Computer intensive methods for controlling bias in a generalized species diversity index

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Temporal and spatial dynamics of benthic invertebrate communities in an alpine glacier-fed alluvial system

Summary The present thesis work focused on the ecology of benthic invertebrates in the proglacial floodplain of the Rhone in the Swiss Alps. The main glacial Rhone River and a smaller glacial tributary, the Mutt River, joined and entered a braiding multi-thread area. A first part concentrated on the disruption of the longitudinal patterns of environmental conditions and benthic invertebrate fauna in the Rhone by its tributary the Mutt. The Mutt had less harsh environmental conditions, higher taxonomic richness and more abundant zoobenthos compared to the Rhone upstream of the confluence. Although the habitat conditions in the main stream were little modified by the tributary, the fauna was richer and more diverse below the confluence. Colonisation from the Mutt induced the occurrence of faunal elements uncommon of glacial streams in the upper Rhone, where water temperature remains below 4°C. Although the glacial Rhone dominated the system with regard to hydrology and certain environmental conditions, the Mutt tributary has to be seen as the faunal driver of the system. The second part of the study concerned the spatio-temporal differentiation of the habitats and the benthic communities along and across the flood plain. No longitudinal differentiation was found. The spatial transversal differentiation of three habitat types with different environmental characteristics was successfully reflected in the spatial variability of benthic assemblages. This typology separated marginal sites of the flood plain, left bank sites under the influence of the Mutt, and the right bank sites under the influence of the Rh6ne. Faunistic spatial differences were emphasized by the quantitative structure of the fauna, richness, abundances and Simpson index of diversity. Seasonal environmental variability was positively related with Simpson index of diversity and the total richness per site. Low flow conditions were the most favourable season for the fauna and November was characterized by low spatial environmental heterogeneity, high spatial heterogeneity of faunal assemblage, maximum taxonomic richness, a particular taxonomic composition, highest abundances, as well as the highest primary food resources. The third part studied the egg development of three species of Ephemeroptera in the laboratory at 1.5 to 7°C and the ecological implications in the field. Species revealed very contrasting development strategies. Baetis alpinus has a synchronous and efficient egg development, which is faster in warmer habitats, enabling it to exploit short periods of favourable conditions in the floodplain. Ecdyonurus picteti has a very long development time slightly decreasing in warmer conditions. The high degree of individual variation suggests a genetic determination of the degree-days demand. Combined with the glacial local conditions, this strategy leads to an extreme delay of hatching and allows it to develop in very unpredictable habitats. Rhithrogena nivata is the second cold adapted species in Ephemeroptera. The incubation duration is long and success largely depends on the timing of hatching and the discharge conditions. This species is able to exploit extremely unstable and cold habitats where other species are limited by low water temperatures. The fourth part dealt with larval development in different habitats of the floodplain. Addition of data on egg development allowed the description of the life histories of the species from oviposition until emergence. Rhithrogena nivata and loyolaea generally have a two-year development, with the first winter passed as eggs and the second one as larvae. Development of Ecdyonurus picteti is difficult to document but appears to be efficient in a harsh and unpredictable environment. Baetis alpinus was studied separately in four habitats of the floodplain system with contrasting thermal regimes. Differences in success and duration of larval development and in growth rates are emphasised. Subvention mechanisms between habitats by migration of young or grown larvae were demonstrated. Development success and persistence of the populations in the system were thus increased. Emergence was synchronised to the detriment of the optimisation of the adult's size and fecundity. These very different development strategies induce a spatial and temporal distribution in the use of food resources and ecological niches. The last part of this work aimed at the synthesis of the characteristics and the ecological features of three distinct compartments of the system that are the upper Rhone, the Mutt and the floodplain. Their particular role as well as their inter-dependence concerning the structure and the dynamics of the benthic communities was emphasised. Résumé Ce travail de thèse est consacré à l'écologie des invertébrés benthiques dans la zone alluviale proglaciaire du Rhône dans les Alpes suisses. Le Rhône, torrent glaciaire principal, reçoit les eaux de la Mutt, affluent glaciaire secondaire, puis pénètre dans une zone de tressage formée de plusieurs bras. La première partie de l'étude se concentre sur la disruption par la Mutt des processus longitudinaux, tant environnementaux que faunistiques, existants dans le Rhône. Les conditions environnementales régnant dans la Mutt sont moins rudes, la richesse taxonomique plus élevée et le zoobenthos plus abondant que dans le Rhône en amont de la confluence. Bien que les conditions environnementales dans le torrent principal soient peu modifiées par l'affluent, la faune s'avère être plus riche et plus diversifiée en aval de la confluence. La colonisation depuis la Mutt permet l'occurrence de taxons inhabituels dans le Rhône en amont de la confluence, où la température de l'eau se maintient en dessous de 4°C. Bien que le Rhône, torrent glaciaire principal, domine le système du point de vu de l'hydrologie et de certains paramètres environnementaux, l'affluent Mutt doit être considéré comme l'élément structurant la faune dans le système. La deuxième partie concerne la différentiation spatiale et temporelle des habitats et des communautés benthiques à travers la plaine alluviale. Aucune différentiation longitudinale n'a été mise en évidence. La différentiation transversale de trois types d'habitats sur la base des caractéristiques environnementales a été confirmée par la variabilité spatiale de la faune. Cette typologie sépare les sites marginaux de la plaine alluviale, ceux sous l'influence de la Mutt (en rive gauche) et ceux sous l'influence du Rhône amont (en rive droite). Les différences spatiales de la faune sont mises en évidence par la structure quantitative de la faune, la richesse, les abondances et l'indice de diversité de Simpson. La variabilité saisonnière du milieu est positivement liée avec l'indice de diversité de Simpson et la richesse totale par site. L'étiage correspond à la période la plus favorable pour la faune et novembre réunit des conditions de faible hétérogénéité spatiale du milieu, de forte hétérogénéité spatiale de la faune, une richesse taxonomique maximale, une composition faunistique particulière, les abondances ainsi que les ressources primaires les plus élevées. La troisième partie est consacrée à l'étude du développement des oeufs de trois espèces d'Ephémères au laboratoire à des températures de 1.5 à 7°C, ainsi qu'aux implications écologiques sur le terrain. Ces espèces présentent des stratégies de développement très contrastées. Baetis alpinus a un développement synchrone et efficace, plus rapide en milieu plus chaud et lui permettant d'exploiter les courtes périodes de conditions favorables. Ecdyonurus picteti présente une durée de développement très longue, diminuant légèrement dans des conditions plus chaudes. L'importante variation interindividuelle suggère un déterminisme génétique de la durée de développement. Cette stratégie, associée aux conditions locales, conduit à un décalage extrême des éclosions et permet à l'espèce de se développer dans des habitats imprévisibles. Rhithrogena nivata est la seconde espèce d'Ephémères présentant une adaptation au froid. L'incubation des oeufs est longue et son succès dépend de la période des éclosions et des conditions hydrologiques. Cette espèce est capable d'exploiter des habitats extrêmement instables et froids, où la température est facteur limitant pour d'autres espèces. La quatrième partie traite du développement larvaire dans différents habitats de la plaine alluviale. Le développement complet est décrit pour les espèces étudiées de la ponte jusqu'à l'émergence. Rhithrogena nivata et loyolaea atteignent généralement le stade adulte en deux ans, le premier hiver étant passé sous forme d'oeuf et le second sous forme de larve. Le développement de Ecdyonurus picteti est difficile à documenter, mais s'avère cependant efficace dans un environnement rude et imprévisible. Baetis alpinus a été étudié séparément dans quatre habitats de la plaine ayant des régimes thermiques contrastés. La réussite et la durée du développement embryonnaire ainsi que les taux de croissance y sont variables. Des mécanismes de subvention entre habitats sont possibles par la migration de larves juvéniles ou plus développées, augmentant ainsi la réussite du développement et le maintien des populations dans le système. L'émergence devient synchrone, au détriment de l'optimisation de la taille et de la fécondité des adultes. Ces stratégies très différentes induisent une distribution spatiale et temporelle dans l'usage des ressources et des niches écologiques. La dernière partie synthétise les caractéristiques écologiques des trois compartiments du système que sont le Rhône amont, la Mutt et la zone alluviale. Leurs rôles particuliers et leurs interdépendances du point de vue de la structure et de la dynamique des communautés benthiques sont mis en avant.

Estimation of phenotypic diversity in field populations of Magnaporthe grisea from two upland rice cultivars

The phenotypic diversity of Magnaporthe grisea was evaluated based on leaf samples with blast lesions collected from eight commercial fields of the upland rice cultivars 'BRS Primavera' and 'BRS Bonança', during the growing seasons of 2001/2002 and 2002/2003, in Goias State. The number of M. grisea isolates from each field utilized for virulence testing varied from 28 to 47. Three different indices were used based on reaction type in the eight standard international differentials and eight Brazilian differentials. The M. grisea subpopulations of ´Primavera' and 'Bonança', as measured by Simpson, Shannon and Gleason indices, showed similar phenotypic diversities. The Simpson index was more sensitive relation than those of Shannon and Gleason for pathotype number and standard deviation utilizing Brazilian differentials. However, the Gleason index was sensitive to standard deviation for international differentials. The sample size did not significantly influence the diversity index. The two sets of differential cultivars used in this study distinguished phenotypic diversity in different ways in all of the eight subpopulations analyzed. The phenotypic diversity determined based on eight differential Brazilian cultivars was lower in commercial rice fields of 'Primavera' than in the fields of 'Bonança,' independent of the diversity index utilized, year and location. Considering the Brazilian differentials, the four subpopulations of 'BRS Primavera' did not show evenness in distribution and only one pathotype dominated in the populations. The even distribution of pathotype was observed in three subpopulations of 'BRS Bonança'. The pathotype diversity of M. grisea was determined with more precision using Brazilian differentials and Simpson index.

PHYTOSOCIOLOGY AND STRUCTURAL CHARACTERIZATION OF WOODY REGENERATION FROM A REFORESTATION WITH NATIVE SPECIES IN SOUTHEASTERN BRAZIL

ABSTRACT In Brazil, specifically in São Paulo State, there are guidelines based on the high diversity of tropical forests that instructs the restoration projects in the state (current SMA 32/2014). The main goal of this study was verify the importance and effectiveness of the high diversity of arboreal species originated from a reforestation, and its influence in a woody regenerating composition. We developed a phytosociologic study in a woody regenerating stratum of a nine year old reforestation at a Private Reserve of Natural Heritage (RPPN), in Mogi-Guaçu, São Paulo State. All specimens with height > 30 cm and Diameter at Breast Height (DBH) < 5 cm were evaluated. The woody regenerating diversity was smaller than the overstory diversity and the species composition was similar to the overstory. The Simpson index (1-D) was 0.85, Shannon index (H') was 2.46 and the Pielou index (J') was 0.60. The zoochoric dispersion syndrome was major among the species. Our results suggest that the use of high diversity of native seedlings in a reforestation leads to high diversity of species in woody regeneration stratum, after one decade of planting.

Biodiversity of Collembola in urban soils and the use of Folsomia candida to assess soil 'quality'

The effects of metal contamination on natural populations of Collembola in soils from five sites in the Wolverhampton area ( West Midlands, England) were examined. Analysis revealed that metal concentrations were elevated above background levels at all sites. One location in particular (Ladymoor, a former smelting site) was highly contaminated with Cd, Cu, Pb and Zn at more than 20 times background levels. Biodiversity indices ( Shannon - Weiner, Simpson index, Margalef index, alpha index, species richness, Shaneven ( evenness) and Berger - Parker dominance) were calculated. Of these indices, estimates of species richness and evenness were most effective at highlighting the differences between the Collembola communities. Indeed, the highest number of species were found at the most contaminated site, although the Collembola population also had a comparatively low evenness value, with just two species dominating. The number of individuals per species were allocated into geometric classes and plotted against the cumulative number of species as a percentage. At Ladymoor, there were more geometric classes, and the slope of the line was shallower than at the other four sites. This characteristic is a feature of polluted sites, where a few species are dominant and most species are rare. The Ladymoor soil also had a dominance of Isotomurus palustris, and was the only site in which Ceratophysella denticulata was found. Previous studies have shown that these two species are often found in sites subject to high metal contamination. Survival and reproduction of the "standard'' test springtail, Folsomia candida (Willem), were determined in a 4 week exposure test to soils from all five sites. Mortality was significantly increased in adults and reproduction significantly lower in the Ladymoor soil in comparison to the other four sites. This study has shown that severe metal contamination can be related to the population structure of Collembola in the field, and performance of F. candida ( in soils from such sites) in the laboratory.

The population genetic structure of clonal organisms generated by exponentially bounded and fat-tailed dispersal

Long distance dispersal (LDD) plays an important role in many population processes like colonization, range expansion, and epidemics. LDD of small particles like fungal spores is often a result of turbulent wind dispersal and is best described by functions with power-law behavior in the tails ("fat tailed"). The influence of fat-tailed LDD on population genetic structure is reported in this article. In computer simulations, the population structure generated by power-law dispersal with exponents in the range of -2 to -1, in distinct contrast to that generated by exponential dispersal, has a fractal structure. As the power-law exponent becomes smaller, the distribution of individual genotypes becomes more self-similar at different scales. Common statistics like G(ST) are not well suited to summarizing differences between the population genetic structures. Instead, fractal and self-similarity statistics demonstrated differences in structure arising from fat-tailed and exponential dispersal. When dispersal is fat tailed, a log-log plot of the Simpson index against distance between subpopulations has an approximately constant gradient over a large range of spatial scales. The fractal dimension D-2 is linearly inversely related to the power-law exponent, with a slope of similar to -2. In a large simulation arena, fat-tailed LDD allows colonization of the entire space by all genotypes whereas exponentially bounded dispersal eventually confines all descendants of a single clonal lineage to a relatively small area.

Biodiversity of Collembola in urban soils and the use of Folsomia candida to assess soil 'quality'

The effects of metal contamination on natural populations of Collembola in soils from five sites in the Wolverhampton area ( West Midlands, England) were examined. Analysis revealed that metal concentrations were elevated above background levels at all sites. One location in particular (Ladymoor, a former smelting site) was highly contaminated with Cd, Cu, Pb and Zn at more than 20 times background levels. Biodiversity indices ( Shannon - Weiner, Simpson index, Margalef index, alpha index, species richness, Shaneven ( evenness) and Berger - Parker dominance) were calculated. Of these indices, estimates of species richness and evenness were most effective at highlighting the differences between the Collembola communities. Indeed, the highest number of species were found at the most contaminated site, although the Collembola population also had a comparatively low evenness value, with just two species dominating. The number of individuals per species were allocated into geometric classes and plotted against the cumulative number of species as a percentage. At Ladymoor, there were more geometric classes, and the slope of the line was shallower than at the other four sites. This characteristic is a feature of polluted sites, where a few species are dominant and most species are rare. The Ladymoor soil also had a dominance of Isotomurus palustris, and was the only site in which Ceratophysella denticulata was found. Previous studies have shown that these two species are often found in sites subject to high metal contamination. Survival and reproduction of the "standard'' test springtail, Folsomia candida (Willem), were determined in a 4 week exposure test to soils from all five sites. Mortality was significantly increased in adults and reproduction significantly lower in the Ladymoor soil in comparison to the other four sites. This study has shown that severe metal contamination can be related to the population structure of Collembola in the field, and performance of F. candida ( in soils from such sites) in the laboratory.

Estrutura trófica da comunidade de peixes de riachos da bacia do rio Itanhaém, litoral sul do estado de São Paulo, Brasil

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Estudo da fauna de Euglossini (Hymenoptera, Apidae) em paisagem fragmentada na Serra da Forquilha, Jacutinga, região sul de Minas Gerais: diversidade de espécies e uso de habitats

Pós-graduação em Ciências Biológicas (Zoologia) - IBRC

Impacto da dinâmica da demanda dos frutos de açaí nas relações socioeconômicas e composição florística no estuário amazõnico

Nos últimas décadas a demanda pelo açaí no estado do Pará cresceu gradualmente, já que a produção e mercado da fruta de açaí são a base da economia de mais de 20 municípios paraenses. A prática do extrativismo do açaizeiro é praticada pelos homens, mulheres e crianças, voltada para autoconsumo e para a comercialização. Devido a este fato, a dinâmica do extrativismo do açaizeiro começou a mudar pelo aumento da demanda do açaí para o mercado, principalmente pelo valor de importância e interesse econômico. O presente trabalho teve como objetivo avaliar os impactos das mudanças da demanda dos frutos de açaí na (i) relação econômica da renda do açaí e na (ii) densidade e composição florística das áreas agroflorestais manejadas pelos ribeirinhos. O estudo realizou-se na comunidade São João Batista, município de Abaetetuba, Pará - Brasil. A população tem como principal fonte de trabalho a extração do fruto de açaí. Foram feitas entrevistas semi-estruturadas e abertas às famílias residentes na comunidade considerados pequenos e médios produtores de açaí. As entrevistas abarcaram dois componentes, o aspecto econômico e o aspecto social. Além disso, coletaram-se dados diários sobre a quantidade de rasa de açaí coletada, consumida e vendida, e o preço de cada rasa, com a finalidade de caracterizar a produção e preço nas diferentes temporadas da safra. Também se realizou o levantamento florístico mediante um inventário com a finalidade de caracterizar a vegetação, avaliar a densidade e composição florística dos açaizeiros. Para isso estabeleceu-se um total de 10 parcelas de 20 x 50 m (1000 m² ou 0.1 ha) distribuídas em cinco propriedades selecionadas, medindo o diâmetro de todos os indivíduos adultos > 10 cm de DAP (diâmetro à altura do peito) e para palmeiras com DAP > 2 cm e estimou-se a altura total (H) de cada individuo da base até o ponto mais alto das folhas. A análise da diversidade dos açaizais utilizou-se o índice de Shannon-Wiener e o índice de Simpson através do programa estatístico PAST – PAlaentologicalSTatistics, ver. 1,27. Como principais resultados obtiveram-se que na comunidade de São João Batista, a venda da produção de açaí é realizada para intermediários (marreteiros) (55%), no mercado de Abaetetuba (29%), no mercado de Belém (10%) e para marreteiro e/ou no mercado de Abaetetuba (6%). O município de Abaetetuba desde o ano 2005 teve uma queda na produção extrativa passando de 10.500 t (2004) a 900 t (2005) e progressivamente diminuindo até 770 t (2008). A quantidade da produção de açaí cultivada aumentou de 15.625 t (2003) a 131.250 t (2008) representando 99,4% da produção total. Na comunidade, foi inventariado 1043 indivíduos de árvores com um total de 11 famílias e 28 espécies, ocupando áreas basais maiores as famílias Arecaceae (8.83) e Fabaceae (6.77) e com maiores números de indivíduos (831 e 147 respectivamente). As espécies com maiores índices de valor de importância (IVIs) e de densidade registraram-se a Euterpe oleracea (777 indivíduos), Pterocarpus sp. (126) e Mauritia flexuosa (50). Obtiveram-se valores baixos nos índices de Simpson: 0.4275 e Shannon: 1.071, o que indica que se tem uma baixa diversidade resultante da atividade de manejo e extração de palmito e frutos de açaí levando a uma monocultura para o consumo e venda dos frutos. Concluindo, que o aumento do preço é forçado pelo crescimento da demanda, provocando a ampliação das áreas de cultivo e plantio de açaí para o aumento da produção. O impacto socioeconômico do manejo e cultivo dos açaizais sobre a economia ribeirinha e a economia extrativa do estuário amazônico gera grandes oportunidades de emprego, renda e qualidade de vida para as populações das várzeas e dos centros urbanos, sobretudo favorecendo aos mais pobres.

Entomological surveillance, spatial distribution, and diversity of culicidae (diptera) immatures in a rural area of the atlantic forest biome, state of sao paulo, brazil

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Diversidade de Formicidae (Hymenoptera) em um fragmento de Floresta Estacional Semidecídua no Noroeste do Estado de São Paulo, Brasil.

(Ant diversity (Hymenoptera) in a fragment of Semidecidual Seasonal Forest in Northwest of São Paulo State, Brazil). Due to scarce knowledge about ant fauna from Northwestern São Paulo State, the present study aimed to know the taxonomic diversity of Formicidae, relating the results to climatic variation along of one year. The samples were gotten monthly, using pitfall traps. It was sampled 25 species of 15 genera and seven subfamilies. Myrmicinae was the sampled richest subfamily, follows by Formicinae and Ponerinae. According Wilcoxon test, the species richness, equability and diversity estimated by Simpson index were significantly higher in the rain season. The obtained results suggest that the abundance of ants is significantly related to the temperature variation, while the ant assemblage structure is related to thermal and pluviometric variations.

Caracterização e análise das comunidades e infracomunidades de parasitos metazoários de Plagioscion squamosissimus (Heckel, 1840) capturados no reservatório de Promissão, rio Tietê, estado de São Paulo

Pós-graduação em Medicina Veterinária - FCAV

Distribution of euphausiids (Crustacea) at the Great Meteor seamount, Atlantic Ocean

In the course of the voyages 9a and 9c (1967) and 19 (1970) of the RV "Meteor" samples of plankton and neuston have been taken in the area of the Great Meteor Seamount. The euphausiids of this material have been examined quantitatively as well as qualitatively in order to study the influence of the Great and Small Meteor Seamount on a vertically migrating group of plankton. 20 species could be identified. All stem from the surrounding deep water and belong to the tropical and subtropical fauna. On the plateau of the Great Meteor Seamount no indigenous species have been encountered and also the typical neritic species from the west coast off Africa are lacking. As for the euphausiids no relationships exist between the Great Meteor Seamount and the shelf area of West Africa. The dominant species around the Meteor Seamount were Euphausia brevii, Stylocheiron suhmii, E. hemigibba, S. longicorne and Thysanopoda subaequalis. Using the index of diversity (Simpson) distinct differences in the composition of species could be shown to exist between the plateau area of the Meteor Seamount and the surrounding sea. On the plateau of the Great Meteor Seamount the number of species was only 7, E. brevis and S. suhmii dominated. None of the species occurred in great numbers and none is adapted to the specific environmental conditions of the plateau of the Meteor Seamount. The fauna of the plateau is a depauperate one as compared with that of the surrounding sea. This can be explained by the fact that adult euphausiids require for their existence greater water depths than are found above the plateau of the Meteor Seamount.