The "Environmental research: Experiences on best practices towards Horizon 2020" conference will be held the 30th of May 2013 in Brussels at the Museum of Natural Sciences.  Organizers of the event are the APRE (Agency for the Promotion of European Research), and the ENVIMPACT consortium.

The event will gather European Commission representatives,  researchers, FP7 project's participants, governmental, academic and industrial stakeholders of the Central East European countries with the aim of presenting the current and future tools and trends for dissemination and exploitation of R&D results with a special focus on the thematic areas of research in air pollution, chemical pollution and environmental technologies, especially in the Central-Eastern European (CEE) countries.

The agenda of the conference and the press release are downloadable at the link: http://download.apre.it/envimpact_presskit1.zip

The registration is free, please register at http://www.envimpact.eu/index.cfm?action=article&publication_id=922

ENVIMPACT project has been launched on 1st January 2011. This initiative is funded by the European Commission under FP7, DG Research and Innovation, with the objectives to improve the current communication  and dissemination of environmental research results deriving from Central-Eastern European (CEE) countries.

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 European Commission adopted a new strategy for encouraging the use of green infrastructure, and for ensuring that the enhancement of natural processes becomes a systematic part of spatial planning. Green Infrastructure is a tried and tested tool that uses nature to provide ecological, economic and social benefits. Instead of building flood protection infrastructure, for example, a green infrastructure solution would be to allow a natural wetland to absorb the excess water from heavy rain.

Green infrastructure is often cheaper and more durable than alternatives provided through conventional civil engineering. Biodiversity-rich parks, green spaces and fresh air corridors can for example mitigate the negative effects of summer heat waves. In addition to the health and environmental benefits, green infrastructure also brings multiple social benefits: it creates jobs and makes cities more appealing places to live and work. And it allows for wildlife to thrive, even in an urban context.

Environment Commissioner Janez Potočnik said: "Building green infrastructure is often a good investment for nature, for the economy and for jobs. We should provide society with solutions that work with nature instead of against it, where that makes economic and environmental sense."

More about the EC Green Infrastructure here: http://ec.europa.eu/environment/nature/ecosystems/index_en.htm

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.

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/

From 16^th to the 18^th of July, a European stakeholder consultation for the Intergovernmental Platform on Biodiversity & Ecosystem Services (IPBES) took place in Leipzig (Germany). The consultation was organized by three European Biodiversity Platforms: Network-Forum Biodiversity Research Germany (NeFo), the Belgian Biodiversity Platform, and the French Foundation for Research on Biodiversity (FRB) (further information on the conference: www.biodiversity.de/index.php/de/ipbes/nefo-aktivitaeten-zu-ipbes/workshops/pan-european-stakeholder-consultation).

IPBES will greatly influence future biodiversity policy and research, and EU BON is expected to provide a European contribution to IPBES. IPBES will be in particular of high interest, because it will need tools to integrate and analyse different data sources, to develop relevant infrastructure and to do assessments of state and trends of biodiversity at multiple scales.

EU BON was represented by several partners at the meeting and we acted as facilitators in the round-tables, gathered input for the project, participated in discussions and exchanged ideas with many representatives and colleagues. We provide you with a short summary of the meeting below.

The aims of the pan-European stakeholder consultation meeting in Leipzig were:

1. To reach out to stakeholders to inform people and institutes and to raise awareness of the dynamics in IPBES.
2. To discuss and obtain feedback on several IPBES-related documents that are currently being drafted. In their final form these documents will be submitted to the Panel for the IPBES 2 plenary session in 9-14 December 2013.

The meeting in Leipzig was organized around round table discussions of several draft documents of importance for stakeholders: the draft work programme, the stakeholder engagement strategy draft and the draft "Vision for pan-European IPBES support perspective". If you are interested these documents, currently for review, can be found here:  http://www.ipbes.net/intersessional-process/current-review-documents-ipbes2.html .

There were several opportunities for EU BON partners to flag the potential biodiversity data and analysis requirements for the future IPBES work program in separate discussions and to give recommendations as to what should be additionally integrated in the draft work programme.

We also brainstormed on a potential EU BON side event at the second IPBES meeting, which will be held in 9-14 December in Antalya, Turkey. Topics discussed by national delegates in that plenary will amongst other topics comprise: the first work programme, budget, stakeholder engagement, the position of observers, technical requirements and a list of thematic priorities for IPBES assessments.

Although the meeting was a success in terms of the number and diversity of participants, the consultation felt for many participants as a top down exercise. However, the importance of being involved at this stage was felt and the hope for stakeholder empowerment in the future was often voiced.

The Biodiversity Data Journal goes beyond the basics of the Gold Open Access

There are two main modes of open access publishing – Green Open Access, where the author has the right to provide free access to the article outside the publisher's web site in a repository or on his/her own website, and Gold Open Access, where articles are available for free download directly from the publisher on the day of publication.

Opening of content and data, however does not necessarily mean "easy to discover and re-use". The Biodiversity Data Journal proposed the term "Advanced Open Access" to describe an integrated, narrative (text) and data publishing model where the main goal is to make content "re-usable" and "interoperable" for both humans and computers.

To publish effectively in open access, it is not sufficient simply to provide PDF or HTML files online. It is crucial to put these under a reuse-friendly license and to implement technologies that allow machine-readable content and data to be harvested and collated into a big data pool.

The Advanced Open Access means:

• Free to read
• Free to re-use, revise, remix, redistribute
• Easy to discover and harvest
• Content automatically summarised by aggregators
• Data and narrative integrated to the widest extent possible
• Human- and computer-readable formats
• Community-based, pre- and post-publication peer-review
• Community ownership of data
• Free to publish or at low cost affordable by all

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 for better readability by humans. Conversely, text from an article can be downloaded as structured data or harvested by computers for further analysis.

"Open access is definitely one of the greatest steps in scientific communication comparable to the invention of the printing technology or the peer-review system. Great but not sufficient!" said Prof. Lyubomir Penev, founder of Pensoft Publishers and the Biodiversity Data Journal. "We need to switch the focus already from making content 'available for free download' to being discoverable and extractable. Such re-usability multiplies society's investment in science".

Additional information:

The Biodiversity Data Journal is designed by Pensoft Publishers and was funded in part by the European Union's Seventh Framework Program (FP7) project ViBRANT.

Source: 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

Taxonomic descriptions, introduced by Linnaeus in 1735, are designed to allow scientists to tell one species from another. Now there is a new futuristic method for describing new species that goes far beyond the tradition. The new approach combines several techniques, including next generation molecular methods, barcoding, and novel computing and imaging technologies, that will test the model for big data collection, storage and management in biology. The study has just been published in the Biodiversity Data Journal.

While 13,494 new animal species were discovered by taxonomists in 2012, animal diversity on the planet continues to decline with unprecedented speed. Concerned with the rapid disappearance rates scientists have been forced towards a so called 'turbo taxonomy' approach, where rapid species description is needed to manage conservation.

While acknowledging the necessity of fast descriptions, the authors of the new study present the other 'extreme' for taxonomic description: "a new species of the future". An international team of scientists from Bulgaria, Croatia, China, UK, Denmark, France, Italy, Greece and Germany illustrated a holistic approach to the description of the new cave dwelling centipede species Eupolybothrus cavernicolus, recently discovered in a remote karst region of Croatia. The project was a collaboration between GigaScience, China National GeneBank, BGI-Shenzhen and Pensoft Publishers.

Eupolybothrus cavernicolus has become the first eukaryotic species for which, in addition to the traditional morphological description, scientists have provided a transcriptomic profile, DNA barcoding data, detailed anatomical X-ray microtomography (micro-CT), and a movie of the living specimen to document important traits of its behaviour. By employing micro-CT scanning in a new species, for the first time a high-resolution morphological and anatomical dataset is created - the 'cybertype' giving everyone virtual access to the specimen.

This, most data-rich species description, represents also the first biodiversity project that joins the ISA (Investigation-Study-Assay) Commons, that is an approach created by the genomic and molecular biology communities to store and describe different data types collected in the course of a multidisciplinary study.

"Communicating the results of next generation sequencing effectively requires the next generation of data publishing" says Prof. Lyubomir Penev, Managing director of Pensoft Publishers. "It is not sufficient just to collect 'big' data. The real challenge comes at the point when data should be managed, stored, handled, peer-reviewed, published and distributed in a way that allows for re-use in the coming big data world", concluded Prof. Penev.

"Next generation sequencing is moving beyond piecing together a species genetic blueprint to areas such as biodiversity research, with mass collections of species in "metabarcoding" surveys bringing genomics, monitoring of ecosystems and species-discovery closer together. This example attempts to integrate data from these different sources, and through curation in BGI and GigaScience's GigaDB database to make it interoperable and much more usable," says Dr Scott Edmunds from BGI and Executive Editor of GigaScience.

Additional information:

Pensoft and the Natural History Museum London have received financial support by the EU FP7 projects ViBRANT and pro-iBiosphere. The China National GeneBank (CNGB) and GigaScience teams have received support from the BGI. The DNA barcodes were obtained through the International Barcode of Life Project supported by grants from NSERC and from the government of Canada through Genome Canada and the Ontario Genomics Institute.

Original Sources:

Stoev P, Komerički A, Akkari N, Shanlin Liu, Xin Zhou, Weigand AM, Hostens J, Hunter CI, Edmunds SC, Porco D, Zapparoli M, Georgiev T, Mietchen D, Roberts D, Faulwetter S, Smith V, Penev L (2013) Eupolybothrus cavernicolus Komerički & Stoev sp. n. (Chilopoda: Lithobiomorpha: Lithobiidae): the first eukaryotic species description combining transcriptomic, DNA barcoding and micro-CT imaging data. Biodiversity Data Journal 1: e1013. DOI: 10.3897/BDJ.1.e1013

Edmunds SC, Hunter CI, Smith V, Stoev P, Penev L (2013) Biodiversity research in the "big data" era: GigaScience and Pensoft work together to publish the most data-rich species description. GigaScience 2:14 doi:10.1186/2047-217X-2-14

Watch the 3D cybertype video: http://www.youtube.com/watch?v=vqPuwKG8hE4&feature=em-upload_owner

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.

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.

Ecological modellers require reliable sources of data for their analysis. Often, these sources are databases, checklists and specimen labels. Yet another rich source is the corpus of biological literature. It is estimated that there are well over 100 million pages of scientific publications and the volume grows every year. Publishing in advanced XML-based journals, such as Zookeys, Phytokeys or the Biodiversity Data Journal is recommended for new data, but what is the solution for legacy texts?

The EU FP7 project pro-iBiosphere has been piloting the mark-up and extraction of biological information from literature, which has been pioneered by Plazi (Agosti & Egloff, 2009). The EU FP7 Coordination and Support Action "pro-iBiosphere" was launched to investigate ways to increase the accessibility of biodiversity data, improve the efficiency of its curation and increase the user base of biodiversity data consumers and applications. The project addresses the technical and semantic interoperability between different forms in which data are published and analyses the sustainability issues related to the maintenance and curation of biodiversity data and derived information and knowledge. It also involves encouraging the biodiversity community to publish biodiversity data in a way that satisfies the technical requirements for an envisioned Open Biodiversity Knowledge Management System.

In order to reach these objectives three pilots for data mark-up and one for interoperability are being conducted (for detailed information on the pilots please see here). The mark-up pilots are evaluating accessibility of data within literature for a wide range of organisms and data types; and ways to facilitate  extraction of biological information from literature, including observations, traits, nomenclature, habitat information and interactions between organisms. For example, one pilot is looking at biogeographic data using the species Chenopodium vulvaria as a subject. In another, trait data is being extracted from literature on tropical mistletoes; while yet others are extracting data from papers on spiders, ants, centipedes, mosses and fungi.

In order to extract these data one can use either "born" digital texts or scanned texts, converted through text capture. These texts are then progressively marked up into XML documents, with tags defining the meaning of the containing text. The degree of mark-up granularity and the choice of textual elements to be marked-up depend on the type of data to be extracted and its granularity in the text. In taxonomically based literature, text is usually divided into the individual "treatments" for each species. Fortunately, most paragraph elements of these texts are in standard formats, for example, separate blocks of text contain the physical description of the organism, details of the distribution and habitat information, often separated with sub-headings.

The pro-iBiosphere pilots have used several methods for mark-up, but the main tool has been the GoldenGate Editor, which combines manual and automated methods to identify key text elements. For example, an algorithm identifies Latin names and then an interface guides the user through the verification of the algorithm’s results. Once marked-up, the XML document can be uploaded to the Plazi document repository. Plazi is a not-for-profit organization devoted to promoting open-access to taxonomic literature. You are free to use the data contained in Plazi’s repository and if you want you can refine the mark-up for your own purposes.

Extracting data from the legacy literature can be expensive. Modern XML based publications have additional advantages of linkages via DOI identifiers, and immediate dissemination to harvesters like EOL or GBIF. Yet, digitisation and mark-up has the possibility to reanimate the data in our publications, making them almost as useful as modern linked publications.

Task 3.4 of EU-BON is to develop tools to prepare, extract and mine published biodiversity literature (led by Plazi - Donat Agosti). For this task Plazi is looking for rich sources of data from the biodiversity literature, particularly where those data can be applied within other EU-BON tasks. For further information please contact Plazi

Agosti, D., & Egloff, W. (2009). Taxonomic information exchange and copyright: the Plazi approach. BMC research notes, 2(1), 53. doi:10.1186/1756-0500-2-53

Quentin Groom (National Botanic Garden, Belgium) & Donat Agosti (Plazi)

The 2013 International Conference on Open Data in Biodiversity and Ecological Research took place between 20 - 22 Nov 2013, hosted by Academia Sinica in Taipei, Taiwan. With the aim to promote open data in science twelve foreign speakers introduced relevant projects and initiatives in the sphere of biodiversity informatics: AP-BON, DataONE, Ecological Research, EU-BON, Global Biodiversity Information Facility (GBIF), Japan Biodiversity Information Facility (JBIF), linked open data, National Ecological Observatory Network (NEON), Pensoft, and Thomson Reuters.

Dirk Schmeller (UFZ) and Lyubomir Penev (Pensoft), who presented EU BON at the conference, share their experience in a recent interview:

What are the aims and main outcomes from this meeting?

LP: Taiwan has an impressive national policy with regard to data management in biodiversity sciences. The meeting summarised years of effort of Taiwanese scientists and especially of Academia Sinica to integrate data and make them publicly available. It is sufficient to mention that Taiwan has established four national nodes of the largest international biodiversity platforms, that is TaiBIF (of GBIF), TaiCOL (of Catalogue of Lige), TaiEOL (of EOL) and TaiBOL (of Barcode of Life).

Were there any biodiversity data integration models presented at the meeting that can be adopted and implemented in EUBON?

LP: Perhaps not directly, however the impressive amount and quality of work and the accumulated experience of the Taiwanese and Japanese colleagues would certainly be of value for EU BON. In addition, there are well established contacts already between the FP7 project SCALES and the National University of Taiwan which could serve as a stepping stone as well, because two of the SCALES partners participate in EU BON and at the meeting (UFZ and Pensoft).

The interest to the EU BON presentation by Dirk was great. An indicator for that was that more  than 120  EU BON leaflets have been picked up by the participants from the information desk.

Did you discuss any opportunities for partnership with organizations and initiatives from Asia and America, which deal with biodiversity data integration and accessibility?

LP: Yes, there were a lot of discussions how to mobilize and publish biodiversity data and most probably several data publishing projects will appear as a result of the discussions. These pilots could be used for the EU BON goals.

US National Ecological Observatory Network (NEON) has activities similar to those planned by WP4 Link environment to biodiversity: analyses of patterns, processes and trends. Is there something that EU BON can learn from the experience of its American colleagues?

DS: It is important to keep a close link with Brian Wee and NEON, as they have a head start in comparison to EU BON. I am sure that a collaboration would benefit EU BON to work efficiently.

What is your prognosis for the successful establishment of the data publishing model in scholarly literature, and more specifically in spheres such as Ecology, Genetics, Physiology and Paleontology?

DS: Most research is financed by taxpayer money and should become publicly available once the analyses a researchers has intended are completed. I see a huge potential to publish this data in scholarly literature. I, however, see also quite some difficulties to recombine relevant datasets across different sources for further going analyses. I also see difficulties in the willingness of researchers to share data, as in many cases they see these as their own.

Linked Open Data (LOD) is a new and prominent technology to publish and share data on the web. Could you please explain what exactly hides behind this concept, and how could EU BON benefit from it?

LP: The meeting in Taiwan was impressive also in the wide representation of the Resource Description Framework (RDF) technologies in integration of biodiversity data, especially from a group from the National Museum of Japan and the University of Tokyo. RDF and the OWL Web Ontology Language are definitely the way to go if we want to make diverse data sets interoperable; the implementation of RDF in a pilot phase would be of primary importance for the success of EU BON.

Today, 16/12/2013,  the European Commission announced the launch of a new Pilot on Open Research Data in Horizon 2020, to ensure that valuable information produced by researchers in many EU-funded projects will be shared freely. Researchers in projects participating in the pilot are asked to make the underlying data needed to validate the results presented in scientific publications and other scientific information available for use by other researchers, innovative industries and citizens. This will lead to better and more efficient science and improved transparency for citizens and society. It will also contribute to economic growth through open innovation. For 2014-2015, topic areas participating in the Open Research Data Pilot will receive funding of around €3 billion.

The Commission recognises that research data is as important as publications. It therefore announced in 2012 that it would experiment with open access to research data (see IP/12/790). The Pilot on Open Research Data in Horizon 2020 does for scientific information what the Open Data Strategy does for public sector information: it aims to improve and maximise access to and re-use of research data generated by projects for the benefit of society and the economy.

The Pilot involves key areas of Horizon 2020:

• Future and Emerging Technologies

• Research infrastructures – part e-Infrastructures

• Leadership in enabling and industrial technologies – Information and Communication Technologies

• Societal Challenge: Secure, Clean and Efficient Energy – part Smart cities and communities

• Societal Challenge: Climate Action, Environment, Resource Efficiency and Raw materials – with the exception of topics in the area of raw materials

• Societal Challenge: Europe in a changing world – inclusive, innovative and reflective Societies

• Science with and for Society

Neelie Kroes, Vice-President of the European Commission for the Digital Agenda said "We know that sharing and re-using research data holds huge potential for science, society and the economy. This Pilot is an opportunity to see how different disciplines share data in practice and to understand remaining obstacles."

Commissioner Máire Geoghegan-Quinn said: "This pilot is part of our commitment to openness in Horizon 2020. I look forward to seeing the first results, which will be used to help set the course for the future."

Projects may opt out of the pilot to allow for the protection of intellectual property or personal data; in view of security concerns; or should the main objective of their research be compromised by making data openly accessible.

The Pilot will give the Commission a better understanding of what supporting infrastructure is needed and of the impact of limiting factors such as security, privacy or data protection or other reasons for projects opting out of sharing. It will also contribute insights in how best to create incentives for researchers to manage and share their research data.

The Pilot will be monitored throughout Horizon 2020 with a view to developing future Commission policy and EU research funding programmes.

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.

An international conference Adaptation Strategies to Global Environmental Change in the Mediterranean City and the Role of Global Earth Observations will take place between 10-11 June 2014 in Athens, Greece. The conference will explore the potential of earth observations and thrust climate information transfer from the science to the stakeholder application realm, in order to develop suitable adaptation measures at national and regional levels.

It will identify best adaptation programs and approaches to global environmental change in Mediterranean-climate cities. The aim is to enhance and strengthen European and international cooperation in the context of the activities within the Group on Earth Observations (GEO), and promote tools and options for adaptation strategies. The Conference will help local and regional authorities and stakeholders to gain insight on the role of EO-based services in adapting to climate chance impacts in urban hot-spot areas.

The eighth annual series of GEO European Projects Workshops will be consequently held on 12-13 June as a follow-up of the conference. The worksops are 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 the renewal of the mandate of GEO for another 10 years through the endorsement of the 2014.

Registrations opens: 16 February 2014

Information and registration: www.mariolopoulosfoundation.gr/medcity2014

First Announcement (pdf flie)

The SUSTAIN EU-ASEAN project aiming at establishing a more sustainable and integrated research and innovation cooperation between the EU and the ASEAN region in the areas of climate action, resource efficiency and raw materials has now published its first project newsletter.

This first issue of the SUSTAIN EU-ASEAN Newsletter contains information about the outcomes from the first project Networking and Cluster Session that took place on 23 January 2014 in Bangkok, Thailand, as well as features a news item about the forthcoming sessions scheduled for 28 Match 2014 in Brussels, Belgium. More can be found in the Newsletter available here.

The SUSTAIN EU-ASEAN coordinating action will focus on climate action, resource efficiency and raw materials issues and will aim to enhance collaboration between researchers in the EU and the ASEAN region. Addressing these issues in a coherent way is vital for sustainable development that leads to economic prosperity, social cohesion and environmental integrity. Both regions have developed innovative ideas to reduce greenhouse gas emissions, to adapt to climate change, improve resource efficiency and manage raw materials.

Researchers and the public can now have immediate access to data underlying discovery of new species of life on Earth, under a new streamlined system linking taxonomic research with open data publication.

The partnership paves the way for unlocking and preserving a wealth of 'small data' backing up research conclusions, which often become lost within a few years of an article's publication in an academic journal.

In the first example of the new collaboration in action, the Biodiversity Data Journal carries a peer-reviewed description of a new species of spider discovered during a field course in Borneo just one month ago. At the same time, the data showing location of the spider's occurrence in nature are automatically harvested by the Global Biodiversity Information Facility (GBIF), and richer data such as images and the species description are exported to the Encyclopedia of Life (EOL).

This contrasts with an average 'shelf life' of twenty-one years between field discovery of a new species and its formal description and naming, according to a recent study in Current Biology.

A group of scientists and students discovered the new species of spider during a field course in Borneo, supervised by Jeremy Miller and Menno Schilthuizen from the Naturalis Biodiversity Center, based in Leiden, the Netherlands. The species was described and submitted online from the field to the Biodiversity Data Journal through a satellite internet connection, along with the underlying data . The manuscript was peer-reviewed and published within two weeks of submission. On the day of publication, GBIF and EOL have harvested and included the data in their respective platforms.

The new workflow established between GBIF, EOL and Pensoft Publishers' Biodiversity Data Journal, with the support of the Swiss NGO Plazi, automatically exports treatment and occurrence data into a Darwin Core Archive, a standard format used by GBIF and other networks to share data from many different sources. This means GBIF can extract these data on the day of the article's publication, making them immediately available to science and the public through its portal and web services, further enriching the biodiversity data already freely accessible through the GBIF network. Similarly, the information and multimedia resources become accessible via EOL's species pages.

One of the main purposes of the partnership is to ensure that such data remain accessible for future use in research. A recent study published in Current Biology found that 80 % of scientific data are lost in less than 10 years following their creation.

Donald Hobern, GBIF's Executive Secretary, commented: "A great volume of extremely important information about the world's species is effectively inaccessible, scattered across thousands of small datasets carefully curated by taxonomic researchers. I find it very exciting that this new workflow will help preserve these 'small data' and make them immediately available for re-use through our networks."

"Re-use of data published on paper or in PDF format is a huge challenge in all branches of science", said Prof. Lyubomir Penev, managing director of Pensoft and founder of the Biodiversity Data Journal. "This problem has been tackled firstly by our partners from Plazi who created a workflow to extract data from legacy literature and submit it to GBIF. The workflow currently launched by GBIF, EOL and the Biodiversity Data Journal radically shortens the way from publication of data to their sharing and re-use and makes the whole process cost efficient", added Prof. Penev.

The elaboration of the workflow from BDJ and Plazi to GBIF through Darwin Core Archive was supported by the EU-funded project EU BON (Building the European Biodiversity Observation Network, grant No 308454). The basic concept has been initially discussed and outlined in the course of the pro-iBiosphere project (Coordination and policy development in preparation for a European Open Biodiversity Knowledge Management System, addressing Acquisition, Curation, Synthesis, Interoperability and Dissemination, grant No 312848).

Original source:

Miller J, Schilthuizen M, Burmester J, van der Graaf L, Merckx V, Jocqué M, Kessler P, Fayle T, Breeschoten T, Broeren R, Bouman R, Chua W, Feijen F, Fermont T, Groen K, Groen M, Kil N, de Laat H, Moerland M, Moncoquet C, Panjang E, Philip A, Roca-Eriksen R, Rooduijn B, van Santen M, Swakman V, Evans M, Evans L, Love K, Joscelyne S, Tober A, Wilson H, Ambu L, Goossens B (2014) Dispatch from the field: ecology of micro web-building spiders with description of a new species. Biodiversity Data Journal 2: e1076. DOI: 10.3897/BDJ.2.e1076

Hoffmann A, Penner J, Vohland K, Cramer W, Doubleday R, Henle K, Kõljalg U, Kühn I, Kunin WE, Negro JJ, Penev L, Rodríguez C, Saarenmaa H, Schmeller DS, Stoev P, Sutherland WJ, Tuama1 EO, Wetzel F, Häuser CL (2014) Improved access to integrated biodiversity data for science, practice, and policy - the European Biodiversity Observation Network (EU BON). Nature Conservation 6: 49–65. doi: 10.3897/natureconservation.6.6498

The European Space Agency (ESA) is Europe’s gateway to space. Its mission is to shape the development of Europe’s space capability and ensure that investment in space continues to deliver benefits to the citizens of Europe and the world.  ESA is an international organisation with 20 Member States.

How is EU BON connected to space research? As a speaker at the EU BON General Meeting, which took place on Crete between 30 March - 3 April 2014, Marc Paganini of the European Space Agency explains the collaboration between ESA and GEO BON, and how EU BON is involved.

In the following interview he continues the topic:

Marc Paganini (left) and Dirk Schmeller (right) at the EU BON General Meeting 2014

1) For most of the general public space and biodiversity research hardly have anything to do with each other, can you explain how the European Space Agency (ESA) and the idea of remote sensing communities make these two meet?

It is widely recognized that in-situ observations available on biological diversity are very scarce for most of the Earth’s ecosystems and are often insufficient for determining precisely the global status and trends of biodiversity worldwide. In most cases, satellite Earth Observations do not provide a direct measurement of biodiversity but, if properly used with ground collection of biodiversity data and species and habitat modeling, remote sensing can become an important and essential component of biodiversity monitoring systems. There are multiple cases where remote sensing is often the only instrument that can offer large scale monitoring, as for example in highly variable ecosystems such as wetlands or in remote areas that can hardly be monitored by field campaigns.

The recent and future evolution of the portfolio of EO satellites offers huge potential for increasing the use of EO products into biodiversity monitoring systems. The lack of data continuity has always been a barrier for the biodiversity community to invest in EO technology.  A commitment from Space Agencies to provide sustained observations on the long term is a strong incentive for the biodiversity community to invest in Space. The Sentinel series of the European Copernicus program, together with the freely available data from other space agencies such as the Landsat family of the US Geological Survey, will bring unprecedented long-term continuity of observations for the biodiversity community. In that context, free and open data policy to taxpayer-funded satellite remote sensing imagery is becoming a "de facto" standard amongst Space Agencies and a unique opportunity for the biodiversity community to use widely EO products to monitor biodiversity trends.

2) How is the ESA involved with the aims of EU BON, where do the two initiatives intersect?

ESA and many other Space Agencies are becoming more and more committed in helping the biodiversity community at large, in improving their capacity to use remote sensing data for monitoring biodiversity trends.

First there is a coordinated action from all Space Agencies through the Committee on Earth Observation Satellites (CEOS) and its involvement in the Group of Earth Observation (GEO). The GEO is a voluntary partnership of governments and international organizations who engaged jointly in developing a comprehensive, coordinated and sustained system of observations of the Earth with the ultimate objective to enhance scientifically-sound decision making. Biodiversity is one of the primary societal benefit areas of GEO and is addressed by the GEO Biodiversity Observation Network (GEO BON). CEOS is actively involved in GEO BON, principally through the participation to its steering committee of the European, US and German Space Agencies, namely ESA, NASA and DLR. Since EU BON is the principal European contribution to GEO BON, and has, amongst its objectives, the aim to integrate biodiversity data from ground observations to remote sensing information, ESA is directly concerned by the EU BON development in using remote sensing for terrestrial, freshwater and marine realms.

Second, ESA has its own EO application development programs, and funds a wide range of Research & Development projects for biodiversity and ecosystem services. In that context, ESA has established close relationships with the European Environment Agency (EEA) but also with the secretariats and scientific bodies of major Multilateral Environmental Agreements (MEA) such as the Convention on Biological Diversity (CBD) and the Ramsar Convention on wetlands. The findings of the ESA-funded EO projects on biodiversity and ecosystem services are highly relevant to EU BON. It is therefore expected that the ESA and EU BON activities in relation to the use of RS for biodiversity monitoring will offer some convergence of evidence showcases for the whole biodiversity community.

3) How do you see the future of collaboration with EU BON?

The high potential for satellite Earth Observations to support biodiversity monitoring is growing but is yet to be fully realised. The recent efforts of GEO BON, supported by the GEO Plenary and the CBD Conference of the Parties, to define a set of minimum essential observational requirements to monitor biodiversity trends will give considerable impetus for space agencies and for the remote sensing community to focus their work on a small set of well defined EO products that will serve the needs of the biodiversity community at large. In that context ESA is firmly engaged in supporting the development of these emerging Essential Biodiversity Variables (EBVs). EU BON together with ESA can be pioneers in the early development and demonstration.

The "Building the European Biodiversity Observation Network" EU BON General Meeting took place between 30 March - 3 April 2014 in Heraklion on Crete, to present major project results and set objectives for the future. The meeting was preceeded by a review paper recently published in the open access journal Nature Conservation, to point out EU BON researchh interests and objectives for the future of biodiversity protection.

This is a group photo of the participants in the recent EU BON General Meeting in Crete, Greece.

The 2014 General Meeting brought together keynote speakers Jörg Freyhof (GEO BON, Executive Director), Marc Paganini (European Space Agency), Jerry Harrison (UNEP-WCMC) with the entire EU BON consortium to discuss collaborations between the project and other important initiatives in the areas of earth observation, particularly in remote sensing and in situ approaches to biodiversity data collection, as well as in the use and analysis of biodiversity data for forecasting and scenario building, and environmental policy.

"The high potential for satellite Earth Observations to support biodiversity monitoring is growing but is yet to be fully realised. The recent efforts of GEO BON, supported by the GEO Plenary and the CBD Conference of the Parties, to define a set of minimum essential observational requirements to monitor biodiversity trends will give considerable impetus for space agencies and for the remote sensing community to focus their work on a small set of well defined earth observations products that will serve the needs of the biodiversity community at large. In that context ESA is firmly engaged in supporting the development of these emerging Essential Biodiversity Variables (EBVs). EU BON together with ESA can be pioneers in the early development and demonstration." comments Marc Paganini, European Space Agency, on the future collaboration between the two initiatives.

The world's biodiversity is in an ongoing dramatic decline that despite conservation efforts remains unprecedented in its speed and predicted effects on global ecosystem functioning and services. The lack of available integrated biodiversity information for decisions in sectors other than nature conservation has been recognized as a main obstacle and the need to provide readily accessible data to support political decisions has been integrated into the CBD's "Strategic Plan for Biodiversity 2011–2020" and the Aichi targets. The recently published EU BON review paper points out how the project will use its potential to improve the interaction between citizens, science and policy for a better future of biodiversity protection.

EU BON aims to enable decision makers at various levels to make use of integrated and relevant biodiversity information adapted to their specific requirements and scales. Disparate and unconnected databases and online information sources will be integrated to allow improved monitoring and evaluation of biodiversity and measures planned or taken at different spatial and temporal scales. This requires strong efforts not only with regard to technical harmonization between databases, models, and visualization tools, but also to improve the dialogue between scientific, political, and social networks, spanning across several scientific disciplines as well as a variety of civil science organizations and stakeholder groups.

The project is focusing mainly on the European continent but contributes at the same time to the globally oriented Group on Earth Observations Biodiversity Observation Network (GEO BON), which itself contributes to the Group of Earth Observation System of Systems (GEOSS). EU BON will build on existing information infrastructures such as GBIF, LifeWatch and national biodiversity data centres in Europe, and will integrate relevant biodiversity data from on-ground observations to remote sensing information, covering terrestrial, freshwater and marine habitats.

Original Source:

Hoffmann A, Penner J, Vohland K, Cramer W, Doubleday R, Henle K, Kõljalg U, Kühn I, Kunin WE, Negro JJ, Penev L, Rodríguez C, Saarenmaa H, Schmeller DS, Stoev P, Sutherland WJ, Ó Tuama É, Wetzel FT, Häuser CL (2014) Improved access to integrated biodiversity data for science, practice, and policy - the European Biodiversity Observation Network (EU BON). Nature Conservation 6: 49–65. doi: 10.3897/natureconservation.6.6498

Temperature is a main driver for most ecological processes, and temperature time series provide key environmental indicators for various applications and research fields. High spatial and temporal resolutions are crucial for detailed analyses in various fields of research. A disadvantage of temperature data obtained by satellites is the occurrence of gaps that must be reconstructed. Here, we present a new method to reconstruct high-resolution land surface temperature (LST) time series at the continental scale gaining 250-m spatial resolution and four daily values per pixel. Our method constitutes a unique new combination of weighted temporal averaging with statistical modeling and spatial interpolation. This newly developed reconstruction method has been applied to greater Europe, resulting in complete daily coverage for eleven years. To our knowledge, this new reconstructed LST time series exceeds the level of detail of comparable reconstructed LST datasets by several orders of magnitude. Studies on emerging diseases, parasite risk assessment and temperature anomalies can now be performed on the continental scale, maintaining high spatial and temporal detail. We illustrate a series of applications in this paper. Our dataset is available online for download as time aggregated derivatives for direct usage in GIS-based applications (Reconstructed MODIS Land Surface Temperature Dataset - http://gis.cri.fmach.it/eurolst/).

Source: Metz M, Rocchini D, Neteler M. (2014) Surface Temperatures at the Continental Scale: Tracking Changes with Remote Sensing at Unprecedented Detail.Remote Sensing 6(5): 3822-3840. doi: 10.3390/rs6053822

Four papers on species traits have been recently published in ZooKeys, Ecology and Ecology, Evolution and the Biodiversity Data Journal respectivelly covering data on the butterflies in Europe, birds and mammals of the world, the terrestrial mammals of the world and marine polychaetes.

Schweiger O, Harpke A, Wiemers M, Settele J (2014) CLIMBER: Climatic niche characteristics of the butterflies in Europe. ZooKeys 367: 65–84. doi: 10.3897/zookeys.367.6185 Resource ID: GBIF key: http://www.gbif.org/dataset/e2bcea8c-dfea-475e-a4ae-af282b4ea1c5

Hamish Wilman, Jonathan Belmaker, Jennifer Simpson, Carolina de la Rosa, Marcelo M. Rivadeneira, and Walter Jetz. 2014. EltonTraits 1.0: Species-level foraging attributes of the world's birds and mammals. Ecology 95:2027. http://dx.doi.org/10.1890/13-1917.1

Kissling, W. D., Dalby, L., Fløjgaard, C., Lenoir, J., Sandel, B., Sandom, C., Trøjelsgaard, K. and Svenning, J.-C. (2014), Establishing macroecological trait datasets: digitalization, extrapolation, and validation of diet preferences in terrestrial mammals worldwide. Ecology and Evolution. doi: 10.1002/ece3.1136

Faulwetter S, Markantonatou V, Pavloudi C, Papageorgiou N, Keklikoglou K, Chatzinikolaou E, Pafilis E, Chatzigeorgiou G, Vasileiadou K, Dailianis T, Fanini L, Koulouri P, Arvanitidis C (2014) Polytraits: A database on biological traits of marine polychaetes. Biodiversity Data Journal 2: e1024. DOI: 10.3897/BDJ.2.e1024

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 pleased to welcome a new associated partner Long-Term Ecosystem Research (LTER) Europe to its family!

Long-Term Ecosystem Research (LTER) is an essential component of world-wide efforts to better understand ecosystems. This comprises their structure, functions, and long-term response to environmental, societal and economic drivers. LTER contributes to the knowledge base informing policy and to the development of management options in response to the Grand Challenges under Global Change.

From the beginning (around 2003) the design of LTER-Europe has focussed on the integration of natural sciences and ecosystem research approaches, including the human dimension. LTER-Europe was heavily involved in conceptualizing socio-ecological research (LTSER). As well as LTER Sites, LTER-Europe features LTSER Platforms, acting as test infrastructures for a new generation of ecosystem research across European environmental and socio-economic gradients.

ECOSCOPE (Network of Biodiversity Research Observatories) associates the SINP (Information System on Nature and Landscapes) to a shared event that will focus on the complementarity between "research - expertise" on biodiversity through the emerging concept of "Essential Biodiversity Variables" (EBVs).

The seminar, scheduled for Monday, November 3, 2014 in Paris, is open to scientists, observatories’ managers and their teams, and to all who are involved in the study of the state and dynamics of biodiversity for research and expertise.

The aims of this seminar are to increase awareness and understanding of EBVs, their interest for observatories (visibility, synergies) to benefit to observatories’ scientific managers and data users. It is also to define how this concept can be implemented at national scale, in connection with international initiatives. 

Programme will be available in available in September, for registration: follow the link !

The Creative-B project final even will take place on 26 Sep 2014 in Brussels. During this event, a roadmap of global data infrastructures supporting biodiversity and ecosystem research will be presented.

In the last two decades quite a number of activities emerged to manage, share and deploy the fast growing data volumes from observations, collections, sensors and other data sources in biodiversity and ecosystem research. This data "gravity" pushed new applications and services, resulting in the development and establishment of large-scale research infrastructures. Following an initiative of the European LifeWatch research infrastructure, a number of large-scale data research infrastructures* with a global outreach in this scientific area teamed together in the project Creative-B (Coordination of Research e-Infrastructures Activities Toward an International Virtual Environment for Biodiversity)**.

The collaboration resulted in drafting a global Roadmap focusing on common priorities and infrastructure engagement, enhancing infrastructure interoperability, and the legal and governance implications. Specific issues are addressing challenges to sustain data availability and services, user interaction and value delivery, cooperation for infrastructure interoperability as well as legal interoperability, and finally education and training. This Roadmap shows how global interaction is promoting complementary development while fostering synergy for supporting frontier research and addressing global and societal challenges. The event in Brussels will also highlight some implications for other stakeholders such as funding and governmental bodies.

Registration is now open here: http://creative-b-2014.sciencesconf.org/registration

Find out more on the event website, and in the event program.

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

Context:

The Earth's rapidly changing environment is putting critical ecosystem services at risk. There are many challenges involved in understanding global environmental changes, and in providing societies with the policy-relevant knowledge base to deal with them. These challenges will reach across many aspects of scientific endeavour. Indeed, the research community requires state-of-the-art research infrastructures (RIs) to have the capability to explain and predict global environmental changes. In this context the Experimentation in Ecosystem Research conference will provide a platform for discussions on cutting-edge technological tools, large-scale integrative experimental design, technical constraints, data access and last but not least ecosystem modelling. The conference will attract speakers and delegates from around the world and will offer opportunities to reinforce global cooperation.  

Main topics:

• Grand challenges: With the current set of Experimental Research infrastructures in ecosystem science, do we have the capacity to tackle the grand challenges of today and tomorrow?
• In vitro and in natura : How realistic are they, and how they can be better linked?
• Technologies: Which emerging technologies could enhance (or are needed for) the performance and services offered by our RIs?
• Data: Towards an e-infrastructure for ecosystem research - challenges and opportunities
• Modelling:  How accurate is our capacity to forecast and upscale, and what is missing? How can we communicate uncertainty? How do we strike the right balance between modelling and experiments?

The conference is organized under the framework of the European FP7 project ExpeER ( www.expeeronline.eu )

Find out more in the flyer attached below or on the event's website: https://colloque6.inra.fr/expeer-conference

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.

An innovative workflow reveals new research potential of the Barcode of Life Data Systems (BOLD). A recently published article in the Biodiversity Data Journal (BDJ) used specimen records downloaded from BOLD in tabular format and imported these into a human-readable text developed in manuscript within the Pensoft Writting Tool (PWT). Data were used to study the species distributions of ten Nearctic species of braconid wasps from the Microgastrinae subfamily.

BOLD is originally designed to support the generation and application of DNA barcode data. However, the repository also holds unexplored treasures of additional data that provide unique potential for many other research uses.

Currently almost 4 million sequences (over 3.4 million of them DNA barcodes) are stored in BOLD, including coverage for more than 143K animal species, 53K plant species, and 16K fungi and other species, and this impressive storage of information is continuing to grow every day.

A team of researchers, led by Dr Jose Fernandez-Triana from the University of Guelph, Canada, have now explored how the unique amount of data stored on the BOLD platform can be utilised for new research purposes. Choosing tiny parasitic wasps for their case study they selected a sample of 630 specimens and 10 North American species. Data stored on BOLD were then used to uncover a significant number of new records of locality, provinces, territories and states.

The research was then secured a fast publication via BDJ, a community peer-reviewed, open-access, comprehensive online platform, designed to accelerate publishing, dissemination and sharing of biodiversity-related data of any kind.

"Import of structured data into human-readable text is important but it does not represent the whole story. More importantly, the data can be downloaded straight from the article text by anyone for further re-use, or be automatically exported to data aggregators, such as the Global Biodiversity Information Facility (GBIF). In this way, data platforms could get more peer-reviewed content from scholarly publications and scientists will be properly credited for their efforts" said Prof. Lyubomir Penev, founder of Pensoft Publishers.

Original Source:

Fernandez-Triana J, Penev L, Ratnasingham S, Smith M, Sones J, Telfer A, deWaard J, Hebert P (2014) Streamlining the use of BOLD specimen data to record species distributions: a case study with ten Nearctic species of Microgastrinae (Hymenoptera: Braconidae). Biodiversity Data Journal 2: e4153. doi: 10.3897/BDJ.2.e4153

Additional information:

The workflow is part of the Data Publishing Toolkit elaborated within the EU FP7 funded project EU BON (Grant agreement No 308454).

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

Connecting the dots: Integrating Biodiversity Observations to Better Track the CBD 2020 Targets. 

Biodiversity: Journal of Life on Earth invites authors to share their experiences using systematic observations - including remote sensing observations - for monitoring change in biodiversity. The journal envisions submissions focusing on models for blending in-situ and remotely sensed data to fill gaps in the understanding of biodiversity status and trends.Biodiversity would welcome papers from members of the Biodiversity Indicators Partnership, working in the wider landscape of data and observation, and from contributors to the Group on Earth Observations Biodiversity Observation Network (GEO BON) exploring how Essential Biodiversity Variables could provide a framework for integrating biodiversity data. The journal also welcomes papers related to support offered by the Global Biodiversity Information Facility for implementing the Aichi Targets. 

This special double issue will be published in September 2015, the midpoint of the 2020 mandate of the CBD, and following the release of the 4th edition of the Global Biodiversity Outlook at the October 2014 12th meeting of the CBD’s Conference of the Parties (COP-12) in Pyeongchang, Republic of Korea.

Prospective authors may wish to refer to UNEP/CBD/SBSTTA/17/2, Facilitating the Implementation of the Strategic Plan for Biodiversity 2011-2020 and the Aichi Biodiversity Targets through Scientific and Technical Means, prepared for the Seventeenth meeting of the CBD’s Subsidiary Body on Scientific, Technical and Technological Advice (SBSTTA-17); the SBSTTA-17 report (http://www.cbd.int/doc/?meeting=SBSTTA-17); and meeting documents for the Expert Workshop on Enhancing Biodiversity Data and Observing Systems in Support of the Implementation of the Strategic Plan for Biodiversity 2011–2020 (http://www.cbd.int/doc/?meeting=WS-BDOBS). 

Please submit abstracts (250 words or less) in Times New Roman 12 pt. by 27 November 2014 to the Managing Editor, Vanessa Reid. A special board of editors will review the submitted abstracts. Only approved abstracts will be asked to proceed to final draft (4000-5000 words plus references and figures). Publication will be subject to peer review via Scholar One manuscripts online.

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

New research published with the support of the FP7 large-scale bioinformatics project Building the European Biodiversity Observation Network (EU BON) and the Alien Challenge COST action reveals the importance of open data in the study and control of invasive alien species. The study was published online in open access in the journal Management of Biological Invasions.

Invasive alien species cause a wide variety of problems, including issues related to conservation; to human and animal health; to agriculture and to fisheries management. But how can science be useful to manage such potential issues?

"To advise policy makers and inform land managers on the dangers posed by and how to fight alien species we need to understand the invasion process. Ideally, we would like to be able to predict the causes, routes and progression of invasions." explains Dr. Quentin Groom, Botanic Garden Meise, Belgium.

Recently, several research groups have pioneered the process of "Horizon Scanning" for new alien species, also there have been parallel developments in the creation of dynamic ecological models to predict invasions. However, the greatest limitation to these advances is the lack of suitable data.

"The problem of invasive species is international and rapidly changing. Data are required from an extensive area, for many species and for a long period but what is currently available is patchy and often inaccessible. We argue for the importance of open data to tackle the problem of invasive alien species." explains Dr. Groom.

This new research reviews why access to data are so important to invasive alien species research and gives an overview of the reasons why data are unavailable to researchers. Currently access to data is patchy and is restricted in many ways:

• Legally, the use of restrictive data licensing blocks its use.
• Technically, many software systems don't adequately support sharing, particularly in their provision of unique identifiers.
• Culturally, data secrecy is the default position for most organizations.

Currently invasive species data is patchy and often restricted legally, through the use of restrictive data licensing. Credit: Peter Desmet

Gradually, data are becoming more accessible and attitudes towards data access are changing. The advent of data publications allows researchers to attract citations from their data, while simultaneously making their data accessible and discoverable.

The community of biodiversity observers is highly fragmented and the creation of a European biodiversity network will improve communication so that grassroots biodiversity surveyors will understand issues of data sharing, citation and licensing that are so critical for a rapid response to invasive species.

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Original Source:

Groom QJ, Desmet P, Vanderhoeven S & Adriaens T (2015) The importance of open data for invasive alien species research, policy and management. Management of Biological Invasions 6: in press. doi: 10.3391/mbi.2015.6.2.02

The European Environment Agency has published its flagship report, the European Environment - State and Outlook 2015 (SOER 2015) .

It contains excellent online resources with detailed information, including downloadable graphs, tables and images. The report is compiled every five years and includes an assessment of trends and prospects, information on individual countries and regions, cross-country comparisons and the global context.

Aggregated level information on climate change, impacts, vulnerability and adaptation is included. 

Read more and find the report online here: http://www.eea.europa.eu/soer

Reporting under policy instruments to inform on the trends in biodiversity requires information from a range of different elements of biodiversity, from genetically viable populations to the structure of ecosystems. A new research looks into the Essential Biodiversity Variables as an analytic framework to identify ways in which gaps between biodiversity data and policy reporting needs could be bridged. The study was published in theJournal of Applied Ecology.

The Essential Biodiversity Variables (EBVs, Pereira et al. 2013) which were previously developed by ecology experts in GEO BON, is as a list of the most essential elements that need to be monitored worldwide, if we want to know how biodiversity is really changing.Example of essential variables is the population abundances of species (like the Living Plant Index from the WWF) or the extent of habitat fragmentation.

In the recently published study, funded by the EU FP7 project EU BON, scientists used the identified EBVs as a framework to analyse the gaps between the biodiversity objectives stated in international policy instruments, the indicators used to develop the related policy reports and the data that is actually available to quantify indicators and proxies.

Results of the recently published study show:

1) which aspects of biodiversity are being asked for the reporting on policy instruments. Based on this knowledge,it became apparent which aspects of biodiversity are not often asked to be in these reports and thus for which aspects policy makers are unlikely to receive information. For example information on the changes in the EBV class "Genetic Composition", was not often asked in reports, not often used in indicators and little data is directly available.

2) which of these biodiversity aspects actually end up being in the CBD reports, because scientists were able to quantify indicators. For instance, information for Ecosystem function is often asked for, but is not represented by many indicators.

3) for some EBVs data seems available to improve current reporting efforts, for instance for indicators on Ecosystem structure.

Additionally, the study identified which potentially available data could be used to improve existing indicators by adding more taxa or spatial or temporal coverage. This analysis also showed that the EBVs will not cover all the information asked in policy reporting. This is because the policy objectives also include things related to awareness raising of the public and the implementation of protection measures - aspects which are not within the scope of EBVs.

"Analytical properties, such as an identification of which data and indicators are relevant per EBV, will need to be addressed before EBVs can actually become operational and facilitate the integration of data flows for monitoring and reporting." commented the lead author of the study Dr. Ilse Geijzendorffer.

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Original Source:

Geijzendorffer, I.R., Regan, E.C., Pereira, H. M., Brotons, L., Brummitt, N., Gavish, Y., Haase, P., Martin, C.S., Mihoub, J.-B., Secades, C., Schmeller, D.S., Stoll, S., Wetzel, F. T., & Walters, M.,Journal of Applied Ecology http://onlinelibrary.wiley.com/doi/10.1111/1365-2664.12417/abstract

Additional information:

Pereira, H.M., Ferrier, S., Walters, M., Geller, G.N., Jongman, R.H.G., Scholes, R.J. M. W. Bruford, Brummitt, N. , Butchart, S.H.M., Cardoso, A.C., Coops, N.C., Dulloo, E., Faith, D.P., Freyhof, J., Gregory, R.D., Heip, C., Höft, R., Hurtt, G., Jetz, W., Karp, D.S., McGeoch, M.A., Obura, D., Onoda, Y., Pettorelli, N., Reyers, B., Sayre, R., Scharlemann, J. P. W., Stuart, S.N., Turak, E., Walpole, M., & Wegmann, M. (2013) Essential biodiversity variables. Science, 339, 277-278.

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