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The EU BON project is pleased to announce the International Symposium "Nature and Governance – Biodiversity Data, Science, and the Policy Interface", which was held in Berlin from 11 to 12 February. The symposium aimed at clarifying and popularizing EU BON's objectives prior to the official EU BON Kick-off Meeting held from 13 to 15 February 2013.

The symposium was hosted by the Museum für Naturkunde Berlin and brought together high-ranking speakers and guests from across the world to talk and discuss the different aspects of the EU BON Project. Among the main issues covered was the future of biodiversity information, the challenges in front of new data policies, new approaches in collecting information, and ways to engage the public in biodiversity monitoring and assessments.

The EU BON project was started on 1 December, 2012, and will continue for 4.5 years. The aim of EU BON is to build a substantial part and contribute to the Group on Earth Observation's Biodiversity Observation Network (GEO BON), through an innovative approach of integration of biodiversity information systems. The project, built as an answer to the need of a new integrated biodiversity data, will facilitate access to this knowledge and will effectively improve the work in the field of biodiversity observation in general.

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For more information on the symposium and the events planned, please visit our programme page.

All interested parties are most welcome to attend the symposium or to follow it on Twitter, Facebook, or Google+.

Additional information

EU BON (2012) stands for "Building the European Biodiversity Observation Network" and 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.

GEO BON stands for "Group on Earth Observations Biodiversity Observation Network". It coordinates activities relating to the Societal Benefit Area (SBA) on Biodiversity of the Global Earth Observation System of Systems (GEOSS). Some 100 governmental, inter-governmental and non-governmental organisations are collaborating through GEO BON to organise and improve terrestrial, freshwater and marine biodiversity observations globally and make their biodiversity data, information and forecasts more readily accessible to policymakers, managers, experts and other users. Moreover, GEO BON has been recognized by the Parties to the Convention on Biological Diversity. More information at: http://www.earthobservations.org/geobon.shtml.

The news about the International Symposium "Nature and Governance – Biodiversity Data, Science, and the Policy Interface" and the official EU BON Kickoff Meeting has been reflected in the January newsletter of the The Global Biodiversity Information Facility (GBIF).

GBIF only features high end biodiversity news and major projects. EU BON project summary is placed in the collaborations section of the newsletter and the two events are included in the Upcoming Events, pointed out to the readers' attention.

To view the GBIF newsletter for January, please go to: http://www.gbif.org/communications/resources/newsletters/, or see the newsletter PDF attached below.

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

Join the online community of EU BON and create buzz around the project. Take full advantage of our social network channels to interact with stakeholders and contribute to the EU BON discussion. Get an easy access and the latest updates on news and events around the project. You are a click away from making a difference to the project’s visibility.

Like, follow or join EU BON Social Media and get involved in the community now!

A new article "A decadal view of biodiversity informatics: challenges and priorities"  published by BMC Ecology focuses on the challenges and perspectives for biodiversity informatics after a decade of development. The authors Alex Hardisty and Dave Roberts alongside 77 contributions from the biodiversity informatics community share experience and set future directions of biodiversity informatics as a tool for addressing conservation and ecological issues.

Biodiversity informatics plays a central enabling role in the research community's efforts to address scientific conservation and sustainability issues. This community consultation paper positions the role of biodiversity informatics, for the next decade, presenting the actions needed to link the various biodiversity infrastructures invisibly and to facilitate understanding that can support both business and policy-makers. The community considers the goal in biodiversity informatics to be full integration of the biodiversity research community, including citizens’ science, through a commonly-shared, sustainable e-infrastructure across all sub-disciplines that reliably serves science and society alike.

The full text of the article can be accessed here.

November 19-22, 2013 Alexander Technological Educational Institute of Thessaloniki, Greece

Continuing the successful mission of previous MTSR Conferences (MTSR'05, MTSR'07, MTSR'09, MTSR'10, MTSR'11 and MTSR’12), the seventh International Conference on Metadata and Semantics Research (MTSR'13) aims to bring together scholars and practitioners that share a common interest in the interdisciplinary field of metadata, linked data and ontologies. Participants will share novel knowledge and best practice in the implementation of these semantic technologies across diverse types of Information Environments and applications. These include Cultural Informatics; Open Access Repositories & Digital Libraries; E-learning applications; Search Engine Optimisation & Information Retrieval; Research Information Systems and Infrastructures; e-Science and e-Social Science applications; Agriculture, Food and Environment; Bio-Health & Medical Information Systems.

Research in Nature Climate Change uses data on 50,000 common plants and animals to predict worldwide range losses without urgent action to limit emissions

Climate change could dramatically reduce the geographic ranges of thousands of common plant and animal species during this century, according to research using data made freely available online through GBIF.
The information on the current location of common species of plants, mammals, birds, reptiles and amphibians was taken from around 170 million individual data records published freely online through GBIF by some 200 different institutions around the world. The records include museum specimens, data from scientific expeditions and the observations of thousands of volunteer ‘citizen scientists’.
One of the co-authors of the study, Jeff Price of the University of East Anglia’s School of Environmental Sciences, United Kingdom, said: "Without free and open access to massive amounts of data such as those made available online through GBIF, no individual researcher is able to contact every country, every museum, every scientist holding the data and pull it all together. So this research would not be possible without GBIF and its global community of researchers and volunteers who make their data freely available."
The lead author of the study, Dr Rachel Warren, also from UEA’s School of Environmental Sciences and the Tyndall Centre, said: "While there has been much research on the effect of climate change on rare and endangered species, little has been known about how an increase in global temperature will affect more common species."Our research predicts that climate change will greatly reduce the diversity of even very common species found in most parts of the world. This loss of global-scale biodiversity would significantly impoverish the biosphere and the ecosystem services it provides. The good news is that our research provides crucial new evidence of how swift action to reduce CO2 and other greenhouse gases can prevent the biodiversity loss by reducing the amount of global warming to 2 degrees Celsius rather than 4 degrees. This would also buy time – up to four decades - for plants and animals to adapt to the remaining 2 degrees of climate change."

The first Informatics Workshop of the EU-FP7 funded project EU BON was held on 29-31 May 2013 in Trondheim, Norway. The meeting was hosted by the EU BON partner Norwegian Biodiversity Information Centre (NBIC). The aims were to highlight the link to infrastructures and processes like GEOSS or DataONE and to discuss the data standards and informatics architecture that will be followed by the EU BON project.

During the three-days of the workshop, the participants of the meeting discussed the important aspects regarding the informatics architecture and decided on the next steps to develop a new open-access platform for sharing biodiversity data and tools in order to advance the European biodiversity knowledge.  On the first day, the aim was to highlight the link of EU BON with GEOSS, GEO BON and other processes like DataONE to find synergies and to build on work that was conducted in these processes. On the second day, detailed discussion on the specific tasks of the workgroup took place. The afternoon session was split into 3 different tracks where issues like architectural design, review and guidelines for using data standards, the design of monitoring sites and the gap analysis of existing biodiversity data were analyzed and discussed.

It was agreed that a new platform is needed which should be built on existing solutions. Thus, the platform will use the technical solutions of the DataONE network that will be adjusted to the specific needs of the EU BON project. EU BON Partners will implement DataONE Member Nodes to start the process and a DataOne coordinating node may be established towards 2015. Furthermore, it was also decided to join and support the GEO BON Working Group pilot project on automating the data flows for the Essential Biodiversity Variables.

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.

The Brazilian initiative PPBio (The Program for Research on Biodiversity) launches a new book based on over a decade of experience in implementing the biodiversity monitoring system RAPELD in the Brazilian Amazon. Richly illustrated and written in simple language, the book "Biodiversity and Integrated Environmental Monitoring" addresses the issues that led to the system development, covering topics such as the spatial organization and representation of biological diversity, environmental monitoring, and data management.

Monitoring of biodiversity is not merely an academic endeavor. Although scientific aspects such as representation of biodiversity and biodiversity data integration, management and preservation are of a great importance, it is also essential to think about the political context in which decisions will be made and how to incorporate political stakeholders and decision makers.

"As this important book makes clear questions about biodiversity are far from purely scientific. Biodiversity matters. Our needs to assess it embed in a complex of questions posed by managers, policy makers and those who live in or otherwise benefit from biodiversity.",  explains Dr Stuart L. Pimm in the preface of the book. "So how do we ensure that data collected now will be useful for purposes we cannot yet imagine at some unexpected time in the future? Or provide comparison to some other place that we might survey some day?"

Those and many more questions regarding biodiversity data management and policy involvement are discussed in the new book "Biodiversity and Integrated Environmental Monitoring".

In this guest post Martin Sharman opens up a rich area of debate by arguing that as a policy concept, ecosystem services puts human wants first and foremost and undermines moral-aesthetic value arguments for conservation that are widely held in society. Martin was the policy offer responsible for biodiversity and ecosystems in the European Commission’s DG Research & Innovation up until his retirement last November. During his career he made an enormous contribution to biodiversity research and policy, including the initiation of the BioFresh project. The opinions expressed in this post are, of course, his own and are not intended to represent a position of either the Commission or BioFresh.

A "resource" is something that is useful to someone. A "natural resource" is something in the natural environment that a human can use to satisfy want or increase wellbeing.

To adopt this vocabulary is to adopt a forthright utilitarian view of the natural environment, and implicitly to accept that human benefit is the only good. Not only is human benefit the only good, but it is quantifiable – for if not, then we can never agree on what constitutes a resource, or who has the greater right to it. Thus someone who speaks of natural resources accepts, again implicitly, that happiness and wellbeing can be quantified. The vocabulary also requires that this quantified human benefit remains, if not constant, then comparable over cultures and generations.

More than this: the wellbeing of the "resource" is insignificant. It is only by setting concern for the wellbeing of the resource to zero that one can regard it as merely something to satisfy human want. Human benefit is the only good. This is the First Commandment; in the limpid words of the King James version of the bible, thou shalt have no other gods before me.

In this observation lies much of the moral argument against the concept of ecosystem services: just as oranges are not the only fruit, so humans are not the only species.

The concept of ecosystem services is one thing; the premise of its proponents is another. It is, in short, that conservation based on intrinsic value of biodiversity has failed to stop the loss of species, ecosystems, and the complex web of interactions between them. Since an ethical argument has failed, then we should try self-interest. By demonstrating that human wellbeing is increased by the services rendered by ecosystems, we can motivate people to protect the source of the service – biodiversity.

We know that conservation is not working because we continue to lose biodiversity. Oh yeah? This is the equivalent of me deciding that my accelerator is not working because my car is losing speed. Why is such a daft non-sequitur accepted by otherwise intelligent people? You immediately thought of many reasons my car might be losing speed – I have the brakes on, I’m going up a hill, I’ve run out of fuel, I’ve run into sand, I’ve hit an oncoming truck. The obvious reason that we are losing biodiversity is the memento mori that stares at us from our looking glass – biodiversity loss is the inevitable result of our debt-based economic system and our swelling population’s unsustainable demands on nature. We all know that. Why do we mutely accept the dangerously diversionary nonsense that "biodiversity is being lost because conservation is not working"?

Ecosystem services takes the utilitarian logic of natural resources one important step further. A "service" by definition benefits humans. If we are to protect services only if they benefit humans, then what happens to the useless ecosystems? Are they simply to be cemented over?

I recently heard a discussion in which one person said "most people are useless", meaning that they are surplus to requirement. The outrage that this provoked was spearheaded by someone saying that you can never prove that anyone is useless, because you can never know enough about their contribution to their social fabric. So does this mean that you can never show that an ecosystem is useless? If so that leaves the ecosystem services argument saying that because some ecosystems benefit humans, we have to protect every ecosystem.

Which may be the right answer, but why reach it by such objectionable means?

For those of us with a reverence of nature, the ecosystem services rhetoric and mindset are abhorrent, being fundamentally immoral and unethical. They take the most ecologically damaging invasive species in the history of life, and place it above all other species on Earth. They cast all other – voiceless – species in the role of consumables. This mindset might have worked for Homo habilis. It will not work for Homo sapiens.

Martin Sharman  for the BioFresh Blog: http://biofreshblog.com/2013/07/03/perspective-martin-sharman-on-ethics-and-the-ecosystem-services-paradigm/

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.

In 2013, the University of Potsdam will host the 43rd Annual Meeting of the Ecological Society of Germany, Austria and Switzerland. The meeting (www.gfoe-2013.de) will take place from September 9 to 13, 2013 in Potsdam, Germany.

The guiding theme of the 43rd Annual Meeting is "Building bridges in ecology - linking systems, scales and disciplines".
Along the lines of this guiding theme, we will stimulate scientific discussions about all aspects in basic and applied ecological research contributing to better connect.

At the Bioinformatics Horizon 2013 Conference (3 - 6 September 2013, Rome) a Memorandum of Understanding was signed between PESI and EU BON. Christoph Häuser, on behalf of EU BON and Yde de Jong on behalf of PESI (see picture below), signed the document to strengthen the cooperation and formalise the integrating efforts of the European species infrastructures.  

PESI is now a new associate partner of EU BON, a consortium with currently 30 partners from 18 countries. One of the common aims of EU BON and PESI will be to establish and sustain standard taxonomies for Europe.  EU BON will support the PESI backbone developments, including its components, with a focus on Fauna Europaea and Euro+Med. Besides analyzing current gaps, new ideas will be developed to trigger expert involvement and enhance the data management systems.

In a side-meeting at BIH 2013, some ideas were discussed with available EU BON and PESI partners. Important steps will be taken to secure the sustainability of databases and expertise networks combined with the development of technical innovations for users and stakeholders and to promote the implementation of PESI as a European (INSPIRE) standard. It will be also important to further integrate the huge expertise networks, outreach to PESI Focal Points and expand the geographical scope. Furthermore, it will be important to integrate additional data types and data-resources.

The Biodiversity Data Journal (BDJ) and the associated Pensoft Writing Tool (PWT), launched on 16th of September 2013, offer several innovations - some of them unique - at every stage of the publishing process. The workflow allows for authoring, peer-review and dissemination to take place within the same online, collaborative platform.

Open access to content and data is quickly becoming the prevailing model in academic publishing, resulting in part from changes to policies of governments and funding agencies and in part from scientist's desire to get their work more widely read and used. Open access benefits scientists with greater dissemination and citation of their work, and provides society as a whole access to the latest research.

To publish effectively in open access, it is not sufficient simply to provide PDF files online. It is crucial to put them under a reuse-friendly license and to implement technologies that allow machine-readable content and data to be harvested by computers that can collate small scattered data into a big pool. Analyses and modelling of community-owned big data are the only way to confront environmental challenges to society, such as climate change, ecosystems destruction, biodiversity loss and others.

Manuscripts are not submitted to BDJ in the usual way, as word processor files, but are written in the online, collaborative Pensoft Writing Tool (PWT), that provides a set of pre-defined, but flexible article templates. Authors may work on a manuscript and invite external contributors, such as mentors, potential reviewers, linguistic and copy editors, and colleagues, who may read and comment on the text before submission. When a manuscript is completed, it is submitted to the journal with a simple click of a button. The tool also allows automated import of manuscripts from data management platforms, such as Scratchpads.

"This is the first workflow ever to support the full life cycle of a manuscript, from initial drafting through submission, community peer-review, publication and dissemination within a single, online, collaborative platform. By publishing papers in all branches of biodiversity science, including novel article types, such as data papers and software descriptions, BDJ becomes a gateway for either large or small data into the emerging world of "big data", said Prof. Lyubomir Penev, managing director and founder of Pensoft Publishers.

BDJ shortens the distance between "narrative (text)" and "data" publishing. Many data types, such as species occurrences, checklists, measurements and others, are converted into text from spreadsheets into a human-readable format. Conversely text from an article can be downloaded as structured data or harvested by computers for further use.

A novel community-based peer-review provides the opportunity for a large number of specialists in the field to review a manuscript. Authors may also opt for an entirely public peer-review process. Reviewers may opt to be anonymous or to disclose their names. Editors no longer need to check different reviewers' and author's versions of a manuscript because all versions can be consolidated into a single online document, again at the click of a button.

"The Biodiversity Data Journal is not just a journal, not even a data journal in the conventional sense. It is a completely novel workflow and infrastructure to mobilise, review, publish, store, disseminate, make interoperable, collate and re-use data through the act of scholarly publishing!" concluded Dr Vincent Smith from the Natural History Museum in London, the journal's Editor-in-Chief.

The platform has been designed by Pensoft Publishers and was funded in part by the European Union's Seventh Framework Program (FP7) project ViBRANT.

Smith V, Georgiev T, Stoev P, Biserkov J, Miller J, Livermore L, Baker E, Mietchen D, Couvreur T, Mueller G, Dikow T, Helgen K, Frank J, Agosti D, Roberts D, Penev L (2013) Beyond dead trees: integrating the scientific process in the Biodiversity Data Journal. Biodiversity Data Journal 1: e995. DOI: 10.3897/BDJ.1.e995

The Martin-Luther-Universität Halle-Wittenberg offers in cooperation with GEO BON and iDiv the position of Executive Director for the duration of 30 months (initially limited till September 30th, 2016 with possibility of extension). The Executive Director will work in close collaboration with the incoming Chair of the GEO BON Steering Committee, Prof. Henrique M. Pereira (iDiv) and the incoming vice-chair, Dr. Mike Gill (Environment Canada), thematic workgroup coordinators, regional BON coordinators, the GEO BON Steering Committee and the GEO secretariat.

Requirements:
• Ph.D. in ecology or related field
• excellent diploma or master degree in a relevant field
• demonstrable experience in project management with executive leadership in organizations a plus
• excellent communication skills, fluency in English, knowledge of other languages being a plus
• willingness to travel abroad frequently, outgoing and at ease in multicultural backgrounds

Topic/job description:
• Providing visible leadership for GEO BON and representing GEO BON at scientific and policy meetings
• Creating funding opportunities through engagement with potential donors
• Coordinating activities of GEO BON Working Groups and Regional Observation Networks
• Liaising with national and regional organizations involved in biodiversity monitoring and reporting
• Organize the Steering Committee, All-hands and other meetings of GEO BON and manage the communication activities of GEO BON, including a regular newsletter and a website
• Manage, as and when required, activities and inputs requested by the GEO secretariat

Applications should be directed to emily.keller@idiv.de and addressed to Henrique M. Pereira, Professor of Biodiversity Conservation, iDiv. Applications should be in a single PDF file with reference file number (D 189/2013). Applications are accepted until January 6th, 2014.

For more information see attached the full text of the job offer.

The Mediterranean Institute for Biodiversity and Ecology (IMBE, Aix-Marseille University, Aix-en-Provence, France), in its Research Group "Macroecology and Biogeography of Global Change (MacroBio)" has a 36-months PhD position open for applications. The position is funded by the European Commission through the FP7 Research Project OPERAs and affiliated to the French National Scientific Research Centre (CNRS).

The topic is the broad-scale spatial mapping and quantification of ecosystem service trade-offs following from management of agro-ecosystems in the Mediterranean basin. The context of the research includes the environment (climate, land use) as well as trends in societal demands for services. Based on scientific literature, spatial databases and the outputs from a process-based ecosystem model, the candidate will analyze, quantify and map ecosystem service trade-offs. Service valuation and indicator representation methods will be developed with the IMBE team. The approach is pan-Mediterranean: a significant part of the work will therefore consist of helping to reduce gaps in data and knowledge for the sum of countries around the Mediterranean basin. 

The research group works in close interaction with international programs such as Future Earth (through its project ecoSERVICES) and science-policy interfaces such as IPBES.

The successful candidate will have completed a Masters degree (or equivalent) in one of the environmental sciences, have experience in the handling of spatial data from databases, literature and models, have knowledge of existing concepts of ecosystem services, and be able to place results in the context of the Mediterranean basin (this includes the European, as well as North African and Eastern countries). The working language is English, appropriate skills in French or another of the Mediterranean languages will be an advantage.

The position will be filled when a suitable candidate has been identified. To apply for this position, please send a letter of application, demonstrating your ability to understand the task, and your CV as soon as possible, but before the 31st of January 2013, by e-mail to Ms. Gabriela Boéri (Gabriela.Boeri@imbe.fr). For any questions about the task, working conditions, or the OPERAs project, please contact Professor Wolfgang Cramer (Wolfgang.Cramer@imbe.fr).

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."

Ecosystem functioning, or the role which organisms play in an ecosystem, is becoming increasingly important in marine ecological and conservation. To facilitate such studies an international team of scientists lead by S. Faulwetter from the Hellenic Centre for Marine Research (HMRC) present the Polytraitsdatabase that aims to provide re-usable, and accessible data on marine bristle worms. The paper describing the new database was published in the innovative Biodiversity Data Journal, a pioneer in the publication of integrated biological data.

Benthic organisms participate in a number of biological processes in world water basins. Their functional diversity is an important community property demonstrating the role organisms have in the ecosystem and helping to understand how the community reacts to environmental changes. Polychaetes, or bristle worms, are marine worms famous for their peculiar shapes and often vivid coloration. More than 10,000 species are described in the class worldwide, most of which living in the shelf zone of the seas and oceans, burrowing in the sediment or swimming among the plankton.

At present, the Polytraits database contains almost 20,000 records on morphological, behavioural and reproductive characteristics of more than 1,000 species, all referenced by literature sources. All data on these engaging organisms can be freely accessed through the project website in different ways and formats, both human-readable and machine-readable. The new database presents a rich and easy to use collection, which cover morphological, reproductive and behavioural characteristics of polychaetes, as well as information on environmental preferences in an attempt to facilitate ecological research and conservation studies.

The researchers also provide a leading-edge approach to accessing, integrating and re-using the data. Through programming interfaces, the life-cycle information is automatically integrated into the Polychaetes Scratchpads, together with other data on polychaetes. Scratchpads are easy to use, adaptable, and provide powerful tools for managing biodiversity data. This taxon-centric virtual research environment allows browsing the taxonomic classification and retrieving various kinds of relevant information for each taxon, among which are also the collected biological traits.

Furthermore, the data are also accessible through Encyclopedia of Life's TraitBank which currently features over 3 million records related to more than 250 attributes for 272,720 taxa, including the Polytraits data. TraitBank serves as a provider for aggregated species trait data. All data uploaded there are archived and integrated with trait information from other sources to address issues of standardization of scientific data. This is the first complex database for marine organisms to be published in such an innovative way and demonstrates yet another example of collaboration between the data publisher Pensoft and Encyclopedia of Life.

The official kick-off of the EU BON project WP6 Stakeholder engagement and science-policy dialogue and WP7 Implementation of GEO BON: strategies and solutions at European and global levels took place on 18-19 February 2014 in Leipzig, Germany. The two work packages are a crucial part of the project outlining the future actions towards ensuring the integration of the project with its global counterpart GEO BON, as well as paving the road towards successful stakeholder and policy engagement.

As a result of this first meeting further short-term and long-term steps were outlined for WP6 and WP7 towards the achievement of main project objectives. These steps include shaping the future EU BON GEO BON interactions and EU BON’s approach towards stakeholder engagement.

In the following interview Ilse Geijzendorffer gives an insight on the outcomes from the meeting.

This image shows the discussions during the WP6/WP7 kick-off meeting. Credit: Eugenie Regan

1) What are the project’s main stakeholders that you are planning to approach and interact with in the future?

EU BON aims to develop a blue print for a data infrastructure for data handling, storage, indicator computation and transfer of knowledge via a data portal available to knowledge seekers. This data infrastructure thus has to be useful to data holders who want their data to be used (e.g. citizen scientists, nature associations, scientists) and to those that seek knowledge (e.g. reporting bodies). EU BON reaches out to these stakeholders and to bodies that would be interested to host or have such a data infrastructure themselves. Our first stakeholder round table focused on European knowledge seekers and existing data portals. Our second stakeholder round table planned for this summer will focus on citizen scientists and the organisations that currently handle the citizen science data, to receive input on what these two stakeholder groups would like to see in such a data infrastructure blue print.

At the same time we reach out to ongoing platforms that consist of networks of knowledge and that have needs regarding their data flow. A very important partner in the data infrastructure development is GEO BON. The coordination of GEO BON has just changed and EU BON will reinforce the ties with GEO BON during the General Assembly in Crete coming in April.

2) Science-policy dialogue proves to be a crucial part for the success of large scale projects like EU BON, how are you tackle this challenge?

The objective of EU BON is a moving target in the sense that the blue print for data infrastructure will need to suit the needs for current and future monitoring. Additionally, the actual implementation, funding and hosting of such an infrastructure could be within a structure that may not yet exist in that form today. Changes in mission, coordination and targets occur constantly. To profit from lessons learned, we are in close contact with the Biodiversity Knowledge Project; a project that has already gained experience in the last four years in identifying the most important elements for handling data requests from knowledge seekers and in developing a suitable management plan.

For EU BON to achieve and reach its moving target, we keep in touch with the changes within the biodiversity knowledge landscape (e.g. progress in IPBES, CBD reporting, European targets ad evaluations); we explore multiple scenarios for the data infrastructure, the business plan and the implementation options; and we collaborate with a large range of stakeholders to include not only their ideas and needs, but also the transitions that they go through.

EU BON takes care to enhance the expertise of its consortium by affiliating associate partners, an approach the project is planning to continue with. EU BON is pleased to welcome the latest addition to our list of associate partners - HaMAARAG- The Israel National Program for Ecosystem Assessment.

HaMaarag was established in 2006, following a decade’s worth of research in Long Term Ecological Research (LTER) stations. Its main objective is to promotescience-based management of open landscapes and natural resources, for human well-being and for long-term sustainability of nature in Israel.

HaMaarag aims to:
•   Generate science-based knowledge about the state of ecosystems and biodiversity in Israel
•   Strengthen the relationship between scientific knowledge, management and policymaking, in the fields of natural resource and open landscape management, land use planning and nature conservation.
•   Improve accessibility of this knowledge to decision-makers and the general public.

By achieving these aims, HaMaarag promotes the development of a common language, knowledge base and perspective regarding ecosystems in Israel, thus facilitating efficiency of management and policy within the relevant organizations.

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.

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.

For the first time, a composite map of the world’s ecosystem assets has been produced, covering both marine and terrestrial realms. A report for the UNEP Division of Early Warning and Assessment by UNEP-WCMC presents global maps of assets such as biodiversity, freshwater resources and soil quality.

Natural capital is fundamental to human well-being. According to the Convention on Biological Diversity, at least 40 per cent of the world’s economy and 80 per cent of the needs of the poor are derived from biological resources. We are now facing a problem where natural capital has been harvested and degraded at a rate that threatens to undermine our well-being and future economic growth.

In their latest report UNEP-WCMC have combined information about key ecosystem assets into global maps covering terrestrial and marine realms. The assets included are freshwater resources, soil quality, organic carbon, terrestrial and marine biodiversity, and global fish catch (as a proxy for marine fish stocks). The report builds on a considerable body of work in the fields of natural capital accounting and the mapping of ecosystem services.

To read more and download the full report, please follow the link: http://www.unep-wcmc.org/news/towards-a-global-map-of-natural-capital

A new EU BON acknowledged paper "Advancing species diversity estimate by remotely sensed proxies: A conceptual review" has been recently published in the journal Ecological Informatics.

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 J L, He KS (2014) Advancing species diversity estimate by remotely sensed proxies: A conceptual review. Ecological Informatics. DOI: 10.1016/j.ecoinf.2014.10.006

The 2nd EU BON training on data sharing tools will take place side by side to CETAF/EU BON informatics workshops (see full program and logistic details here). The event will be organised by UEF and Digitarium, EU BON consortium member and work package leader (WP2), in collaboration with CETAF ISTC and other EU BON work packages.

Next topics will be covered:

• Introduction to GEOSS, GEO BON, EU BON (Hannu Saarenmaa)
• Information architecture of EU BON (Antonio Garcia)
• Data standards, Darwin Core and extensions for sample-based quantitative data (Éamonn Ó Tuama)
• Demonstration of GBIF/EU BON IPT for monitoring networks (Larissa Smirnova and Franck Theeten)
• Practical exercise with sample dataset (Larissa Smirnova and Franck Theeten)
• Practical exercise with own data (all trainees)

The workshop will include lectures and hands-on work, so participants are required to bring their own laptops. We will provide information and instructions on software installations. If the participants want to install IPT tool themselves, they can read and learn how to de it here. For the practical exercises it’s recommended to bring  own data (taxonomic, monitoring).

Place and date: Joensuu, Finland, 19 March 2015

Venue: Joensuu Science Park, Digitarium and the Conference Facility "Network Oasis"

To register, please fill in the registration form

Find the event in our calendar here.

The European Environment Agency (EEA) is organising an open competition with a view to recruiting a contract agent to work as Project Manager within the area of biodiversity indicators and assessments and further with a view to establishing a reserve list.

THE AGENCY

The EEA is an Agency of the European Union (EU) and one of the decentralised Union bodies. The EEA aims to support sustainable development and to help achieve significant and measurable improvement inEurope’s environment, through the provision of timely, targeted, relevant and reliable information to policy-making agents and the public.

More information is available on the official EEA page: http://www.eea.europa.eu/about-us/jobs/eeavacancy.2015-01-14.3625557226

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 is happy to announce a new addition to our growing family of associated partners. In April 2015, the project has signed a Memorandum of Understanding with the German Federation for Biological Data (GFBio).

GFBio is a project that brings together national key players providing environmentally related biological data and services to develop the ‘German Federation for Biological Data' . The overall goal is to provide a sustainable, service oriented, national data infrastructure facilitating data sharing and stimulating data intensive science in the fields of biological and environmental research. 

The federation will build on proven data archiving infrastructures and workflows such as those of PANGAEA for environmental data and the resources of Germany's major natural history collection data repositories. The new infrastructure will improve and integrate these existing components within a common technological and organizational framework.

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.

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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).

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. 

The report ‘EU 2010 biodiversity baseline - adapted to the MAES typology (2015)’ presents a revised overview of the EEA's EU 2010 biodiversity baseline report.

The revision is necessary because the typology of ecosystems used in the 2010 report has since been altered by a working group of biodiversity experts. The revised report provides recalculated information on the state and trends of the different biodiversity and ecosystem components, based on the new typology of ecosystems.

Find the report here.

It has been recognized that issues regarding the sustainability and interoperability of data collected by citizens hinder the re-usability and integration of these data across borders. The European Commission’s Joint Research Centre (JRC), is following up on these findings with a detailed study of interoperability arrangements, hosting and data management practices of Citizen Science projects. These activities include a survey designed to capture the state of play with regard to data management practices on the local, national and continental scales. The questions are especially inspired by the recently proposed data management principles of the Group on Earth Observations and those of the Belmont Forum.

Beyond the pure stocktaking and awareness raising, the results should establish a base line for prioritizing follow-up activities and measuring progress. The results will also inform the discussion on the potential roles of the European Commission – and especially the JRC – in Citizen Science.

After discussions with members of the European Citizen Science Association (ECSA) and the international Citizen Science Association (CSA), it was decided to open the scope of the questionnaire to the international community, so that non-EU and globally acting organizations could also benefit from the outcomes.

The survey will be open until 31 August 2015, and the results of the subsequent analysis will be available by the end of September.  We invite all those involved in Citizen Science projects to take the survey in order to provide us with invaluable information and insight into Citizen Science projects and best practice.

Take the Survey! >> https://ec.europa.eu/eusurvey/runner/CSDataManagement