<p>Basement membrane (BM) is the thin, dense, highly cross-linked form of extracellular matrix that underlies all epithelia and endothelia, as well as surrounds muscle, nerve and fat. These sheet-like networks function as physiological barriers to maintain tissue homeostasis. During normal developmental processes and immune surveillance, cells invade through BM to establish tissues and fight infection. Similarly, metastatic cancer cells are thought to co-opt normal programs for BM transmigration as they spread from primary tumors and colonize distant tissues. The difficulty of visualizing cell-BM interactions during invasion in vivo has left the cellular and molecular mechanisms used to breach BM undefined. Specialized F-actin-rich matrix-degrading membrane protrusions, termed invadosomes, have been described in cultured invasive cell lines for more 30 years. Invadosomes are hypothesized to mediate BM penetration during cancer metastasis. Despite promising advances in intravital imaging technologies, however, invadosomes have yet to be observed in cells transmigrating BM in vivo, leaving their physiological relevance unclear. Anchor cell invasion in C. elegans is a simple in vivo model of cell invasion that allows for combined visual and genetic analysis of BM transmigration. In this dissertation I develop high-resolution time-lapse imaging approaches to understand the dynamic interactions that occur at the AC-BM interface during invasion. Through the course of this work we identify an integrin-based mechanism that polarizes the AC towards the BM. We further discover protrusive F-actin-based invadosome structures that mediate BM breach during anchor cell (AC) invasion. We find that in most cases only one or two invadosomes penetrate the BM and then transform into an invasive protrusion that guides the AC through a single BM gap. Using genetics and quantitative single-cell image analysis we characterize several molecular regulators of invadosome formation in vivo. Our findings establish an essential role for invadosomes during BM transmigration in vivo, and support the idea that these structures are a core, conserved element of a normal invasive cellular strategy activated during cancer metastasis.</p> / Dissertation

Submitted by Marcos Anselmo (marcos.anselmo@unipampa.edu.br) on 2018-09-26T14:13:20Z No. of bitstreams: 1 Ana Thalita Soares.pdf: 894559 bytes, checksum: 0be887f2c20f60f2861f46e074b8733b (MD5) / Approved for entry into archive by Marcos Anselmo (marcos.anselmo@unipampa.edu.br) on 2018-09-26T14:13:42Z (GMT) No. of bitstreams: 1 Ana Thalita Soares.pdf: 894559 bytes, checksum: 0be887f2c20f60f2861f46e074b8733b (MD5) / Made available in DSpace on 2018-09-26T14:13:42Z (GMT). No. of bitstreams: 1 Ana Thalita Soares.pdf: 894559 bytes, checksum: 0be887f2c20f60f2861f46e074b8733b (MD5) Previous issue date: 2017-12-21 / Compostos orgânicos de Selênio possuem diversas atividades farmacológicas já descritas, como atividade anti-inflamatória e antitumoral, principalmente devido aos seus efeitos antioxidantes. Por serem promissores na farmacologia, as sínteses desses compostos tem aumentado significativamente. Como muitas novas moléculas são sintetizadas o uso de um modelo simples como Caenorhabditis elegans é altamente vantajoso para avaliação inicial da toxicidade e do potencial terapêutico destas moléculas. O objetivo desse estudo foi avaliar a toxicidade e o potencial antioxidante de três compostos Arilselanil-alquil-1,2,3-triazois em C. elegans. Os animais foram expostos aos compostos em meio liquido por apenas 30 minutos no primeiro estagio larval (L1). Os compostos testados não apresentaram efeitos tóxicos nas concentrações testadas (1μM-1000 μM) em C. elegans. O tratamento com os Arilselanil-alquil-1,2,3-triazois (10 μM) reverteu parcialmente o estresse induzido pelo pesticida paraquat (1 mM), uma toxina mitocondrial. Apenas o composto SeTz-2 (10 μM) aumentou parcialmente a sobrevivência dos vermes tratados com H2O2 (0,5 mM). Os compostos também aumentaram a longevidade dos vermes mutantes mev-1, que possuem um reduzido tempo de vida pela produção em excesso de EROs na mitocôndria causada por uma alteração no complexo 2 da cadeia transportadora de elétrons. Além disso, os compostos reduziram os níveis de espécies reativas de oxigênio determinados pelo probe fluorescente H2DCF-DA bem como também reduziram a atividade da enzima catalase nesses animais mutantes. Baseado nos resultados encontrados é possível concluir que os compostos Arilselanil-alquil-1,2,3-triazois possuem atividade antioxidante principalmente em condição de estresse oxidativo mitocondrial em C. elegans. / Organic selenium molecules have many described pharmacological activities, such as anti-inflammatory and anti-tumoral, which are mainly due to their antioxidant effects. As they are promising pharmacological agents, their synthesis has grown significantly. Once many new molecules synthesized every day, the use of a simple animal model, such as the Caenorhabditis elegans, is highly valuable for initial toxicity and pharmacological potential evaluation of these molecules. The goal of this study was to evaluate the toxicity and the antioxidant capacity of three arylselanyl-alkyl-1,2,3-triazoles in C. elegans. The animals were exposed to the molecules in liquid media for 30 minutes at the first larval stage (L1). There were no toxic effects over animals’ viability within the range of tested concentrations (1μM-1000 μM). Exposure to 10 μM of arylselanyl-alkyl-1,2,3-triazoles has partially reversed the stress induced by the pesticide paraquat (1 mM), which is a mitochondrial toxin. Only SeTz-2 (10 μM) improved the viability of the animals exposed to H2O2 (0,5 mM). The arylselanyl-alkyl-1,2,3-triazoles also improved mev-1 mutants’ lifespan, which is normally decreased by excessive mitochondrial ROS production due to an alteration in a subunit of their mitochondrial complex 2. Also, the molecules were able to reduce ROS levels measured by the fluorescent probe H2DCF-DA, as well as they also reduced catalase enzyme’ activity. Based on our findings, it is possible to suggest that these molecules have antioxidant activity in C. elegans, mainly when facing mitochondrial oxidative stress.

The mig-10 gene in C. elegans is required for proper axon guidance and/or cell migration of certain neurons during development. In mig-10 (ct41) mutant worms, there is incomplete migration of the anterior lateral microtubule cells (ALMs), hermaphrodite specific neuron (HSN), left coelomocyte cells (ccL), and canal associated neuron (CAN) (Manser and Wood, 1990). The mig-10 (ct41) mutation also causes axon guidance defects in the IL2 neurons, and it enhances unc-6 defects in the axon guidance of the anterior ventral microtubule cell (AVM) (Rusiecki, 1999; C. Quinn, personal communication). mig-10's function in axon guidance and neuronal migration is unknown, but is believed to be involved in a signal transduction pathway that uses a G-protein, such as ras. The two mig-10 transcripts discussed in this thesis, mig-10 A and mig-10 B, encode proteins that are similar to Grb-7 and Grb-10 proteins, which are also believed to function in a signal transduction pathway (Manser et al., 1997). One of these similarities is the presence of a proline-rich region, which may be used to bind another protein (Manser et al., 1997). The MIG-10 A protein has an additional proline region, compared to MIG-10 B, which may indicate that the MIG-10 A and B proteins are utilized in different cells, or at different developmental stages. As a first step in learning where MIG-10 is expressed, mig-10 (ct41) mutant worms containing a wild-type mig-10 B::GFP fusion were constructed. Rescue of the mutant phenotype would indicate that the expression pattern of the transgene was similar to that of the endogenous gene. As this experiment did not allow for rescue, even after integration of the construct, a strain of worms containing a mig-10 promoter::GFP transgene was used. Preliminary observations of this strain indicated that mig-10 is expressed in neuronal tissue. The AIY neurons were observed in wild-type and mig-10 (ct41) worms to determine if they are affected by the mig-10 mutation as previously reported (O. Hobert, personal communication). As no difference was detected, the AIYs were not used in any further experiments. In order to determine which cells require functional MIG-10 protein for the proper development/migration of neurons to occur, mig-10 (ct41) worms containing mec-3 promoter::mig-10 A or B cDNA transgenes were constructed. The mec-3 promoter drives expression of the mig-10 cDNA in the ALM neurons and other touch cells early in the development of the embryo. If these transgenes rescued the ALM migration defect, then mig-10 would be acting cell autonomously in ALM. Partial rescue was obtained, which may be due to the need for both of the mig-10 transcripts to be expressed in the same cell; alternatively, one or both transcripts may need to be expressed in a cell nonautonomous fashion in addition to being expressed cell autonomously. Low production of the rescuing protein, or expression of the protein at a later developmental stage than is needed for rescue to occur, may also have been the cause of the partial rescue. Future work in this area includes putting mig-10 promoter::mig-10 A or B cDNA in mig-10 (ct41) background to investigate if the different transcripts rescue different aspects of the mig-10 phenotype. The mig-10 A and mig-10 B cDNA constructs could also be expressed in the same worm in an attempt to correct for partial rescue that may be due to the lack of both MIG-10 proteins.

abstract: Multicellular organisms use precise gene regulation, executed throughout development, to build and sustain various cell and tissue types. Post-transcriptional gene regulation is essential for metazoan development and acts on mRNA to determine its localization, stability, and translation. MicroRNAs (miRNAs) and RNA binding proteins (RBPs) are the principal effectors of post-transcriptional gene regulation and act by targeting the 3'untranslated regions (3'UTRs) of mRNA. MiRNAs are small non-coding RNAs that have the potential to regulate hundreds to thousands of genes and are dysregulated in many prevalent human diseases such as diabetes, Alzheimer's disease, Duchenne muscular dystrophy, and cancer. However, the precise contribution of miRNAs to the pathology of these diseases is not known. MiRNA-based gene regulation occurs in a tissue-specific manner and is implemented by an interplay of poorly understood and complex mechanisms, which control both the presence of the miRNAs and their targets. As a consequence, the precise contributions of miRNAs to gene regulation are not well known. The research presented in this thesis systematically explores the targets and effects of miRNA-based gene regulation in cell lines and tissues. I hypothesize that miRNAs have distinct tissue-specific roles that contribute to the gene expression differences seen across tissues. To address this hypothesis and expand our understanding of miRNA-based gene regulation, 1) I developed the human 3'UTRome v1, a resource for studying post-transcriptional gene regulation. Using this resource, I explored the targets of two cancer-associated miRNAs miR-221 and let-7c. I identified novel targets of both these miRNAs, which present potential mechanisms by which they contribute to cancer. 2) Identified in vivo, tissue-specific targets in the intestine and body muscle of the model organism Caenorhabditis elegans. The results from this study revealed that miRNAs regulate tissue homeostasis, and that alternative polyadenylation and miRNA expression patterns modulate miRNA targeting at the tissue-specific level. 3) Explored the functional relevance of miRNA targeting to tissue-specific gene expression, where I found that miRNAs contribute to the biogenesis of mRNAs, through alternative splicing, by regulating tissue-specific expression of splicing factors. These results expand our understanding of the mechanisms that guide miRNA targeting and its effects on tissue-specific gene expression. / Dissertation/Thesis / Doctoral Dissertation Molecular and Cellular Biology 2019

The ability to accurately predict danger and implement appropriate protective responses is critical for survival. Environmental fluctuations can cause damage at the cellular level, leading to the misfolding and aggregation of proteins. Such damage is toxic to cells: in age-related neurodegenerative diseases like ALS, Parkinson’s, Alzheimer’s and Huntington’s Diseases, the accumulation of damaged proteins in the brain ultimately leads to neuronal cell death and disease onset. To date, there is still no cure to combat the progressive degeneration and cell death seen in the brains of patients. Cells within an animal possess defense programs to minimize protein damage. One such defense mechanism is the activation of a program called the Heat Shock Response, which increases production of protective proteins known as heat shock proteins (HSPs). These HSPs act as molecular chaperones to assist with the clearing out of damaged proteins. This program is implemented by a conserved transcription factor, Heat Shock Factor 1 (HSF-1). However, in brains of patients with degenerative diseases, this protective mechanism, for reasons yet unknown, is not constantly activated. My thesis has involved the discovery of innate mechanisms that exist in organisms to activate this cellular protective mechanism against protein misfolding. My research, using the model organism Caenorhabditis elegans, has shown that the protective heat shock response in the cells of the animal can be triggered through neurohormonal signaling. The neurohormonal signaling that I am studying is one that is highly conserved across all organisms from plants to insects to mammals – serotonergic signaling. The stimulation of serotonergic signaling appears sufficient to activate the Heat Shock Response, even in the absence of real damage. In fact, the neuronal release of serotonin facilitates a pre-emptive upregulation of protective genes in the animal, which we have observed to be able to reduce the accumulation of damaged proteins in a C. elegans model of Huntington’s Disease. Additionally, I have seen that anticipating danger can enhance the animal’s stress response in a serotonin-dependent manner, thus facilitating better survival against a subsequent insult that can cause protein damage. Together, these studies present the novel possibility of protection against neurodegenerative disease via modulation of neurotransmission and/or neurosecretion. They also allow for understanding how sensory inputs are coupled to gene expression under stressful conditions. I hope to understand the mechanism by which animals adapt to changes in their environment by coordinating their sensory input with changes in behavior and gene expression.

In nematode Caenorhabditis elegans, the chronic and multi-generational toxicological effects of commercially relevant engineered nanoparticles (ENPs), such as quantum dots (QDs) and silver (AgNP) caused significant changes in a number of physiological endpoints. The increased water-solubility of ENPs in commercial products, for example, makes them increasingly bioavailable to terrestrial organisms exposed to pollution and waste in the soil. Since 2008, attention to the toxicology of nanomaterials in C. elegans continues to grow. Quantitative data on multiple physiological endpoints paired with metal analysis show the uptake of QDs and AgNPs, and their effects on nematode fitness. First, C. elegans were exposed for four generations through feeding to amphiphilic polymer coated CdSe/ZnS (core-shell QDs), CdSe (core QDs), and different sizes of AgNPs. These ENPs were readily ingested. QDs were qualitatively imaged in the digestive tract using a fluorescence microscopy and their and AgNP uptake quantitatively measured using ICP-MS. Each generation was analyzed for changes in lifespan, reproduction, growth and motility using an automated computer vision system. Core-shell QDs had little impact on C. elegans due to its metal shell coating. In contrast, core QDs lacked a metal shell coating, which caused significant changes to nematode physiology. In the same way, at high concentrations of 100 ppm, AgNP caused the most adverse effect to lifespan and reproduction related to particle size, but its adverse effect to motility had no correlation to particle size. Using C. elegans as an animal model allowed for a better understanding of the negative impacts of ENPs than with cytotoxicity tests. Lastly, to test the toxicity of water-dispersed fullerene (nanoC60) using human dermal fibroblast cells, this thesis investigated a suite of assays and methods in order to establish a standard set of cytotoxicity tests. Ten assays and methods assessed nanoC60 samples of different purities to show differences in cytotoxic effects. Washed samples of fullerenes, with negligible traces of THF and other impurities, rendered the solution nontoxic. Even when exposed to UV-irradiation, washed nanoC60 were not photosensitized and did not cause cellular death. This work characterizes ENPs and investigates their impact in C. elegans and cells to assess toxicity risks to the environment and to human health.

Comprendre comment les facteurs génétiques et environnementaux interagissent au cours du développement est une question fondamentale en biologie. Je me suis intéressée à cette question en utilisant le réseau de développement de la vulve du nématode C. elegans comme système modèle. L'objectif de mon projet était une étude quantitative de la modulation par l'environnement des voies de signalisation impliquées dans ce processus telles que, Ras, Delta-Notch et Wnt. J'ai tout d'abord analysé comment un facteur environnemental spécifique (la carence nutritionnelle) modifie les activités et les interactions entre les voies de signalisation sous-jacentes au développement vulvaire chez C. elegans. J'ai ainsi mis en évidence que l'augmentation de l'induction vulvaire par la carence passe par une augmentation de l'activité de la voie Ras et est indépendante de la voie Wnt. Cet effet de l'environnement est assuré par la détection de la diminution de l'apport en nutriments, probablement par l'action de la voie TOR, et affecte l'induction vulvaire en parallèle ou en amont du récepteur à l'EGF. J'ai ensuite examiné la sensibilité environnementale du système de développement de la vulve de Caenorhabditis dans une perspective évolutive et ce, grâce à l'analyse comparative de différents isolats. J'ai pu observer que l'exposition à des températures extrêmes induit des variants et des défauts de manière fortement dépendante de la souche et de l'espèce. L'occurrence de certains défauts développementaux induits par la température révèlent en outre que certaines cellules précurseurs de la vulve et les voies de signalisation associées présentent une sensibilité environnementale différente.

Members of the Six4/5 family of homeobox transcription factors have been implicated in multiple human disorders, including type I mytonic dystrophy, branchio-oto-renal syndrome, and holoprosencephaly, suggesting a role for these factors in the nervous system development. Using a forward genetics approach, we identified unc-39, a C. elegans homologue of the human SIX5 gene, as a novel regulator of the development of a specific neuron, called RID. Our data support the role of unc-39 early in C. elegans development and suggest a possibility of complete absence of RID neuron in unc-39 mutants. unc-39 mutant has a similar locomotion phenotype to the RID-ablated animals, which provides further support to the hypothesis that the absence of RID contributes to the locomotion phenotype observed in the mutant. We show that unc-39 functions at multiple points in the lineage that gives rise to the RID neuron, and that its function is context-dependent.

Members of the Six4/5 family of homeobox transcription factors have been implicated in multiple human disorders, including type I mytonic dystrophy, branchio-oto-renal syndrome, and holoprosencephaly, suggesting a role for these factors in the nervous system development. Using a forward genetics approach, we identified unc-39, a C. elegans homologue of the human SIX5 gene, as a novel regulator of the development of a specific neuron, called RID. Our data support the role of unc-39 early in C. elegans development and suggest a possibility of complete absence of RID neuron in unc-39 mutants. unc-39 mutant has a similar locomotion phenotype to the RID-ablated animals, which provides further support to the hypothesis that the absence of RID contributes to the locomotion phenotype observed in the mutant. We show that unc-39 functions at multiple points in the lineage that gives rise to the RID neuron, and that its function is context-dependent.

145 p. Advisers: John Conery (Computer and Information Science)and Shawn Lockery (Biology) / A print copy of this title is available through the UO Libraries under the call number: SCIENCE QA76.87 .D96 2006 / This thesis makes two major contributions: it introduces a novel method for analysis of artificial neural networks and provides new models of the nematode Caenorhabditis elegans nervous system. The analysis method extracts neural network motifs,or subnetworks of recurring neuronal function, from optimized neural networks. The method first creates models for each neuron relating network stimulus to neuronal response, then clusters the model parameters, and finally combines the neurons into multi-neuron motifs based on their cluster category. To infer biological function, this analysis method was applied to neural networks optimized to reproduce C. elegans behavior, which converged upon a small number of motifs. This allowed both a quantitative exploration of network function as well as discovery of larger motifs. Neural network models of C. elegans anatomical connectivity were optimized to reproduce two C. elegans behaviors: chemotaxis (orientation towards a maximum chemical attractant concentration) and thermotaxis (orientation towards a set temperature). Three chemotaxis motifs were identified. Experimental evidence suggests that chemotaxis is driven by a differentiator motif with two important features. The first feature was a fast, excitatory pathway in parallel with one or more slow, inhibitory pathways. The second feature was inhibitory feedback on all self-connections and recurrent loops, which regulates neuronal response. Six thermotaxis motifs were identified. Every motif consisted of two circuits, each a previously discovered chemotaxis motif with most having a dedicated sensory neuron. One circuit was thermophilic (heat-seeking) and the other was cryophilic (cold-seeking). Experimental evidence suggests that the cryophilic circuit is a differentiator motif and the thermophilic circuit functions by klinokinesis. / NSF: IBN-0080068