Biofilm accounts for 65%-80% of microbial infections in humans. Considerable evidence links biofilm formation to oral disease and consequently systemic infections. Eradication of biofilm-associated infections is important. Streptococcus sanguinis, a Gram-positive bacterium, is one of the most abundant species in oral biofilm. It contributes to biofilm development in oral cavities and is one of the recognized causes of infective endocarditis. To study and identify biofilm genes in S. sanguinis, biofilm formation of 51 mutants was compared with the wild type SK36 strain using crystal violet (CV) staining in a microtiter plate. Confocal laser scanning microscopy (CLSM) and image analysis was done to compare biofilm formation by the mutant to the wild type SK36 strain. A biofilm mutant XG2_0351, encoding a type I signal peptidase (SPase I), was further investigated. SPase I cleaves proteins that are transported through secretory machinery and is necessary for the release of translocated preproteins from a cytoplasmic site of synthesis to extracytoplasmic/membrane destinations. S. sanguinis, like many Gram-positive bacteria, has multiple SPases I. The objective of this project is to investigate the distinctive role that SPase I plays in biofilm formation in S. sanguinis. Using a plate reader, the growth curves of the wild type strain SK36 and XG2_0351 were compared. The scanning electron microscope (SEM) was utilized to compare the cell surface morphologies. Coomassie staining was done to narrow the list of potential substrates of XG2_0351. CV staining and CLSM images indicated phenotypic differences between the SPase I mutant and SK36. The growth curves of XG2_0351 and SK36 showed no significant difference although SEM illustrated a difference in the cell surface morphologies. Coomassie staining illustrated a number of substrates that were present in SK36 but not XG2_0351. In addition bioinformatics was used to understand the gene function. In conclusion, XG2_0351 reduces biofilm formation in S. sanguinis but further research is necessary to elucidate the specific proteins that are involved. Clarifying the vii role that SPase I plays in reduced biofilm formation in S. sanguinis will give a better understanding of the biofilm formation mechanism.

Disertační práce Změny zátěže ekosystému v podélném profilu antropogenně ovlivněného toku Kateřina Kohušová Changes of ecosystem load in longitudinal profile of antropogenically influenced river ABSTRACT To determine anthropogenic load of the Bílina river ecosystem we monitored concentrations of selected heavy metals (As, Cd, Hg, Pb, V, Zn) and specific organic substances (PAH, PCB, HCH, HCB, DDT) in three different matrices: surface water, biofilms and sediments. In the longitudinal profile of the river, four sampling profiles were determined (B1 - B4), mapping different parts of the river. The monitoring took place from 2005 to 2008. Concentrations of the substances monitored in surface water showed a decrease in load compared to the values from ten years ago. The concentrations found in surface water showed clear tendency of pollution in the longitudinal profile; the load increased downstream and profiles B3 and B4 mid- and downstream had the highest concentration. In the case of some concentrations of substances in surface water there is a trend of the majority of values being below the detection limit by the given methods of analysis. This shows a decrease of load in the river but the positive trend was invalidated by variations in maximum concentrations. Even though these variations were rare and...

<p>Selenium (Se) is a micronutrient necessary for the function of a variety of important enzymes; Se also exhibits a narrow range in concentrations between essentiality and toxicity. Oviparous vertebrates such as birds and fish are especially sensitive to Se toxicity, which causes reproductive impairment and defects in embryo development. Selenium occurs naturally in the Earth's crust, but it can be mobilized by a variety of anthropogenic activities, including agricultural practices, coal burning, and mining. </p><p>Mountaintop removal/valley fill (MTR/VF) coal mining is a form of surface mining found throughout central Appalachia in the United States that involves blasting off the tops of mountains to access underlying coal seams. Spoil rock from the mountain is placed into adjacent valleys, forming valley fills, which bury stream headwaters and negatively impact surface water quality. This research focused on the biological impacts of Se leached from MTR/VF coal mining operations located around the Mud River, West Virginia. </p><p>In order to assess the status of Se in a lotic (flowing) system such as the Mud River, surface water, insects, and fish samples including creek chub (Semotilus atromaculatus) and green sunfish (Lepomis cyanellus) were collected from a mining impacted site as well as from a reference site not impacted by mining. Analysis of samples from the mined site showed increased conductivity and Se in the surface waters compared to the reference site in addition to increased concentrations of Se in insects and fish. Histological analysis of mined site fish gills showed a lack of normal parasites, suggesting parasite populations may be disrupted due to poor water quality. X-ray absorption near edge spectroscopy techniques were used to determine the speciation of Se in insect and creek chub samples. Insects contained approximately 40-50% inorganic Se (selenate and selenite) and 50-60% organic Se (Se-methionine and Se-cystine) while fish tissues contained lower proportions of inorganic Se than insects, instead having higher proportions of organic Se in the forms of methyl-Se-cysteine, Se-cystine, and Se-methionine. </p><p>Otoliths, calcified inner ear structures, were also collected from Mud River creek chubs and green sunfish and analyzed for Se content using laser ablation inductively couple mass spectrometry (LA-ICP-MS). Significant differences were found between the two species of fish, based on the concentrations of otolith Se. Green sunfish otoliths from all sites contained background or low concentrations of otolith Se (< 1 µg/g) that were not significantly different between mined and unmined sites. In contrast creek chub otoliths from the historically mined site contained much higher (&#8805; 5 µg/g, up to approximately 68 µg/g) concentrations of Se than for the same species in the unmined site or for the green sunfish. Otolith Se concentrations were related to muscle Se concentrations for creek chubs (R2 = 0.54, p = 0.0002 for the last 20% of the otolith Se versus muscle Se) while no relationship was observed for green sunfish. </p><p>Additional experiments using biofilms grown in the Mud River showed increased Se in mined site biofilms compared to the reference site. When we fed fathead minnows (Pimephales promelas) on these biofilms in the laboratory they accumulated higher concentrations of Se in liver and ovary tissues compared to fathead minnows fed on reference site biofilms. No differences in Se accumulation were found in muscle from either treatment group. Biofilms were also centrifuged and separated into filamentous green algae and the remaining diatom fraction. The majority of Se was found in the diatom fraction with only about 1/3rd of total biofilm Se concentration present in the filamentous green algae fraction </p><p>Finally, zebrafish (Danio rerio) embryos were exposed to aqueous Se in the form of selenate, selenite, and L-selenomethionine in an attempt to determine if oxidative stress plays a role in selenium embryo toxicity. Selenate and selenite exposure did not induce embryo deformities (lordosis and craniofacial malformation). L-selenomethionine, however, induced significantly higher deformity rates at 100 µg/L compared to controls. Antioxidant rescue of L-selenomethionime induced deformities was attempted in embryos using N-acetylcysteine (NAC). Pretreatment with NAC significantly reduced deformities in the zebrafish embryos secondarily treated with L-selenomethionine, suggesting that oxidative stress may play a role in Se toxicity. Selenite exposure also induced a 6.6-fold increase in glutathione-S-transferase pi class 2 gene expression, which is involved in xenobiotic transformation. No changes in gene expression were observed for selenate or L-selenomethionine-exposed embryos.</p><p>The findings in this dissertation contribute to the understanding of how Se bioaccumulates in a lotic system and is transferred through a simulated foodweb in addition to further exploring oxidative stress as a potential mechanism for Se-induced embryo toxicity. Future studies should continue to pursue the role of oxidative stress and other mechanisms in Se toxicity and the biotransformation of Se in aquatic ecosystems.</p> / Dissertation

O objetivo do presente estudo foi avaliar, in vitro, o efeito de diferentes tempos de pré-irradiação do fotossensibilizador na terapia fotodinâmica em biofilmes formados por Streptococcus mutans e Candida albicans, por meio da avaliação da carga microbiana. Os fatores em estudo foram: tempos de pré-irradiação do fotossensibilizador em 3 níveis (1, 2 ou 5 minutos). Para o controle do biofilme dentário cariogênico com aPDT foi utilizado o azul de metileno (0,01%) associado ao laser de diodo (&lambda;=660 nm). O digluconato de clorexidina (CHX a 0,12%) e a solução salina foram utilizados como controle positivo e negativo, respectivamente. O delineamento do estudo foi realizado em blocos completos e casualizados, sendo a amostra composta por 15 culturas de biofilmes de S. mutans, divididas aleatoriamente em 5 grupos e 15 culturas de C. albicans, também divididas em 5 grupos. O experimento foi realizado em triplicata (n=3) e as variáveis de resposta foram obtidas por meio de análise quantitativa da viabilidade bacteriana, expressa em unidades formadoras de colônia (UFC) por mm2 da área do espécime. Os dados obtidos foram analisados com o auxílio do teste one-way ANOVA e pós-teste de Tukey. Todas as análises foram efetuadas por meio do programa Graph Pad Prism 4.0, com nível de significância de 5%. Para o grupo de S. mutans, apenas a solução salina apresentou diferença estatisticamente significante quando comparada aos demais tratamentos (p<0.05), ou seja, o tratamento com aPDT, independentemente do tempo de irradiação aplicado, foi semelhante ao tratamento com CHX e ambos foram mais eficazes na redução do biofilme cariogênico, em comparação à solução salina. Para o grupo de C. albicans não houve diferença estatística entre os grupos (p>0.05). Portanto, pode-se concluir que o tratamento com aPDT diminuiu o número de UFCs de S. Mutans de forma semelhante à CHX, independentemente do tempo de pré-irradiação aplicado. Não foi possível constatar nenhum efeito desta terapia e dos diferentes tempos de pré-irradiação sobre o biofilme de C. albicans. Desta forma, o tempo de pré-irradiação de 1 minuto pode ser utilizado com o objetivo de reduzir a carga microbiana de S. Mutans. / The aim of the present study was to evaluate, in vitro, the effect of different pre-irradiation times of the photosensitizer in photodynamic therapy in biofilms formed by on by Streptococcus mutans and Candida albicans, through the evaluation of the microbial load. The factors under study were: times of pre-irradiation of the photosensitizer in 3 levels (1, 2 or 5 minutes). For the control of the cariogenic dental biofilm with aPDT, methylene blue (0.01%) was used in association with the diode laser (&lambda;=660 nm). Chlorhexidine digluconate (0.12% CHX) and saline were used as positive and negative controls, respectively. The study design was carried out in complete and randomized blocks. The sample consisted of 15 S. mutans biofilms cultures, randomly divided into 5 groups and 15 C. albicans cultures, also divided into 5 groups. The experiment was performed in triplicate (n = 3) and the response variables were obtained through quantitative analysis of bacterial viability, expressed in colony forming units (CFU) per mm2 of the specimen area. The data were analyzed with the aid of the ANOVA one-way test and Tukey\'s post-test. All analyzes were performed using the Graph Pad Prism 4.0 program, with a significance level of 5%. For the S. mutans group, only the saline solution presented a statistically significant difference when compared to the other treatments (p <0.05), that is, the treatment with aPDT, irrespective of the irradiation time applied, was similar to the treatment with CHX and both were more effective in reducing cariogenic biofilm compared to saline. For the group of C. albicans there was no statistical difference between the groups (p> 0.05). Therefore, it can be concluded that the treatment with aPDT reduced the number of CFUs of S. Mutans in a similar way to CHX, independently of the pre-irradiation time applied. No effect of this therapy or of the different pre-irradiation times on the C. albicans biofilm could be observed. In this way, the pre-irradiation time of 1 minute can be used to reduce the microbial load of S. mutans.

Candida spp. constitui o grupo mais importante de fungos patogênicos oportunistas, que está associado a elevadas taxas de mortalidade. As principais espécies causadoras de infecções sanguíneas são: C. albicans, C. glabrata, C. parapsilosis e C. tropicalis. Conhecer a distribuição das espécies e padrões de suscetibilidade aos antifúngicos é fundamental para o estabelecimento de medidas de controle da candidemia. A patogenicidade dessas leveduras depende de alguns fatores de virulência como a capacidade de escapar dos mecanismos de defesa do hospedeiro e a capacidade de formação de biofilme. Biofilmes são comunidades microbianas organizadas aderidas a uma superfície sólida, biótica ou abiótica, e envolvidas por uma matriz polissacarídica extracelular. Eles podem apresentar resistência a antimicrobianos e ser fontes de infecções crônicas e persistentes, e a sua relação fungo-hospedeiro é pouco conhecida. O objetivo desse estudo foi avaliar o impacto da formação de biofilme sobre o perfil de suscetibilidade a antifúngicos, de espécies de Candida isoladas em episódios de candidemia no Hospital das Clínicas da Faculdade de Medicina de Ribeirão Preto da Universidade de São Paulo. Foram isoladas 70 amostras de Candida spp. através de hemoculturas, e características dos pacientes foram avaliadas, através da análise dos prontuários médicos. A espécie mais prevalente foi C. albicans, seguida por C. parapsilosis (sensu latu), C. glabrata e C. tropicalis a menos frequente. A Concentração Inibitória Mínima dos antifúngicos anfotericina B (AMB), caspofungina (CAS), fluconazol (FLC) e voriconazol (VOR) foi determinada em células planctônicas dos 70 isolados de Candida spp., de acordo com as diretrizes do CLSI. Dentre os isolados, um de C. albicans foi resistente ao FLC e VOR; todos os isolados de C. glabrata e um isolado de C. parapsilosis foram suscetíveis dose dependente ao FLC, dois isolados de C. glabrata foram suscetíveis dose dependente à CAS e um isolado de C. tropicalis foi suscetível dose dependente ao VOR. A capacidade de formação de biofilme pelos isolados foi analisada, e de acordo com a atividade metabólica, todos os isolados de C. albicans, C. glabrata e C. tropicalis foram capazes de formar biofilme em placas de poliestireno, em 24 horas, e 50% dos isolados de C. parapsilosis não foram capazes de formar biofilme. Biofilmes de cada espécie foram visualizados por microscopia eletrônica de varredura, e demonstraram diferenças estruturais de acordo com cada espécie. A Concentração Erradicatória Mínima dos antifúngicos aos biofilmes de todos os isolados foi determinada. AMB e CAS mostraram atividade contra biofilmes de Candida spp., contudo, biofilmes de certos isolados requereram concentrações maiores que as necessárias para inibir o crescimento de células planctônicas; FLC e VOR, no geral, não possuem ação eficaz contra biofilmes de Candida spp.. Quando isolados de C. albicans, com diferentes perfis de formação de biofilme, foram avaliados quanto a sua virulência in vivo no hospedeiro invertebrado Galleria mellonella, foi obervada uma tendência de maior virulência no grupo de isolados previamente classificados com alta formação de biofilme. Os resultados obtidos refletem a influência da formação de biofilme na suscetibilidade dos isolados clínicos aos antifúngicos comumente utilizados na prática médica / Candida spp. is part of the most important group of opportunistic pathogenic fungi, which is associated with high mortality rates. The main species causing bloodstream infections are: C. albicans, C. glabrata, C. parapsilosis and C. tropicalis. The knowledge about these species´ distribution and their antifungal susceptibility profiles is essential to establish measures to control candidemia. The pathogenesis of these yeasts depends on some virulence factors, such as their ability to escape host defense and their capacity of forming biofilm. Biofilms are organized microbial communities adhered to a biotic or abiotic solid surface and surrounded by an extracellular matrix; they can be resistant to antimicrobial agents and the source of chronic and persistent infections, and its fungal-host relationship is still little known. The aim of this study was to evaluate the impact of biofilm formation on antifungal susceptibility profile of Candida species isolated from candidemia episodes at the Hospital das Clínicas da Faculdade de Medicina de Ribeirão Preto da Universidade de São Paulo. A total of 70 Candida spp. samples were isolated through blood culture, and the patients\' characteristics were evaluated through the analysis of their medical records. The most isolated species was C. albicans, followed by C. parapsilosis (sensu latu), C. glabrata, and C. tropicalis the least frequent. The Minimal Inhibitory Concentration for the antifungal agents amphotericin B (AMB), caspofungin (CAS), fluconazole (FLC) and voriconazole (VOR) were determined in planktonic cells for the 70 Candida spp. isolates, following CLSI guidelines. Among the isolates, one C. albicans isolate was resistant to FLC and VOR; all the C. glabrata and one C. parapsilosis isolates were susceptible dose dependent to FLC; two C. glabrata isolates were susceptible dose dependent to CAS, and one C. tropicalis isolate was susceptible dose dependent to VOR . The isolates´ ability to form biofilm was analyzed and according to the metabolic activity, all the C. albicans, C. glabrata and C. tropicalis isolates were able to form biofilm in polystyrene plates, in 24 hours, and 50% of the C. parapsilosis isolates were not able to form biofilm. Biofilms of each species were visualized through scanning electron microscopy and structural differences were seen according to each species. The Minimal Eradication Concentrations of the antifungal to the biofilms were determined. AMB and CAS showed activity against Candida spp. biofilms, however, some isolates needed concentrations much higher than the used to inhibit planktonic growth; FLC and VOR in general were not efficient against Candida spp. biofilms. When C. albicans isolates, which showed different biofilm formation profiles, were tested about their in vivo virulence using the invertebrate host Galleria mellonella, it was possible to observe a propensity of the high biofilm formers isolates to be more virulent. The results reflect the effect of biofilms on clinical isolates susceptibility to antifungal drugs commonly used during medical practice.

Multizelluläre Gemeinschaften in Form bakterieller Biofilme stellen aus medizinischer Sicht ein großes klinisches Problem dar. Häufig lassen sich chronische oder rezidivierende Erkrankungen aber auch nosokomiale Infektionen auf die multizelluläre Lebensweise von humanpathogenen Erregern zurückführen. Sowohl fakultativ als auch obligat pathogene Escherichia coli-Stämme besitzen eine Vielzahl unterschiedlicher Faktoren, die die Biofilmbildung beeinflussen. Daran beteiligt sind unter anderem Flagellen, extrazelluläre polymere Substanzen, Adhäsine oder Oberflächen-assoziierte Proteine wie Autotransporter. Gegenstand der vorliegenden Arbeit ist die funktionale Charakterisierung des Proteins Antigen 43 (Ag43). Aufgrund seiner Autoaggregation-vermittelnden Eigenschaft trägt Ag43 ebenfalls zur Mikrokoloniebildung und Biofilmreifung bei. Antigen 43 ist ein Autotransporterprotein, welches innerhalb der Bakterienspezies Escherichia coli weit verbreitet ist. Interessanterweise besitzen viele E. coli-Isolate gleich mehrere identische oder ähnliche Kopien von agn43, die in der Regel von variablen Genombereichen (genomische Inseln, Plasmide) kodiert werden. Am Beispiel der Antigen 43-Varianten des uropathogenen Escherichia coli (UPEC)-Stammes 536 (O6:K15:H31), des kommensalen E. coli Isolats Nissle 1917 (O6:K5:H1) sowie des E. coli K-12-Laborstammes MG1655 (OR:H48:K-) ist die Bedeutung des Autotransporterproteins im Rahmen dieser Arbeit näher untersucht worden. Hierfür wurden die verschiedenen agn43-Allele in ein geeignetes Vektorsystem kloniert und im Adhäsin-freien Escherichia coli K-12-Stamm MG1655 &#916;fim&#916;flu exprimiert. Da Antigen 43 in Wildtypstämmen posttranslational glykosyliert vorliegt, sind die Experimente zusätzlich unter Einfluß der heterologen, AIDA I-spezifischen Heptosyltransferase Aah (‘Autotransporter Adhesin Heptosyltransferase’) durchgeführt worden. Anhand von Bindungsstudien (intermolekulare Autoaggregation, Zelladhäsionstests) wurde gezeigt, daß sich einzelne Ag43-Varianten teilweise in ihren Eigenschaften unterscheiden. Im direkten Vergleich mit AIDA-I (‘Adhesin Involved in Diffuse Adherence’) enteropathogener Escherichia coli (EPEC) konnte für Ag43 nur eine Funktion als schwaches Adhäsin nachgewiesen werden. Die heterologe O-Glykosylierung beeinflußte die Funktionalität des Antigen 43 in unterschiedlichem Ausmaß. Je nach Autotransporter-Variante führte die Heptosylierung entweder zu signifikant reduzierten Affinitäten, oder sie hatte keinen Effekt auf die Bindungskapazität des Ag43. Antigen 43 weist zudem strukturelle Homologien zu vergleichbaren Domänen anderer Autotransporter auf. Für viele dieser Proteine konnte bereits eine adhäsive oder invasive Funktion nachgewiesen werden. Eine mögliche Interaktion von Ag43 mit eukaryontischen Rezeptoren ist hingegen noch nicht bzw. nur unvollständig untersucht worden. In Overlay assays und ELISAs wurde für Antigen 43 hier erstmals die spezifische Bindung an die extrazellulären Matrixkomponenten Kollagen und Laminin gezeigt. Zusammenfassend deuten die Ergebnisse dieser Arbeit darauf hin, daß das Escherichia coli spezifische Autotransporterprotein Antigen 43 nicht nur an der bakteriellen Biofilmbildung, sondern auch an der Besiedlung epithelialer Gewebe beteiligt sein kann. Seine Expression verschafft Bakterien einen Kolonisationsvorteil, der mit erhöhter Fitneß einhergeht. Die Aah-vermittelte O-Glykosylierung scheint für die Funktionalität von Ag43 nicht zwingend erforderlich zu sein. Des weiteren ist im Rahmen der vorliegenden Arbeit ein Testsystem entwickelt worden, das auf der Basis von Fluoreszenz-in-situ-Hybridisierungen (FISH) die Differenzierung von verschiedenen (uro-)pathogenen Mikroorganismen ermöglicht. Das etablierte Protokoll eignet sich nicht nur für die diagnostische Erregeridentifizierung, sondern auch in Abhängigkeit des Probenmaterials zur Untersuchung von (Multispezies-)Biofilmen. / Bacteria living in multicellular communities, i.e. biofilms, have evolved into a major health problem. Most chronic or recurrent diseases including nosocomial infections can be traced back to the multicellular lifestyle of pathogenic agents. Both facultative and obligate pathogenic strains of Escherichia coli express a multitude of diverse factors contributing to biofilm formation like flagella, extracellular polymeric substances, adhesins, or surface-exposed proteins, e.g. autotransporters. This work presents the functional characterization of the surface-associated protein antigen 43 (Ag43). Due to its autoaggregating phenotype, Ag43 is also involved in the formation of microcolonies and biofilms. Antigen 43 represents an autotransporter protein frequently expressed by all Escherichia coli pathotypes. Interestingly, many E. coli isolates encode multiple identical or orthologous copies of agn43 which are usually associated with mobile genetic elements (genomic islands, plasmids). Here, the antigen 43 variants of uropathogenic Escherichia coli (UPEC) strain 536 (O6:K15:H31), commensal isolate E. coli Nissle 1917 (O6:K5:H1), and E. coli K-12 strain MG1655 (OR:H48:K-) have been analyzed. For this purpose, the different agn43-alleles were cloned into a capable vector system and subsequently expressed in Escherichia coli K-12 strain MG1655 &#916;fim&#916;flu lacking the genes encoding type 1-fimbrial adhesins (fim) and antigen 43 (flu). Due to the occurrence of posttranslational glycosylation of Ag43 in wild type strains, experiments were additionally carried out upon co-expression of the heterologous AIDA-I-specific heptosyl transferase Aah (Autotransporter Adhesin Heptosyltransferase). On the basis of binding studies (intermolecular autoaggregation, adhesion to eukaryotic cells) individual properties could be detected for each Ag43-variant. However, compared to AIDA-I (Adhesin Involved in Diffuse Adherence) of enteropathogenic Escherichia coli (EPEC) strains, antigen 43 was shown to act as a weak adhesin. Additionally, O-glycosylation partly influenced protein functions. Depending on the variant tested, posttranslational modification by Aah either resulted in significantly reduced affinities or had no effect on the binding capacity of Ag43. Furthermore, antigen 43 exhibits structural homologies compared to certain domains of related autotransporters. For many of these proteins, an adhesion- or invasion-mediating function could be demonstrated. To date, the interaction of Ag43 with a putative eukaryotic receptor has not been determined, yet. Here, it is shown for the first time that antigen 43 specifically binds to components of the extracellular matrix. Overlay assays and ELISAs identified collagen and laminin as epithelial receptors for Ag43. Taken together, the results obtained in this study confirm the functional role of antigen 43 in biofilm formation as well as its effect during bacterial colonization of epithelial tissues. Expression of the Escherichia coli-specific autotransporter protein is directly correlated to the improved fitness of bacteria infecting the human host. Aah-mediated O-glycosylation seems not to be strictly required for the function of Ag43. The second aim of this work was the design and development of a test system which can be used for the differentiation of (uro-)pathogenic microorganisms in biofilms. For this purpose, the FISH (Fluorescence-in-situ-Hybridization)-technique has been optimized for diagnostic applications. Depending on the specimen, the protocol can also be adapted to the analysis of (multispecies) biofilms.

Escherichia coli ist ein Kommensale des menschlichen und tierischen Gastrointestinaltraktes. Einige E. coli-Stämme sind in der Lage, extraintestinale Erkrankungen beim Menschen wie Harnwegsinfekte, Neugeborenen-Meningitis und Sepsis, sowie beim Tier aviäre Coliseptikämien, hervorzurufen. Ein wichtiger Virulenzfaktor des Bakteriums ist dabei die aus &#945;-2,8-verknüpften Sialinsäuremonomeren aufgebaute K1-Kapsel, die phasenvariabel mit einer hohen Frequenz O-acetyliert werden kann. Im Jahr 2005 konnte gezeigt werden, dass es sich bei dem für die O-Acetylierung verantwortlichen Enzym um die O-Acetyltransferase NeuO handelt, die von dem K1-spezifischen Prophagen CUS-3 codiert wird. Die Verteilung von neuO in der E. coli K1-Population sowie die funktionelle Relevanz der K1-Kapsel O-Acetylierung für das Bakterium waren zu Beginn der vorliegenden Arbeit weitestgehend unklar. Eine E. coli K1-Stammsammlung mit 183 Isolaten wurde aufgebaut. Die E. coli K1-Isolate stammten sowohl aus Stuhlproben gesunder Freiwilliger, humanen Harnwegsinfekten, humanen invasiven Erkrankungen (Neugeborenen-Meningitis und Bakteriämie) und aus an Coliseptikämie erkrankten Vögeln. Die Isolate der E. coli K1-Stammsammlung wurden mit der Multilokus-Sequenztypisierung (MLST) typisiert. Es konnten 39 Sequenztypen (ST) sowie fünf Sequenztyp-Komplexe (STC) identifiziert werden. Bei dem mit Abstand häufigsten STC handelte es sich um den STC95, dem 80 Stämme (44%) angehörten. Insgesamt 103 der 183 E. coli K1-Stämme waren neuO-positiv (56%). Das Gen wurde in 78 (98%) der STC95-Isolate, aber nur in 25 (24%) der 103 nicht-STC95-Stämme gefunden. NeuO war also mit dem STC95 assoziiert. Über Sequenzanalysen des CUS-3-Prophagen konnten CUS-3-Genotypen bestimmt werden. Die Gruppierung der CUS-3-Genotypen und der E. coli K1-ST sowie der anschließende Vergleich beider Gruppierungen miteinander offenbarte eine Segregation der Prophagen-Genotypen entsprechend der ST. Daher legen die in dieser Arbeit ermittelten Ergebnisse eine Koevolution des Phagen mit seinem Wirt nahe. Einige humane und aviäre E. coli K1-Isolate waren weder auf Basis der MLST bzw. der CUS-3-Genotypisierung noch anhand des Vorhandenseins verschiedener, mit extraintestinal-pathogenen E. coli-assoziierter Gene voneinander unterscheidbar, was die Hypothese einer zoonotischen Transmission dieser Stämme unterstützt. In den in dieser Arbeit durchgeführten funktionellen Analysen konnte weder ein Effekt der NeuO-vermittelten E. coli K1-Kapsel O-Acetylierung auf die Fähigkeit der Bakterien an humane mikrovaskuläre Gehirnendothelzellen zu adhärieren oder in diese zu invadieren, noch auf die in vivo-Virulenz der Bakterien im Hühnermodell beobachtet werden. Die K1-Kapsel O-Acetylierung verringerte die in vivo-Kolonisierung des Hühner-Gastrointestinaltraktes und die in vitro-Biofilmbildung durch das Bakterium, wohingegen sie die Austrocknungsresistenz von E. coli K1 erhöhte. Möglicherweise dient die phasenvariable neuO-Expression und damit die E. coli K1-Kapsel O-Acetylierung der Anpassung des Bakteriums an wechselnde Umweltbedingungen. / Escherichia coli is a commensal of the human and animal intestinal tract. Some strains have the ability to cause extraintestinal disease in humans such as urinary tract infections, neonatal meningitis and septicemia, but also animal infection such as avian colisepticemia. A major virulence factor of the bacterium is the K1 capsule composed of &#945;-2,8-linked sialic acid monomers, which can be phase variably O-acetylated at a high frequency. In 2005, it was shown that the enzyme responsible for O-acetylation is the O-acetyltransferase NeuO, which is encoded by the K1-specific prophage CUS-3. The distribution of neuO as well as the functional relevance of the K1 capsule O-acetylation for the bacterium were largely unknown at the start of the thesis. A strain collection comprising 183 E. coli K1 strains was established. The E. coli K1 isolates derived from stool samples of healthy donors, human urinary tract infections, human invasive diseases like newborn meningitis and bacteremia, and from avian colisepticemia. All isolates were typed by multilocus sequence typing (MLST). Thirty-nine sequence types (ST) and five sequence type complexes (STC) were identified. The major share of the strains belonged to the STC95 (80 strains, 44%). 103 of 183 E. coli K1 strains were neuO-positive (56%). The gene was found in 78 (98%) STC95 isolates, but only in 25 (24%) of 103 non-STC95 isolates. Therefore, there was an association of neuO with the STC95. With the help of DNA sequencing of internal fragments of CUS-3, distinct CUS-3 genotypes were assigned. There was a segregation of CUS-3 genotypes according to STs, suggesting coevolution of the prophage CUS-3 and its host. Some human and avian isolates were indistinguishable with respect to MLST, CUS-3 genotyping and the presence of genetic markers associated with extraintestinal pathogenic E. coli, which was compatible with the hypothesis of zoonotic transmission of these strains. Functional analyses performed in this study neither revealed an impact of NeuO-mediated K1 capsule O-acetylation on the ability of the bacteria to adhere to or invade into human brain microvascular endothelial cells, nor on the in vivo virulence of the bacteria in a chicken infection model. K1 capsule O-acetylation decreased in vivo chicken gut colonization and in vitro biofilm formation, while increasing E. coli K1 desiccation resistance. This study provides evidence that phase variable neuO expression and the subsequent O-acetylation of the E. coli K1 capsule serves as an efficient tool for the adaptation to changing environments.

Staphylococcus epidermidis ist ein wichtiger Bestandteil der gesunden Hautflora des Menschen, gleichzeitig aber auch der häufigste Erreger nosokomialer Infektionen bei immunsupprimierten Patienten. Die Forschungsarbeiten haben sich in den vergangenen Jahren besonders auf Faktoren und Mechanismen konzentriert, welche zur Etablierung der Spezies als Pathogen beigetragen haben. Eine typische Eigenschaft klinischer Isolate ist die Fähigkeit, auf künstlichen Oberflächen Biofilme zu bilden. Gegenstand der vorliegenden Arbeit war die Untersuchung der IS-vermittelten Genomflexibilität und der Vergleich der Genomstruktur nosokomialer und kommensaler Isolate von S. epidermidis. Dazu wurde eine 260 kb große spontane Deletion im Chromosom des Biofilm-bildenden Stammes S. epidermidis 307 sequenziert und annotiert, von der bekannt war, dass sie durch eine homologe Rekombination zweier IS256-Kopien ausgelöst wurde. Auf dem deletierten Fragment fanden sich neben dem ica-Operon zahlreiche potentielle Virulenz-assoziierte Gene. Das überraschende Ergebnis dieser Analyse war jedoch die Identifizierung eines neuartigen SCC-Elementes, das den rechten Rand der Deletion begrenzt. Dies ist die erste Beschreibung eines SSC-Elementes mit einer CcrC-Rekombinase, dem das Methicillin-Resistenzgen mecA fehlt. In der Nähe des Rekombinasegens fand sich S.-haemolyticus-spezifische DNA. Weitere Untersuchungen zeigten, dass das SCC-Element durch die IS256/Tn4001 -vermittelte Deletion in der Mutante verkürzt wurde. Genomvergleiche ica-positiver und ica-negativer Stämme von S. epidermidis mittels Microarrays, sowie in-silico-Analysen zweier vollständiger S.-epidermidis-Genome ergaben, dass sich kommensale und pathogene Stämme in nur wenigen Faktoren unterscheiden. Diese befinden sich jedoch fast alle in einer Region um den oriC, in dessen Nähe auch die Insertionsstelle für die SCCmec-Inseln lokalisiert ist. Das deletierte DNA-Fragment von S. epidermidis 307 konnte ebenfalls dieser Region zugeordnet werden, die offenbar eine Zone hoher genomischer Flexibilität darstellt, in der fremde DNA integriert werden kann. Im Rahmen dieser Arbeit konnte außerdem gezeigt werden, dass das ica-Operon diesen variablen Genomabschnitt begrenzt. Die exakte Grenze zwischen ica-positiven und ica-negativen Stämmen bildet eine Thr-tRNA, die in einer 1,4 kb großen intergenischen Region stromabwärts des icaR-Regulatorgens lokalisiert ist. In unmittelbarer Nachbarschaft konnte ein Transkript nachgewiesen werden, welches nur in ica-positiven S. epidermidis vorkommt. Gestützt auf bioinformatische Analysen wurden zunächst die Polarität und Länge des Transkriptes, sowie der korrespondierende Promotor experimentell bestimmt. Demnach handelt es sich um eine 487 nt lange RNA, die entgegengesetzt zur Thr-tRNA orientiert ist und mit dieser teilweise überlappt. Da die Nukelotid-Sequenz weder eine Ribosomen- Bindungsstelle noch einen größeren Leserahmen aufweist, ist es sehr wahrscheinlich, dass es sich um eine nicht-translatierte RNA handelt. Qualitative RT-PCR-Experimente zeigten, dass die IGRica-RNA kostitutiv exprimiert wird. Spontane IS256 –Insertionsmutanten in der Promotorregion der IGRica-RNA wiesen phänotypisch eine deutlich verminderte Biofilmbildung auf. Daher ist zu vermuten, dass die IGRica-RNA in die Regulation dieses wichtigen Virulenzfaktors involviert ist. In der vorliegenden Arbeit konnte weiterhin gezeigt werden, dass S. epidermidis das in vielen Spezies konservierte Hfq-Protein exprimiert, welches ein Bindungspartner und Chaperon für zahlreiche regulatorische RNAs darstellt. gel-shift-Experimente mit rekombinantem Hfq-Protein aus S. epidermidis ergaben jedoch keine nachweisbare Wechselwirkung der IGRica-RNA mit diesem Faktor in vitro. Insgesamt hat die Studie gezeigt, dass S. epidermidis eine Spezies mit einer außerordentlich hohen Genomflexibilität ist, die sich hauptsächlich in einer bestimmten Genomregion abspielt und für die IS-Elemente von besonderer Bedeutung sind. Die Identifizierung von DNA aus anderen Staphylokokken-Arten in dieser Region zeigt, dass S. epidermidis zu horizontalem Gentransfer über Speziesgrenzen hinweg in der Lage ist. Dies, sowie die Daten zur neuen SCC-Kassette, unterstreichen die Bedeutung von S. epidermidis als Reservoir für die Entwicklung neuartiger Resistenz- und Virulenzdeterminanten, die gerade im Krankenhausmilieu auf Spezies mit höherem Virulenzpotential übertragen werden können und so einen wichtigen Faktor für die anhaltende Problematik nosokomialer Infektionen mit S. aureus darstellen. Die Entdeckung einer RNA mit möglicherweise regulatorischer Funktion ist der erste Faktor dieser Art, der – abgesehen von einigen phylogenetisch hoch konservierten RNAs – bisher in S. epidermidis nachgewiesen wurde. Die funktionale Analyse der IGRica-RNA und die Suche nach weiteren regulatorischen RNAs in Staphylokokken eröffnen ein Forschungsfeld, das zum besseren Verständnis der Lebensweise dieser bedeutenden Erreger beitragen kann. / Staphylococcus epidermidis is an important part of the human skin flora, but also the most frequent cause of nosocomial infections in immune-suppressed patients. Research in the last years focused on the factors and mechanisms leading to the establishment of the species as a pathogen. A typical feature of clinical isolates of S. epidermidis is the ability to form biofilms on artificial surfaces. Topic of this work was the IS-mediated genome flexibility and the comparison of genome structure from nosocomial and commensal S. epidermidis isolates. A 260 kb large spontaneous deletion in the chromosome of the biofilm-forming strain S. epidermidis 307 was sequenced and annotated. The deletion was caused by homologous recombination of two IS256 copies. It contained many putative virulence-associated genes besides the ica operon. However, the surprising result of this analysis was the identification of a new SCC element that limits the right border of the deletion. This is the first report of a SCC element containing a CcrC recombinase but lacking the mecA gene. DNA of S. haemolyticus is located near the recombinase gene ccrC. Further studies showed that the SCC element is truncated due to IS256/Tn4001 mediated deletion in the mutant. Genome comparison of ica-positive and ica-negative S. epidermidis strains using microarrays revealed that commensal and pathogenic strains differ only in very few factors. This was confirmed by in silico comparison of two complete genomes of S. epidermidis. Most of the virulence factors are harbored within a region around the oriC. The insertion sites of the SCCmec islands and the deleted fragment of S. epidermidis are also located in this part of the genome, that obviously represents a region of high genomic flexibility and in which foreign DNA can be integrated. Furthermore, this work showed that the ica operon delimits this variable segment of the genome. The exact border between ica-positive and ica-negative strains represents a Thr-tRNA within the 1.4 kb intergenic region downstream of the icaR regulatory gene. In the direct vicinity a transcript could be detected that is only present in ica-positive S. epidermidis. Based on bioinformatical analysis the polarity, length, and the corresponding promoter were experimentally determined. The RNA ranges 487 nt in length and overlaps partly with the Thr-tRNA on the opposite strand. Neither a ribosomal binding site nor an appropriate open reading frame can be found; so, it is likely that the RNA is not translated. Qualitative RT-PCR experiments showed constitutive expression of the IGRica-RNA. Spontaneous IS256 insertion mutants within the promoter region of the IGRica-RNA exhibited a clearly diminished biofilm formation. Therefore, it is tempting to speculate that the IGRica-RNA is involved in the regulation of this important virulence factor. The experiments show that S. epidermidis also expresses the highly conserved Hfq protein that functions as a binding partner and a chaperon for many regulatory RNAs. However, gel shift experiments with recombinant Hfq from S. epidermidis revealed no detectable interaction of the IGRica-RNA with this factor in vitro. In summary, the study shows that S. epidermidis is a species with extraordinary high genome flexibility in a certain region of the genome where IS elements have a special influence. Identification of DNA from other staphylococcal species demonstrates that S. epidermidis is capable of horizontal gene transfer beyond the species barrier. This and the newly discovered SCC element emphasize the importance of S. epidermidis as a reservoir for the development of new resistance and virulence determinants. These factors can be transferred easily within the hospital environment to species with a higher virulence potential. This represents an important factor for the long-standing problem of nosocomial infections with S. aureus. The discovered RNA with a putative regulatory function is the first factor of this kind that has been identified in S. epidermidis so far, besides some phylogenetically conserved RNAs. Functional analysis of the IGRica-RNA and investigation for other regulatory RNAs in staphylococci open a wide field of research that can contribute considerably to the understanding of these important pathogens.

Influência dos sistemas de Quorum Sensing AI-1/AI-2/AI-3 nos fatores de virulência de EPEC atípica de origem animal. A secreção de moléculas sinalizadoras de baixo peso molecular que se acumulam no meio extracelular até atingir um limite crítico de concentração para sua detecção, acarretando em sinalizações intracelulares e respostas efetoras, define o sistema de comunicação bacteriano chamado Quorum Sensing. Este sistema, que regula comportamentos coletivos mostrou-se um mecanismo disseminado em diversas espécies bacterianas. Diversos estudos descreveram a existência de pelo menos 3 sistemas relacionados ao Quorum Sensing em bactérias Gram-negativas, LuxIR/AI-1, LuxS/AI-2 e QseBC/AI-3/Epinefrina/Norepinefrina. Fatores de virulência como formação de biofilme, motilidade e adesão ao epitélio do hospedeiro devem ser controlados de maneira adequada para tirar o melhor proveito da situação em que a bactéria se encontra. Este trabalho teve como objetivo analisar a influência e a correlação dos genes luxS, qseC e sdiA, relacionados ao sistema de comunicação bacteriana Quorum Sensing, nos principais fatores de virulência de uma amostra de EPEC atípica de origem animal. Foram construídos mutantes pela metodologia baseada na recombinação homóloga mediada pelo sistema Lambda Red, que foram submetidos a ensaios fenotípicos. A sinalização por AI-2 e luxS desempenham papéis na motilidade, formação de biofilme e adesão a células epiteliais. QseC influencia a produção de biofilme pela regulação de componentes da matriz extracelular, e participa de processos de motilidade e adesão. O hormônio epinefrina contribui na alteração de processos de motilidade, formação de biofilme e desenvolvimento da lesão A/E. O gene sdiA também tem um papel importante na regulação de fatores de virulência, mesmo na ausência de AHL. Uma interação antagônica parece existir entre os genes qseC e luxS. A ausência de sistemas de Quorum Sensing promove a produção de um biofilme robusto na amostra AP155. / The secretion of low molecular weight signaling molecules that accumulate in the extracellular medium until reaching a critical concentration limit for its detection, leading to intracellular signaling and effector responses, defines the bacterial communication system called Quorum Sensing. This system regulates collective behaviors and has been proven to be a widespread mechanism in several bacterial species. Several studies have described the existence of at least 3 Quorum Sensing-related systems in Gram-negative bacteria, LuxIR/AI-1, LuxS/AI-2 and QseBC/AI-3/Epinephrine/Norepinephrine. Virulence factors such as biofilm formation, motility and adhesion to the host epithelium should be adequately regulated to make the most of the situation in which the bacterium is found. The aim of this work was to analyze the influence and correlation of luxS, qseC and sdiA genes, related to the bacterial communication system Quorum Sensing, on the main virulence factors of an atypical EPEC strain isolated from an animal. Mutants were obtained through homologous recombination mediated by the Lambda Red system, and then were submitted to phenotypic assays. AI-2 signaling and luxS play roles in motility, biofilm formation, and adhesion to epithelial cells. QseC influences the production of biofilm by the regulation of components of the extracellular matrix, and participates in the processes of motility and adhesion as well. The epinephrine hormone alters the processes of motility, biofilm formation and development of the A/E lesion. The sdiA gene also plays an important role in the regulation of virulence factors, even in the absence of AHL. An antagonistic interaction seems to exist between the qseC and luxS genes. The absence of Quorum Sensing systems promotes the production of a robust biofilm in the AP155 strain.

Os biofilmes, especialmente de bactérias patogênicas como Listeria monocytogenes, têm chamado a atenção nos laticínios pelos riscos que implicam ao consumidor, devido aos repetidos surtos causados por ingestão de lácteos contaminados. A legislação brasileira apenas especifica L. monocytogenes em queijos. Além disso, os biofilmes geram problemas econômicos para a indústria e diminuem a eficiência dos agentes sanificantes empregados. O objetivo do trabalho foi avaliar a formação de biofilmes de L. monocytogenes em diferentes tempos, temperaturas, superfícies e resíduos lácteos, bem como a presença de Lactobacillus plantarum como competidor, assim como analisar a eficiência do processo CIP (Clean In Place) de um pasteurizador de leite com quaternário de amônia. As populações bacterianas dos biofilmes foram avaliadas através da técnica do suabe e Microscopia Eletrônica de Varredura (MEV). O modelo experimental foi baseado na formação de biofilmes de L. monocytogenes em cupons de aço inoxidável 304, silicone e borracha. Os cupons permaneceram imersos por 10 horas, a 5ºC e 35ºC, em leite UHT integral, desnatado e creme de leite UHT, seguido da incubação em diferentes tempos (0, 18 e 114 horas) e temperaturas (5ºC e 35ºC) para a formação do biofilme. A competição foi realizada em aço inoxidável a 35ºC, nos tempos 0 e 18 horas. O processo CIP teve sua eficiência avaliada na remoção de biofilmes de L. monocytogenes na presença de leite integral e desnatado, simulando a limpeza e sanificação de um pasteurizador de leite. A formação de biofilmes pro L. monocytogenes foi influenciada pela baixa temperatura (5ºC), podendo ocorrer em áreas de refrigeração dos laticínios. O microrganismo é capaz de sobreviver e formar biofilmes por longos períodos nas superfícies de aço inoxidável, silicone e borracha na presença de resíduos de leite integral, desnatado e creme de leite. O crescimento em competição por Lactobacillus plantarum não inibiu a formação de biofilmes por L. monocytogenes e crescimento de células planctônicas. O processo CIP foi eficiente em todas as condições estudadas, eliminando as células de L. monocytogenes. / The biofilm, especially of pathogenic bacteria Listeria monocytogenes, have been getting the attention in the dairy products for the risks that implicate the consumer, due to the repeated outbreaks caused by ingestion of milky polluted. The Brazilian legislation just specifies L. monocytogenes in cheeses. Besides, the biofilm generate economical problems for the industry and they reduce the agents used sanitizers efficiency. The objective of the work was to evaluate the formation of biofilms of L. monocytogenes in different times, temperatures, surfaces and milky residues, as well as the presence of Lactobacillus plantarum as competitor, as well as analyzing the efficiency of the process CIP (Clean In Place) of a milk pasteurize whit quaternary of ammonium. The bacterial populations of the biofilms were appraised through the technique of the swab and Scanning Electron Microscopy (SEM).The experimental model was based on the formation of biofilms of L. monocytogenes in coupons of stainless steel 304, silicon and rubber. The coupons stayed immersed by 10 hours, to 5ºC and 35ºC, in skim milk UHT, skimmed and cream of milk UHT, following by the incubation in different times (0, 18 and 114 hours) and temperatures (5ºC and 35ºC) for the formation of the biofilm. The competition was accomplished in stainless steel to 35ºC, in the times 0 and 18 hours. The process CIP had his efficiency appraised in the removal of biofilms of L. monocytogenes in presence of skim milk and skimmed, simulating the cleaning and sanitation of a milk pasteurizer. The biofilmes formation for L. monocytogenes was influenced by the low temperature (5ºC), could happen in areas of cooling of the dairy products. The microorganism is capable of to survive and to form biofilmes for long periods in the surfaces of stainless steel, silicon and eraser in the presence of residues of integral milk, skimmed and cream of milk. The growth in competition for Lactobacillus plantarum didn\'t inhibit the biofilms formation for L. monocytogenes and growth of cells. The process CIP it was efficient in all of the studied conditions, eliminating the cells of L. monocytogenes.