Can DNA barcoding accurately discriminate megadiverse Neotropical freshwater fish fauna?

Background: The megadiverse Neotropical freshwater ichthyofauna is the richest in the world with approximately 6,000 recognized species. Interestingly, they are distributed among only 17 orders, and almost 80% of them belong to only three orders: Characiformes, Siluriformes and Perciformes. Moreover, evidence based on molecular data has shown that most of the diversification of the Neotropical ichthyofauna occurred recently. These characteristics make the taxonomy and identification of this fauna a great challenge, even when using molecular approaches. In this context, the present study aimed to test the effectiveness of the barcoding methodology (COI gene) to identify the mega diverse freshwater fish fauna from the Neotropical region. For this purpose, 254 species of fishes were analyzed from the Upper Parana River basin, an area representative of the larger Neotropical region.Results: Of the 254 species analyzed, 252 were correctly identified by their barcode sequences (99.2%). The main K2P intra- and inter-specific genetic divergence values (0.3% and 6.8%, respectively) were relatively low compared with similar values reported in the literature, reflecting the higher number of closely related species belonging to a few higher taxa and their recent radiation. Moreover, for 84 pairs of species that showed low levels of genetic divergence (<2%), application of a complementary character-based nucleotide diagnostic approach proved useful in discriminating them. Additionally, 14 species displayed high intra-specific genetic divergence (>2%), pointing to at least 23 strong candidates for new species.Conclusions: Our study is the first to examine a large number of freshwater fish species from the Neotropical area, including a large number of closely related species. The results confirmed the efficacy of the barcoding methodology to identify a recently radiated, megadiverse fauna, discriminating 99.2% of the analyzed species. The power of the barcode sequences to identify species, even with low interspecific divergence, gives us an idea of the distribution of inter-specific genetic divergence in these megadiverse fauna. The results also revealed hidden genetic divergences suggestive of reproductive isolation and putative cryptic speciation in some species (23 candidates for new species). Finally, our study constituted an important contribution to the international Barcoding of Life (iBOL.org) project, providing barcode sequences for use in identification of these species by experts and non-experts, and allowing them to be available for use in other applications. © 2013 Pereira et al.; licensee BioMed Central Ltd.

Simulação de perdas de solo em função de cenários de adequação ambiental em microbacias agrícolas

In São Paulo state, deforestation and agriculture activities are increasing soil losses processes, especially in areas of susceptible soils where soil conservation practices are not adopted. Environmental adequacy at property level regarding Permanent Protection Areas and Legal Reserves is considered a potential factor for reducing soil losses and it was based on this fact that we assessed soil losses of different scenarios of environmental adequacy. Simulations of erosive processes were carried out in 15 catchments of the Corumbataí river basin, with different forest restoration scenarios, as well as the current situation of land use/ land cover. The scenarios include reforestation of Permanent Preservation Areas (PPA); the reforestation hydrological sensitive areas; and two scenarios, the Legal Reserve installation in 20% of each catchment, being one of them for most critical areas in terms of erosion and the other at random. It was observed that the establishment of PPA and the reforestation of hydrological sensitive areas (HSA), offered a small contribution to the control of the erosive process, resulting in a reduction of 10% and 7.4%, respectively, while the legal reserve in critical areas has the significant reduction of 69.8%. The random scenario, in turn, resulted in a reduction of 21.4% of erosion. Results show that reforestation can reduce soil losses, but previous studies of land prioritization and planning could significantly increase its efficiency.

Effects of local and regional factors on the fish assemblage structure in Meridional Amazonian streams

The aim of this study was to evaluate the effects of local, regional and temporal factors structuring fish assemblages in Meridional Amazonian streams during the months of May (rainy season) and August (dry season) of 2008. To accomplish this task, 14 streams located in Serra do Expedito (Aripuanã River basin) were sampled along 30-m stretches. A total of 3,212 specimens distributed among five orders, 18 families, and 55 species were recorded. The fish assemblage structure in the streams presented variation among types of riparian vegetation (local factor) and watersheds (regional factor), but did not present variation between seasons (temporal factor) and stream order (regional factor). Larger streams with margins covered with pasture presented higher species richness and abundance than smaller streams with margins covered with forest. © 2012 Springer Science+Business Media B.V.

Anthropogenic influences on Cd, Cr,Cu, Ni, Pb and Zn concentrations in soils and sediments in a watershed with sugar cane crops at São Paulo State, Brazil

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

Molecular identification of fungal communities in a soil cultivated with vegetables and soil suppressiveness to Rhizoctonia solani

Fungi constitute an important part of the soil ecosystem, playing key roles in decomposition, cycling processes, and biotic interactions. Molecular methods have been used to assess fungal communities giving a more realistic view of their diversity. For this purpose, total DNA was extracted from bulk soils cultivated with tomato (STC), vegetables (SHC), and native forest (SMS) from three sites of the Taquara Branca river basin in Sumaré County, São Paulo State, Brazil. This metagenomic DNA was used as a template to amplify fungal 18S rDNA sequences, and libraries were constructed in Escherichia coli by cloning PCR products. The plasmid inserts were sequenced and compared to known rDNA sequences in the GenBank database. Of the sequenced clones, 22 were obtained from the SMS sample, 18 from the SHC sample, and 6 from the STC sample. Although most of the clone sequences did not match the sequences present in the database, individual amplified sequences matched with Glomeromycota (SMS), Fungi incertae sedis (SMS), and Neocallimastigomycota (SHC). Most of the sequences from the amplified taxa represent uncultured fungi. The molecular analysis of variance (AMOVA) indicated that fluctuations observed of haplotypes in the composition may be related to herbicide application. © 2013 Silvana Pompéia Val-Moraes et al.

Karyotypic conservatism in five species of Prochilodus (Characiformes, Prochilodontidae) disclosed by cytogenetic markers

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Software for calculation of reservoir active capacity with the sequent-peak algorithm

It is presented a software developed with Delphi programming language to compute the reservoir's annual regulated active storage, based on the sequent-peak algorithm. Mathematical models used for that purpose generally require extended hydrological series. Usually, the analysis of those series is performed with spreadsheets or graphical representations. Based on that, it was developed a software for calculation of reservoir active capacity. An example calculation is shown by 30-years (from 1977 to 2009) monthly mean flow historical data, from Corrente River, located at São Francisco River Basin, Brazil. As an additional tool, an interface was developed to manage water resources, helping to manipulate data and to point out information that it would be of interest to the user. Moreover, with that interface irrigation districts where water consumption is higher can be analyzed as a function of specific seasonal water demands situations. From a practical application, it is possible to conclude that the program provides the calculation originally proposed. It was designed to keep information organized and retrievable at any time, and to show simulation on seasonal water demands throughout the year, contributing with the elements of study concerning reservoir projects. This program, with its functionality, is an important tool for decision making in the water resources management.

Composição e alimentação da ictiofauna da área de influência da Usina Hidrelétrica de Funil, localizada no rio Grande, região sul do estado de Minas Gerais

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Monitoramento de características físico-químicas da água e taxas de sedimentação de tripton no Córrego da Arribada (Baixo Tietê-SP) relacionadas à piscicultura em tanques-rede

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Revisão taxonômica de Bryconamericus iheringii (Boulenger, 1887) (Characiformes, Characidae)

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Evidências moleculares dos padrões evolutivos e filogeográficos de populações de Astyanax paranae (Pisces : Characidae) com base em caracteres do DNA mitocondrial

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Estudo dos cromossomos de espécies alocadas em incertae sedis (Characiformes, Characidae) com o uso de diferentes marcadores citogenéticos

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Prevalência de hemogregarina em arraias de água doce (Potamotrygonidae) da região norte, com descrição de uma nova espécie de gênero

Pós-graduação em Biologia Geral e Aplicada - IBB

Efeito da biomassa de espécie exótica (Brachiaria subquadripara (Trin.) Hitchc.) e nativa (Eichhornia azurea (SW. Kunth) sobre a estrutura da comunidade de macrófitas aquáticas

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Dinâmica populacional das macrófitas aquáticas emersas Spartina alterniflora Loiseleur, Crinum procerum Carey e Scirpus californicus Steud, na bacia do rio Itanhaém, SP

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)