Structural bioinformatics study of EPSP synthase from Mycobacterium tuberculosis

The shikimate pathway is an attractive target for herbicides and antimicrobial agent development because it is essential in algae, higher plants, bacteria, and fungi, but absent from mammals. Homologues to enzymes in the shikimate pathway have been identified in the genome sequence of Mycobacterium tuberculosis. Among them, the EPSP synthase was proposed to be present by sequence homology. Accordingly, in order to pave the way for structural and functional efforts towards anti-mycobacterial agent development, here we describe the molecular modeling of 5-enolpyruvylshikimate-3-phosphate (EPSP) synthase isolated from M. tuberculosis that should provide a structural framework on which the design of specific inhibitors may be based on. Significant differences in the relative orientation of the domains in the two models result in open and closed conformations. The possible relevance of this structural transition in the ligand biding is discussed. (C) 2003 Elsevier B.V. All rights reserved.

Textile Dye Treated Photoelectrolytically and Monitored by Winogradsky Columns

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Aquatic macrophyte distribution in relation to water and sediment conditions in the Itaipu Reservoir, Brazil

Aquatic macrophyte community distribution along the eastern shoreline of the Itaipu Reservoir (one of the South America's largest impoundments) is described in relation to limnological and sedimentological factors. The central body of the reservoir is mesotrophic, while the arms (flooded influent river valleys) along the eastern shore may be oligo-mesotrophic to eutrophic, depending on time of year and sub-catchment characteristics. Macrophyte community composition and species cover were surveyed at 30 sites in four arms, in relation to sediment total P and organic matter; underwater light regime; and water total P and Kjeldahl N concentration, alkalinity, conductivity, depth and pH. Seventeen euhydrophyte and six emergent macrophyte species were recorded. Large stands of Egeria najas dominated the euhydrophyte vegetation, together with free-floating weed species (Pistia stratiotes Linn., Salvinia auriculata Aublet and Eichhornia crassipes (Mart.) Solms.). Canonical Correspondence Analysis of the data showed that two sets of variables were important predictors of aquatic macrophyte community structure. Floating macrophyte assemblage was closely related to concentration of nutrients in both water and sediment, while light penetration was the strongest predictor of submerged species occurrence. Although a large number of potential nuisance species were present, dense growths were restricted to shallower areas of the Itaipu Reservoir, causing localised problems. The possibility of increasing interference by these plants with fisheries, recreational use, transport and hydroelectricity generation suggests a need for continued monitoring of weed distribution and abundance, and investigation of appropriate management measures.

The moving gardens: Reef fishes grazing, cleaning, and following green turtles in SW Atlantic

Reef fishes may associate with marine turtles and graze on their shells, or clean their head, neck and flippers. on a reef flat at Fernando de Noronha Archipelago, SW Atlantic, we recorded green turtles (Chelonia mydas) grazed, cleaned and followed by reef fishes. The green turtle seeks specific sites on the reef and pose there for the grazers and/or cleaners. Fishes recorded associated to green turtles included omnivorous and herbivorous reef species such as the dam-selfish Abudefduf saxatilis and the surgeonfishes Acanthurus chirurgus and A. coeruleus. The turtle is followed by the wrasse Thalassoma noronhanum only while engaged in foraging bouts on benthic algae. Following behaviour is a previously unrecorded feeding association between turtles and fishes.

The cetacean offal connection: Feces and vomits of spinner dolphins as a food source for reef fishes

At Fernando de Noronha Archipelago, southwest Atlantic, reef fishes associated with spinner dolphins (Stenella longirostris) were recorded when the cetaceans congregated in a shallow inlet. In the reef waters the dolphins engaged in several behaviors such as resting, aerial displays and other social interactions, as well as eliminative behaviors such as defecating and vomiting. Twelve fish species in seven families were recorded feeding on dolphin offal. The black durgon (Melichthys niger) was the most ubiquitous waste-eater, and its group size was positively and significantly correlated with dolphin group size. The durgons recognized the postures a dolphin adopts prior to defecating or vomiting, and began to converge to an individual shortly before it actually voided. Offal was quickly fed upon, and the fishes concentrated in the area occupied by the dolphins until the latter left the shallows. Since all the recorded offal-feeding species feed on plankton or drifting algae, feeding on cetacean droppings may be regarded as a switch from foraging on drifting organisms to foraging on drifting offal, a predictable food source in the inlet. Further instances of this cetacean-fish association are predicted to occur at sites where these mammals congregate over reefs with clear water and plankton-eating fishes.

Diet and capture of Hypostomus strigaticeps (Siluriformes, Loricariidae) in a small brazilian stream: relationship with limnological aspects

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

Population structure, feeding and reproductive aspects of Serrapinnus heterodon (Characidae, Cheirodontinae) in a Mogi Guaçu reservoir (SP), upper Paraná River basin

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Structural studies of shikimate 5-dehydrogenase from Mycobacterium tuberculosis

Tuberculosis (TB) remains the leading cause of mortality due to a single bacterial pathogen, Mycobacterium tuberculosis. The reemergence of TB as a potential public health threat, the high susceptibility of human immunodeficiency virus-infected persons to the disease, the proliferation of multi-drug-resistant strains (MDR-TB) and, more recently, of extensively drug resistant isolates (XDR-TB) have created a need for the development of new antimycobacterial agents. Amongst the several proteins and/or enzymes to be studied as potential targets to develop novel drugs against M. tuberculosis, the enzymes of the shikimate pathway are attractive targets because they are essential in algae, higher plants, bacteria, and fungi, but absent from mammals. The mycobacterial shikimate pathway leads to the biosynthesis of chorismate, which is a precursor of aromatic amino acids, naphthoquinones, menaquinones, and mycobactins. Here we report the structural studies by homology modeling and circular dichroism spectroscopy of the shikimate dehydrogenase from M. tuberculosis (MtSDH), which catalyses the fourth step of the shikimate pathway. Our structural models show that the MtSDH has similar structure to other shikimate dehydrogenase structures previously reported either in presence or absence of NADP, despite the low amino acid sequence identity. The circular dichroism spectra corroborate the secondary structure content observed in the MtSDH models developed. The enzyme was stable up to 50 degrees C presenting a cooperative unfolding profile with the midpoint of the unfolding temperature value of similar to 63-64 degrees C, as observed in the unfolding experiment followed by circular dichroism. Our MtSDH structural models and circular dichroism data showed small conformational changes induced by NADP binding. We hope that the data presented here will assist the rational design of antitubercular agents.

Distribution of Rhodophyta in streams from São Paulo State, southeastern Brazil

Distribution of Rhodophyta was investigated in 172 stream segments, which were sampled from May to October in 1992-1993 and 1996-1997 in six natural regions (parts of biomes or geological areas) of São Paulo State, southeastern Brazil. Red algae occurred in 60.5 % of stream segments sampled, a high frequency in comparison with other major surveys in the world (18-65 %). 17 species of freshwater red algae were found, of which the most widespread was Batrachospermum delicatulum occurring in 17 sites of five regions. The proportion of morphological types was as follows: gelatinous filaments (62.5 %), free filaments (19 %), tufts (12.5 %) and crusts (6 %); all but free filaments can be considered as having mechanisms to tolerate stress provoked by current velocity. No significant difference was found between the frequency distributions of variables measured for all streams and for those with red algae. Rhodophyta occurred under the following conditions (means): temperature (19.0 degrees C), current velocity (48 cm s(-1)), specific conductance (74 mu S cm(-1)), turbidity (8 NTU), oxygen (67.3 %) and pH (6.9 +/- 0.7). on the basis of species composition among the regions, the following patterns were evident: 1) the number of red algal species per region ranged from 1 to 10; 2) the highest proportion of sites with red algae (65-73 %) was found in hard water regions and in Atlantic rainforest, whereas the lowest (50 %) was found in tropical rainforest; 3) more than half of the species were exclusive from a single region, whereas the higher proportion of exclusive species was in the subtropical rainforest (50 %). No combination of stream variables was clearly associated with the occurrence of red algae for the regions as a whole. Species composition for streams and rivers of São Paulo State revealed higher similarities with other tropical regions and had few species in common with freshwater red algal floras of other continents.

New aerophytic morphospecies of Cyanobacteria from tropical forest fragments in northwestern São Paulo state, Brazil

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

Macroalgas em nascentes e arredores de riachos na região noroeste do estado de São Paulo

Macroalgas são organismos tipicamente bentônicos, constituídos por um talo maduro, discreto e reconhecível a olho nu, cuja identificação microscópica é necessária. Diversos estudos foram realizados visando o conhecimento taxonômico em riachos brasileiros, no entanto, são raros os trabalhos que abordam as algas que se desenvolvem nas nascentes destes riachos. de fevereiro a setembro/2007 coletas mensais foram realizadas em nascentes e em suas imediações (solos úmidos dos afloramentos d'água) de quatro riachos na região noroeste do estado de São Paulo. O levantamento taxonômico resultou na identificação de 13 espécies, sendo 54% dos táxons pertencentes a Cyanophyta e 46% a Chlorophyta. Cylindrospermum gorakhpurense, Mougeotia gotlandica, Spirogyra gallica e S. taftiana são registradas pela primeira vez para o Brasil. A flora aquática encontrada diferiu da regional devido à presença de organismos da família Zygnemataceae (Chlorophyta) em estágio reprodutivo. Este tipo de hábitat mostrou-se especialmente favorável à reprodução das Zygnemataceae.

Photoacclimation in a tropical population of Cladophora glomerata (L.) Kützing 1843 (Chlorophyta) from southeastern Brazil

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

Photosynthetic characteristics of the freshwater red alga Batrachospermum delicatulum (Skuja) Necchi & Entwisle

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

Co-stressors chilling and high light increase photooxidative stress in diuron-treated red alga Kappaphycus alvarezii but with lower involvement of H2O2

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

Aerophytic cyanoprokaryotes from the Atlantic rainforest region of São Paulo State, Brazil: Chroococcales and Oscillatoriales

Because algae are primarily aquatic, it seems almost paradoxical that there Should exist a relatively diversified soil flora where aerophytic cyanoprokaryotes are especially abundant. However, there appear to be relatively few studies oil this topic. This paper aims to improve the taxonomic knowledge oil the chroococcalean and oscillatorialean cyanoprokaryote flora in tropical regions. Samples of cyanoprokaryotes were collected in the rainforest region of the São Paulo State, Brazil. Data oil cyanoprokaryote mass type and color, substratum type, air and mass temperature and humidity, pH and absolute and relative irradiance were collected. The study revealed the presence of 24 species belonging to the orders Chroococcales and Oscillatoriales (12 species each). Aphanothece (four species) was the most species-rich genus. Overall, taxonomic resolution at the species level based oil morphological and morphometric data can still be problematic.