Nucleotide synthesis is a conserved and highly regulated response to DNA damage, required for the efficient repair of DNA double strand breaks (DSB) by homologous recombination (HR). This is essential to prevent loss of heterozygosity (LOH) and maintain genome stability. The aim of this study was to identify new genes important for HR through roles in damage-induced nucleotide synthesis. A screen was performed to identify S. pombe gene deletion strains whose DSB sensitivity was suppressed by deleting the ribonucleotide reductase (RNR) inhibitor spd1⁺ to promote nucleotide synthesis. The screen identified a number of genes including ddb1⁺, cdt2⁺, rad3⁺ and csn1⁺ which have known roles in nucleotide synthesis. Distinct roles were identified for the DNA damage checkpoint in suppressing LOH. rad3⁺, rad26⁺, rad17⁺ and the rad9⁺, rad1⁺ and hus1⁺ genes encoding the 9-1-1 complex were required for DNA damage-induced nucleotide synthesis through Cdt2 induction to promote Spd1 degradation. The HR repair defect of rad3⁺ and rad26⁺ deletion strains was partially suppressed by spd1⁺ deletion. However, the HR repair defect of rad17⁺, rad9⁺, rad1⁺ and hus1⁺ deletion strains was not suppressed. An additional role was confirmed for Rad17 and the 9-1-1 complex in preventing LOH by promoting DSB resection. A role was identified for the Gcn5 histone acetyl transferase (HAT) protein module, consisting of Gcn5, Ngg1, Ada2 and Sgf29, in suppressing DSB sensitivity by promoting nucleotide synthesis. This was independent of Cdt2 or RNR protein levels. The Gcn5 HAT module was also found to regulate DSB repair pathway choice consistent with previous observations. Deletion of gcn5⁺, ngg1⁺ or ada2⁺ decreased HR and increased non-homologous end joining. Surprisingly, deletion of spd1⁺ in a gcn5∆, ngg1∆ or ada2∆ background also promoted HR. This predicts a role for nucleotide pools in regulating DSB repair pathway choice. Eleven other candidates showed repeatable suppression of DSB sensitivity following spd1⁺ deletion. However many of these candidates did not show reduced nucleotide levels. This suggests deleting spd1⁺ may also suppress DSB sensitivity by a different mechanism.

Homologous recombination (HR) is an essential mechanism for accurate repair of DNA double-strand breaks (DSBs). However, HR must be tightly controlled because excessive or unwanted HR events can lead to genome instability, which is a prerequisite for premature aging and cancer development. A critical step of HR is the loading of RAD51 molecules onto single-stranded DNA regions generated in the vicinity of the DSB, leading to the formation of a nucleoprotein filament. Several DNA helicases have been involved in the regulation of the HR process. One of these is human FBH1 (F-box DNA helicase 1) that is a member of SF1 superfamily of helicases. As a unique DNA helicase, FBH1 additionally possesses a conserved F-box motif that allows it to assemble into an SCF complex, an E3 ubiquitin ligase that targets proteins for degradation. FBH1 has been implicated in the restriction of nucleoprotein filament stability. However, the exact mechanism of how FBH1 controls the RAD51 action is still not certain. In this work, we revealed that FBH1 actively disassembles RAD51 nucleoprotein filament. We also show that FBH1 interacts with RAD51 and RPA physically in vitro. Based on these data, we propose a potential mechanism of FBH1 antirecombinase function.

<p>Mitotic genome instability can occur during the repair of double-strand breaks (DSBs) in DNA, which arise from endogenous and exogenous sources. Studying the mechanisms of DNA repair in the budding yeast, Saccharomyces cerevisiae has shown that Homologous Recombination (HR) is a vital repair mechanism for DSBs. HR can result in a crossover event, in which the broken molecule reciprocally exchanges information with a homologous repair template. The current model of double-strand break repair (DSBR) also allows for a tract of information to non-reciprocally transfer from the template molecule to the broken molecule. These “gene conversion” events can vary in size and can occur in conjunction with a crossover event or in isolation. The frequency and size of gene conversions in isolation and gene conversions associated with crossing over has been a source of debate due to the variation in systems used to detect gene conversions and the context in which the gene conversions are measured. </p><p>In Chapter 2, I use an unbiased system that measures the frequency and size of gene conversion events, as well as the association of gene conversion events with crossing over between homologs in diploid yeast. We show mitotic gene conversions occur at a rate of 1.3x10-6 per cell division, are either large (median 54.0kb) or small (median 6.4kb), and are associated with crossing over 43% of the time. </p><p>DSBs can arise from endogenous cellular processes such as replication and transcription. Two important RNA/DNA hybrids are involved in replication and transcription: R-loops, which form when an RNA transcript base pairs with the DNA template and displaces the non-template DNA strand, and ribonucleotides embedded into DNA (rNMPs), which arise when replicative polymerase errors insert ribonucleotide instead of deoxyribonucleotide triphosphates. RNaseH1 (encoded by RNH1) and RNaseH2 (whose catalytic subunit is encoded by RNH201) both recognize and degrade the RNA in within R-loops while RNaseH2 alone recognizes, nicks, and initiates removal of rNMPs embedded into DNA. Due to their redundant abilities to act on RNA:DNA hybrids, aberrant removal of rNMPs from DNA has been thought to lead to genome instability in an rnh201Δ background. </p><p> In Chapter 3, I characterize (1) non-selective genome-wide homologous recombination events and (2) crossing over on chromosome IV in mutants defective in RNaseH1, RNaseH2, or RNaseH1 and RNaseH2. Using a mutant DNA polymerase that incorporates 4-fold fewer rNMPs than wild type, I demonstrate that the primary recombinogenic lesion in the RNaseH2-defective genome is not rNMPs, but rather R-loops. This work suggests different in-vivo roles for RNaseH1 and RNaseH2 in resolving R-loops in yeast and is consistent with R-loops, not rNMPs, being the the likely source of pathology in Aicardi-Goutières Syndrome patients defective in RNaseH2.</p> / Dissertation

La réplication de l’ADN est un phénomène physiologique essentiel à la transmission du patrimoine génétique mais est aussi une source importante de stress endogène. Le stress réplicatif peut conduire à une instabilité génomique et a été mis en évidence à une étape très précoce du développement tumoral et de la sénescence. La recombinaison homologue (RH) est un processus de réparation qui permet la prise en prise en charge du stress réplicatif. De ce fait, un défaut de RH devrait permettre de révéler les stress réplicatifs endogènes. Ainsi, une progression ralentie des fourches de réplication a été observée dans des cellules déficientes pour la RH (RH-), et ce en absence de tout traitement exogène (Daboussi 2008). De plus, de nombreux travaux ont mis en évidence la présence de défauts mitotiques dans les cellules RH-, en absence de tout traitement exogène (Griffin 2000; Kraakman-van der Zwet 2002; Bertrand 2003; Daboussi 2005; Laulier 2011; Rodrigue 2013). L’origine de ces défauts mitotiques spontanés reste peu claire. En effet, la RH étant un processus préférentiellement actif au cours des phases S et G2, le lien avec la mitose reste à éclaircir. Cette thèse a pour but de comprendre l’impact du stress réplicatif très faible ou endogène sur les phases post-réplicatives du cycle cellulaire. Dans un premier temps, je me suis intéressée à l’impact de ce stress sur la mitose. Les résultats obtenus montrent que le traitement des cellules contrôle à de très faibles doses d’hydroxyurée (HU) n’affecte pas la progression dans le cycle cellulaire mais induit cependant une diminution de la vitesse de réplication, comparable à celle observée dans les cellules RH-. De plus le traitement des cellules contrôle à des faibles doses d’HU induit l’apparition de défauts mitotiques, notamment des centrosomes surnuméraires, à la même fréquence que dans les cellules RH- non traitées. Inversement, l’ajout de précurseurs de nucléotides dans les cellules RH- permet de supprimer la diminution de la vitesse de réplication ainsi que les centrosomes mitotiques surnuméraires. Ainsi, un stress réplicatif subtil, qui n’impacte pas de façon détectable la progression dans les phases S et G2 du cycle cellulaire, ni l’entrée en mitose, cause cependant des défauts mitotiques sévères. De façon importante, les centrosomes mitotiques surnuméraires peuvent entrainer des mitoses multipolaires, impactant ainsi l’ensemble du génome. Ces données mettent en évidence la connexion qui existe entre la réplication des chromosomes et leur ségrégation. Dans un second temps, j’ai étudié l’impact du stress réplicatif faible ou endogène en phase G2. Cette étude a été réalisée en utilisant des cellules RH-, ainsi qu’un modèle d’induction de faible stress réplicatif après traitement à très faible dose d’HU. La présence de foyers pRPA-Ser33 en phase G2 a été observée dans ces deux modèles, mettant en évidence des zones de stress réplicatif. Après traitement à très faible dose d’HU, nous observons également la présence en phase G2 de foyers 53BP1 et RAD51 qui colocalisent partiellement avec les foyers pRPA-Ser33. L’analyse en spectrométrie de masse après co-immunoprécipitation de la protéine 53BP1 en phase G2 a permis d’établir un lien avec des protéines impliquées dans le contrôle de l’assemblage du fuseau mitotique ainsi que dans le points de contrôle mitotique, étayant ainsi le lien entre le stress réplicatif et les défauts mitotiques. Pour finir, l’immunoprécipitation de la chromatine liée à la protéine pRPA-Ser33 en phase G2, suivie d’un séquençage (ChIPseq), a permis de révéler l’absence d’enrichissement au niveau des sites fragiles communs et de mettre en évidence un enrichissement au niveau des régions promotrices de certains gènes, notamment de gènes impliqués dans la régulation du cycle cellulaire et de la mort cellulaire. Ces résultats soulignent le lien entre le stress réplicatif très faible ou endogène et l’instabilité chromosomique, qui peut mener à l’initiation tumorale. / DNA replication is a physiological process, essential for genetic information transmission but DNA replication is also an important source of endogenous stress. Replicative stress can lead to genomic instability and has been reported in early-stage malignancies and senescence. Homologous recombination is a repair process which can handle replicative stress. Therefore, a defect in homologous recombination could reveal endogenous replicative stresses. Consistently, a slow down in replication fork progression has been observed in homologous recombination deficient (HR-) cells, in absence of any exogenous treatment (Daboussi et al. 2008). In addition, several studies have shown the presence of mitotic defects in HR- cells, in absence of any exogenous treatment (Griffin 2000; Kraakman-van der Zwet 2002; Bertrand 2003; Daboussi 2005; Laulier et al. 2011; Rodrigue 2013). The origin of these spontaneous mitotic defects is still unclear. Indeed, homologous recombination is preferentially active in S and G2 phases thus, the link with mitosis remains to be elucidated. The aim of this thesis is to understand the impact of a low or endogenous replicative stress on post-replicative phases. First, I studied the impact of a low or endogenous replicative stress on mitosis. Control cells were treated with very low hydroxyurea doses, that did not affected cell cycle progression but did slow down the replication fork progression to the same level than unchallenged HR- cells. Importanntly, exposure of the control cells to these low hydroxyurea doses generated the same mitotic defects, notably extra centrosomes, and to the same extent than in untreated HR- cells. Reciprocally, supplying nucleotide precursors to HR- cells suppressed both their replication deceleration and mitotic extra centrosome phenotypes. Therefore, subtle replication stress that does not impact S and G2 phase progression nor the entry in mitosis, nevertheless causes severe mitotic defects. Importantly, mitotic extra centrosome can lead to multipolar mitosis and then impact the whole genome stability. These data highlight the crosstalk between chromosome replication and segregation. Secondly, I studied the impact of low or endogenous replicative stress on G2 phase. This study was done using HR- cells as well as control cells treated with very low HU doses to induce a very low replicative stress. In both of these models, the presence of pRPA-Ser33 foci was observed in G2 phase, highlighting replicative stress regions. After very low HU treatement, we observed 53BP1 and RAD51 foci in G2 phase. These foci partially colocalized with pRPA-Ser33 foci in G2 phase. Mass spectrometry analyse after 53BP1 coimmunoprecipitation allowed to etablish a link between proteins involved in mitotic spindle assembly control and in mitotic checkpoint. These data support the link between replicative stress and mitotic defects. Lastly, the immmunoprecipitation of the chromatin interacting with pRPA-Ser33 in G2 phase, followed by sequencing (ChIPseq) allowed to reveal the absence of common fragile site enrichment and to highlight an enrichment at promoter regions of genes involved in cell cycle and cell death regulation. These data underline the link between very low or endogenous replicative stress and chromosomal instability, which can lead to tumorigenesis.

Considerando as diferentes aplicações clínicas dos enxertos ósseos nas reconstruções alveolares e a dificuldade de se obter ganhos ósseos em altura, o presente estudo avaliou do ponto de vista histológico a integração do enxerto autógeno (AU), do aloenxerto ósseo liofilizado desmineralizado (ALD), do aloenxerto ósseo congelado mineralizado (ACM) e do coágulo sanguíneo (CO) em um modelo de regeneração óssea vertical. Foram utilizados nove coelhos, sendo um animal doador primário de enxertos ósseos e oito animais submetidos a um modelo de regeneração óssea guiada (ROG), onde 32 cilindros de titânio foram fixados na calota craniana e preenchidos aleatoriamente com AU, ALD, ACM e CO. Após 13 semanas, os animais sofreram eutanásia e o conteúdo dos cilindros submetido à avaliação histológica e histomorfometrica para quantificar a área total de tecido neoformado (AT), o osso neoformado (ON) e o remanescente do material enxertado (MR). Os dados foram submetidos aos testes t-Student e Mann-Whitney com nível de significância de 5%. Os resultados mostraram que em relação à AT os valores médios foram significantes para ACM e ALD e seguiram a seguinte relação: ACM = ALD > AU > CO. Para a variável neoformação óssea as intervenções ALD e ACM mostraram maior quantidade de tecido ósseo formado do que as que empregaram osso autógeno ou coágulo. Já em relação à MR, a média da variável obedeceu à relação: ACM > ALD = AU = CO (valores-p < 5%). Todas as intervenções apresentaram médias mais significativas de crescimento tecidual nas regiões mais próximas ao leito receptor. Foi possível concluir que os aloenxertos podem ser considerados soluções adequadas para o crescimento ósseo vertical. / Regarding different clinical applications for bone grafts in alveolar reconstructions and difficulties on achieving vertical osseous increase the present study performed a comparative histological evaluation of demineralized freeze-dried bone allograft (DFDBA), of fresh frozen bone allograft (FFBA), autogenous graft (AU) and blood clot (CO) on vertical guided bone regeneration (GBR) in rabbit calvarium. Nine rabbits were used, with one as the primary bone graft donor and eight that were subjected to a model of GBR, whereby 32 titanium cylinders were fixed to the calvaria and randomly filled with DFDBA, FFBA, AU, or CO. The animals were sacrificed 13 weeks later, and the content of the cylinders was subjected to hitomorphological and histomorphometric analysis to quantify the total area of neoformed tissue (AT), the new bone tissue (NB) and residual graft particles (RG). The results showed that mean values for AT were significant to DFDBA and FFBA and followed the relation DFDBA = FFBA > AU > CO. Considering new bone formation DFDBA and FFBA showed better results than the AU and CO. The amount of residual bone particles was larger in the DFDBA and followed the relation FFBA > DFDBA = AU = CO (pvalues < 5%). All interventions showed greater new tissue formation nearby the receptor site. It was possible to conclude that allografts DFDBA and FFBA can be considered good strategies for new bone formation in vertical increasing bone.

A comparação de genomas é uma importante tarefa na qual a bioinformática pode ser aplicada, uma vez que ela permite a identificação de genes patogênicos, o que, por sua vez, pode auxiliar a combater ou a prevenir o surgimento de doenças. A partir da comparação de genomas, também é possível realizar a análise filogenética, que permite entender as relações evolutivas entre diferentes organismos. Em genomas de bactérias, essa análise geralmente é realizada com base no gene 16S rRNA. Entretanto, apesar de ser amplamente utilizado, filogenias com base nesse gene podem ter dificuldades para diferenciar organismos muito próximos evolutivamente. Essa importância da comparação de genomas e a necessidade de uma metodologia que permita distinguir organismos evolutivamente próximos na análise filogenética motivaram este trabalho, que teve como objetivo implementar ferramentas computacionais para identificar genes homólogos em genomas e, com base nesses genes, gerar filogenias e analisar se é possível distinguir os organismos evolutivamente próximos nessas filogenias. Para tanto, as ferramentas desenvolvidas para identificação de genes homólogos recebem resultados de alinhamentos e os filtram, de modo que dois genes são considerados homólogos se o alinhamento entre eles satisfizer os limiares definidos. Após a identificação das famílias de genes homólogos, tabelas são geradas com informações a respeito dos genes homólogos em cada genoma e, com base nessas tabelas, é possível gerar matrizes de distância e utilizar métodos de agrupamento hierárquico para a geração da filogenia ou realizar alinhamentos múltiplos com os genes identificados para posterior reconstrução filogenética. Além disso, também é possível representar os genes e famílias de genes homólogos por meio de um grafo, que pode auxiliar na escolha dos limiares para filtrar os alinhamentos. Para demonstrar e analisar a aplicabilidade das ferramentas desenvolvidas e das abordagens adotadas, experimentos foram realizados utilizando genomas de bactérias do gênero Xanthomonas, que contém um grande grupo de bactérias que causam doenças em plantas. Os resultados obtidos foram então comparados com filogenias de referência e com resultados de outros experimentos realizados. Essas comparações demonstraram que as famílias de genes homólogos podem ser úteis para distinguir genomas de organismos muito próximos evolutivamente, apesar de que essa abordagem apresentou dificuldades para separar os grupos de genomas mais distantes. Em contrapartida, na filogenia gerada a partir da região 16S rRNA, foi possível diferenciar esses organismos mais distantes, mas não foi possível distinguir os organismos muito próximos. Por fim, os experimentos realizados fornecem indícios de que as ferramentas desenvolvidas e as abordagens adotadas podem ser úteis para diferenciar genomas muito próximos evolutivamente de outros procariotos além das bactérias estudadas neste trabalho / Genome comparison is an important task on which bioinformatics can be used because it allows the identification of pathogen genes which can aid the combat of diseases and to avoid the emerging of new ones. Genome comparison also allows the phylogenetic analysis which provides the understanding of evolutional relations of different organisms. In bacterial genomes, this analysis is commonly based on 16S rRNA gene. Unfortunately, it can present some difficulties to distinguish closely related organisms. This importance of genome comparison and the necessity of a methodology to distinguish organisms that are closely related motivated this study, which aimed the development of computational tools to identify homologous genes in genomes, to use these genes to reconstruct phylogenies and to analyze if it is possible to distinguish closely related organisms on these phylogenies. To achieve this purpose, the developed tools to identify homologous genes receive the alignments results and filter it, such that two genes are homologous if their alignment satisfies the thresholds. After the identification of homologous gene families, the tools generates tables with information about the homologous genes presents in each genome and with these tables it is possible to create distance matrix to be used by hierarchical clustering methods to generate phylogenies or it is possible to perform multiple alignments with the identified genes to accomplish a phylogenetic reconstruction. Besides that, it is possible to represent the genes and homologous gene families in a graph, which can aid the choice of the thresholds to filter the alignments. To demonstrate and analyze the applicability of the developed tools and the approaches chosen in this study, experiments were performed using genomes of the bacterial genus Xanthomonas, which include a group of phytopathogenic bacteria. The results obtained were compared with reference phylogenies and with results of other experiments. These comparisons showed that homologous gene families can be used to differentiate closely related organisms, despite the fact that it presented difficulties to distinguish the groups of genomes that were evolutionarily far from each other. On the other hand, the phylogeny based on 16S rRNA region allows to distinguish the groups of genomes that were distant, but it was not possible to differentiate closely related organisms. As a conclusion, the experiments performed give pieces of evidence that the developed tools and the approaches adopted can be useful to distinguish genomes of closely related organisms of other prokaryotes besides the bacterias considered in this study

Os substitutos valvares possuem grande importância pela freqüência da sua utilização e porque de seu bom desempenho depende o sucesso do procedimento cirúrgico realizado. Vários substitutos valvares têm sido empregados, todos com complicações inerentes ao material utilizado, como trombose, calcificação, degeneração, dificuldade de esterilização, custo, complexidade de produção, etc. Buscando disponibilizar homoenxertos preservados de maneira mais simples e econômica, avaliamos uma nova forma de preservação utilizando o polietileno-glicol, método L-Hydro. Este método consiste na extração controlada de substâncias antigênicas e de incorporação de um agente antinflamatório e anti-trombótico. Em dez carneiros jovens substituímos o Tronco Pulmonar, em sete por homoenxertos pulmonares tratados pelo processo L-Hydro e em três por homoenxertos pulmonares a fresco, implantados ortotopicamente e seguidos por 320 dias. Os carneiros foram avaliados por exames laboratoriais e ecocardiográficos. Ao cabo dos 320 dias foram sacrificados, quando se procedeu à avaliação hemodinâmica, radiológica, macroscópica e por microscopia óptica e eletrônica, de varredura e transmissão. Os resultados foram analisados pelo teste t de Student de amostras independentes para os dados contínuos, pela análise de variância para as medidas repetidas e pelo teste exato de Fischer para os dados categóricos. Na evolução clínica e nos exames laboratoriais não conseguimos estabelecer diferenças significativas entre os dois grupos. O ecocardiograma revelou diferença quanto ao gradiente médio pulmonar, significativa aos 10 meses de seguimento, maior no grupo controle do que no grupo L-Hydro. A avaliação radiológica e macroscópica não estabeleceu diferenças. Na avaliação microscópica, óptica e eletrônica, células de revestimento e intersticiais foram encontradas nos dois grupos igualmente. O porcentual de revestimento celular calculado nos dois grupos foi semelhante. Nódulos de celularidade foram observados somente no grupo de homoenxertos a fresco. Em conclusão, estes dados indicam que os dois grupos apresentaram desempenho clínico e hemodinâmico semelhante. Ao ecocardiograma o grupo L-Hydro apresentou melhor desempenho; apresentou também evidências histológicas de repopulação celular intersticial e endotelial. Na análise macro e microscópica, óptica e eletrônica, o grupo L-Hydro apresentou macroscopia, estrutura histológica e ultraestrutural semelhante ao homoenxerto afresco, à exceção de nódulos de maior celularidade intersticial, presentes apenas no homoenxerto a fresco / Valve substitutes are highly important in account of their frequent use and since the success of a surgical procedure depends on their good performance. A variety of valve substitutes have been used, all presenting complications pertaining to their materials, such as thrombosis, calcification, degeneration, sterilization difficulties, cost, production complexity, etc. In an effort to make available homografts preserved in a simpler and less costly way, we evaluated a new preservation form using polyethyleneglycol, the LHydro method. This method consists in the controlled extraction of antigenic substances and the incorporation of an anti-inflammatory and anti-thrombotic agent. We substituted the pulmonary trunk in ten ovines, seven received LHydro treated pulmonary homografts and three received pulmonary homografts fresco, orthotopically implanted and followed-up for 320 days. Ovines where evaluated by means of laboratory tests and echocardiographic exams. At the end of the 320 days, they were euthanized, and hemodynamic, radiology, macroscopic, optic and electronic microscopic, scanning and transmission evaluations were performed. Results were analyzed by Student t test of independent samples for continuous data, by variance analysis of repeated measures, and by Fischer exact test for categorical data. We couldnt establish relevant differences in clinical evolution and laboratory tests between both groups. Echocardiogram revealed a difference in the pulmonary medium gradient, which was significant at the 10 months followup, higher in the control group than in the L-Hydro group. Radiologic and macroscopic evaluations didnt established differences. In the optic and electronic microscopic evaluation, liner and interstitial cells were equally found in both groups. The cell liner percent calculated in both groups was similar. Cellularity nodules were observed only in the homograft fresco group. In conclusion, these data indicate that both groups presented similar clinical and hemodynamic performances. The L-Hydro groups echocardiogram presented a better performance. It also presented histological evidences of interstitial and endothelial cell repopulation. In the macro and optic and electronic microscopic analysis, group L-Hydro presented macroscopy, histological structure and ultra-structural similar to the homograft fresco group, with the exception of nodules with higher interstitial cellularity, present only in the homograft fresco group.

A doença de Chagas é uma doença causada pelo protozoário parasita Trypanosoma cruzi, que afeta cerca de 10 milhões de pessoas, principalmente nas Américas. O T. cruzi utiliza aminoácidos como importante fonte de energia e em vários processos biológicos como diferenciação, resistência a condições de estresse e invasão de células hospedeiras. A serina está envolvida em muitas vias biosintéticas. Uma das funções relevantes da serina é a formação de compostos C1 para a biossíntese de nucleotídeos. O uso de serina para esse fim é iniciado pela Serina Hidroximetiltransferase, cuja atividade foi detectada em T. cruzi, mas seu papel na biologia do parasita permanece pouco explorado. Neste trabalho, identificamos um gene que codifica uma Serina Hidroximetiltransferase putativa com dupla localização (citoplasmática e mitocondrial). Por recombinação homóloga, obtemos parasitas knockouts heterozigotos nos quais um alelo de SHMT foi substituído pelo gene da neomicina fosfotransferase. Os parasitas knockouts não mostraram diferenças na taxa de crescimento das formas epimastigotas ou na metaciclogênese in vitro. Porém, os parasitas knockouts mostraram uma diminuição significativa tanto no índice de infecção como no número de tripomastigotas liberados de células CHO-K1 infectadas com formas metacíclicas knockout. / Chagas disease is a disorder caused by the protozoa parasite Trypanosoma cruzi, which affects about 10 million people, mainly in the Americas. T. cruzi uses amino acids as an important energy source and in several biological processes such as differentiation, resistance to stress conditions and in the host-cell invasion. Serine is involved in many biosynthetic pathways. One of the relevant functions of serine is the formation of C1 compounds for the biosynthesis of nucleotides. The use of serine for that purpose is initiated by Serine Hydroxymethyltransferase, whose activity was detected in T. cruzi but its role in the biology of parasite remains poorly explored. In this work we identified a putative gene encoding a SHMT with dual localization, cytoplasmic and mitochondrial. We generated a single knockout cell line by homologous recombination in which one allele of SHMT was replaced by the neomycin phosphotransferase gene. Knockout parasites showed no difference in epimastigote growth rate or in in vitro metacyclogenesis. However, knockout parasites showed a significant decrease in both, infection index and in the number of trypomastigotes released from CHO-K1cells infected with knockout metacyclic forms.

O tratamento das lesões condrais e osteocondrais do joelho em pacientes jovens ainda permanece um desafio para os médicos ortopedistas. As técnicas de reparo destas lesões atualmente disponíveis no Brasil, como desbridamento, microfraturas e transplante osteocondral autólogo são insuficientes nos tratamentos das lesões condrais e osteocondrais maiores do que 4 cm2. O transplante osteocondral homólogo a fresco (TOF) na articulação do joelho vem sendo usado em outros países com excelentes resultados. Até o presente momento não existem relatos da utilização desta técnica no Brasil, fato que dificulta o tratamento de pacientes jovens ativos que necessitam de reparo biológico. Foram incluídos neste estudo oito pacientes de 15 a 45 anos portadores de lesões osteocondrais maiores que 4 cm2. Os enxertos a fresco foram obtidos de doadores de órgãos, sendo a articulação do joelho captada sem violação da cápsula articular e transportada ao Banco de Tecidos para processamento. O pareamento doador e receptor foi realizado conforme o tamanho, a localização e a prioridade em lista de espera de acordo com os tecidos captados, sendo os mesmos armazenados no meio de preservação Ham F-12 - GIBCO com glutamax (Invitrogen, Life Technologies, Estados Unidos) e com antibióticos. O procedimento cirúrgico foi realizado pelas técnicas de cilindro osteocondral e de superfície, sendo fixados quando necessário. Os pacientes foram avaliados através dos questionários de IKDC objetivo, IKDC subjetivo, KOOS e índice de Merle D\'Aubigne e Postel modificado. Foram realizados oito TOFs de março a outubro de 2012. A média de idade dos pacientes transplantados foi de 30,1 anos (17- 44 anos) e a média da área transplantada foi de 10,6 cm2 (4,6 - 22,4 cm2). O intervalo médio em dias entre captação e transplante foi de 15,3 (14 - 16 dias) e o número médio de cirurgias prévias ao TOF foi de 2 cirurgias (0-4 cirurgias). A pontuação na escala de IKDC objetiva no pré-operatório foi B em 12%, C em 25% e D em 63% dos pacientes; e 12% A e 88% B aos 18 meses de pós-operatório. A média da pontuação da escala IKDC subjetiva pré-operatória foi de 31,99 ± 13,4 e de 81,84 ± 9,25 em 18 meses de pós-operatório, e da escala KOOS pré-operatória foi de 46,8 ± 20,9 e de 89,58 ± 7,06 em 18 meses de pós-operatório, com melhora significativa ao longo do tempo (p < 0,01) pela análise da variância. A média da pontuação pelo índice de Merle D\'Aubigne e Postel modificado foi de 8,75 ± 2,25 no pré-operatório e de 16,75 ± 2,19 em 18 meses de pós-operatório. O resultado do teste de Friedman para amostras não-paramétricas demonstrou melhora significativa ao longo do tempo (p < 0,01). A padronização da captação, processamento e transplante de enxertos osteocondrais a fresco na articulação do joelho depende de um banco de tecidos altamente especializado e leva a excelentes resultados no tratamento de lesões osteocondrais grandes, sendo atualmente uma boa alternativa de tratamento biológico para pacientes jovens no Brasil / Treatment of chondral and osteochondral lesions of the knee in young patients is still a challenge for Orthopedic Surgeons. The techniques available nowadays in Brazil, as debridement, microfracture and autologous osteochondral transplantation are insufficient for the treatment of chondral and osteochondral lesions larger than 4 cm2. Fresh osteochondral allografts on the knee joint have been used in other countries with great success. Until the present days there are no reports of the utilization of this technique in Brazil, a fact that creates boundaries for the treatment of young active patients that need cartilage repair treatment. Eight patients with age ranging from 15 to 45 years old and osteochondral lesions larger than 4 cm2 were included in this study. Fresh grafts were obtained from organ donors and the knee joint was harvest without violation of synovium capsule and then was transported to the tissue bank for processing. Donor and receptor tissue matching occurred according to size, localization and priority on waiting list and tissue was preserved in Ham F-12 - GIBCO media with glutamax (Invitrogen, Life Technologies, United States) and antibiotics. Surgical procedure was achieved with osteochondral plugs or shell techniques, with additional fixation when needed. Patients were evaluated with IKDC objective, IKDC subjective, KOOS and modified Merle D\'Aubigne-Postel outcome scores. Eight fresh osteochondral allografts were performed from march to october, 2012. The average age was 30.1 years old (17-44) and mean graft surface area was 10.6 cm2 (4.6 - 22.4 cm2). Average time from harvest to transplantation was 15.3 days (14-16 days) and mean number of previous surgical procedures was 2 (0 - 4 procedures). Pre-operative objective IKDC score was B in 12%, C in 25% and D in 63% and was A in 12% and B in 88% in 18 months follow-up. Pre-operative IKDC subjective and KOOS score were 31.99 ± 13.4 and 46.8 ± 20.9; and in 18 months follow-up were 81.84 ± 9.25 and 89.58 ± 7.06, respectively, with a significant increase along time on variance analysis (p < 0.01). Pre-operative mean modified Merle D\'Aubigne-Postel scores were 8.75 ± 2.25 and 16.75 ± 2.19 in 18 months follow-up. Non-parametric Friedman test analysis showed a significant progression in follow-up (p < 0.01). Standards of procurement, processing and utilization of fresh osteochondral allografts in the knee joint relay on a high specialized tissue bank and promote excellent results on the treatment of large osteochondral lesions, being a good alternative of a biologic repair for young patients in Brazil

A inserção de DNA exógeno no genoma hospedeiro é conseguida principalmente através da utilização de vias de reparo como a junção de pontas não homólogas, que possui caráter aleatório, e a recombinação homóloga, que possibilita o gene targeting. Algumas ferramentas como as TAL Effector Nucleases (TALENs) e o RNA interferência (RNAi) podem ser utilizadas para aumentar a taxa de integração específica e assim melhorar a eficiência e o direcionamento da edição gênica. Nesse trabalho utilizamos o silenciamento gênico mediano por short interference RNA (siRNA) para inibição temporária dos genes ATF7IP uma metiltrasferase, EP300 uma acetiltransferase e KU70 (NHEJ) e um par de TALENs complementares a uma região do gene da distrofina canina. Células Caninas MDCK I foram transfectadas por lipofectamina 2000 (Invitrogen) com 320pmol de siRNAs para ATF7IP e Ep300; e 64 pmol do SiRNA para KU70 em diferentes grupos, 40 horas depois as células foram transfectadas com 15 &mu;g vetor molde derivado do pEGFP-N1 (Clonatech) e com 10 &mu;g dos RNAm das TALENs. A seleção se deu em meio DMEM high com 600&mu;g/ mL de G418 (Lonza) por 14-16 dias. As colônias coletadas através de biópsias foram analisadas por Polimerase Chain Reaction e sequenciamento gênico. Três pares de primers foram utilizados; um controle endógeno (GAPDH), um controle interno do inserto (Neo qPCR) e um para confirmação da recombinação homóloga (DMD3). Os grupos apresentaram grande variação na taxa de mortalidade celular e consequentemente no número de colônias: Com o grupo ATF7IP+Vetor (648c) apresentando maior número de colônias e o grupo EP300+Ku70+Vetor+TALENs o menor (1c). A maior taxa de recombinação ocorreu nos grupos no grupo ATF7IP +Ku70+Vetor+TALENs com 40% das células positivas para neomicina apresentado o evento gene targeting, um aumento considerável na taxa de recombinação quando comparada a porcentagem de 3,1% do controle transfectado somente com o vetor molde. Mostrando que o uso conjunto das TALENs com siRNAs foi um sucesso para o aumento de eventos de edição gênica direcionada. / The insertion of exogenous DNA into a host genome is achieved primarily through the use of DNA repair pathways such as Non-Homologous End Joining (NHEJ) and the Homologous Recombination (HR). The integration by NHEJ has a random feature and is much more common than HR insertions, which are more likely to produce gene targeting events . TAL effector nucleases (TALENs) and RNA interference (RNAi) can be used to increase the rate of specific integration and thus improving the efficiency of gene editing. In this work, we used short interference RNA (siRNA)-mediated gene silencing for transient inhibition of genes ATF7IP (implicated in histone methylation), EP300 (acetyltransferase) and Ku70 (essential to NHEJ) and a pair of TALENs RNAm complementary to canine muscle dystrophin (DMD) gene. MDCK I Canine Cells were transfected by lipofectamine 2000 (Invitrogen) with 320 pmol of siRNAs for ATF7IP and EP300; and 64 pmol of siRNA for Ku70 in different groups. After 40 hours cells were transfected with 15 &mu;g of a vector derived from pEGFP- N1 (Clontech) containing two regions homologous to the canine DMD gene (left arm length: 873 bp and right arm length: 1370 bp) and 10 &mu;g of TALEN mRNA. The cell selection was achieved with DMEM high glucose with 600&mu;g/ml G418 for 14-16 days. The colonies collected through biopsies were analyzed by polymerase chain reaction and gene sequencing. Three pairs of primers were used; an endogenous control (GAPDH) , an internal control of the insert (Neo qPCR) and a primer set to confirm the occurrence of homologous recombination events (DMD3). .Groups showed great variation in cell death rate and consequently in the number of colonies: ATF7IP+Vector had highest number of colonies (648c) and the group EP300+Ku70+Vetor+TALENs the lowest one (1c) The highest rate of homologous recombination was in ATF7IP +Ku70+Vetor+TALENs group that had 40% of the neomycin positives cells confirmed as gene targeting events, a considerable increase in the recombination rate compared to the 3.1% in the control group transfected only with the template vector. That shows that the combined use of siRNAs and TALENs was a success for increasing directed gene editing events.