La localisation des ARNm au niveau des microtubules et des centrosomes laisse voir le centrosome et le fuseau mitotique comme des complexes ribonucléoprotéiques. Cependant, le mécanisme de localisation des ARNm à ces différentes structures ainsi que leurs fonctions dans la régulation de la mitose restent encore incompris. L’objectif était ici de caractériser des protéines de liaison à l’ARN (RNA Binding Proteins, RBPs) fonctionnellement impliquées dans la localisation des ARNm mitotiques chez la Drosophile et d’évaluer la conservation de la fonction de ces RBPs dans les cellules humaines. La déplétion de RBPs par RNAi générée dans des Drosophiles mutantes résulte en des phénotypes distincts de localisation anormale de l’ARNm centrosomique cen et en des défauts mitotiques différents selon le RBP ciblé, suggérant des fonctions différentes de ces RBPs. De plus, dans les jeunes embryons, les RBPs Bru-2 et Mask semblent être fonctionnellement importants pour la mitose via la régulation de l’ARNm cen, donnant un aperçu de la possible fonction mitotique de RBPs dans la régulation d’un ARN centrosomique. De plus, il a été observé dans un criblage d’immunofluorescence dans des cellules HeLa en métaphase que HNRNPUL1 colocalise au fuseau et aux centrosomes. HNRNPUL1 pourrait être impliqué dans la régulation de l’ARNm CDR2 (orthologue de cen) puisque la déplétion de l’orthologue de HNRNPUL1 dans la Drosophile, CG30122, résulte en une localisation anormale de l’ARNm centrosomique cen. / The localization of mRNA to microtubules and centrosomes has led to the suggestion that the centrosome and mitotic spindle are in fact ribonucleoprotein complexes. However, the mechanism of mRNA localization to those structures and its functional contribution in mitosis regulation remain poorly characterized. The objectives here were to identify RNA Binding Proteins (RBPs) involved in mitotic mRNA localization in Drosophila and to assess the conservation of the function of these RBPs in human cells. RNAi-mediated RBP depletion in Drosophila mutants leads to distinct phenotypes of abnormal localization of the centrosomal cen mRNA, and to different mitotic defects depending on the targeted RBP, suggesting different functions for these RBPs. Moreover, in young embryos, Bru-2 and Mask RBPs seem to be functionally important for mitosis through cen mRNA regulation, giving insight into a possible RBP mitotic function in regulating a centrosomal mRNA. In addition, data from an immunofluorescence screen on HeLa cells at metaphase suggests that HNRNPUL1 colocalizes to the spindle and centrosomes. HNRNPUL1 may be involved in the regulation of CDR2 mRNA (cen ortholog) because depletion of the HNRNPUL1 ortholog in flies, CG30122, disrupted cen mRNA localization.

Alternative splicing is one of the mechanisms how to regulate gene expression. Under different conditions, different mRNAs encoding proteins with different function, localization or stability can be made from one cellular transcript. The human hSlu7 protein affects the alternative splicing of some genes through alternative 3'splice site (3'SS) selection. Although it was thought that alternative splicing is absent from Saccharomyces cerevisiae, recent results argue against such conclusion. We therefore decided to characterize the function of the yeast Slu7 protein, which participates in the second step of splicing and is closely associated with the 3'SS selection. We focused on a highly conserved uncharacterized motif in the essential part of the Slu7 protein named the RED motif. Mutations in this motif caused second step splicing defects with some substrates and altered the alternative 3'SS usage ratio of some splicing constructs. Our results implicate a role for the RED motif in selecting proper 3'splice sites, especially the distal ones. Genetic interactions of slu7 mutations with PRP22 and PRP45 mutant alelles add to the intricate interaction network of splicing factors and suggest a possible role of Slu7p in facilitating the Prp22p association with the spliceosome.

Translation initiation is a complex process which results in the assembly of the elongation competent 80S ribosome from the 40S and 60S ribosomal subunits, the initiator tRNA and mRNA, and is orchestrated by numerous eukaryotic initiation factors (eIFs). Although it represents one of the most regulated processes of gene expression, the exact mechanism of one of the key steps of translation initiation - mRNA recruitment to the 43S pre-initiation complex (PIC) - is still only poorly understood. Recent studies indicated that besides eIF4F and poly(A)-binding protein, also eIF3 might play an important, if not crucial, role in this step. In our laboratory, we recently identified a 10 Ala substitution (Box37) in the a/TIF32 subunit of Saccharomyces cerevisiae eIF3, which interfered with translation initiation rates. Detailed analysis showed that this mutation significantly reduces the amounts of model mRNA in the gradient fractions containing 48S PICs as the only detectable effect in vivo. Moreover, a recently solved crystal structure of the N-terminal part of a/TIF32 pointed to two Box37 residues, Arg363 and Lys364, both proposed to contribute to one of the positive, potentially RNA-binding areas on the a/TIF32 surface. The fact that also their substitutions with alanines severely impaired the mRNA recruitment...

Introduction: At our post-genomic era the studies of epigenetic regulation constitutes one of the tools for understanding the function of genes. Epigenetic regulation can directly control the temporal and spatial gene activity or silencing. The molecular basis of these regulations are DNA bases modifications, chromatin remodeling and RNA interference. At the same time, these mechanisms have a special way of transferring genetic information to subsequent generations called epigenetic inheritance. It has been proven epigenetic deregulation of certain genes as cause for many disease. For this reason, the study of epigenome HLA genes seems particularly important because these genes play a fundamental role in regulating the immune system. Aims: The aim of this work is to create a description of epigenetic modifications within families. It is an analysis of histone modifications and DNA methylation in the promoter region of the gene HLA DQA1. The aim was also to compare the differences in epigenetic modifications between alleles and compared the differences in these modifications between generations. The results will be compared with the analysis of the level of expression of the gene HLA DQA1. Methods: From collected peripheral blood of donors were isolated DNA, RNA, and leukocytes. DNA was used for...

Charles University Faculty of Pharmacy in Hradec Králové Department of Pharmacology & Toxicology Student: Lenka Linhartová Supervisor: Prof. PharmDr. Petr Pávek, Ph.D. Title of diploma thesis: Molecular mechanisms of intractions - interactions of constitutive androstane receptor with selected stilbene compounds Constitutive androstane receptor (CAR), member of nuclear receptors family, is a major regulator of gene expression of phase I and II enzymes metabolizing endobiotics and xenobiotics. Changes in its activity can lead to pharmacokinetic drug interactions, ineffective treatment or higher toxicity of drugs simultaneously administered with CAR ligands. Recently another effects of this receptor, especially in homeostasis of bile acids, lipids and glucose have been discovered and CAR is now considered as a potential drug target for the treatment of metabolic diseases. Stilbenes represent a small group of plant polyphenols with typical 1,2-diphenylethylene nucleus. The most famous member is resveratrol, which has attracted great attention thanks to its antioxidant, anti-inflammatory, antiproliferative and cardioprotective effects. Others stilbene compounds such as pterostilben, piceatannol or pinosylvin have shown similar health beneficial effects as well. The aim of this diploma thesis was...

Saccharomyces cerevisiae is an intron-poor organism with introns present in only 5% of its genes. The most prominent group of intron-containing genes are ribosomal protein (RP) genes. They are highly expressed and most of them are present as two paralogs. Parenteau et al. described the existence of intron- dependent intergenic regulatory circuits controlling expression ratios of RP paralogs. In this project, we did not confirm the regulation in 6 out of 7 tested regulatory circuits. We validated the regulation between RPL22 paralogs. We further showed that Rpl22 protein blocks the pre-mRNA splicing of both paralogs, with RPL22B paralog being more sensitive. Rpl22 protein binds to the stem-loop of RPL22B intron - disruption of the binding domain of Rpl22 proteins leads to loss of interaction. Moreover, the regulation seems to be working the same way in yeast Kluyveromyces lactis, which has only a single RPL22 copy. Overall, these results lead to better understanding of intergenic regulation, which adjusts the expression ratio between functionally different RPL22 paralogs. Key words introns, ribosomal protein genes, Rpl22, RPL22 paralogs, pre-mRNA splicing, Saccharomyces cerevisiae

Carrapatos são artrópodes hematófagos de distribuição cosmopolita que parasitam vertebrados e transmitem uma grande variedade de agentes infecciosos para o homem e animais domésticos. Cobaias, diferentemente de cães e camundongos, são capazes de desenvolver resistência a carrapatos Rhipicephalus sanguineus após sucessivas infestações. Ao comparar o tipo de resposta imune desenvolvida por cobaias e cães frente a carrapatos observou-se que cobaias re-infestadas desenvolvem uma pequena reação de hipersensibilidade imediata e uma forte reação de hipersensibilidade tardia à inoculação cutânea com antígenos de carrapatos. Já em cães e camundongos, é notada somente uma forte reação de hipersensibilidade imediata. Também foi verificado que células dos linfonodos de cobaias infestadas três vezes com carrapatos (resistentes) proliferam intensamente na presença de saliva de carrapatos, diferentemente do que ocorre com células de cães e camundongos re-infestados (suscetíveis) que não proliferam. Esses achados sugerem o envolvimento de um padrão Th1 de resposta imune na aquisição de resistência, no entanto essa hipótese ainda não foi confirmada. Assim sendo, no atual trabalho procurou-se verificar a expressão de mRNA de citocinas na pele e linfonodos de cobaias infestadas e re-infestadas com carrapatos. Para tal foram delineados primers e padronizadas reações de PCR para detectar a expressão de mensagem das citocinas IL-12p40, IFN-gama e TNF-alfa, pertencentes a um padrão Th1, e IL-4, IL-5, IL-10 e TGF-beta, pertencentes a um padrão Th2 de resposta imune. Os resultados obtidos demonstraram que cobaias sucessivamente infestadas apresentaram um aumento significativo na intensidade de mensagem para IL-12p40 nos linfonodos, tanto comparado com animais uma vez infestados (aumento de 2,6 vezes), quanto comparado com os controles (aumento de 13 vezes). Embora a análise estatística não tenha apontado uma diferença significativa houve elevação consistente na intensidade de mRNA para IFN-gama nos linfonodos de cobaias re-infestadas comparadas às infestadas apenas uma vez (aumento de 2,4 vezes). Também foi observado um aumento significativo na intensidade da mensagem para IL-5 nos linfonodos de cobaias infestadas uma vez quando comparadas aos controles (aumento de 5 vezes). Não foi detectada expressão de mensagem para IL-4 e IL-10 nas amostras analisadas. Já a expressão de mensagem para TGF-beta foi observada em todos os animais (experimentais ou controles), sugerindo que essa citocina possa ter uma expressão constitutiva em cobaias. Tomados em conjunto, os resultados sugerem o envolvimento predominante de um perfil de citocinas de padrão Th1 na aquisição de resistência em cobaias a carrapatos. Nossos resultados poderão auxiliar o desenvolvimento de novas abordagens para o controle de carrapatos, como, por exemplo, sugerir adjuvantes mais adequados a serem utilizados em vacinas anti-carrapatos. O conhecimento gerado não se restringe à indução de proteção contra carrapatos como também a possibilidade de aumentar a resistência de hospedeiros a patógenos transmitidos por carrapatos que poderiam ser controlados por uma resposta tipo Th1. / Ticks are hematophagous arthropods of cosmopolitan distribution and are significant vectors of several diseases for humans and animals. Guinea pigs, unlike dogs and mice, develop resistance to Rhipicephalus sanguineus ticks after successive infestations. When the immune reaction between tick-infested guinea pigs and dogs/mice are compared, guinea pigs develop both immediate and strong delayed type hypersensitivity reactions while dogs and mice develop only a strong immediate reaction. Additionally was shown that lymph node cells from tick-infested guinea pigs (resistant hosts) proliferate intensely when cultured with tick saliva, differently to what is observed with cells from tick-infested dogs and mice (susceptible hosts). These findings propose the contribution of a Th1 cytokine pattern on the acquired immune response to ticks; however this hypothesis still has to be tested. This being so, in this study we investigated the expression profile of genes coding for selected cytokines on R. sanguineus infested guinea-pigs. Messenger RNA for IL-12-p40, IFN-gamma and TNF-alfa (Th1 cytokine pattern) and IL-4, IL-5, IL-10 and TGF-beta (Th1 cytokine pattern) was measured in skin and lymph nodes biopsies from tick-infested guinea pigs. Our results demonstrated that repeatedly tick-infested guinea pigs presented a significant increase on the intensity of message for IL-12p40 in the lymph nodes compared to both, one time tick-infested guinea pigs (raise of 2.6 times) or controls (raise of 13 times). Although the statistical analysis did not point out differences, there was a consistent increase on the mRNA intensity for IFN-gamma on the lymph nodes from re-infested guinea pigs compared to one time tick-infested animals (raise of 2.4 times). In addition, a significant enhance on the intensity of message for IL-5 on the lymph nodes from one time tick-infested guinea pigs compared to the controls (raise of 5 times). No message for IL-4 and IL-10 was detected on the analyzed tissues. In contrast, TGF-beta was detected on tissues collected from all animals (experimental or controls), suggesting a spontaneous production of this cytokine in guinea pigs. Taken together, these data suggest that a T helper 1-type pattern of cytokine production might be associated with the resistance expressed by guinea-pigs to ticks. Moreover, our results can provide new approaches to control ticks, i.e. suggest adjuvants to be added to anti-tick vaccines that preferably induce a Th1-type of response.

Alternatives mRNA-Splicing ist ein häufig beobachtetes Phänomen, das es der Zelle ermöglicht, unterschiedliche Proteine aus einem Gen zu generieren. In den letzten Jahren wurden immer mehr alternativ gespleißte Transkripte entdeckt, und einigen der daraus resultierenden Protein-Isoformen konnten geänderte biologische Funktionen zugeordnet werden. In dieser Arbeit ist erstmals ein alternativ gespleißtes Transkript der Interleukin-4 Rezeptor alpha (IL-4R-alpha) Kette beschrieben. Dieser mRNA Splice-Variante, genannt IL-4R-alpha-IT, fehlt im membranproximalen Bereich der zytoplasmatischen Domäne ein komplettes Exon. Dies führt zur Verschiebung des Leserasters und so zur Entstehung eines vorzeiten Stop-Codons. Der resultierenden Protein-Isoform fehlt der größte Teil der intrazellulären Kette mit den dort enthaltenen, für die Signaltransduktion essentiellen Domänen. Die Untersuchung der biologischen Funktion der Rezeptor-Varianten in einem geeigneten Zellsystem der Maus zeigte, daß die Splice-Variante IL-4R-alpha-IT keine Proliferation der Zellen vermitteln und auch den Übergang der Zellen in die Apoptose nicht verhindern kann. Bei der Quantifizierung der Expression von IL-4R-alpha-IT-mRNA in Relation zum IL-4R-alpha voller Länge mit einer kompetitiven RT-PCR an Knochenmark und peripheren Blutlymphozyten von Kindern mit ALL zeigte sich zunächst ein irreführender Unterschied zwischen Proben von Kindern mit ALL-Ersterkrankung und Rezidiv. Weitere Untersuchungen ergaben jedoch, daß der Zeitraum zwischen Abnahme und Aufarbeitung des Untersuchungsmaterials für diesen scheinbaren Zusammenhang verantwortlich war. Während direkt nach Abnahme aufgearbeitetes Untersuchungsmaterial eine nur niedrige relative Expression der Splice-Variante zeigte, nahm diese bei verzögerter Aufarbeitung drastisch zu. Diese Beobachtung wurde experimentell an Proben gesunder Probanden wiederholt bestätigt. Interessanterweise konnte derselbe Effekt in unterschiedlicher Ausprägung auch bei Splice-Variante anderer Zytokine und -Rezeptoren wie IL-7, IL-7R und beta-C beobachtet werden. mRNA-Stabilitäts-Assays und die Bestimmung der einzelnen Transkripte mit einer semiquantitativen RT-PCR zeigten, daß es tatsächlich zu einer absoluten Hochregulation der IL-4R-alpha-IT-mRNA in den verzögerte aufgearbeiteten Proben kommt. Wurden die Zellen wieder in Kultur genommen, war dies innerhalb weniger Stunden reversibel. Desweiteren scheinen auch unterschiedlichen mRNA-Stabilitäten eine Rolle zu spielen. / Alternative pre-mRNA splicing is a widespread mechanism contributing to the diversity of gene expression. The number of newly detected alternatively spliced transcripts has continuously risen, and distinct biological functions have been attributed to some protein isoforms resulting from these mRNA variants. We report on the detection of a novel alternatively spliced transcript of the human interleukin-4 receptor alpha (IL-4R-alpha) chain, which has been called IL-4R-alpha-IT mRNA. A premature stop codon due to omission of one exon in the membrane-proximal region of the cytoplasmic domain leads to an mRNA variant, which encodes an intracellular truncated receptor protein lacking domains which are essential for signal transduction. The investigation of the biological function of the IL-4Ra splice variants in a suitable mouse cell system showed, that the truncated receptor variant is not able to mediate cell proliferation or prevention of apoptosis. Bone marrow and peripheral blood samples from children with acute lymphoblastic leukemia were analyzed for the expression of IL-4R-alpha-IT mRNA relative to the full-length receptor transcript by competitive RT-PCR. Initially, there was found a difference of IL-4R-alpha-IT mRNA expression in patients with initial ALL versus relapsed ALL. However, this difference turned out to be due to the time interval between collection and preparation of samples. While freshly isolated material was associated with low levels of IL-4R-alpha-IT mRNA, samples with a longer period until cell preparation exhibited a drastic increase of IL-4R-alpha-IT mRNA levels. The same results were obtained for peripheral blood samples from healthy donors by imitating a prolonged time of transport until cell preparation. Interestingly, a similar effect could be demonstrated for splice variants of other cytokine receptors and cytokines (beta-C, IL-7R, and IL-7), although to different extents. mRNA stability assays and semiquantitative RT-PCR specific for IL-4Ra or IL-4R-alpha-IT, respectively, indicated that the expression of IL-4R-alpha-IT mRNA increases absolutely in these samples, although mRNA degradation may be of importance as well.

In der vorliegenden Arbeit wurde der Einfluss der humanen AT2-Rezeptorexpression und -stimulation auf den Collagen I alpha 2-mRNA-Gehalt und die Migration von porcinen kardialen Fibroblasten untersucht, um die Frage zu klären, ob AT2-Rezeptoren in kultivierten kardialen Fibroblasten AT1-antagonistische antifibrotische und migrationshemmende Effekte auf den Collagen I alpha 2-mRNA-Gehalt bzw. die Migration ausüben. Um die Funktion der AT2-Rezeptoren in der Zellkultur untersuchen zu können, wurde die AT2-cDNA durch adenovirale Transduktion in die Fibroblasten übertragen und so der AT2-Rezeptor überexprimiert. Mittels RT-PCR wurden die relativen Änderungen im Collagen I alpha 2-mRNA-Gehalt in TGF-beta1- bzw. TGF-beta1 plus Ang II-stimulierten Fibroblasten im Vergleich zur unstimulierten Kontrolle bestimmt. Alle Werte wurden auf ein Referenzgen (beta-Actin) bezogen. Die AT2-Stimulation änderte den relativen Collagen I alpha 2-mRNA-Gehalt der Fibroblasten nicht signifikant gegenüber den Antisense-(Ad5TA2)-transduzierten Fibroblasten. In der modifizierten Boyden-Kammer wurde der AT2-vermittelte Effekt von Ang II, hPDGF-BB sowie der Kombination beider Stoffe auf die Migration untersucht. Die alleinige Stimulation von AT2-Rezeptoren mit Ang II verhinderte die Migration gegenüber nichttransduzierten Fibroblasten. In Kombination mit hPDGF-BB änderte Ang II die Migration in AT2-überexprimierenden Fibroblasten nicht gegenüber den Antisense-(Ad5TA2)-transduzierten Fibroblasten. Bei ausschließlicher Stimulation durch hPDGF-BB wurde aber in AT2-exprimierenden Fibroblasten eine signifikant geringere Migration als in Antisense-(Ad5TA2)-transduzierten Fibroblasten festgestellt. Die zugrunde liegende Hypothese, dass AT2-Expression und Stimulation den relativen Collagen I alpha 2-mRNA-Gehalt hemmt, konnte in den vorliegenden Experimenten nicht bestätigt werden. Dies ließ keine inhibitorische AT2-vermittelte Wirkung von Ang II im Bezug auf den TGF-beta1-induzierten Collagen I alpha 2-mRNA-Gehalt erkennen. Dagegen führte die Ang II-Stimulation überexprimierter AT2-Rezeptoren zu einer verringerten Migration und vermittelte so einen AT1-antagonistischen Effekt. / In this work the influence of expression and stimulation of the human AT2 receptor on Collagen I alpha 2-mRNA-content and migration of porcine cardiac fibroblastst was tested to clarify the question if AT2 receptors promote AT1 antagonistic antifibrotic and antimigratory effects on collagen I alpha 2-mRNA content and migration. To examine the AT2 receptor function in the cell culture AT2 cDNA was transferred into fibroblasts by adenoviral transduction and the AT2 receptor was overexpressed. Through the use of RT-PCR the relative changes in collagen I alpha 2-mRNA content in TGF-beta1 stimulated and TGF-beta1 plus Ang II stimulated fibroblasts were assayed and compared to the unstimulated control. All values were referred to a reference gene (beta-actin). Stimulation of AT2 receptors did not change the relative collagen I alpha 2-mRNA content of the fibroblasts significantly compared to antisense-(Ad5TA2) transduced fibroblasts. In the modified Boyden-chamber the AT2 mediated effect of Ang II, hPDGF-BB and the combination of both on migration was assessed. The stimulation of AT2 receptors with Ang II inhibited migration compared to nontransduced fibroblasts. In combination with hPDGF-BB Ang II did not change the migration in AT2 overexpressing fibroblasts compared to antisense-(Ad5TA2)-transduced fibroblasts. In the case of exclusive stimulation of AT2-expressing fibroblasts with hPDGF-BB a significantly lower migration was found compared to antisense-(Ad5TA2)-transduced fibroblasts. The underlying therory that AT2 expression and stimulation inhibits the relative collagen I alpha 2-mRNA content could not be confirmed in this work. This did not reveal an inhibitory AT2 mediated effect of Ang II in respect to the TGF-beta1 induced collagen I alpha 2-mRNA content. In contrast to that Ang II stimulation of overexpressed AT2 receptors led to a decreased migration and mediated an AT1 antagonistic effect.

The mRNA cap added to the 5’ end of nascent transcripts is required for the efficient gene expression in eukaryotes. In vertebrates, the guanosine cap is methylated at N7 position by RNMT, which is in complex with its activating subunit RAM. Additionally, the first and second transcribed nucleotides can be methylated at ribose O2 position by CMTR1 and CMTR2 respectively. The mRNA cap protects transcripts from degradation and recruits cap-binding factors to promote pre-mRNA processing, nuclear export and translation initiation. In mouse embryonic stem cells (mESCs), high levels of RAM maintain expression of pluripotency factors. Differentiation of mESCs to neural progenitors is accompanied by a suppression of RAM, resulting in downregulation of pluripotency factors and efficient formation of neural cells. Here, I demonstrated that the suppression of RAM during neural differentiation is promoted via ubiquitination and proteasomal degradation. Concurrently, neural differentiation is associated with an increase in CMTR1 expression, creating a developmental cap methyltransferase switch. Moreover, differentiation into endodermal and mesodermal lineages exhibited distinct changes in the mRNA capping enzymes expression. In mESCs, RAM promotes expression of translation-associated proteins and promotes global loading of mRNA on ribosomes. RAM contributes to the ESC-specific gene expression program, by maintaining optimal expression of pluripotency-associated transcripts and inhibiting expression of neural genes. Chromatin immunoprecipitation revealed that RAM, RNMT and CMTR1 promote binding of RNA polymerase II at gene loci. In RAM-repressed cells, RNA polymerase II binding was reduced at pluripotency-associated genes, but relatively increased at neural genes. Moreover, knock-down of RNMT or CMTR1 induced increased or decreased accumulation of RNA polymerase II at promoter proximal regions respectively. In naïve T cells, Rnmt or Cmtr1 conditional knock-outs caused downregulation of translation-related transcripts and upregulation of cell cycle transcripts. Furthermore, many transcripts were specifically dependent on RNMT or CMTR1 for expression, demonstrating distinct roles of these cap methyltransferases. Thus, the mRNA cap methylation emerges as an important regulator of pluripotency and differentiation, modulating gene expression at transcriptional and post-transcriptional levels.