicular phenotypes observed in our patients. We showed that Spink2 protein is expressed from the round spermatid stage and localized in the acrosome, a lysosomal-like vesicle rich in proteases that play a key role during fertilization. When Spink2 is absent, the deregulated proteolytic activity of the targeted proteases such as acrosin leads to the fragmentation of the Golgi apparatus and arrest of spermiogenesis at the round spermatid stage. We also showed that sperm from heterozygous human and mice present a high level of morphological abnormalities and a decrease of progressive motility leading to a variable subfertility. These results showed for the first time that oligo-teratozoospermia and azoospermia could present a pathological continuum due to the same pathogeny.We also performed exome sequencing in a cohort of 78 non related MMAF subjects and identified in 49 cases deleterious bi-allelic mutations in a total of 11 candidate genes including DNAH1, CFAP43, CFAP44, WDR66 and FSIP2 giving a genetic diagnosis yield of 63%. These results confirm the genetic heterogeneity of MMAF and the efficiency of high throughput sequencing in genetic exploration of this phenotype. We also demonstrated the pathogenic implication of certain candidate genes (n=4) using knock-out mice created by the new technology of genome editing, CRISPR/Cas9.Overall, this work demonstrates the interest and effectiveness of combining exome sequencing and CRISPR/Cas9 system to study spermatogenesis disorders and male infertility.

La maladie du sommeil ou trypanosomiase africaine humaine fait partie des maladies tropicales négligées sévissant en Afrique sub-saharienne. Elle est causée par le parasite mono-flagellé, Trypanosoma brucei, véhiculé par la mouche tsé-tsé (Glossina spp.). Le flagelle de ce parasite prend naissance au niveau du corps basal et émerge de la cellule en traversant une structure appelée poche flagellaire (FP). Cette poche est formée par l’invagination de la membrane plasmique autour de la base proximale du flagelle. Elle est essentielle à la survie du parasite, car elle constitue l’unique site d’endo- et d’exocytose de la cellule. Cette structure est maintenue autour du flagelle via un constituant du cytosquelette appelé, collier de la poche flagellaire (FPC). Ce collier décrit une structure en anneau ou en fer-à-cheval à la zone de sortie du flagelle. Le premier composant identifié au niveau du FPC est une protéine appelée BILBO1. BILBO1 est essentielle et nécessaire à la biogenèse du FPC et de la FP. Une analyse protéomique et un crible en double-hybride réalisé contre une banque génomique de T. brucei ont permis d’identifier plusieurs partenaires potentiels de BILBO1. Nous avons pu identifier et caractériser de nouvelles protéines du FPC, localisées comme BILBO1 dans une structure en anneau. Nous avons étudié leur fonction chez le parasite, en caractérisant les effets de la surexpression de ces protéines ou de leur ARN interférence sur la croissance et la morphologie cellulaire. / The Human African Trypanosomiasis is a Sub-Saharan Neglected Tropical Disease, caused by Trypanosoma brucei, a mono-flagellate protozoan transmitted by the tsetse fly (Glossina spp.). The T. brucei flagellum originates from a cytoplasmic basal body then grows, to emerge from the cell, by traversing an unusual and essential structure called the Flagellar Pocket (FP). This pocket is an invagination of the pellicular membrane at the base of the flagellum. The FP is essential for the survival of the parasite, because it is the unique site for endo- and exocytosis. The Flagellar Pocket Collar (FPC) is a cytoskeletal component of the FP, and is located at the neck of the FP where it maintains a ring/horseshoe structure at the exit site of the flagellum. The FPC contains numerous uncharacterised proteins, including the first protein identified as FPC component - BILBO1. BILBO1 is essential and required for FPC and FP biogenesis. A proteomic analysis and a private two-hybrid genomic screen experiment on T. brucei have revealed a number of potential BILBO1 partners. We found several proteins localize to the FPC like BILBO1 in a ring-like structure. We characterise these new FPC proteins and their function in the parasite. We have characterised the effects of the GFP fusion protein over-expression and RNAi on cell growth and morphology in T. brucei.

Little is known about the generation of Leishmania morphology and the function of morphology in trypanosomatids, despite every species having characteristic cell shapes and undergoing changes in morphology between life cycle stages. To address this I analysed morphogenesis of the cell body and flagellum through the cell cycle of the Leishmania insect (promastigote) life cycle stage using a novel method for determining cell cycle stage from cell size and DNA content. This showed cell body morphology is generated by growth and then remodelling of cell shape around mitosis and cytokinesis. Mathematical modelling of flagellum growth indicated flagellum length continues to increase over multiple cell cycles and does not reach a defined length. I also observed little link between the cell cycle and flagellum length regulation during differentiation to the mammalian macrophage-inhabiting (amastigote) life cycle stage. Analysis of motility showed the diverse flagellar lengths of promastigote Leishmania cells bestow different swimming abilities, and the capacity of Leishmania promastigotes for highly directional swimming differs sharply from trypomastigote Trypanosoma brucei. This difference did not arise from altered flagellar beating therefore appeared to be linked to morphology. Together these indicate the mechanisms of cell body morphogenesis, flagellum length regulation, life cycle stage differentiation and the swimming abilities of the cells the morphogenetic processes generate differ significantly between Leishmania and T. brucei. These insights motivated the programming of automated micrograph analysis tools based on a new DNA staining method to support similar future morphometric analyses. This is the first comprehensive comparison of morphogenesis and function of morphology in a promastigote and a trypomastigote and, by considering these new insights in the context of existing molecular biology and the morphological diversity across many trypanosomatid species, give insight into basic Leishmania biology, the shared molecular mechanisms underlying morphogenesis and the potential functions of the diverse morphologies which are seen in different trypanosomatid species and life cycle stages.

The eyes of snakes and most geckos, as well as a number of other disparate squamate taxa, are shielded beneath a layer of transparent integument referred to as the “reptilian spectacle.” Derived from the embryonic fusion of palpebral tissues, the spectacle contains a number of specializations of the skin to benefit vision while still allowing it to function as the primary barrier to the environment. For example, in nearly all species that possess it, it is markedly thinned compared to the surrounding integument and its keratinized scale is optically transparent. While the spectacle may thus seem ideally adapted to vision in allowing the eyes to be always unoccluded, it does have a few drawbacks. One such drawback is its vascularity, the implications of which are still not fully understood, but are explored herein. As no recent synthesis exists of the body of knowledge on reptilian spectacles, the first chapter of this thesis consists of a review of spectacle anatomy, physiology, adaptive significance and evolution to help put into context the following chapters that present original research. The second chapter describes the dynamics of blood flow through the spectacle vasculature of colubrid snakes, demonstrating three main points: (1) that the spectacle vasculature exhibits cycles of regular dilation and constriction, (2) that the visual perception of a threat induces vasoconstriction of its vessels, and (3) that spectacle vessels remain dilated throughout the renewal phase. The implications of these points are discussed. The third chapter describes the spectral transmittance of the shed spectacle scale, the only keratinized structure in the animal kingdom to contribute to the dioptric apparatus of the eye, as well as its thickness. Spectacle scale transmittance and thickness was found to differ dramatically between snakes and geckos and found in snakes to vary between families. The adaptive significance of the observed variation is discussed. The fourth chapter describes biochemical analyses of the shed spectacle scales of snakes and geckos and compares their composition to other scales in the integument. Spectacle scales were found to differ significantly from other scales in their keratin composition, and gecko spectacle scales in particular were found to lack ß keratin, that hard corneous protein thought to be common to all reptile scales. The concluding chapter will discuss where this research has brought the state of our knowledge on the spectacle and offers thoughts on potentially useful avenues for further research.