<p>Members of the Transforming Growth factor-β (TGF-β) superfamily and its subclass Bone Morphogenetic Proteins (BMP) play important roles for nervous system development. </p><p>In order to study the BMP role for catecholaminergic neurons <i>in vivo</i>, we generated three knock-in mice, expressing the transgenes specifically in the targeting cells. </p><p>Two genetic modifications result in expression of dominant negative (dn) BMP receptors (BMPRII and ALK2). The tissue-specific expression was achieved by the transgene insertion into 3’- untranslated region of the endogenous gene for tyrosine hydroxylase (TH), the first enzyme in catecholamine biosynthesis. An Internal Ribosome Entry site (IRES) preceded inserted cDNAs, allowing for functional bicistronic mRNA production. While almost no defects in Th-IRES-dnALK2, the Th-IRES-dnBMPRII mouse demonstrated declined levels of catecholamines, including dopamine in the striatum. Losses of midbrain dopaminergic neurons (MDN) might cause the effect. Additionally, intermediate lines of these mice, preserving a neo-cassette, oriented opposite to the locus transcription, demonstrate dramatic decrease of catecholamine level, hence, represent models for rare catecholamine-deficiency diseases, including L-DOPA-responsive dystonia.</p><p>The third mouse, expressing in the same way Cre-recombinase (Th-IRES-Cre), represents a tool for catecholaminergic cell-limited deletion of any gene, which has to be flanked by loxP sites. Besides TH-positive areas, unexpected sites of Cre-recombination were identified, indicating regions of transient TH expression. Surprising recombination in oocytes opens a possibility to use our mouse as a general Cre-deletor.</p><p>Using TH-IRES-Cre mouse we generated tissue-specific knockout mice for two BMP signal transducers: Smad1 and Smad4 (also crucial for TGF-β). While no phenotype in Smad1 knockout, TH-IRES-Cre/Smad4 mouse revealed several defects including decreased level of striatal dopamine. </p><p>These results demonstrate a positive role of BMPs for MDN fate<i> in vivo</i>. Generated mice represent a tool-box for comprehensive study of the BMP function in catecholaminergic neurons. This study is of potential interest for understanding some aspects of Parkinson’s disease.</p>

Members of the Transforming Growth factor-β (TGF-β) superfamily and its subclass Bone Morphogenetic Proteins (BMP) play important roles for nervous system development. In order to study the BMP role for catecholaminergic neurons in vivo, we generated three knock-in mice, expressing the transgenes specifically in the targeting cells. Two genetic modifications result in expression of dominant negative (dn) BMP receptors (BMPRII and ALK2). The tissue-specific expression was achieved by the transgene insertion into 3’- untranslated region of the endogenous gene for tyrosine hydroxylase (TH), the first enzyme in catecholamine biosynthesis. An Internal Ribosome Entry site (IRES) preceded inserted cDNAs, allowing for functional bicistronic mRNA production. While almost no defects in Th-IRES-dnALK2, the Th-IRES-dnBMPRII mouse demonstrated declined levels of catecholamines, including dopamine in the striatum. Losses of midbrain dopaminergic neurons (MDN) might cause the effect. Additionally, intermediate lines of these mice, preserving a neo-cassette, oriented opposite to the locus transcription, demonstrate dramatic decrease of catecholamine level, hence, represent models for rare catecholamine-deficiency diseases, including L-DOPA-responsive dystonia. The third mouse, expressing in the same way Cre-recombinase (Th-IRES-Cre), represents a tool for catecholaminergic cell-limited deletion of any gene, which has to be flanked by loxP sites. Besides TH-positive areas, unexpected sites of Cre-recombination were identified, indicating regions of transient TH expression. Surprising recombination in oocytes opens a possibility to use our mouse as a general Cre-deletor. Using TH-IRES-Cre mouse we generated tissue-specific knockout mice for two BMP signal transducers: Smad1 and Smad4 (also crucial for TGF-β). While no phenotype in Smad1 knockout, TH-IRES-Cre/Smad4 mouse revealed several defects including decreased level of striatal dopamine. These results demonstrate a positive role of BMPs for MDN fate in vivo. Generated mice represent a tool-box for comprehensive study of the BMP function in catecholaminergic neurons. This study is of potential interest for understanding some aspects of Parkinson’s disease.

The DDT metabolite 3-methylsulphonyl-DDE (3-MeSO2-DDE) induces cell death specifically in the adrenal cortex of mice after a cytochrome P45011B1 (CYP11B1)-catalysed bioactivation. This substance is not only an environmental pollutant, but also a suggested lead compound for an improved chemotherapy of adrenocortical carcinoma (ACC). The aim of the thesis was to further investigate this compound in terms of kinetics, cell death mechanisms and species differences. The pharmacokinetics of 3-MeSO2-DDE and the current drug for ACC, o,p’-DDD, was studied during 6 months following a single dose in minipigs. The elimination was slower for 3-MeSO2-DDE than for o,p’-DDD, indicated by a lower clearance and longer t½ in plasma and subcutaneous fat. Both substances remained in fat tissue during the whole study period. Unlike o,p’-DDD, 3-MeSO2-DDE was retained also in liver. The adequacy of the murine adrenocortical cell line Y-1 was evaluated for studies of adrenotoxic compounds. The Y-1 cells proved to be an appropriate test system for future mechanism studies, since CYP-catalysed irreversible binding, inhibited corticosterone production induced by 3-MeSO2-DDE and o,p’-DDD were successfully demonstrated. Cell death of 3-MeSO2-DDE in the mouse adrenal cortex was implied to be necrotic. Early apoptotic signalling (i.e. up-regulation of caspase-9) was observed, although it seemed to be interrupted by ATP-depletion and anti-apoptotic actions by heat shock protein 70, resulting in lack of activation of caspase-3. Using cultured adrenal tissue slices, two not previously studied species were examined ex vivo regarding adrenal binding of 3-MeSO2-[14C]DDE. Binding was found in the hamster adrenal cortex and in assumed cortical cells in the medulla, while the guinea pig adrenal was devoid of binding. This emphasises the species specificity in bioactivation of 3-MeSO2-DDE. The thesis forms a basis for further investigations in the human adrenocortical cell line H295R and provides new knowledge of importance for toxicological risk assessment of 3-MeSO2-DDE.

This thesis performs de novo predictions for functionally significant sequence motifs in the Arabidopsis genome under two separate contexts. Each study applies the use of genomic positional information, statistical over-representation and several biologically contextual filters to maximize the visibility of biological signal in prediction results. Numerous literature supported motifs are prevalent in the results of both studies and a number of novel motif patterns possess a strong potential for in planta significance. The first study examines the statistical over-representation of C-terminal tripeptides as a means for identifying eukaryotic conserved protein targetting signatures. Comparative genomics is applied to the analysis of tripeptide frequencies in the C-terminus of 7 eukaryotic proteomes. While biological signal is maximized through the filtering of both simple sequences and homologous sequences present across protein families. The second study introduces a methodology for the effective prediction of transcription factor binding sites in Arabidopsis. A collection of motif prediction algorithms and a novel enumerative strategy are applied to the prediction of cis-acting regulatory elements within the promoters of genes found coexpressed within distinct tissues and under specific abiotic stress treatments. Overall, the analysis identifies 4 known motifs in expected contexts, 5 known motifs in novel contexts and 7 novel motifs with a high potential for biological function.

This thesis performs de novo predictions for functionally significant sequence motifs in the Arabidopsis genome under two separate contexts. Each study applies the use of genomic positional information, statistical over-representation and several biologically contextual filters to maximize the visibility of biological signal in prediction results. Numerous literature supported motifs are prevalent in the results of both studies and a number of novel motif patterns possess a strong potential for in planta significance. The first study examines the statistical over-representation of C-terminal tripeptides as a means for identifying eukaryotic conserved protein targetting signatures. Comparative genomics is applied to the analysis of tripeptide frequencies in the C-terminus of 7 eukaryotic proteomes. While biological signal is maximized through the filtering of both simple sequences and homologous sequences present across protein families. The second study introduces a methodology for the effective prediction of transcription factor binding sites in Arabidopsis. A collection of motif prediction algorithms and a novel enumerative strategy are applied to the prediction of cis-acting regulatory elements within the promoters of genes found coexpressed within distinct tissues and under specific abiotic stress treatments. Overall, the analysis identifies 4 known motifs in expected contexts, 5 known motifs in novel contexts and 7 novel motifs with a high potential for biological function.

No description available.

No description available.

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Der Überträger von Malaria, Anopheles gambiae, fordert jedes Jahr das Leben von etwa einer halben Million Menschen. Dennoch haben Mücken Mechanismen entwickelt, die die Ausbreitung von Krankheitserregern einschränken können. Der NF-κB-ähnliche Signalweg REL2 wurde als Schlüsselmechanismus für die Abtötung von Plasmodium falciparum in Mücken beschrieben, der sie bei experimenteller Aktivierung resistent gegen Plasmodium-Parasiten macht. Der Weg blieb jedoch schlecht charakterisiert. Zur Charakterisierung des REL2-Signalwegs wurden Loss-of-Function-Mutanten des Gens das Transkriptionsfaktor REL2 kodiert verwendet. Hier wurde die Fitness der Mücken mit REL2-Mangel, ihre Anfälligkeit für eine Infektion mit P. falciparum und Veränderungen in ihren mikrobiellen Gemeinschaften untersucht. Es wurde eine entscheidende Rolle des REL2-Signalwegs bei der Kontrolle der Proliferation des Mitteldarmmikrobioms und folglich des Überlebens der Mücken identifiziert. Es konnte kein konsistenter Phänotyp in der Anfälligkeit von REL2-Mutanten gegenüber Plasmodium beobachtet werden. Die Interaktion des Signalwegs und des Parasiten war indirekt, als Folge der REL2- und Mikrobiom-Interaktion. Gewebespezifische Transkriptomsequenzierung wurde verwendet um REL2-Genziele zu identifizieren. Die Ergebnisse zeigten die gewebespezifische Funktion des REL2-Signalwegs, wobei der Mitteldarm der Hauptort seiner Aktivität ist. Die identifizierten REL2-Genziele gehörten zu verschiedenen Domänen der Mückenphysiologie, einschließlich des Stoffwechsels. Mit weiteren Experimenten wurde die Rolle des REL2-Signalwegs bei der Blutmahlzeitverdauung und dem Management von Zucker- und Lipidressourcen beobachtet. Diese Studie ist die erste, die die Hauptgewebe der REL2-Aktivität und die Genziele des Signalwegs in Mücken identifiziert. Seine Hauptfunktion ist die Regulierung der mikrobiellen Gemeinschaften der Mücken im Mitteldarm, aber der Signalweg ist auch an der Feinabstimmung von Stoffwechselprozessen beteiligt. / Malaria vector, Anopheles gambiae, claims lives of around half a million people each year. But mosquitoes have developed an array of mechanisms that can limit pathogen proliferation. NF-κB-like signaling pathway REL2 has been described as a key mechanism for Plasmodium falciparum killing in mosquitoes, rendering them resistant to Plasmodium parasites when experimentally activated. However, the pathway remained poorly characterized. With an aim to characterize the REL2-dependent Plasmodium killing, loss-of-function mutants of the gene encoding the NF-κB-like transcription factor REL2 were used. The fitness of the REL2 deficient mosquitoes, their susceptibility to P. falciparum infection, and changes in their microbial communities were investigated. A critical role of REL2 pathway in controlling the midgut microbiome proliferation, and consequently the mosquito survival, has been identified. Interestingly, no consistent phenotype could be observed in the susceptibility of REL2 mutants to Plasmodium. Rather, the interaction of the pathway and parasite seems to be indirect, as a consequence of the REL2 and microbiome interaction. Furthermore, tissue-specific transcriptome sequencing was used to identify REL2 gene targets. The sequencing results revealed the tissue-specific function of the REL2-pathway, with the midgut being the main site of its activity. Identified REL2 gene targets belonged to various domains of mosquito physiology, including metabolism. With further experiments, the role of the REL2 pathway in blood meal digestion and management of sugar and lipid resources has been observed. Taken together, this study is the first to identify the main tissues of the REL2 activity and also gene targets of the pathway in mosquitoes. Its main function was found to be the regulation of mosquito microbial communities in the midgut, but the pathway also seems involved in fine-tuning of metabolic processes.

<p><strong> </strong>Comparison of tissue-specific gene expression profiles between sibling species and their F1 interspecific hybrids are expected to reveal important information about the mechanisms involved in speciation and species divergence. In the present study, the expression of 40 candidate genes were analyzed using qRT-PCR in the testis, ovary and head tissues (both male and female) among the hybrids and their parental species. The expression patterns of these genes were profiled via quantification of misexpression (both over- and under-expression) relative to that of their parents as well as across tissues. We set out to answer several questions as well as test the following hypotheses: (1) Do <em>Drosophila</em> sibling species differ in tissue-specific distribution of gene expression? (2) Do males and females differ in tissue specific distribution of expression? (3) Do reciprocal crosses differ in patterns of gene misexpression suggesting X-effect? (4) Do sex and non-sex genes differ in extent of gene misexpression? The results of this study gave rise to two important findings. First, it was found that while the majority of genes showed head and testis expression in <em>Drosophila melanogaster</em>, more genes showed head and ovary expression in <em>D. sechellia</em>. Second, we observed differences in gene misexpression between reciprocal <em>D. simulans </em>and <em>D. sechellia</em> hybrid females, suggesting the role of maternal effect. Thus, these findings supply a wealth of data regarding tissue-specific expression in both fertile females and sterile male hybrids, the former of which have largely been ignored, as well as advance our understanding of the process of species divergence and speciation. Ultimately, this thesis will provide a contribution to the field of gene regulatory evolution.</p> / Master of Science (MSc)