An Ontology-based Reference Process to Provide Interoperability and Foster Database Integration for Biodiversity Data

Citizen science and scientific and applied research worldwide are continually producing large volumes of biodiversity-related data. This data represents an important source of knowledge, which can be used for several purposes, such as the assessment of climate change impacts on the environment and the definition of public policies and scenarios for sustainable use of the biodiversity. Unfortunately, the data is being collected and stored in different forms, formats and standards. Many researchers organise their data to attend immediate research purposes without taking the time to organise them properly, even if the research community demands the publicity of such data, to enable reproduction, continuity and better evaluation of research contributions. Free and open access data facilities have been created to store and publish discoverable biodiversity-related data, such as GBIF (Global Biodiversity Information Facility) and ALA (Atlas of Living Australia). These facilities usually store the data based on standards such as the Darwin Core, which is used by both GBIF and ALA. If the data is not compliant with the standards adopted by the facility, a specific solution for database integration must be developed. Some of the original data might become useless in the process if a technical solution to store and provide discoverability of non-standardised data is not available, potentially hindering access to information. The data should be standardised from the very early stages of a project, but solutions are also required to standardise the data that have already been collected. A semantic approach can achieve this goal by applying ontologies to improve the understanding of the available data and metadata. Ontologies have been advocated as a powerful technique to provide interoperability among datasets and information systems. This paper presents ProSIt, an ontology-based reference process (workflow) to guide the creation of a semantic approach to provide biodiversity data interoperability based on the semantic integration of biodiversity standards. A functional ontology was built as a case study to evaluate the reference process by providing interoperability between the ABCD and Darwin Core standards, which are the TDWG (Biodiversity Information Standards) currently recommended standards and among the most adopted worldwide. The ontology and reference process were evaluated and proved effective, representing a promising solution for biodiversity-related data interoperability. The reference process can be applied to other existing standards and ad hoc databases that can be semantically interpreted, eliminating the structural barrier that prevents simplified access and availability of information between heterogeneous and distributed databases

New evidence of feathers in the Crato Formation supporting a reappraisal on the presence of Aves

The preservation of delicate structures such as feathers is very rare in the paleontological record, due to the fragility of their components. Fossil feathers have been reported from approximately 50 deposits around the world, from the Late Jurassic to the Pleistocene. In Brazil initial findings consisted of a primary feather of a large bird found in the Tremembé Formation. Other occurrences are preserved in the Crato Formation, where several symmetrical and one single asymmetrical feather was found. Based on three new specimens and reassessing further feather occurrences we cannot confirm the presence of volant Aves in this deposit. The presence of an asymmetrical feather without barbules and hooks hints at the previous existence of a flightless animal within this deposit, possibly a flightlessness bird or a non-avian theropod. Conversely, the presence of a feather from morphotype II present in Tyrannosauroidea, Compsognathidae, Therizinosauroidea and Dromeosauridae, points to a non-theropod origin. Since there are no confirmed records of birds and other feathered archosaurs in the region to date, more evidence is required to identify the animal from which these structures originated

Controle da malária transfusional em região endêmica e não endêmica do Brasil

O presente trabalho teve como objetivo estabelecer critérios adequados à triagem de doadores de sangue de regiões com características epidemiológicas distintas, para malária. Foram estudados 3 locais com critérios de seleção diferentes: São Paulo, SP (sem transmissão vetorial), Belém (baixa transmissão ativa), Matupá, Belém, PA e Peixoto de Azevedo, MT (alta transmissão ativa). A pesquisa de plasmódios foi realizada por gota espessa, QBC Test® e imunofluorescência para pesquisa de antígenos, tendo sido todas as amostras negativas. Houve grande variação na positividade para anticorpos antiplasmodiais por IFI-IgG anti P. vivax e P. falciparum entre doadores aptos nos 3 locais de estudo e entre doadores aptos e inaptos em São Paulo (aptos 1,98%, inaptos 22,3%, p < 0.01) e Belém (aptos 17,2%, inaptos 58,3%, p < 0.01), o que atesta a validade da triagem clínico-epidemiológica realizada. Em Matupá e Peixoto de Azevedo não houve doadores inaptos e a positividade foi de 80,6%. Consideramos que em bancos de sangue a triagem deve seguir critérios clínico-epidemiológicos adequados à situação de cada região. Os métodos laboratoriais de triagem, devem ser para detecção de plasmódios (gota espessa/QBC Test® ou detecção de antígenos parasitários

Brazilian Flora 2020: Leveraging the power of a collaborative scientific network

International audienceThe shortage of reliable primary taxonomic data limits the description of biological taxa and the understanding of biodiversity patterns and processes, complicating biogeographical, ecological, and evolutionary studies. This deficit creates a significant taxonomic impediment to biodiversity research and conservation planning. The taxonomic impediment and the biodiversity crisis are widely recognized, highlighting the urgent need for reliable taxonomic data. Over the past decade, numerous countries worldwide have devoted considerable effort to Target 1 of the Global Strategy for Plant Conservation (GSPC), which called for the preparation of a working list of all known plant species by 2010 and an online world Flora by 2020. Brazil is a megadiverse country, home to more of the world's known plant species than any other country. Despite that, Flora Brasiliensis, concluded in 1906, was the last comprehensive treatment of the Brazilian flora. The lack of accurate estimates of the number of species of algae, fungi, and plants occurring in Brazil contributes to the prevailing taxonomic impediment and delays progress towards the GSPC targets. Over the past 12 years, a legion of taxonomists motivated to meet Target 1 of the GSPC, worked together to gather and integrate knowledge on the algal, plant, and fungal diversity of Brazil. Overall, a team of about 980 taxonomists joined efforts in a highly collaborative project that used cybertaxonomy to prepare an updated Flora of Brazil, showing the power of scientific collaboration to reach ambitious goals. This paper presents an overview of the Brazilian Flora 2020 and provides taxonomic and spatial updates on the algae, fungi, and plants found in one of the world's most biodiverse countries. We further identify collection gaps and summarize future goals that extend beyond 2020. Our results show that Brazil is home to 46,975 native species of algae, fungi, and plants, of which 19,669 are endemic to the country. The data compiled to date suggests that the Atlantic Rainforest might be the most diverse Brazilian domain for all plant groups except gymnosperms, which are most diverse in the Amazon. However, scientific knowledge of Brazilian diversity is still unequally distributed, with the Atlantic Rainforest and the Cerrado being the most intensively sampled and studied biomes in the country. In times of “scientific reductionism”, with botanical and mycological sciences suffering pervasive depreciation in recent decades, the first online Flora of Brazil 2020 significantly enhanced the quality and quantity of taxonomic data available for algae, fungi, and plants from Brazil. This project also made all the information freely available online, providing a firm foundation for future research and for the management, conservation, and sustainable use of the Brazilian funga and flora