The effects of habitat complexity and hydraulic conditions on the establishment of benthic stream macroalgae

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Use of probiotics to reduce faecal shedding of Shiga toxin-producing Escherichia coli in sheep

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

A Vale em Moçambique: uma etnografia das relações entre brasileiros e moçambicanos no cotidiano dos megaprojetos

Pós-graduação em Ciências Sociais - FCLAR

Distribution patterns of a marsh vegetation metacommunity in relation to habitat configuration

The identification of the factors behind the distribution of plant communities in patched habitats may prove useful towards better understanding how ecosystems function. Plant assemblages are especially important for wetland productivity and provide food and habitat to animals. The present study analyses the distribution of a metacommunity of helophytes and phreatophytes in a wetland complex in oder to identify the effects of habitat configuration on the colonisation process. Ponds with wide vegetated shores and a short distance to a big (> 10 ha) wetland, had higher species richness. The average percentage of surface covered by each species in all the wetlands correlated positively with the number of patches occupied by that species. Moreover, the community presented a nested pattern (species-poor patches were subsets of species-rich patches), and this pattern came about by selective extinction and colonisation processes. We also detected the presence of some idiosyncratic species that did not follow nestedness. Conservation managers should attempt to maximise the vegetated shore width and to reduce the degree of isolation to enhance species richness. Furthermore, a single large and poorly isolated reserve may have the highest level of biodiversity in emergent vegetation species in this wetland complex, however, the particular ecological requirements of idiosyncratic species should also be taken into account when managing this type of community.

Isolation and characterisation of aerobic endospore forming Bacilli from sugarcane rhizosphere for the selection of strains with agriculture potentialities

Eighteen aerobic endospore forming strains were isolated from sugarcane rhizosphere in N-free medium. A phenotypic description and analysis of the 5' end hypervariable region sequences of 16S rRNA revealed a high diversity of Bacillus and related genera. Isolates were identified, and four genera were obtained: seven strains belonged to Bacillus (Bacillaceae family), four belonged to Paenibacillus, six belonged to Brevibacillus and one strain was identified as Cohnella (Paenibacillaceae family). Four Brevibacillus strains showed in vitro inhibitory activity against plant pathogens fungi Curvularia and Fusarium. Seventy-four percent of the isolated bacteria grew on pectin as the only carbon source, showing polygalacturonase activity. Pectate lyase activity was detected for the first time in a Brevibacillus genus strain. All isolates showed endoglucanase activity. Calcium phosphate solubilisation was positive in 83.3% of the isolates, with higher values than those reported for Bacillus inorganic phosphate solubilising strains. High ethylene plant hormone secretion in the culture medium was detected in 22% of the bacteria. This is the first report of ethylene secretion in Paenibacillaceae isolates. Indole-3-acetic acid production was found in a Brevibacillus genus isolate. It was reported for the first time the presence of Cohnella genus strain on sugarcane rhizosphere bearing plant growth promoting traits. The sugarcane isolate Brevibacillus B65 was identified as a plant growth inoculant because it showed wider spectra of plant stimulation capabilities, including an antifungal effect, extracellular hydrolases secretion, inorganic phosphate solubilisation and plant hormone liberation. In this work, sugarcane was shown to be a suitable niche for finding aerobic endospore forming 'Bacilli' with agriculture biotechnological purposes.

Marine Seaweed Invasions : the Ecology of Introduced Fucus evanescens

Biological invasions are an important issue of global change and an increased understanding of invasion processes is of crucial importance for both conservation managers and international trade. In this thesis, I have studied the invasion of the brown seaweed Fucus evanescens, to investigate the fate and effect of a perennial, habitat-forming seaweed introduced to a coastal ecosystem. A long-term study of the spread of F. evanescens in Öresund (southern Sweden) showed that the species was able to expand its range quickly during the first 20 years after the introduction, but that the expansion has been slow during the subsequent 30 years. Both in Öresund and in Skagerrak, the species is largely restricted to sites where native fucoids are scarce. Laboratory experiments showed that the restricted spread of F. evanescens cannot be explained by the investigated abiotic factors (wave exposure and salinity), although salinity restricts the species from spreading into the Baltic Sea. Neither did I find evidence for that herbivores or epibiota provide biotic resistance to the invader. On the contrary, F. evanescens was less consumed by native herbivores, both compared to the native fucoids and to F. evanescens populations in its native range, and little overgrown by epiphytes. Instead, the restricted spread may be due to competition from native seaweeds, probably by pre-occupation of space, and the establishment has probably been facilitated by disturbance. The studies provided little support for a general enemy release in introduced seaweeds. The low herbivore consumption of F. evanescens in Sweden could not be explained by release from specialist herbivores. Instead, high levels of chemical anti-herbivore defence metabolites (phlorotannins) could explain the pattern of herbivore preference for different fucoids. Likewise, the low epibiotic colonisation of F. evanescens plants could be explained by high resistance to epibiotic survival. This shows that colonisation of invading seaweeds by native herbivores and epibionts depends on properties of the invading species. The large differences between fucoid species in their quality as food and habitat for epibionts and herbivores imply that invasions of such habitat-forming species may have a considerable effect on a number of other species in shallow coastal areas. However, since F. evanescens did not exclude other fucoids in its new range, its effect on the recipient biota is probably small.

Traces de terre, traces d'encre... La rappresentazione dello spazio nella letteratura caraibica. (Francofona e Anglofona)

This study concerns the representation of space in Caribbean literature, both francophone and Anglophone and, in particular, but not only, in the martinican literature, in the works of the authors born in the island. The analysis focus on the second half of the last century, a period in which the martinican production of novels and romances increased considerably, and where the representation and the rule of space had a relevant place. So, the thesis explores the literary modalities of this representation. The work is constituted of 5 chapters and the critical and methodological approaches are both of an analytical and comparative type. The first chapter “The caribbean space: geography, history and society” presents the geographic context, through an analysis of the historical and political major events occurred in the Caribbean archipelago, in particular of the French Antilles, from the first colonization until the départementalisation. The first paragraph “The colonized space: historical-political excursus” the explores the history of the European colonization that marked forever the theatre of the relationship between Europe, Africa and the New World. This social situation take a long and complex process of “Re-appropriation and renegotiation of the space”, (second paragraph) always the space of the Other, that interest both the Antillean society and the writers’ universe. So, a series of questions take place in the third paragraph “Landscape and identity”: what is the function of space in the process of identity construction? What are the literary forms and representations of space in the Caribbean context? Could the writing be a tool of cultural identity definition, both individual and collective? The second chapter “The literary representation of the Antillean space” is a methodological analysis of the notions of literary space and descriptive gender. The first paragraph “The literary space of and in the novel” is an excursus of the theory of such critics like Blanchot, Bachelard, Genette and Greimas, and in particular the recent innovation of the 20th century; the second one “Space of the Antilles, space of the writing” is an attempt to apply this theory to the Antillean literary space. Finally the last paragraph “Signs on the page: the symbolic places of the antillean novel landscape” presents an inventory of the most recurrent antillean places (mornes, ravines, traces, cachots, En-ville,…), symbols of the history and the past, described in literary works, but according to new modalities of representation. The third chapter, the core of the thesis, “Re-drawing the map of the French Antilles” focused the study of space representation on francophone literature, in particular on a selected works of four martinican writers, like Roland Brival, Édouard Glissant, Patrick Chamoiseau and Raphaël Confiant. Through this section, a spatial evolution comes out step by step, from the first to the second paragraph, whose titles are linked together “The novel space evolution: from the forest of the morne… to the jungle of the ville”. The virgin and uncontaminated space of the Antilles, prior to the colonisation, where the Indios lived in harmony with the nature, find a representation in both works of Brival (Le sang du roucou, Le dernier des Aloukous) and of Glissant (Le Quatrième siècle, Ormerod). The arrival of the European colonizer brings a violent and sudden metamorphosis of the originary space and landscape, together with the traditions and culture of the Caraïbes population. These radical changes are visible in the works of Chamoiseau (Chronique des sept misères, Texaco, L’esclave vieil homme et le molosse, Livret des villes du deuxième monde, Un dimanche au cachot) and Confiant (Le Nègre et l’Amiral, Eau de Café, Ravines du devant-jour, Nègre marron) that explore the urban space of the creole En-ville. The fourth chapter represents the “2nd step: the Anglophone novel space” in the exploration of literary representation of space, through an analytical study of the works of three Anglophone writers, the 19th century Lafcadio Hearn (A Midsummer Trip To the West Indies, Two Years in the French West Indies, Youma) and the contemporary authors Derek Walcott (Omeros, Map of the New World, What the Twilight says) and Edward Kamau Brathwaite (The Arrivants: A New World Trilogy). The Anglophone voice of the Caribbean archipelago brings a very interesting contribution to the critical idea of a spatial evolution in the literary representation of space, started with francophone production: “The spatial evolution goes on: from the Martiniques Sketches of Hearn… to the modern bards of Caribbean archipelago” is the new linked title of the two paragraphs. The fifth chapter “Extended look, space shared: the Caribbean archipelago” is a comparative analysis of the results achieved in the prior sections, through a dialogue between all the texts in the first paragraph “Francophone and Anglophone representation of space compared: differences and analogies”. The last paragraph instead is an attempt of re-negotiate the conventional notions of space and place, from a geographical and physical meaning, to the new concept of “commonplace”, not synonym of prejudice, but “common place” of sharing and dialogue. The question sets in the last paragraph “The “commonplaces” of the physical and mental map of the Caribbean archipelago: toward a non-place?” contains the critical idea of the entire thesis.

Forstentomologische Untersuchungen an Eichen unterschiedlicher Vitalität des Pfälzerwaldes

Seit Beginn der Waldzustandserhebungen im Jahr 1984 verschlechterte sich der Zustand der Eiche sowohl auf Bundesebene als auch im Land Rheinland-Pfalz deutlich. 1998 konnten nur noch 5 % der rheinland-pfälzischen Eichen in die Kategorie "ohne Schadensmerkmale" eingestuft werden. Vor diesem Hintergrund ergab sich die Notwendigkeit, die biotischen Stress- und Schadfaktoren näher zu untersuchen. Im Rahmen der vorliegenden Arbeit lag der Fokus auf den holzbewohnenden Käfern von Traubeneichen (Quercus petraea) aus dem Pfälzerwald. Zu diesem Zweck wurden für die erste Probenserie Untersuchungsbäume aus den Vitalitätsstufen 'vital', 'geschädigt', 'ein Jahr tot' und 'zwei Jahre tot' ausgewählt und in die drei Straten Stammfuß, Kronenansatz und Derbholz unterteilt. In der zweiten Probenserie kamen keine 'vitalen' Stämme mehr zum Einsatz. Die einzelnen Proben wurden in Fasseklektoren überführt, in denen die xylobionten Käfer ihre Entwicklung beenden und schlüpfen konnten. Die erste Probenserie wurde im Herbst 1998 entnommen, die zweite Serie im darauffolgenden Herbst. Zusätzlich zu diesen Laboruntersuchungen wurden Freilanduntersuchungen mit Stammeklektoren an vier stehenden Eichen im Wald durchgeführt. Die gefangenen Tiere wurden nach Ordnungen sortiert und gezählt, die Käfer nach Möglichkeit bis zur Art bestimmt. Die Ergebnisse der ersten und zweiten Serie wurden in Abundanzen (Ind./m² Rindenoberfläche) umgerechnet, um einen Vergleich der Proben untereinander möglich zu machen. Insgesamt wurden aus den Fasseklektoren beider Serien Käfer mit einer Abundanz von 36.990 Ind./m² ausgewertet. In den Fallen der Stammeklektoren wurden insgesamt 1.487 Käfer gefunden. Den weitaus größten Teil der Käfer der Fasseklektoren stellen die Borkenkäfer (Scolytidae). Dieses Ergebnis schlägt sich auch in der Betrachtung der Dominanz der einzelnen Arten nieder. In nahezu allen Fällen gehörten die Hauptarten in die Familie Scolytidae. Der mit den Absterbeerscheinungen der Eichen in Verbindung gebrachte Prachtkäfer Agrilus biguttatus (Buprestidae) trat in deutlich geringeren Abundanzen auf. Aufgrund seiner Fraßtätigkeit (Ringelung der Larven im Kambialbereich der Bäume) gehört er aber zu den potentiell stark schädigenden Käfern. Neben A. biguttatus sind auch A. sulcicollis und die gefundenen Borkenkäfer in der Lage, vorgeschädigte und geschwächte Eichen zu befallen und noch weiter zu schwächen. Aus waldhygienischen Gründen sollten deshalb regelmäßige Kontrollen durchgeführt werden. Bei erkennbarem Befall sollten die betroffenen Bäume gefällt und aus dem Bestand entfernt werden. Langfristig können die Vermeidung von nicht-standortgerechtem Eichenanbau und das Anlegen von naturnahen Mischbeständen zu den waldbaulichen Maßnahmen gerechnet werden, die eine Reduktion des Infektionsrisikos zur Folge haben. Die 'ein Jahr toten' Bäume wiesen die mit Abstand höchste Abundanz an Lebendholzbesiedlern auf. Bäume, die bereits ein Jahr länger tot im Bestand standen, wurden von deutlich weniger Lebendholzbesiedlern befallen, d.h. von 'zwei Jahre toten' Bäumen ging ein potentiell geringerer Infektionsdruck aus als von 'ein Jahr toten' Eichen. Im Laufe des Verrottungsprozesses verringert sich diese Gefahr noch weiter, da die Holzfeuchte weiter abnimmt und die Lebendholzbesiedler keine Nahrungsgrundlage mehr vorfinden. Besonders die Gefahr des Neubefalls durch Agrilus von mindestens zweijährig toten Bäumen besteht kaum, weil zumindest die Larven der ersten Stadien des Prachtkäfers auf lebendes Gewebe angewiesen sind.

Spatial and temporal variability and ecological processes in the epibenthic assemblages of the northern Adriatic Sea

Several coralligenous reefs occur in the soft bottoms of the northern Adriatic continental shelf. Mediterranean coralligenous habitats are characterised by high species diversity and are intrinsically valuable for their biological diversity and for the ecological processes they support. The conservation and management of these habitats require quantifying spatial and temporal variability of their benthic assemblages. This PhD thesis aims to give a relevant contribution to the knowledge of the structure and dynamics of the epibenthic assemblages on the coralligenous subtidal reefs occurring in the northern Adriatic Sea. The epibenthic assemblages showed a spatial variation larger compared to temporal changes, with a temporal persistence of reef-forming organisms. Assemblages spatial heterogeneity has been related to morphological features and geographical location of the reefs, together with variation in the hydrological conditions. Manipulative experiments help to understand the ecological processes structuring the benthic assemblages and maintaining their diversity. In this regards a short and long term experiment on colonization patterns of artificial substrata over a 3-year period has been performed in three reefs, corresponding to the three main types of assemblages detected in the previous study. The first colonisers, largely depending by the different larval supply, played a key role in determining the heterogeneity of the assemblages in the early stage of colonisation. Lateral invasion, from the surrounding assemblages, was the driver in structuring the mature assemblages. These complex colonisation dynamics explained the high heterogeneity of the assemblages dwelling on the northern Adriatic biogenic reefs. The buildup of these coralligenous reefs mainly depends by the bioconstruction-erosion processes that has been analysed through a field experiment. Bioconstruction, largely due to serpulid polychaetes, prevailed on erosion processes and occurred at similar rates in all sites. Similarly, the total energy contents in the benthic communities do not differ among sites, despite being provided by different species. Therefore, we can hypothesise that both bioconstruction processes and energetic storage may be limited by the availability of resources. Finally the major contribution of the zoobenthos compared to the phytobenthos to the total energetic content of assemblages suggests that the energy flow in these benthic habitats is primarily supported by planktonic food web trough the filter feeding invertebrates.

Diversity of cwp loci in clinical isolates of Clostridium difficile

An increased incidence of Clostridium difficile infection (CDI) is associated with the emergence of epidemic strains characterised by high genetic diversity. Among the factors that may have a role in CDI there is a family of 29 paralogs, the cell wall proteins (CWPs), which compose the outer layer of the bacterial cell and are likely to be involved in colonisation. Previous studies have shown that 12 of the29 cwp genes are clustered in the same region, named after slpA (cwp1) the slpA locus, whereas the remaining 17 paralogs are distributed throughout the genome. The variability of 14 of these 17 cwp paralogs was determined in 40 C. difficile clinical isolates belonging to six of the currently prevailing PCR ribotypes. Based on sequence conservation, these cwp genes were divided into two groups, one comprising cwp loci having highly conserved sequences in all isolates, and the other 5 loci showing low genetic conservation between isolates of the same PCR ribotype as well as between different PCR ribotypes. Three conserved CWPs, Cwp16, Cwp18 and Cwp25, and two variable ones, Cwp26 and Cwp27, were characterised further by Western blot analysis of total cell extracts or S-layer preparations of the C. difficile clinical isolates. Expression of genetically invariable CWPs is well conserved in all isolates, while genetically variable CWPs are not always expressed at comparable levels even in strains containing identical sequences but belonging to different PCR ribotypes. In addition, we chose to analyse the immune response obtained in a protection experiment, carried out in hamsters, using a protein microarray approach to study the in vivo expression and the immunoreactivity of several surface proteins, including 18 Cwps.

Le désert et la littérature de voyage européenne du XIXe siècle

L'Europe commence à découvrir le désert à la fin du XVIIIe siècle. Ce milieu présente des aspects multiples aux premiers explorateurs, qui le décrivent comme un lieu vivant et varié. La géopolitique constitue le premier approche d'analyse : le désert peut être rendu plus viable si mieux administré, donc libre de la domination ottomane. Au cours du siècle, le tourisme se développe, aussi en raison de la colonisation ; l'expérience du désert devient commune, et les voyageurs partent en quête d'une expérience spirituelle aussi bien que d'une aventure. Le désert devient un écran de projection pour la rêverie et les souvenirs des Européens (la Bible et les topos traditionnels demeurent actifs dans l'imaginaire occidental) ; seules certaines caractéristiques de ce milieu sont dès lors appréciées par les voyageurs. Ensuite, avec l'âge du Réalisme, devient objet d'appréciation de la part des peintres. Grâce à la médiation de l'art, la littérature commence à regarder au désert d'un point de vue esthétique, et elle lui reconnaît un charme de la nudité et du dépouillement. La mort et le minéral caractérisent ce milieu vers la fin du siècle ; le désert se vide, et devient le "désert de sable" que nous tous connaissons aujourd'hui.

Quantitative PCR to diagnose Pneumocystis pneumonia in immunocompromised non-HIV patients

The utility of quantitative Pneumocystis jirovecii PCR in clinical routine for diagnosing Pneumocystis pneumonia (PCP) in immunocompromised non-HIV patients is unknown. We analysed bronchoalveolar lavage fluid with real-time quantitative P. jirovecii PCR in 71 cases with definitive PCP defined by positive immunofluorescence (IF) tests and in 171 randomly selected patients with acute lung disease. In those patients, possible PCP cases were identified by using a novel standardised PCP probability algorithm and chart review. PCR performance was compared with IF testing, clinical judgment and the PCP probability algorithm. Quantitative P. jirovecii PCR values >1,450 pathogens·mL(-1) had a positive predictive value of 98.0% (95% CI 89.6-100.0%) for diagnosing definitive PCP. PCR values of between 1 and 1,450 pathogens·mL(-1) were associated with both colonisation and infection; thus, a cut-off between the two conditions could not be identified and diagnosis of PCP in this setting relied on IF and clinical assessment. Clinical PCP could be ruled out in 99.3% of 153 patients with negative PCR results. Quantitative PCR is useful for diagnosing PCP and is complementary to IF. PCR values of >1,450 pathogens·mL(-1) allow reliable diagnosis, whereas negative PCR results virtually exclude PCP. Intermediate values require additional clinical assessment and IF testing. On the basis of our data and for economic and logistical limitations, we propose a clinical algorithm in which IF remains the preferred first test in most cases, followed by PCR in those patients with a negative IF and strong clinical suspicion for PCP.

La valeur de la femme dans la société traditionnelle Bətí-faŋ

Le Bətí-faŋ est une langue parlée dans la sous-région Afrique centrale, notamment au Cameroun, en Guinée Équatorial, au Gabon et à Sao Tomé et Principe. Le Bətí-faŋ est un peuple fier, avec un passé culturel à la fois important et mystérieux. Certains de ses aspects culturels aujourd'hui sont perdus, dû, en grande partie, à l'action de la religion occidentale et de la colonisation. De nombreuses pratiques alors usitées se voient interdites, à cause des idées préconçues et des interprétations subjectives qui sont accordées à ses pratiques. De même, la valeur et la place que l'Homme Bətí accorde à la femme dans la société s’en trouve pervertie, ceci pour servir les desseins de l’oppresseur. Cet aspect en particulier de la société traditionnelle Bətí-faŋ a souvent porté à polémique. Ces préjugés et interprétations, sont pour la plupart, fréquemment avancées sans que la philosophie de cette société, le contexte, l'époque, et le symbolisme des dits effets ou individus ne soient pris en compte. Cet article va s’arrêter sur la femme Bətí en particulier. Nous essaierons de faire ressortir le symbolisme qui entoure celle-ci. Nous insisterons sur la valeur, ainsi que sur la place et l'importance accordées à celle-ci dans la société traditionnelle des seigneurs de la forêt. Pour se faire, nous porterons notre attention sur les formes de mariages qui ont marquées cette époque. Nous nous étendrons aussi sur l’importance accordée au nombre, ainsi que son impact sur la vie culturelle de l'« Atí ». Nous brosserons enfin, un petit aperçu des rites spécifiques aux femmes qui dénotent de leur impact sur le quotidien des seigneurs de la forêt.

Représentation et Migration dans The Pickup de Nadine Gordimer

How does the South African writer Nadine Gordimer handle the post- apartheid period in her works? That is the guiding question of this research work limited to Gordimer’s novel entitled The Pickup. The analysis of the aesthetic structures of this novel reveals it as essentially based on migratory phenomena. From the way Gordimer tackles the question of migration, it appears that the real accused is representation which has manifested itself through colonisation. Those are the hypothesis that the present work tries to verify using the post- colonial theory.

Biofilm-related infections of cerebrospinal fluid shunts

Cerebrospinal fluid (CSF) shunts carry a high risk of complications. Infections represent a major cause of shunt failure. Diagnosis and therapy of such infections are complicated by the formation of bacterial biofilms attached to shunt surfaces. This study correlated the pathophysiology and clinical course of biofilm infections with microscopical findings on the respective shunts. Surface irregularities, an important risk-factor for shunt colonisation with bacteria, were found to increase over time because of silicone degradation. Scanning electron-microscopy (SEM) documented residual biological material (dead biofilm), which can further promote extant bacterial adhesion, on newly manufactured shunts. Clinical course and SEM both documented bacterial dissemination against CSF flow and the monodirectional valve. In all cases, biofilms grew on both the inner and outer surfaces of the shunts. Microscopy and conventional culture detected all bacterial shunt infections. Analyses of 16S rDNA sequences using conserved primers identified bacteria in only one of three cases, probably because of previous formalin fixation of the samples.