Monographs are fundamental for progress in systematic  botany. They are the vehicles for circumscribing and naming taxa, determining distributions and ecology,  assessing  relationships for formal classification, and interpreting long-term  and short-term  dimensions of the evolutionary process. Despite their importance, fewer monographs are now being prepared by the newer generation  of systematic  botanists, who are understandably involved principally with DNA data and analysis, especially for answering  phylogenetic, biogeographic, and population  genetic questions.  As monographs provide  hypotheses regarding species  boundaries and plant relationships, new insights  in many plant groups  are urgently  needed.  Increasing  pressures  on biodiversity, especially in tropical and developing regions of the world, emphasize this point. The results from a workshop (with 21 participants) reaffirm  the central role that monographs play in systematic  botany. But, rather than advocating abbreviated models  for monographic products,  we recommend a full presentation of relevant  information. Electronic  publication offers numerous  means of illustration of taxa, habitats, characters, and statistical and phylogenetic analyses, which previously  would have been prohibitively costly. Open Access and semantically enhanced  linked electronic  publications provide instant access to content from anywhere  in the world, and at the same time link this content to all underlying data and digital resources  used in the work.  Resources  in support  of monography, especially  databases  and widely  and easily  accessible  digital  literature and specimens, are now more powerful  than ever before, but interfacing and interoperability of databases  are much needed. Priorities  for new resources  to be developed  include an index of type collections and an online global chromosome database. Funding  for sabbaticals for monographers to work uninterrupted on major projects  is strongly  encouraged. We recommend that doctoral  students  be assigned  smaller  genera,  or natural  portions  of larger  ones (subgenera, sections,  etc.), to gain the necessary expertise for producing a monograph, including training in a broad array of data collection (e.g., morphology, anatomy, palynology, cytogenetics, DNA techniques, ecology, biogeography), data analysis (e.g., statistics,  phylogenetics, models), and nomenclature. Training programs, supported by institutes, associations, and agencies, provide means for passing on procedures and perspectives of challenging botanical  monography to the next generation  of young systematists.

A new "LinkOut" feature introduced by the National Center for Biotechnology Information (NCBI) NCBI’s allows the easy linking to content on PubMed and GenBank.  Dryad has already introduced the feature benefitting from easy and fast linking of associated content to the two resources.

PubMed and GenBank, from the National Center for Biotechnology Information (NCBI), are hugely popular resources for searching and retrieving article abstracts and nucleotide sequence data, respectively.  PubMed indexes the vast majority of the biomedical literature, and deposition of nucleotide sequences in GenBank or one of the other INSDC databases is a near universal requirement for publication in a scientific journal. LinkOut allows the data from an article to be distributed among repositories without compromising its discoverability.

Dryad, intends to expand on this feature in a couple of ways. First, it is planned to make Dryad content searchable via the PubMed and GenBank identifiers, which because of their wide use will provide a convenient gateway for other biomedical databases to link out to Dryad.  Second, open web standards will be used to expose relationships between content in Dryad and other repositories, not just NCBI.

Original source: Dryad news and views

The Research Data Alliance (RDA) has been recently launched. Its First Plenary took place between 18-20 March, 2013 in Gothenburg, Sweden. The hot topic of the Plenary was the RDA vision towards open access data without barriers. The 3 days of meetings and working sessions brought the research data community together to contribute and set milestones for the future work of the RDA towards open access data-driven innovation. 

Over the last decade, significant investments have been made  all over the globe
for developing scientific  data infrastructures to support the work of research communities and improving shared access to data.  There is a  common understanding that solutions must be global and that the development of an integrated and interoperable data domain can only be achieved through increased global cooperation.

As "big data" emerges as an international priority, the Research Data Alliance (RDA) is a newly formed organization whose goal is to accelerate data-driven innovation world-wide through research data sharing and exchange.

At its first Plenary, the RDA was launched by sponsors from the European Commission, the U. S. Government and the Australian Government and leaders in the data community. The Plenary was used as a working meeting to accelerate discussion, Working and Interest Group interaction, and data community development.

ICSU-WDS Data Publication Charter: http://www.icsu-wds.org/working-groups/data-publication

The newest newsletter of the BioVel project is now available, offering a range of biodiversity related news, including brief coverage of the EU BON Kick-off and International Symposium Workshop in February, 2013. Among the other stories covered are:

•  Letter from Alex Hardisty, Project Coordinator
• Running Workflows Just Got a Whole Lot Simpler
• Friends of BioVeL: Friendships and collaborations are also blooming! (featuring news about: LifeWatch-BioVeL cooperation;; i4Life project; Micro B3 and GENSC are now friends of BioVeL.

The newsletter also contains information about the upcoming workflows and research within the project, as well about events planned for the future.

To read the article and find out more about the news stories covered click here.

The data repository invites community input on the future of data archiving at upcoming membership meeting

Dryad, a repository for data underlying the international scientific and medical literature, works with a variety of journals, societies and publishers to archive research data at the time of publication.  The project began in 2009 and has published more than 3,000 data packages.  In 2012, Dryad incorporated as a nonprofit organization with the mission to make scientific and medical research data permanently available to all researchers and educators free-of-charge without barriers to reuse.
For the past four years, Dryad has worked with its stakeholders to develop a sustainability plan to realize this vision.  Central to the sustainability plan is a one-time submission fee that will offset the actual costs of preserving data indefinitely. A variety of pricing plans are available for journals and other organizations such societies, funders and libraries to purchase discounted submission fees on behalf of their researchers.  For data not covered by a pricing plan, the researcher will be asked to pay upon submission, with waivers provided to researchers from World Bank low and lower-middle income economies. Submission fees will apply to all new submissions starting September 2013.  Dryad will also be supported in part by its membership, by grants for research and innovation, and by donors. Membership in Dryad is open to any organization that supports research and education.  Dryad is pleased to include Pensoft Publishers among its Charter Members.
The Dryad Membership meeting, to be held in Oxford, UK on Friday, May 24 is open to members, prospective members, researchers and other interested parties.  Attendees will hear about recent and upcoming developments in the repository and the nonprofit organization. In addition, there will be an Emerging Issues Forum with presentations from the community about future directions for Dryad, its members, and partner journals, including models for the technical and peer review of data, ideas for promoting the adoption of data citations, measuring data reuse, funder perspectives on the use of research grants for data management costs and the relevance of larger data networks.  
Dryad’s Membership Meeting is part of a series of free public events in Oxford spotlighting trends in scholarly communication with an emphasis on research data, including a Symposium on the Now and Future of Data Publication on Wednesday, May 22nd and an ORCID Outreach Meeting with a special joint Dryad-ORCID Symposium on Research Attribution on Thursday, May 23rd. Registration for these events closes on May 13th. Remote attendance will be available for those unable to attend in person.

For more information about submitting data, becoming a member or the sustainability plan, please visit http://datadryad.org. The website also offers an Ideas Forum where people can make their voice heard by suggesting and voting for new features and offering comments.

CONTACT:
Laura Wendell, Executive Director
lwendell@datadrayd.org
+1-919-668-4005 or +1-919-423-3889

The EUBrazilOpenBio project  announces two new training tools as a part of its e-training Programme aiming at educating and enabling current and potential users of EUBrazilOpenBio to unlock new knowledge and shape effective policy on biodiversity challenges. The new tools cover the following use cases: Ecological Niche Modeling and Cross-mapping.

The EUBrazilOpenBio anytime, anywhere eTraining tools are designed for researchers in the spheres of Biodiversity, Life science, Climate Change, application Developers as well as regulatory authorities and policy decision-makers.

EUBrazilOpenBio is focused on tackling the complexity of biodiversity science such as the diversity of multidisciplinary datasets spanning from climatology to earth sciences by integrating advanced computing resources with data sources across Europe and Brazil.

For more informationand to try out the new tools click here.

Policy-makers and science and industry representatives are discussing how to make large amounts of Earth observation data accessible to a wider user community. To explore this idea, some 250 science, industry and policy-making representatives and national delegates from Europe, the US, Australia, China and Africa met at ESA’s ESRIN centre in Frascati, Italy last week for ESA’s first ‘Big Data from Space’ event.

Representatives from ESA and NASA opened the event together with the European Commission. European Commission Directorates-General for Enterprise and Industry, Research and Innovation and Communications Networks, Content and Technology, along with representatives from the European Environment Agency, the National Oceanic and Atmospheric Administration and the Open Geospatial Consortium acted as session chairs. 

Javier de la Torre, representing the EU BON partner Vizzuality gave a presentation 'Global Deforestation through Timeme: Big Data Meets Scalable Visualizations,' which included some of the work Vizzuality is doing toward the EUBON project.

The event concluded with a strong call by all parties for the ability to handle and use big Earth observing data. This could potentially open new opportunities for research and international cooperation schemes such as programmatic and industrial coordination.

Global Biodiversity Informatics Outlook sets out key steps to harness IT and open data to inform better decisions

Copenhagen, Denmark – A new initiative launched today (2 Oct) aims to coordinate global efforts and funding to deliver the best possible information about life on Earth, and our impacts upon it.

The Global Biodiversity Informatics Outlook sets out a framework to harness the immense power of information technology and an open data culture to gather unprecedented evidence about biodiversity and to inform better decisions.

The framework is outlined in a document and website entitled Delivering Biodiversity Knowledge in the Information Age, inviting policy makers, funders, researchers, informatics specialists, data holders and others to unite around four key focus areas where progress is needed.

The focus areas, each consisting of several specific components, are:

• Culture – promoting practices and infrastructure for sharing data, using common standards and persistent archives, backed up by strong policy incentives and a community of willing specialists;
• Data – addressing the need to transform all data about species, past and present, into usable and accessible digital formats; from historic collections and literature to citizen science observations, remote sensors and gene sequencing;
• Evidence – organizing and assessing data from all sources to provide clear, consistent views giving them context; including taxonomic organization, integrated occurrences in time and space, capturing information about species interactions, and improving data quality through collaborative curation; and
• Understanding – building models from recorded measurements and observations to support data-driven research and evidence-based planning, including predictive tools, better visualization and feedbacks to prioritize new data capture.

The document is being promoted through a number of upcoming events this month, including the Governing Board of the Global Biodiversity Information Facility and the Subsidiary Body on Scientific, Technical and Technological Advice of the Convention on Biological Diversity (CBD SBSTTA) where it forms part of the discussion on meeting global targets to end biodiversity loss.

The framework arose from the Global Biodiversity Informatics Conference which gathered around 100 experts in Copenhagen in July, 2012, to identify critical questions relating to biodiversity and tools needed answer them. Workshop leaders at that conference went on to draw up and author the current document.

The Global Biodiversity Informatics Outlook includes examples of projects and initiatives contributing to its objectives, and the accompanying website www.biodiversityinformatics.org invites feedback from others wishing to align their own activities to the framework.

A deck of slides for presentations about GBIO is available at http://www.slideshare.net/GBIF/global-biodiversity-informatics-outlook

The Royal Museum for Central Africa (RMCA) in Tervuren (Belgium) is part of the FishBase Consortium and responsible for the information on the fresh- and brackish water fishes of Africa. Through an agreement with the Belgian Development Cooperation and as part of the FishBase programme, the RMCA has five grants available for a 3-month training programme in the use of FishBase and the taxonomy of African fishes.

The training includes three subsets:

1. A detailed explanation of FishBase in all its aspects;
2. A training in the taxonomy of African fishes; and
3. A case study based on data from FishBase or on taxa for which taxonomic problems have been encountered.

The main focus of the training is on fish biodiversity data and their integration into FishBase, and on how to use and contribute data to FishBase. The context of these contributions may vary and can also include the knowledge on common names, fish ecology, fisheries statistics, aquaculture and many other areas of fish biology.

After the training, the participants should be able to make their own contribution to fish biology and continue to work on FishBase. They are encouraged to teach their newly apprehended skills to new/local users, to help in completing the database and keeping it up to date, and to spread the use of FishBase as a source of information and a fisheries tool.

This course has been offered annually since 2005 and is held at the Royal Museum for Central Africa (Leuvensesteenweg 13, B-3080 Tervuren, Belgium).

To apply for traineeship and for more information, go to:
http://www.africamuseum.be/research/collaborations/training/group?set_language=en&cl=en

Please note that for 2014, this course will be given in French only.

Contact: Dimitri Geelhand de Merxem (dimitri.geelhand@africamuseum.be)

The final EUBrazilOpenBio newsletter for November 2013 is now available. The  newsletter presents the final press release showcasing the main results of 2 year collaborative work, namely: the innovative, web-based working environment designed to serve biodiversity scenarios; the new version of the Catalogue of Life cross-mapping tool developed in the i4Life project; the provision of the Ecological Niche Modelling tool as a service through the openModeller extended web service, and its application in collaboration with BioVeL; the EUBrazilOpenBio Joint Action Plan.

This newsletter highlights:

• EUBrazilOpenBio Joint Action Plan - drawing on policy strategies, analysing  current progress in contributing to international targets and defining actions for future collaborative research. It defines common actions with the aim of contributing to relevant Aichi Targets in the years ahead.
• EGI federatec use case on ecology - Over the last two years, BioVeL and EUBrazilOpenBio have joined forces to make openModeller ready for cloud deployment. Work within the EGI Federated Cloud Task Force has led to considerable success in enabling the openModeller service on the EGI Federated Cloud.
• EUBrazilOpenBio results - EUBrazilOpenBio Technical developments, training materials and sessions, publications and papers, media spotlights and policy results all collected in one page.
• A vision from the Experts - "The Crossmapper itself is a great tool, and an ideal way to identify errors and updates". Dr Christina Flann is one of the experts providing their vision on EUBrazilOpenBio story.

You can find an online version of the final EUBrazilOpenBio newsletter here.

On the 17 Jan in Geneva, the Group on Earth Observations (GEO) received unanimous endorsement to unleash the power of open data for a second decade. There was agreement to continue building on the organization’s first 10 years of pioneering environmental advances, which are designed to improve the quality of life of people everywhere. Fueled by open data, GEO’s efforts are now evident in most regions of the world. GEO is comprised of 90 member nations, the European Commission and 77 Participating Organizations.

"GEO is successfully meeting its mandate, which is to make data and other information open, accessible and easy to discover for decision makers around the world," said Mr. Janez Potočnik, European Commissioner for the Environment. "GEO’s vision is now operational, a proven force for putting sound science to work across nine essential areas: agriculture, biodiversity, climate, disasters, ecosystems, energy, health, water and weather."

GEO’s mandate is to drive the interoperability of the many thousands of space-based, airborne and in situ Earth observations around the globe. Without concerted efforts to coordinate across diverse observations, these separate systems often yield just snapshot assessments, leading to gaps in scientific understanding and hampering data fusion in support of better decision making for society. GEO aims to fill such gaps by providing a comprehensive, more integrated picture of our changing Earth. GEO is accomplishing this by establishing a Global Earth Observation System of Systems, known as GEOSS, and a Portal through which data and other information can be easily accessed at little or no cost.

"Rather than snapshot assessments, GEO gives us moving pictures of a changing planet," said Mr. Cao Jianlin, Vice Minister of the Ministry of Science and Technology of China. "Our world does not work just in the sea, on land, in the atmosphere or in space, and our policies cannot reflect individual domains either."  China, for example, is partnering with 46 other GEO-member nations and several of GEO’s Participating Organizations to ensure that unprecedented data will be available to measure the effects of human activities and natural processes on the carbon cycle, the first such coordinated effort at the global level.

In South Africa, 22 nations and 5 GEO Participating Organizations recently launched AfriGEOSS with the goal of strengthening that continent’s capabilities to produce, manage and use earth observations. "This new initiative gives us the necessary framework to support informed decisions about a range of priorities, including food security, access to clean water and sanitation, natural resources, and coastal and disaster management," said Derek Hannekom, Minister of Science and Technology, South Africa.

By increasing the utility of open data about the Earth, GEO is helping to mitigate disasters, develop water-management strategies, support citizen observatories, and strengthen food security. GEO is driving the development of new tools, such as a cholera early warning system, as well as painting fuller pictures of complex environmental processes, including through global observations of ocean acidification at the global scale and observations of atmospheric greenhouse gases from space. GEO participants are also studying the footprint of mining practices, with the aim of minimizing future impacts on nearby communities and natural habitat, and focusing on links between air quality and health. There is also focus on the far-reaching consequences of melting glaciers and other serious cold-region concerns.

"The Obama Administration continues to work to catalyze the emergence of new businesses, products and services powered by the U.S. Government's open data. Increasing access to data and data sharing, both nationally and internationally, is crucial for unleashing innovation across our data-driven economy," said Dr. Patrick Gallagher, performing the duties of the Deputy Secretary of Commerce." GEO's collaborative work to integrate open data about the Earth continues to drive the development of new tools, services and scientific insights that are used around the world to support sound decision making."

The second plenary of the Platform met in December 2013 and agreed an ambitious work programme for 2014-2018: Details of the agreed work programme are available in the advanced meeting report of the Plenary.

The IPBES Secretariat have now issued a call for experts to help scope, advise on and deliver the work programme. Governments and relevant stakeholders can put forward nominations, from which the Multidisciplinary Expert Panel of IPBES will select a maximum of 20% of experts from the stakeholder nominations, and the rest from the government nominations.

The UK expects IPBES to make use of the best scientists/experts from all relevant disciplines - natural science, social science, economics, data and modelling and traditional knowledge, and to achieve a geographical and gender balance among those experts in the delivery of the IPBES work programme.

More information of the required topics to be covered by experts, alongside the nomination forms and how to nominate can be found in the attachments below.

To read more about the courses and to register, visit the official DEST webpage: http://www.taxonomytraining.eu/content/modern-taxonomy-course-programme-2013-2014

The  8th GEO European Projects Workshop (GEPW-8) took place in Athens, Greece, on 12 and 13 June, hosted by the Greek GEO Office - National Observatory of Athens and co-organized by the Mariolopoulos-Kanaginis Foundation for the Environmental Sciences.

The event was intended to bring all those interested in and actively contributing to the Global Earth Observations System of Systems (GEOSS) from all over Europe together, in order to present their work and discuss how Europe can contribute to this international effort, especially in the wake of the launch of the new EU Framework Programme for Research, Horizon 2020, and renewal of the mandate of GEO for another 10 years through the endorsement of the 2014 Geneva Declaration.

Oral presentations, a book of abstracts and the photos from the event are now uploaded and available for download on the events website.

EU BON is happy to announce that Memoranda of Understanding have been signed with four new associated partners. The EU BON family is now joined by DataOne (Observation Network for Earth), USA; Fondation pour la Recherche sur la Biodiversité (FRB) / ECOSCOPE, France; Atlas Florae Europaeae (AFE), Finland; and the Natural Environment Centre / SYKE (Finnish Environment Institute), Finland. Welcome to all!

DataOne (Observation Network for Earth)

Natural Environment Centre / SYKE (Finnish Environment Institute)

The Finnish Environment Institute (SYKE) promotes the conservation of biodiversity by various measures, e.g. by assessments of the conservation status of species and natural habitats or by research on methods of management and restoration of habitats. An important field of research is the significance of ecosystem services and their interactions with biodiversity. SYKE's tasks also include finding solutions to problems with invasive species, assessment of the environmental impacts of genetically modified organisms and permits for international trade in endangered species.

The classical treatise "Flora of Northumberland and Durham" by Nathaniel John Winch is re-published through the innovative Advanced Books platform as an example of combining modern information technology together with historical scholarship to create a new sort of resource and data re-use. This publication will be supporting ongoing research on the botany of the region, which can be seen as a model for other regions in Europe.

The on-line semantically enriched re-publication marries the meticulous detail of old books with the interconnectedness of the internet bringing advantages of the digitization and markup efforts such as data extraction and collation, distribution and re-use of content, archiving of different data elements in relevant repositories and so on.

"Historic biodiversity literature is not just of cultural interest, it can be used to chart biogeographic change and help us understand the impacts of environmental change on biodiversity. Even if we are trying to predict future scenarios for biodiversity, understanding the changes of the past will help understand the changes we should expect in the future" said Dr Quentin Groom from the Meise Botanical Garden, Belgium, who initiated the project and marked up the original text.

The North-east of England has seen many changes since the publication of Winch's Flora. In the 19th Century the area was a powerhouse of the industrial revolution. It was an important coal mining area and significant for the production of iron and steel. It was also a centre for industries such as shipbuilding and engineering. In contrast the uplands in the west of the region were some of the most isolated areas in England, covered in blanket bog and rarely visited.

Since that time heavy industry and mining have declined, but the population has continued to grow. Agriculture and forestry have become mechanized changing the countryside perhaps beyond the recognition of Winch. Many of the plants and localities he mentions have disappeared and a large number of new species have been introduced. The local botanists are still very active in the region. With GPS systems and modern maps they are mapping the region's flora in ever more detail.

The extensive efforts of Quentin Groom from the Botanic Garden Meise and editor of this re-publication combined with the cutting-edge technologies for semantic enhancements used by Pensoft's Advanced Books platform, have resulted in additional details including links to the original citations and coordinates of the mentioned localities. In some cases the habitat that Winch described for a locality differs dramatically from what can be found in the same location nowadays.

The flora, for example, frequently mentions Prestwick Carr, an area of lowland bog, once full of rare species. Sadly it was largely drained just thirty years after the publication of the flora. Yet in recent years the Northumberland Wildlife Trust has been working to restore the bog to its former glory. "When reading Winch's flora, it is easy to see what has been lost, but more importantly what remains to be conserved", comments Groom.

The re-publication of Winch's flora is just one step towards fully understanding all the impacts on wild plants of all the environmental changes that have occurred since the 19th century. Nevertheless, digitization of this flora not only tells us about plants but also about the history of science. Between the lines of this flora one can see a rudimentary understanding of ecology and the beginnings of research on phytogeography.

Consider that in 1831 Charles Darwin set sail on the Beagle, collecting and cataloguing biodiversity around the world, much as Winch had done in North-east England over the preceding 30 years. Field botany at the time was not just a hobby, but a serious pursuit that led to many new discoveries.

Understanding the causes of biodiversity change is only possible if you have data over a long period. The North-east England has an enviable botanical history dating back to William Turner (1508-1568), the so-called, Father of English Botany, who came from Morpeth in Northumberland. Yet he was only the first in a long list of North-eastern botanists, including John Wallis (1714-1793), Nathaniel John Winch (1769-1838), John Gilbert Baker (1834-1920), George Ralph Tate (1805-1871), Gordon Graham and George Swan (1917). Their publications and the works of many others have contributed to a large corpus of literature on the region's flora.

Fauna Europaea started in 2000 as an EC-FP5 four-year project, delivering its first release in 2004. After 14 years of steady progress and successful participations in several EC projects, as a part of the EC-FP7 European Biodiversity Observation Network project (EU BON), to increase the general awareness of the work done by the contributors and to extend the general dissemination of the Fauna Europaea results, the Biodiversity Data Journal has applied its novel e-Publishing tools to prepare data papers for all 56 major taxonomic groups.

Fauna Europaea provides a public web-service with an index of scientific names (including important synonyms) of all living European land and freshwater animals, their geographical distribution at country level, and some additional information. The Fauna Europaea project covers about 230,000 taxonomic names, including 130,000 species name. This represents a huge effort by more than 400 contributing specialists throughout Europe and is a unique (standard) reference suitable for many users in science, government, industry, nature conservation and education.

'Contributions on Fauna Europaea' is the second series launched by the Biodiversity Data Journal after the Checklist of British and Irish Hymenoptera and the first one that embraces thematic data-papers structured in a common pattern extracted from a large database. This novel publication model will assemble in a single-issue 56 data-papers on different taxonomic groups covered by the Fauna Europaea project in the period 2000-2014 and a range of accompanying papers highlighting various aspects of this project (gap-analysis, software design, taxonomic assessments, etc.).

This is the first collection of data-papers of this scale. It will formalise and effectively publish the results of nearly 500 contributors building the largest European animal (taxonomic) database. The new publication model provides a reliable mechanism for citation and bibliographic indexing of large and uniformly structured databases.

"The publication of Fauna Europaea data papers brings a number of benefits for science, for example it stimulates experts to hand-over descriptive details on their groups, triggers new ways of community networking and participation, motivates experts to update their data, supports a better documentation of their achievements, including issues like 'micro-publications', and increase an ownership feeling with the associated effort" said Dr Yde de Jong, coordinator of the Fauna Europaea and Pan-European Species directories Infrastructure (PESI) projects.

The launch of this large collection of data papers coincides with one more cutting-edge innovation of the Biodiversity Data Journal, the publication of an API, a first of its kind, to import complex and data-rich manuscripts, which include text, data, images, in-text citations, references, in fact anything that a manuscript may contain.

"I am happy that these exciting innovations coincided with the first birthday of the Biodiversity Data Journal. Just a year ago we launched this new concept with the motto: Making your data count! These novel approaches and tools are an excellent example how our concept evolved!" comments Prof. Lyubomir Penev, Managing Director of Pensoft Publishers.

Original Sources:

de Jong Y, Verbeek M, Michelsen V, Bjørn P, Los W, Steeman F, Bailly N, Basire C, Chylarecki P, Stloukal E, Hagedorn G, Wetzel F, Glöckler F, Kroupa A, Korb G, Hoffmann A, Häuser C, Kohlbecker A, Müller A, Güntsch A, Stoev P, Penev L (2014) Fauna Europaea – all European animal species on the web. Biodiversity Data Journal 2: e4034. doi: 10.3897/BDJ.2.e4034

Gibson D, Bray R, Hunt D, Georgiev B, Scholz T, Harris P, Bakke T, Pojmanska T, Niewiadomska K, Kostadinova A, Tkach V, Bain O, Durette-Desset M, Gibbons L, Moravec F, Petter A, Dimitrova Z, Buchmann K, Valtonen E, de Jong Y (2014) Fauna Europaea: Helminths (Animal Parasitic). Biodiversity Data Journal 2: e1060. doi: 10.3897/BDJ.2.e1060

On Tuesday 30 September 2014, the European Parliament Intergroup on "Climate Change, Biodiversity and Sustainable Development", in collaboration with the European Commission and the International Union for Conservation of Nature (IUCN), organised a full day conference entitled: "Nature-Based Solutions: Innovation potential for Smart, Sustainable and Inclusive Growth in Europe."

Bringing together 140 participants including representatives from the European Institutions, local and regional authorities, research institutes, NGOs and International organisations, as well as private sector representatives, this conference aimed at promoting the solutions that nature can offer in tackling major challenges, such as climate change and natural disasters, in ensuring food security to an increasing population, in protecting the health of European citizens, and the conservation of biodiversity in the EU and at the global level.

The European Journal of Taxonomy is a peer-reviewed international journal in descriptive taxonomy, covering the eukaryotic world. The content range from descriptions of new species to large inventories of different groups - so far more than 400 new species are described in EJT. Its content is fully electronic and Open Access. It is published and funded by a consortium of European natural history institutions. Neither authors nor readers have to pay fees.

The 100th issue of EJT, which was published 24 October 2014, comprises a beautifully illustrated monograph on African millipedes, adding 20 new species to our list of new taxa. Author is Professor Henrik Enghoff from The Natural History Museum of Denmark, University of Copenhagen.

No 100 (2014): A mountain of millipedes I: An endemic species-group of the genus Chaleponcus Attems, 1914, from the Udzungwa Mountains, Tanzania (Diplopoda, Spirostreptida, Odontopygidae). Henrik Enghoff

EJT normally is an e-only journal, but on this occasion the editorial team has decided to print a limited number of hard copies, to be distributed amongst the Natural History Institutions around the world.

Professor Henrik Enghoff represents EU BON partner UCPH.

The Royal Museum for Central Africa (RMCA) in Tervuren (Belgium) is part of the FishBase Consortium and responsible for the information on the fresh- and brackish water fishes of Africa. Through an agreement with the Belgian Development Cooperation and as part of the FishBase program, the RMCA has five grants available for a 3-month training program in the use of FishBase and the taxonomy of African fishes.

The training includes three subsets:

1. A detailed explanation of FishBase in all its aspects;
2. A training in the taxonomy of African fishes;
3. A case study based on data from FishBase or on taxa for which taxonomic problems have been encountered.

This course has been offered annually since 2005 and is held at the Royal Museum for Central Africa (Leuvensesteenweg 13, B-3080 Tervuren, Belgium). To apply for traineeship and for more information, please click HERE or HERE. Please note that for 2015, this course will be given in English only.

Questions? Contact Dimitri Geelhand de Merxem (dimitri.geelhand@africamuseum.be).

A recent paper by Duccio Rocchini et al. (2015) has been classified as the fourth hottest article in Ecological Informatics. The paper is part of the EU BON project, and discusses from a conceptual point of view, the potential of remote sensing in estimating biodiversity using various diversity indices, including alpha- and beta-diversity measurements. 

Abstract:

Many geospatial tools have been advocated in spatial ecology to estimate biodiversity and its changes over space and time. Such information is essential in designing effective strategies for biodiversity conservation and management. Remote sensing is one of the most powerful approaches to identify biodiversity hotspots and predict changes in species composition in reduced time and costs. This is because, with respect to field-based methods, it allows to derive complete spatial coverages of the Earth surface under study in a short period of time. Furthermore, remote sensing provides repeated coverages of field sites, thus making studies of temporal changes in biodiversity possible. In this paper we discuss, from a conceptual point of view, the potential of remote sensing in estimating biodiversity using various diversity indices, including alpha- and beta-diversity measurements.

Original source:

Rocchini D, Hernández Stefanoni JL, He, KS (2015) Advancing species diversity estimate by remotely sensed proxies: a conceptual review. Ecological Informatics, 25: 22-28. doi:10.1016/j.ecoinf.2014.10.006

EU BON and CETAF informatics groups had an astronomically successful meeting at Digitarium in Joensuu, Finland, 17-20 March 2015. The event coincided with solar eclipse and show of the decade for northern lights.

Major progress in data standards for information exchange took place during the week when the Biodiversity Information Standards TDWG organisation announced ratification of five new terms for quantitative biodiversity data, which had been proposed by the EU BON project one year earlier. The new terms include, in particular, organismQuantity and sampleSizeValue. This allows for exchange of ecological data in much wider scale than what has been possible until now. The participants of the meeting applauded for this occasion.

Northern lights over Joensuu Science Park 2015-03-18. Photo: Riitta Tegelberg

The meeting included a training workshop on new data sharing tools, and working sessions for designing the EU BON portal, which will allow using biodiversity observation data in research.

The 40 attendees came from 18 different countries.

Participants at the meeting.

During the meeting the attendees also were given presentations and demonstrations of Digitarium's equipment and methods for high-performance digitisation.

A new aticle published in Ecology Letters  looks into the indirect interactions among tropical tree species through shared rodent seed predators. The reasearch is part of the work of EU BON postdoc Carol X. Garzon-Lopez.

Abstract: The coexistence of numerous tree species in tropical forests is commonly explained by negative dependence of recruitment on the conspecific seed and tree density due to specialist natural enemies that attack seeds and seedlings (‘Janzen–Connell’ effects). Less known is whether guilds of shared seed predators can induce a negative dependence of recruitment on the density of different species of the same plant functional group. We studied 54 plots in tropical forest on Barro Colorado Island, Panama, with contrasting mature tree densities of three coexisting large seeded tree species with shared seed predators. Levels of seed predation were far better explained by incorporating seed densities of all three focal species than by conspecific seed density alone. Both positive and negative density dependencies were observed for different species combinations. Thus, indirect interactions via shared seed predators can either promote or reduce the coexistence of different plant functional groups in tropical forest.

Carol X. Garzon-Lopez et. al. (2015) Indirect interactions among tropical tree species through shared rodent seed predators: a novel mechanism of tree species coexistence. Ecology Letters. doi: 10.1111/ele.12452

XML markup of taxonomic research and specimen data is a valuable tool for structuring the incessantly accumulating biodiversity knowledge. It allows for the opportunity to collectively use the currently fragmented information for more detailed analysis.

A new research paper, published in theBiodiversity Data Journal, demonstrates how XML markup using GoldenGATE can address the challenges presented by unstructured legacy data, like those presented in the widely used PDF format. The paper demonstrates how structured primary biodiversity data can be extracted from such legacy sources and aggregated with and jointly queried with data from other Darwin Core-compatible sources, to present a visualization of these data that can communicate key information contained in biodiversity literature.

Specimen data in taxonomic literature are among the highest quality primary biodiversity data. Innovative cybertaxonomic journals such as the Biodiversity Data Journal are using workflows that preserve the data's structure and semantic specificity and disseminate electronic content to aggregators and other users that makes these data reusable.

Such structure however is lost in traditional taxonomic publishing and currently, access to that resource is cumbersome, especially for non-specialist data consumers.

The question is: how do you manage this vast distributed repository of knowledge about biodiversity to make it easily available reusable for future research?

To answer this challenge this project queried XML structured articles published in Biodiversity Data Journal along with historical taxonomic literature marked up using GoldenGATE, and represents the results as a series of standard charts. XML structured documents are maintained by the Swiss NGO Plazi and are freely available online.

In such form, data associated with specimens becomes much more valuable as it can reveal key information about a particular species, and even about the scientists who investigate them. Charts indicate at a glance, for example, what time of year and elevation range a species is likely to be found at, useful information if you want to search for it in the field.

Our accumulated biodiversity knowledge includes an estimated 2-3 billion specimens in natural history collections and 500 million pages of printed text. These are the data we need to answer questions that are relevant to our world today, like setting conservation priorities and anticipating the effects of climate change on biodiversity and ecosystem functions that affect the lives of people.

"In short, we have half a billion pages worth of biodiversity knowledge and are just learning how to query it. The real power comes when data from many articles are combined, queried, and reused for new purposes. Potential applications span the scientific, policy, and public spheres. When we all have better access to the information that already exists in the global corpus of biodiversity literature, this helps us do a better job of exploring what we don't know and wisely applying what we do." explains the lead author Dr Jeremy Miller, Naturalis Biodiversity Center.

###

This project was supported by pro-iBiosphere and EU BON, two FP-7 (European Union Seventh Framework Programme, 2007-2013) grants (No 312848 and 308454).

The  4th edition of the DEST course ‘BASICS of TAXONOMY’ will take place from 5 to16 October 2015 at the Sven Lovén Centre for Marine Sciences, Kristineberg, Sweden.

Taught by renowned experts in their field, the course topics are:

- DELTA
- Digital drawing
- Scientific illustration
- Scientific writing and communication
- Scratchpads, a tool to build, publish and share information on the web

Target audience: MSc students, PhD students, early career researchers

Thanks to funding of the Royal Swedish Academy of Sciences, this 2-weeks course is offered at a discounted rate of 550 EUR.

Fee includes accommodation and meals.                                                                                                                                          

More info: http://taxonomytraining.eu/content/basics-taxonomy-describing-illustrating-and-communicating-biodiversity

Sustainable governance of our biological resources demands reliable scientific knowledge to be accessible and applicable to the needs of society. To achieve this, the EU BON project aims to develop a European Biodiversity Observation Network that facilitates open access to biodiversity data of relevance to environmental policy, and to develop innovative platforms for sharing and conveying this information through visually effective and policy-relevant media.

As part of this endeavour, EU BON partners FishBase Information and Research Group (FIN), the Museum für Naturkunde Berlin (MfN), and the UNEP World Conservation Monitoring Centre collaborated to produce an infographic titled ‘Climate Change & Biodiversity: What may happen to bony fishes in the North Sea?’. This infographic explains the economic and ecological importance of bony fishes in the context of the North Sea. It also visualises potential changes to species diversity and composition over time, using habitat suitability and climate change predictions. These changes have been projected to 2100 based on modelled environmental conditions under the Intergovernmental Panel on Climate Change’s A2 emissions scenarios. The projections have direct policy relevance to Aichi Biodiversity Target 10 of the Convention on Biological Diversity, which seeks to understand trends in climatic impacts on community composition in ecosystems, and to thereby minimize these impacts.

The infographic was published on the 1^st June 2015 on page 26 of The Parliament Magazine’s ‘Green Week’ edition (Issue 413), which is distributed to all members of European Parliament, the European Commission, Presidency Office, Party political groups, and various other EU institutions, with over 50,000 readers worldwide. 

Looked down on with scepticism by many taxonomists, handling big data efficiently is a huge challenge that can only be met with thorough and multi-layered efforts from both scientists and technological developers. Projects like the Pan-European Species-directories Infrastructure (PESI), started in 2009, prove that harmonised taxonomic reference systems and high-quality data sets are possible through dynamic, expertly created and managed online tools. The methods, results and future prospects of PESI are available in the open access Biodiversity Data Journal.

With environmental changes occurring at an unprecedented rate around the world, biological communication needs to be left off the pace at no point. Phenomena such as species' migration, extinction, intrusion; ecosystem stability; decline of pollinators and pest invasion have to be monitored closely and identified momentarily. In order to do so, proper identification based on reliable and easily accessible data is crucial.

Therefore, the three key objectives of PESI include standardisation in taxonomic reference systems, enhancement of the quality and completeness of taxonomic data sets and creation of integrated access to taxonomic information. The five pillars of biological community networks, Zoology, Botany, Marine Biota, Mycology and Phycology, have been integrated in five infrastructural components: knowledge, consensus, standards, data and dissemination.

As a result, PESI did not only merge data from a range of sources and published a total of nearly 450,000 scientific names online. It also maintains networks of outstanding experts and national focal points, so that it makes sure that the taxonomic information, it relies on, is always at its finest, while simultaneously takes care about delivering persistent standards and easily accessible up-to-date biodiversity data.

PESI results will also feed as an essential part for the advancement of relevant EU projects, such as Building the European Biodiversity Observation Network (EU BON). In the EU BON project, the PESI Backbone will be advanced to satisfy the needs of the GEO BON / GEOSS system, also serving as a taxonomic backbone for the projected EU BON Biodiversity Portal.

Aiming at standardisation and integration of taxonomic data across platforms PESI also works in close collaboration with other relevant projects including GBIF, LifeWatch, the Catalogue of Life, the Encyclopedia of Life, the Global Names Architecture, GÉANT, ViBRANT, OpenUp!,BioVeL, iMarine , EU BON and BiodiversityKnowledge .

"Scientific names are key carriers of biodiversity information. Therefore, for the efficient exploring and integration of biodiversity data, the development of a functional taxonomic resolution system, including the establishment of a shared taxonomic standard (as a core component), is essential for all sorts of biodiversity assessments. PESI provides such an infrastructure for Europe, integrating the relevant technical (informatics) and social (knowledge & users) networks into a common work program, serving a wide community of biodiversity workers," says Dr. Yde de Jong, coordinator of the Pan-European Species-directories Infrastructure (PESI) project.

"The PESI Taxonomic Backbone serves as a taxonomic data standard resource, facilitating and optimising the integration and sharing of European biodiversity data, supporting a wide range of European services, major biodiversity programs and stakeholders on nature conservation and biodiversity management," conclude their results the scientists.

Original Source:

de Jong Y, et al. (2015) PESI - a taxonomic backbone for Europe. Biodiversity Data Journal 3: e5848.doi: 10.3897/BDJ.3.e5848

Additional Information:

The Pan-European Species-directories Infrastructure (PESI) provides standardised and authoritative taxonomic information by integrating and securing Europe's taxonomically authoritative species name registers and nomenclators (name databases) and associated expert(ise) networks that underpin the management of biodiversity in Europe. PESI kicked-off as an EC-FP7 project, running from 2009 to 2011.

PESI proceeded from the EC-FP6 Networks of Excellence EDIT, on developing a European Distributed Institute of Taxonomy, and MarBEF, on Marine Biodiversity and Ecosystem Functioning.

Building the European Biodiversity Observation Network (EU BON) is a European research project, financed by the 7th EU framework programme for research and development (FP7). EU BON seeks ways to better integrate biodiversity information and implement into policy and decision-making of biodiversity monitoring and management in the EU.

The Royal Museum for Central Africa (RMCA) in Tervuren (Belgium) is part of the FishBase Consortium and responsible for the information on the fresh- and brackish water fishes of Africa in the FishBase database. Through an agreement with the Belgian Development Cooperation and as part of the FishBase program, the RMCA has five (5) grants available for a 3-month training program in the use of FishBase and the taxonomy of African fishes.

The training will have three subsets:

1. A detailed explanation of FishBase in all its aspects;
2. A training in the taxonomy of African fishes;
3. A case study based on data from FishBase or on taxa for which taxonomic problems have been encountered.

This course has been offered annually since 2005 and is held at the Royal Museum for Central Africa (Leuvensesteenweg 13, B-3080 Tervuren, Belgium). For more information and to apply for this three-month training grant, see: http://fishbase.africamuseum.be or www.fishbaseforafrica.org. Please note that for 2016, this course will be given in French only.

Questions? Contact Dimitri Geelhand de Merxem (dimitri.geelhand@africamuseum.be).

Substantial amount of documented occurrence records is awaiting publication stored in repositories and data indexing platforms, such as the Global Biodiversity Information Facility (GBIF), Barcode of Life Data Systems (BOLD Systems), or Integrated Digitized Biocollections (iDigBio). In order to streamline the authoring process, save taxonomists time, and provide a workflow for peer-review and quality checks, Pensoft has introduced an innovative feature that makes it possible to easily import occurrence records into a taxonomic manuscript.

Prior to this development, Pensoft's ARPHA Writing Tool (AWT) only used the "upload from Excel" approach for this workflow. Although this method significantly simplified the process of importing materials and is actively used by the authors, it still required one extra transposition step.

Now, we added a new even more user-friendly option. By simply specifying an identifier (ID) in the relevant box, the new import plugin allows for occurrence data, stored at GBIF, BOLD systems, or iDigBio, to be be directly inserted into the manuscript. It all happens in the user-friendly environment of the AWT, where the imported data can be then edited before submission to the Biodiversity Data Journal.

Not having to retype or copy/paste species occurrence records, the authors save a lot of efforts. Moreover, they automatically import them in a structured Darwin Core format, which can be easily downloaded from the article text into structured data by anyone who needs the data for reuse after publication.

Another important aspect of the workflow is that it will serve as a platform for peer-review, publication and curation of raw data, that is of unpublished individual data records coming from collections or observations stored at GBIF, BOLD and iDigBio.

The work has been partially supported by the EC-FP7 EU BON project (ENV 308454, Building the European Biodiversity Observation Network) and the ITN Horizon 2020 project BIG4(Biosystematics, informatics and genomics of the big 4 insect groups: training tomorrow's researchers and entrepreneurs), under Marie Sklodovska-Curie grant agreement No. 542241.

The European Commission has recently released publication focused on Earth Observation Research and EU BON is one of the successful projects featured in it. 

The publication titled "Investing in European success – A Decade of Success in Earth Observation Research and Innovation" looks at the benefits that Earth Observation brings to studying and protecting the environment.

The Earth’s atmosphere, oceans and landscapes are changing rapidly, with human activities being a major driver. Monitoring and modelling these changes are critical because they allow governments, society and the private sector to make informed decisions about climate, energy, food security, natural hazards, health and other societal challenges. To be effective, these responses must be grounded in comprehensive and timely information. More importantly, decision makers, managers and experts must have access to the information they need, when they need it and in a format which can be easily utilised.

To address this challenge, the intergovernmental Group on Earth Observations (GEO) has provided a voluntary framework since 2005 where 98 governments, the European Commission and 87 international organisations develop new projects and coordinate their strategies and investments in the field of Earth observation. The vision of GEO is to realise a future wherein decisions and actions for the benefit of humankind are informed by coordinated, comprehensive and sustained Earth observations and information. GEO’s main objective is to develop and implement the Global Earth Observation System of Systems (GEOSS). 

EU BON is an attempt to overcome these problems at European level and to contribute to the Group on Earth Observations’ (GEO) global initiative with the same aims – GEO BON.

Find the full publication here, EU BON can be found featured on pages 26 - 27.

The new GEO BON bi-annual report is now published. It provides an overview of the activities developed by our network over the last two years. It starts with a brief presentation of the GEO BON mission and structure.

It also presents the two core activities of GEO BON: the development of the Essential Biodiversity Variables framework and of the Bon-in-a-Box toolkit. The different national, regional and thematic biodiversity observation networks associated with GEO BON are presented. The report highlights the most important activities from each of the nine working groups of GEO BON, where experts around the world work around specific biodiversity monitoring topics. 

For more information, download the report here.

October 2015 updates for both FishBase (www.fishbase.org) and SeaLifeBase (www.sealifebase.org) are now online!

The Distributed European School of Taxonomy (DEST), an initiative under the CETAF umbrella and managed by RBINS, has launched its training programme for 2015-2016.  

Check out the Expert-in-training programme enabling trainees to develop and strengthen their taxonomic research skills through on-the-job-training and the Modern Taxonomy programme offering intensive theoretical courses in various subjects.

The Distributed European School of Taxonomy (DEST) was established within the framework of the EU funded project  European Distributed Institute of Taxonomy (EDIT) and under the umbrella of the Consortium of European Taxonomic Facilities (CETAF). The EDIT consortium agreement lasted from March 2006 until March 2011. Since then, the Royal Belgian Institute of Natural Sciences (RBINS) remains responsible for the continued management of DEST, organization of courses and related logistical matters. The DEST currently includes a network of around 100 training providers from 60 institutions.

A new article published in the Journal of Marine Science and Engineering looks at how Aphia, the core platform that underpins the World Register of Marine Species (WoRMS),  can Serve the taxonomic community and the field of biodiversity informatics.

Abstract

The Aphia platform is an infrastructure designed to capture taxonomic and related data and information, and includes an online editing environment. The latter allows easy access to experts so they can update the content of the database in a timely fashion. Aphia is the core platform that underpins the World Register of Marine Species (WoRMS) and its more than 80 related global, regional and thematic species databases, but it also allows the storage of non-marine data. The content of Aphia can be consulted online, either by individual users or via machine-to-machine interactions. Aphia uses unique and stable identifiers for each available name in the database through the use of Life Science Identifiers (LSIDs). The system not only allows the storage of accepted and unaccepted names, but it also documents the relationships between names. This makes it a very powerful tool for taxonomic quality control, and also allows the linking of different pieces of information through scientific names, both within the Aphia platform and in relation to externally hosted databases. Through these LSIDs, Aphia has become an important player in the field of (marine) biodiversity informatics, allowing interactions between its own taxonomic data and e.g., biogeographic databases. Some applications in the field of biodiversity informatics encompass the coupling of species traits and taxonomy, as well as the creation of diverse, expert validated data products that can be used by policy makers, for example. Aphia also supplies (part of) its content to other data integrators and the infrastructure can be used to host orphan databases in danger of being lost.

Original Source: http://www.mdpi.com/2077-1312/3/4/1448/htm

A recently completed benchmark survey of common plants provides a comprehensive dataset of vascular plant diversity and abundance in South Northumberland and Durham, contributing an additional 35,000 observations to the 200,000 observations collected by local recorders since the turn of the millennium.

Apart from contributing an updated inventory of vascular plant diversity, the survey is intended to be used as a reference point with which to identify change in the countryside and study the drivers of biodiversity change in the North-east of England.

Changes in the abundance of rare species have little impact on other species, but change in the abundance of common species can have cascading effects on whole ecosystems. The new survey provides a solid foundation that can be used to qualify the abundance of common species and compare against previous and future studies.

The distribution of heather predicted from the common plant survey data. This is one of the region's most characteristic species and one that many other organisms rely upon for food and cover.

The survey was part of the North-East Common Plants Survey Project, conducted over four years and required volunteers to go to various places. Some surveyed post-industrial brown-field sites, while others walked for miles across bleak moorland to reach sites high in the hills. Although these moors are arguably wilder and natural, the industrial wastelands turn out to be far more biodiverse.

Botanical surveying continues in the region despite the end of the project. Volunteers continue to monitor rare plants in the region and are currently working towards the next atlas of Britain and Ireland, coordinated by the Botanical Society of Britain and Ireland.

This survey is also among the first one to make use of the Integrated Publishing Toolkit (IPT) functionality, jointly developed by EU BON and GBIF, that allows the easy export and exposure of datasets to maximize their discoverability and reuse. The survey was published in the Biodiversity Data Journal, providing easy and streamlined publication of GBIF data via a variety of newly introduced plugins.

Original Source:

Groom Q, Durkin J, O'Reilly J, Mclay A, Richards A, Angel J, Horsley A, Rogers M, Young G (2015) A benchmark survey of the common plants of South Northumberland and Durham, United Kingdom. Biodiversity Data Journal 3: e7318. doi: 10.3897/BDJ.3.e7318

Engagement with relevant political authorities and other stakeholders is of crucial importance for a research project, making sure its objectives are in tune with the real-world problems and its results provide adapted solutions. Now EU BON shares the outcomes, lessons learned and conclusions from a series of three roundtable meetings designed to identify stakeholder needs and promote collaboration between science and policy.

The collection of EU BON stakeholder roundtable reports provides a summarized overview of shared experiences gained in the three different workshops that were organized from 2013-2016. With more than 100 participants from over 20 countries altogether, the roundtable reports provide insights and exchange of ideas on highly relevant issues concerning policy, citizen science and local/regional stakeholders and its networks.

Simplified workflow from data mobilization via processing to stakeholders from the practice; Credit: Vohland et al.

The roundtables seek to build up a stakeholder dialogue with exemplary sector-specific user communities to incorporate feedback loops for the products of EU BON, as well as to develop improvements of existing biodiversity data workflows. Being published via the innovative Research Ideas & Outcomes (RIO) journal conclusions, derived knowledge and results are now made available for other projects and the wider community to ensure their re-use.

The three roundtable papers report on conclusion on highly relevant issues related to biodiversity information and its open-access and availability, data workflows and integration of citizen science as well as science-policy interfaces.

"In each of the three detailed reports of the roundtables we outline its aims, intentions, as well as results and recommendations, that were drafted based on the roundtable discussions, world café sessions and working groups. Such project results are now published for the first time in the new series of EU BON results, featured in RIO, providing a unique new medium to share experiences, outcomes and conclusions," comments Dr. Katrin Vohland, Museum für Naturkunde, Berlin.

"The three reports were published as workshop report provided by the Research Ideas & Outcomes (RIO) journal. This allows readers to publish, distribute and computationally analyse myriads of workshop reports that otherwise often get forgotten or just lost," comments Prof. Lyubomir Penev, co-founder and publisher of RIO.

Original Sources:

Rationale of the roundtables

Wetzel F, Hoffmann A, Häuser C, Vohland K (2016) 1st EU BON Stakeholder Roundtable (Brussels, Belgium): Biodiversity and Requirements for Policy. Research Ideas and Outcomes 2: e8600. doi: 10.3897/rio.2.e8600

Vohland K, Häuser C, Regan E, Hoffmann A, Wetzel F (2016) 2nd EU BON Stakeholder Roundtable (Berlin, Germany): How can a European biodiversity network support citizen science? Research Ideas and Outcomes 2: e8616. doi: 10.3897/rio.2.e8616

Vohland K, Hoffmann A, Underwood E, Weatherdon L, Bonet F, Häuser C, Wetzel F (2016) 3rd EU BON Stakeholder Roundtable (Granada, Spain): Biodiversity data workflow from data mobilization to practice. Research Ideas and Outcomes 2: e8622. doi: 10.3897/rio.2.e8622

General synthesis and lessons learnt from the three EU BON stakeholder roundtables

EU BON partner DataONE welcomes the Program for Research on Biodiversity (PPBio) Western Amazon as its first Member Node in South America. PPBio’s Western Amazon Node data repository contains data from surveys conducted in the framework of the Research Program in Biodiversity, the Center for Integrated Studies of Biodiversity in the Amazon and partner projects.

About PPBio:

The Research Program in Biodiversity (PPBio) is structured into three components:

• Biological Collections - support and development of biological collections such as herbaria, museums and living collections;
• Biological Inventories - biodiversity surveys, collecting sites, metadata and data for long-term studies;
• Thematic Projects - developing methods for sustainable management of biodiversity and bioprospecting.

PPBio’s research is based on spatial standardization that is crucial for answering the questions raised by decision makers, the integration of biodiversity and physical sciences and on the incorporation of local people and traditional knowledge in biodiversity research and bio-prospecting. PPBio uses a flexible, standardized, modular and economical sampling method, RAPELD, which is compatible with other existing methods and a data policy which enable their datasets to be quickly made available to other researchers. PPBio has produced several free online guides to the flora and fauna of the region and the book "Biodiversity and Integrated Environmental Monitoring" which is essential reading for anyone with questions about biodiversity whether or they also intend to collect data.

A new research paper Linking Earth Observation and taxonomic, structural and functional biodiversity: Local to ecosystem perspectives published in the journal Ecological Indicators looks at the ways in which earth observation (EO) techniques may provide a solution to overcome shortcomings in biodiversity monitoring by measuring entities of interest at different spatial and temporal scales. 

Abstract: 

Impacts of human civilization on ecosystems threaten global biodiversity. In a changing environment, traditional in situ approaches to biodiversity monitoring have made significant steps forward to quantify and evaluate BD at many scales but still, these methods are limited to comparatively small areas. Earth observation (EO) techniques may provide a solution to overcome this shortcoming by measuring entities of interest at different spatial and temporal scales.

This paper provides a comprehensive overview of the role of EO to detect, describe, explain, predict and assess biodiversity. Here, we focus on three main aspects related to biodiversity taxonomic diversity, functional diversity and structural diversity, which integrate different levels of organization molecular, genetic, individual, species, populations, communities, biomes, ecosystems and landscapes. In particular, we discuss the recording of taxonomic elements of biodiversity through the identification of animal and plant species. We highlight the importance of the spectral traits (ST) and spectral trait variations (STV) concept for EO-based biodiversity research.

Furthermore we provide examples of spectral traits/spectral trait variations used in EO applications for quantifying taxonomic diversity, functional diversity andstructural diversity. We discuss the use of EO to monitor biodiversity and habitat quality using differ-ent remote-sensing techniques. Finally, we suggest specifically important steps for a better integrationof EO in biodiversity research.EO methods represent an affordable, repeatable and comparable method for measuring, describing,explaining and modelling taxonomic, functional and structural diversity. Upcoming sensor developmentswill provide opportunities to quantify spectral traits, currently not detectable with EO, and will surelyhelp to describe biodiversity in more detail. Therefore, new concepts are needed to tightly integrate EOsensor networks with the identification of biodiversity. This will mean taking completely new directionsin the future to link complex, large data, different approaches and models.

Original reseach:

A. Lausch, L. Bannehr, M. Beckmann, C. Boehm, H. Feilhauer, J.M. Hacker, M. Heurich, A. Jung, R. Klenke, C. Neumann, M. Pause, D. Rocchini, M.E. Schaepman, S. Schmidtlein, K. Schulz, P. Selsam, J. Settele, A.K. Skidmore, A.F. Cord, Linking Earth Observation and taxonomic, structural and functional biodiversity: Local to ecosystem perspectives, Ecological Indicators, Volume 70, November 2016, Pages 317-339, ISSN 1470-160X, http://dx.doi.org/10.1016/j.ecolind.2016.06.022

Being voluntary, citizen science work is often automatically assumed to also be openly available. Contrary to the expectations, however, a recent study of the datasets available from volunteers on the Global Biodiversity Information Facility (GBIF) prove to be among the most restrictive in how they can be used.

There is a high demand for biodiversity observation data to inform conservation and environmental policy, and citizen scientists generate the vast majority of terrestrial biodiversity observations. The analysis on GBIF showed that citizen science datasets comprise 10% of datasets on GBIF, but actually account for the impressive 60% of all observations.

Invaluable as a resource for conservationists and biodiversity scientists, however, these resources unfortunately often come with restrictions for re-use. Although the vast majority of citizen science datasets did not include a license statement, as a whole, they ranked low on the openness of their data.

The assumption that voluntary data collection leads to data sharing is not only not reflecting the real situation, but also does not recognize the wishes and motivations of those who collect data, nor does it respects the crucial contributions of these data to long-term monitoring of biodiversity trends.

In a recent commentary paper, published in the Journal of Applied Ecology, EU BON partners suggest ways to improve data openness. According to the researchers citizen scientists should be recognised in ways that correspond with their motivations, in addition its is advisable that organisations that manage these data should make their data sharing policies open and explicit.

Original Research:

Groom, Q., Weatherdon, L. & Geijzendorffer, I. (2016) Is citizen science an open science in the case of biodiversity observations? Journal of Applied Ecology. DOI: 10.1111/1365-2664.12767

Taking place from 14 to 16 March 2017, the Final EU BON Meeting served as a platform to present key outputs from the FP7 EU-funded project EU BON " Building the European Biodiversity Observation Network" which aims to advance biodiversity knowledge by building a European gateway for biodiversity information and by integrating and harmonising a wide range of biodiversity data.

Hosted by the Royal Belgian Institute of Natural Sciences in Brussels and at the stunning backdrop of Botanic Garden in Meise, EU BON partners met with stakeholders from research, European policy and citizen science to learn about the project's results and outputs and to discuss the future of a European Biodiversity Observation Network.

Credit: Donat Agosti

EU BON represents a joint effort of 31 partners from 15 European countries, Israel, the Philippines, Brazil and more than 30 associated partners. The project worked on the establishment and adoption of new data standards, the development of tools, the integration of advanced techniques for data analysis and the development of new approaches and strategies for future biodiversity monitoring and assessment.

Group Photo; Credit: D. Schmeller

At the Final Meeting participants had the opportunity to learn about and test products and services developed by project members during the period 2012-2017. These include a range of tools for data analysis, such as GeoCAT -- a tool that performs rapid geospatial analysis to ease the process of Red Listing taxa and AquaMaps -- a toolkit that models the distribution and makes predictions of where aquatic species occur naturally. Another group of tools -- the GBIF Integrated Toolkit and ARPHA-BioDiv facilitates the process of data sharing, integration and publishing.

Among the services presented, worthy of special mention is the EU BON Unified Taxonomic Information Service (UTIS) that allows the running of a federated search on multiple European taxonomic checklists by scientific name or vernacular name strings. These include the Pan-European Species directories Infrastructure (EU-Nomen), the European Nature Information System (EUNIS), the Catalogue of Life, the World Register of Marine Species (WoRMS), the GBIF Checklist Bank and the Plazi Treatment Bank.

All these web applications are bound together under the umbrella of the EU BON European Biodiversity Portal, with highly relevant contributions to the aims of the Group on Earth Observation's Biodiversity Observation Network (GEO BON). Besides applied tools and software, the portal also serves as an online library for manuals, guidelines, factsheets, case studies, policy recommendations and other documents.

Learn more about these tools in our Final Brochure.

For live updates, follow EU BON on Twitter, or like us on Facebook. See the live Tweet feed from the meeting at #eubongm.

The 11th European Projects GEO Workshop took place between 19-21 June 2017, in Helsinki, Finland, bringing together European stakeholders interested in and actively contributing to the Global Earth Observations System of Systems (GEOSS).

Alongside the plenary (see presentations here), the conference featured 20 sessions looking at various aspects GEOSS, its objectives and their implementation.

Among those EU BON took part in a dedicated session titled ‘How Ecosystem and Biodiversity data and knowledge can support the GEO objectives’, alongside fellow projects and initiatives, and associated partners ECOPOTENTIAL, LTER-Europe, GLOBIS-B, EKLIPSE and ENEON.

Credit: F. Wetzel

The session aimed to inform about recent developments of relevant projects that focus on Ecosystems and Biodiversity and also outline how the generated data and knowledge can support the GEO objectives and inform relevant policies on a European and global scale.  

.@ft_wetzel explaining the @EUBON1 approach to mobilising linked and standardised data #EGW2017 #citizenscience #harmonisation #biodiversity pic.twitter.com/jJJ5jADAzG

— Scent (@SCENT_EU) June 20, 2017

EU BON, as a now completed project, opened the session by presenting its major products in particular the European Biodiversity Portal and how current and future projects can build on the outcomes achieved.

Overall, the session gave the opportunity to learn about the different approaches of selected EU-projects that address the mobilization, integration and analysis of biodiversity and ecosystem data, their current achievements and existing barriers. Here are some of the Key Messages that emerged from the session: 

• For biodiversity and ecosystem approaches, European level efforts are needed to achieve comprehensive data coverage and full open access, especially for in situ data integration.
• Existing European-level data portals and information platforms need to be sustained and considered as integration points for national and local data hubs. 
• Systematic approaches for biodiversity are needed, which means linking biotic and abiotic data and improving harmonization efforts for the whole data cycle/ workflows from data collection, analysis and dissemination for different disciplines (SBAs). 
• Essential (Biodiversity) Variables (EBVs) are a key concept / framework especially for monitoring / long-term observations that should be applied for all available biodiversity/ecosystem data fields.
• Use examples from existing projects and networks as successful blueprints for bottom-up/user-driven approaches in GEOSS that relate to knowledge and user needs at the local scale. 

A new EU BON derived paper looks at the dynamics of science - policy dialogue, offering tips for improving the uptake of scientific knowledge.

Scientific knowledge is considered to be an important factor (alongside others) in environmental policy-making. However, the opportunity for environmentalists to influence policy can often occur within short, discrete time windows. Therefore, a piece of research may have a negligible or transformative policy influence depending on when it is presented.

These ‘policy windows’ are sometimes predictable, such as those dealing with conventions or legislation with a defined renewal period, but are often hard to anticipate. We describe four ways that environmentalists can respond to policy windows and increase the likelihood of knowledge uptake: 1) foresee (and create) emergent windows, 2) respond quickly to opening windows, 3) frame research in line with appropriate windows, and 4) persevere in closed windows. These categories are closely linked; efforts to enhance the incorporation of scientific knowledge into policy need to harness mechanisms within each.

In their new reseach the authors illustrate the main points with reference to nature conservation, but the principles are widely applicable. The open access paper is available here: http://www.sciencedirect.com/science/article/pii/S1462901117302095

Read also the article published on it by the British Ecological Society: http://www.britishecologicalsociety.org/windows-opportunity-influence-policy-four-tips-improve-uptake-scientific-knowledge/

The annual meeting of the European GBIF Nodes will be organised by GBIF Finland in Joensuu 6-8 March 2013.
The meeting is by invitation only, and available for staff of the GBIF Members in Europe. In addition, any EU-funded biodiversity research projects are welcome to attend as observers. 
Event web page: European GBIF Nodes Meeting 2013

Ecology and Economy for a Sustainable Society
This year’s Trondheim Conference on Biodiversity has been organized to be held from May 27 until May 31, 2013 in Trondheim, Norway.  The conference will go under the "Ecology and Economy for a Sustainable Society" slogan and will be aimed at exploring how to cut development pathways towards a sustainable society by aligning policy, business, economy and ecology across borders, scales and systems.
Since the first Trondheim Conference held in 1993, the world population has grown by 25 %, the total GDP by 75 % and world trade has tripled. Despite positive achievements, loss of biodiversity along with global warming is undermining human wellbeing, especially that of the poor and vulnerable. Those issues and finding suitable solution will be on the main agenda of the 2013 Trondheim Conference.

Participation and registration
Participation in the conference is by invitation only. Each country has been invited to send two experts, one from each field of biodiversity and economy/planning. Invitees may register for the conference on the Participation and registration page.

The Open Knowledge Foundation is pleased to announce that the 2013 Open Knowledge Conference (OKCon) will take place in Geneva, Switzerland on 17th-18th September.
The world’s leading open data and open knowledge event, OKCon is the latest in an annual series run since 2005. Last year’s installment in Helsinki had more than 1000 participants from over 50 countries and was the largest event of its kind to date.
Find out more about the conference here.
Registration and tickets are already available here.