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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

Original Sources:

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

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

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

A memorandum of understanding has been signed between EU BON and Norwegian Institute for Nature Research (NINA). The hand over took place at the 21st GBIF Governing Board (GB21) in New Delhi (India) on 16-18 September 2014 between EU BON project co-ordinator Christoph Häuser and Roald Vang (Head of Department on Information technology) and Frank Hanssen from NINA.

IMAGE: At the handover: EU BON co-ordinator Christoph Häuser and Roald Vang (Head of Department on Information technology) and Frank Hanssen from NINA.

The Norwegian Institute for Nature Research (NINA) is Norway’s leading institution for applied ecological research, with broad-based expertise on the genetic, population, species, ecosystem and landscape level, in terrestrial, freshwater and coastal marine environments. The core activities encompass strategic ecological research integrated with long-term monitoring, as well as a variety of environmental assessments and development of methodologies. Most work is aimed at improving the understanding of biodiversity, ecosystem services, ecological processes and their main drivers to facilitate better management of ecosystem services and resources. NINA addresses a wide variety of interdisciplinary issues involving both ecologists and social scientists, and plays an important role in European and other international research cooperation.

Five  projects focused on citizen science began their life in autumn 2012 as a part of the topic ENV.2012.6.5-1 "Developing community based environmental monitoring and information systems using innovative and novel earth observation applications". Their goals include developing novel technologies and applications in the domain of Earth Observation; exploiting portable devices (smartphones, tablets, etc.) and enabling effective participation by citizens in environmental stewardship based on broad stakeholder and user involvement in support of both community and policy priorities.

These projects are:

OmniScientis - combining the active participation of the stakeholders, especially citizens, with the implementation of innovative technologies to improve the governance of odour nuisance. OMNISCIENTIS implements an odour monitoring and information system allowing feedback in real-time, based on a web-based Service Platform.

Citclops - developing an observatory based on citizens’ science applications for the bio-optical monitoring of coast and ocean. Specifically, the Citclops action develops systems to retrieve and use data on the colour, transparency and fluorescence of seawater using low-cost sensors and smart phones along with contextual information.

COBWEB - seeking to design, develop and validate the necessary software infrastructure to facilitate and make possible the opportunistic harvesting and quality control of crowdsourced environmental data.

Full article available at: http://dx.doi.org/10.1186/1471-2105-12-S15-S1 

The 4th Global Biodiversity Outlook (GBO 4) was officially launched on 6 Oct 2014, during the opening day of the Twelfth Meeting of the Conference of the Parties to the Convention on Biological Diversity (COP 12) in Pyeongchang, Korea. Global Biodiversity Outlook (GBO) is the flagship publication of the Convention on Biological Diversity. It is a periodic report that summarizes the latest data on the status and trends of biodiversity and draws conclusions relevant to the further implementation of the Convention.

GBO 4 is a comprehensive report that serves as a mid-term analysis towards the 20 "Aichi Biodiversity Targets". The report states significant progress towards meeting some components of the majority of the Aichi  Biodiversity Targets. Some target components, such as conserving at least 17 per cent of terrestrial and  inland water areas, are on track to be met. However, in most cases this progress is seen as not sufficient to achieve the targets set for 2020, and additional action is required to keep the Strategic Plan for Biodiversity 2011–2020 on course. 

The full report can be accessed here: http://www.cbd.int/gbo4/

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.

BioVel is organizing a one-day workshop "BioVeL: In Practice and in Future". The event will take place on 13 Nov 2014 in Institut Océanographique, Paris, France. It aims at sharing BioVel experience obtained during the project's efforts to build a virtual laboratory for biodiversity research. Plans for the future of BioVel will be also presented. 

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).

High-quality biodiversity data is essential for answering key questions on biodiversity in Europe, for example regarding the state and trends of species or for evaluating ecosystem services and functions on various scales. A new EU BON report "Gap analysis and priorities for filling identified gaps in data coverage and quality" evaluates the state of available biodiversity information and points out gaps of available biodiversity information sources.

The report aims to assess relevant data sources on biodiversity on a European and global scale. The assessment particularly evaluates the gaps of available biodiversity information sources and, after outlining the most important ones, identifies priorities for improving the data availability and gives recommendations of how they can be closed.

The report is divided into three main sections, starting first with an overall overview of gaps and limitations of biodiversity datasets. After outlining some general limitations of biodiversity data in Europe, the key findings from the specific analyses are summarized along with recommendations of how existing gaps can be closed. The last part presents a chapter containing the specific gap analysis for a selection of several main global and European datasets. The datasets represent some main sources for biodiversity data, either for specific realms (terrestrial, marine, freshwater), taxonomic groups, thematic fields (taxonomy, genetic databases) or networks of European test sites.

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

The training includes three subsets:

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

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

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

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

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

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

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

A new report "A world that counts - Mobilising the Data Revolution for Sustainable Development" was recently published. The document points out the need for globally available and freely accessible data to monitor progress of Sustainable Development Goals (SDGs), to hold governments accountable and foster sustainable development. This issue needs to be solved in a timely manner, as the gaps between developed and developing countries, between information-rich and information-poor people are increasing. Furthermore, better integrated, timely and validated information can lead to better decision-making and real-time feedback to the citizens. However, still some challenges remain, and the report points out recommendations to overcome existing limitations (countries have poor data, data arrives too late, many issues are barely covered), e.g. through a global "Network of Data Innovation Networks" that connects both organizations and experts. 

The report was written by UN-IAEG, which is the United Nations Secretary-General’s Independent Expert Advisory Group on a Data Revolution for Sustainable Development and is available online here: http://www.undatarevolution.org/wp-content/uploads/2014/11/A-World-That-Counts.pdf

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 Memorandum of Understanding (MoU) was signed at the second EU BON Stakeholder Roundtable on Citizen Science between Christoph Häuser, on behalf of EU BON, and Fermin Serrano Sanz, on behalf of the Citizen Science Project Socientize at the 27^th of November 2014. The Roundtable on Citizen Science took place at the Museum für Naturkunde in Berlin, Germany and followed the General Assembly Meeting of the European Citizen Science Association. 

Signing the MoU: (left) Christoph Häuser, EU BON and (right) Fermin Serrano Sanz, Socientize

Socientize (Society as e-Infrastructure through technology, innovation and creativity) is a Citizen Science Project that was funded by the European Union. The project aims to coordinate agents involved in the citizen science process and to foster and promote the usage of citizen science infrastructures.  There are several linkages between the citizen science related work of EU BON and Socientize (e.g. policy recommendations for citizen science) and by signing the MoU, a further exchange and follow-ups were agreed.

UNEP-WCMC, Dutch Butterfly Conservation, and EU BON recently convened a workshop of 14 global experts from the field of butterfly monitoring, specifically the tropics and subtropics. The workshop has catalysed the process for the development of global butterfly monitoring guidelines and the creation of a new specialist butterfly monitoring group.

Hosted by GEO BON (Group on Earth Biodiversity Observation Network) at the offices of the German Centre for Integrative Biodiversity Research (iDiv) in Leipzig, Germany, the meeting took place on 8^th and 9^th December 2014. The global experts attending the meeting shared their significant experience and knowledge from the tropics, sub-tropics and deserts; including countries such as Papua New Guinea, Belize, Brazil, Colombia, USA, South Africa, Malaysia, and Liberia.

Blue Copper (Lycaena helle); Credit: Chris van Swaay

Butterfly populations have been monitored in Europe for over 35 years. This monitoring has used standardized protocols, produced long-term datasets, and has resulted in indicators tracking the changes in butterfly populations. These data are proving to be very valuable for informing decision-makers on biodiversity changes and are used at local, national and regional levels to inform conservation management decisions and policies. As a result of the success of schemes in Europe, butterfly monitoring is growing and is now being implemented in countries outside of Europe including North America and Israel using similar protocols.

However, the protocols for butterfly monitoring in temperate regions are not applicable in regions with high numbers of butterfly species such as the tropics. In these biomes methodologies such as fruit-bait traps, counts of puddling butterflies, and timed counts have been used. The aim of this meeting, therefore, was to agree a standard set of methodologies that could be applied globally and from which data could be aggregated through an Essential Biodiversity Variable into a Global Butterfly Indicator.

The main agenda items and points of discussion were an overview of current butterfly monitoring, structured by continent and habitat, with emphasis on the different protocols; steps to process count data into indicators and trends; essential variables required to measure changes in butterfly populations; compatibility of different protocols and the logistics of creating a global indicator; whether the entire species diversity should be measured or just a portion; and agreement on a standard set monitoring protocols.

This workshop has catalysed the development of a number of products, including: global butterfly monitoring guidelines; the development of a Global Butterfly Indicator; and a suite of scientific journal articles on butterfly monitoring in different regions of the world. The development of an Essential Biodiversity Variable (EBV) ‘butterfly population abundance’ that will facilitate the harmonisation of butterfly monitoring data from different habitat types and regions is also being developed. A new butterfly monitoring specialist group has also been established to provide support for practitioners working in the field of butterfly monitoring and to continue momentum from this workshop.

The standardization of monitoring protocols that can be implemented in any country is crucial for the robust estimation of butterfly populations globally to assess progress towards the 2020 targets of the Convention on Biological Diversity (CBD). These guidelines can also provide the foundation for developing scenarios for the future of butterfly populations under different policy and management options. The outcomes of this meeting provide a clear path to increased harmonization among the efforts of global butterfly experts in different regions and towards the establishment of a Global Butterfly Indicator.

We would like to thank GEO BON and EU BON for funding this meeting.

Participants of the butterfly monitoring experts meeting at iDiv, Leipzig, Germany, December 2014

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

Next topics will be covered:

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

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

Place and date: Joensuu, Finland, 19 March 2015

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

To register, please fill in the registration form

Find the event in our calendar here.

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

FishBase on the US and CA servers (www.fishbase.us and www.fishbase.us) are now updated to version February 2015.

The domain www.sealifebase.org is now served with load balancing between the two mirrors below.

- sealifebase.ca (UBC, Vancouver)
- sealifebase.de (Geomar, Kiel)

You will see which mirror is serving at the bottom left corner of the page.

The DE domain is recently acquired.

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.

###

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

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

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

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

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

The 40 attendees came from 18 different countries.

Participants at the meeting.

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

The University of Cambridge invites for applications for a Research Associate to work on EU-BON, a major EU-funded research project, seeking to improve the use of biodiversity data in public policy. EU-BON will carry out research towards building a European gateway for biodiversity information, which will integrate a wide range of biodiversity data from on ground observations to remote sensing datasets and make it accessible for scientists, policy makers, and the public. The project is coordinated from the Berlin Natural History Museum with the University of Cambridge contribution being led Professor William Sutherland (Department of Zoology) and Dr Robert Doubleday (Centre for Science and Policy and Department of Geography). EU-BON started on 1 December 2012 and runs for 4.5 years.

The post The researcher will carry out research on how biodiversity data is currently used in European policy making and will contribute to analysis of the opportunities to increase its effective provision and use. Research methods are likely to combine qualitative and quantitative analysis and to focus on the use of biodiversity data in public policy contexts. The researcher will be expected to spend time working in both the Department of Zoology and the Centre for Science and Policy.

In addition to carrying out research on the use of biodiversity data in European policy making, the researcher will support Cambridge's contribution to EU BON as a whole. This will involve contributing to other workpackages as and when required. More information about EU BON can be found here:http://www.eubon.eu

Person Specification Applicants should have a PhD in a relevant field. Experience in both qualitative and quantitative analysis is desirable. Applicants should ideally have some first-hand experience of public policy processes and a willingness to travel within the European Union for research. Excellent organisational and communication skills will be essential in working as a successful part of this large, multi-partner and multinational team.

Any enquiries concerning the position can be made to Dr Robert Doubleday,rob.doubleday@csap.cam.ac.uk or Professor William Sutherland, w.sutherland@zoo.cam.ac.uk

Interviews for this post will take place on Thursday 18th June 2015.

To apply and for more information, please go to teh official job offer.

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

Fee includes accommodation and meals.                                                                                                                                          

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

FishBase on the US and CA servers (www.fishbase.us and www.fishbase.ca) are now updated to version April 2015.

A Special Section: "Conservation in Europe as a model for emerging conservation issues globally" is featured in the Early View module of Conservation Biology online. The section includes: 

Mapping opportunities and challenges for rewilding in Europe

Silvia Ceaușu, Max Hofmann, Laetitia M. Navarro, Steve Carver, Peter H. Verburg and Henrique M. Pereira

John D. C. Linnell, Petra Kaczensky, Ulrich Wotschikowsky, Nicolas Lescureux and Luigi Boitani

DOI: 10.1111/cobi.12534

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

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

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

Our family of Associated Partners has grown with three new members that joined us this month. EU BON has signed MoUs with the GLOBal Infrastructures for Supporting Biodiversity research (GLOBIS-B), the Institute of Geosciences and Earth Resources of the National Research Council of Italy (IGG-CNR) and ECOPOTENTIAL: Improving Future Ecosystem Benefits through Earth Observations, The hand over took place during the 9th GEO European Projects' Workshop in Copenhagen (15 – 16 June 2015).

   
Left: EU BON coordinator Christoph Hauser and Anke Hoffmann handing over the MoUs to our partners from IGG-CNR and ECOPOTENIAL  Antonello Provenzale, Carl Beierkuhnlein and Palma Blonda; Right: Handing over the MoU to Daniel Kissling - scientfic coordinator of GLOBIS-B; Credits: Anke Hoffmann
 

The GLOBIS-B project is a new H2020 project aiming to bring together biodiversity scientists with research infrastructure operators and legal interoperability experts to address the research needs and infrastructure services required to calculate Essential Biodiversity Variables (EBV) at a global scale.

ECOPOTENTIAL makes significant progress beyond the state-of-the-art and creates a unified framework for ecosystem studies and management of protected areas (PA). ECOPOTENTIAL focuses on internationally recognized PAs in Europe and beyond in a wide range of biogeographic regions, and it includes UNESCO, Natura2000 and LTER sites and Large Marine Ecosystems. Best use of Earth Observation (EO) and monitoring data is enabled by new EO open-access ecosystem data services (ECOPERNICUS). 

IGG-CNR conducts studies based on mineralogy, petrology, geochemistry, geodynamics and geophysics, aimed at understanding the processes occurring both in the interior and at the surface of the Earth, and providing the fundamental knowledge for the applications (technological use of geomaterials, mitigation of the natural risks and correct management of the Earth resources for a sustainable development).

A free GEO/Ramsar webinar titled "Wetlands, Biodiversity and the Role of Earth Observations" is taking place today - 18 June 2015. The webinar  is designed for anyone with an interest in or passion for biodiversity and wetlands - students, scientists, experts, or anyone with a general interest in one or more of these topics – who wants to learn from these vast global communities​.

This is the first of a series of planned webinars on the role of Earth observations in monitoring and sustaining biodiversity and wetlands. The webinars will be hosted by the GEO Biodiversity Observation Network (GEO BON) and GEO Water Community, together with the Ramsar Secretariat and will include leading experts from the global communities highly engaged in biodiversity, wetlands and Earth observations.

To watch the event and register follow the link: https://blbgroup.leadpages.net/webinar-wetlands/

The joint BESAFE/BIOMOT Conference "Motivations and arguments to act for biodiversity" took place on 10 & 11 June 2015 in Brussels, Les Ateliers des Tanneurs. The main objective of the conference was to present alternative ways to inspire innovative policy making to act for nature.

Based on four years of large-scale research by the two European projects, the conference aimed to define what could really work to motivate society to act for nature. The conference involved a wide audience in high-level keynotes, science-policy interface sessions, stakeholder meetings and panels. 

The joint event was also a platform for the BESAFE project Final Conference where the beta version of the BESAFE tool was presented and tested. The tool is planned as a user-friendly application where stakeholders can browse project results and background information to help them to help them to improve biodiversity argumentation.

A new EU BON acknowledging special issue "Earth Observation for Ecosystems Monitoring in Space and Time: A Special Issue in Remote Sensing" published in the open access journal Remote Sensing provides a collection of  important researchers in the field, as well as the most challenging aspects of the application of remote sensing to study ecosystems. 

Future Directions for Scientific Advice in Europe was published in April 2015 and updated in June 2015 to take account of developments in the European Commission, focuses on scientific advice in Europe.

A free digital copy of and more information on Future Directions for Scientific Advice in Europe can be found here.

The 2016 GEO BON Open Science Conference: "Biodiversity and ecosystem Services Monitoring for the 2020 Targets and beyond. Building on observations for user needs" will take place from 4 to 9 July 2016 in Leipzig, Germany. 

Biodiversity Science is facing enormous challenges as the pressures upon the earth’s biotic systems are rapidly intensifying and we are unlikely to reach the CBD 2020 Aichi Targets. But how far or close are we to reach the targets? The GEO BON Open Science Conference on "Biodiversity and Ecosystem Services Monitoring for the 2020 Targets and beyond" will assess this question. The conference is open to the wide scientific public and is sponsored and co-organized by iDiv, UFZ, SASCAL (others to come).

For more information please visit: http://conf2016.geobon.org

The Department of Conservation Biology at the Helmholtz Centre for Environmental Research (UFZ) is offering a full-time position for a Population Biologist / Conservation Biologist (Postdoc) focussing on assessing past and future trends in species under land use and climate change and improving the design of monitoring schemes. The position will be part of  EU BON. 

The Helmholtz Centre for Environmental Research (UFZ) with its 1,100 employees has gained an excellent reputation as an international competence centre for environmental sciences. We are part of the largest scientific organisation in Germany, the Helmholtz association. Our mission: Our research seeks to find a balance between social development and the long-term protection of our natural resources.

More information on the oficial job offer page: http://bit.ly/1MexC6Q

A new EU BON derived open access paper looking into Earth Observations (EO) and the Aichi Targets was recently published  in the journal Remote Sensing in Ecology and Conservation.

The paper reviews the ABTs and EBVs against direct and indirect, operational and emerging, EO data products. The review was conducted by consulting expert opinion and categorically rating the Targets based on the adequacy of currently available EO technology to build indicators per target. The potential RS-EBVs were also matched with their respective EO data products.

To summarize this information a monitoring framework is proposed where RS-EBVs are used to harmonize observations prior to the indicator stage. Potential obstacles to implementing this framework and challenges to its adoption by the wider science and policy community are discussed. Finally, upcoming satellite missions which could offer potential for assessing global biodiversity status and trends beyond the 2020 timeframe of the CBD's current Strategic Plan for Biodiversity are discussed.

Original Source: 

O'Connor B. et. al. (2015) Earth observation as a tool for tracking progress towards the Aichi Biodiversity Targets. Remote Sensing in Ecology and Conservation. DOI: 10.1002/rse2.4

One of our recent associated partners, the EU project GLOBIS-B has published its first paper: "Towards global interoperability for supporting biodiversity research on essential biodiversity variables (EBVs)". You can find the article here.

Abstract: 

Essential biodiversity variables (EBVs) have been proposed by the Group on Earth Observations Biodiversity Observation Network (GEO BON) to identify a minimum set of essential measurements that are required for studying, monitoring and reporting biodiversity and ecosystem change. Despite the initial conceptualisation, however, the practical implementation of EBVs remains challenging. There is much discussion about the concept and implementation of EBVs: which variables are meaningful; which data are needed and available; at which spatial, temporal and topical scales can EBVs be calculated; and how sensitive are EBVs to variations in underlying data? To advance scientific progress in implementing EBVs we propose that both scientists and research infrastructure operators need to cooperate globally to serve and process the essential large datasets for calculating EBVs. We introduce GLOBIS-B (GLOBal Infrastructures for Supporting Biodiversity research), a global cooperation funded by the Horizon 2020 research and innovation framework programme of the European Commission. The main aim of GLOBIS-B is to bring together biodiversity scientists, global research infrastructure operators and legal interoperability experts to identify the research needs and infrastructure services underpinning the concept of EBVs. The project will facilitate the multi-lateral cooperation of biodiversity research infrastructures worldwide and identify the required primary data, analysis tools, methodologies and legal and technical bottlenecks to develop an agenda for research and infrastructure development to compute EBVs. This requires development of standards, protocols and workflows that are ‘self-documenting’ and openly shared to allow the discovery and analysis of data across large spatial extents and different temporal resolutions. The interoperability of existing biodiversity research infrastructures will be crucial for integrating the necessary biodiversity data to calculate EBVs, and to advance our ability to assess progress towards the Aichi targets for 2020 of the Convention on Biological Diversity (CBD).

Original Source:

W. Daniel Kissling et. al. (2015) Towards global interoperability for supporting biodiversity research on essential biodiversity variables (EBVs). Biodiversity. DOI: 10.1080/14888386.2015.1068709

We are happy to announce that earlier this summer EU BON has been selected to be featured as a successful EU-funded project. The DG Research & Innovation communication team has interviewed our project co-ordinator Christoph Häuser and the resulting article - Combining citizen and satellite biodiversity data - is now a fact!

The news item focuses on EU BON's efforts to bring together biodiversity and Earth observation data, that are accumulated from data sources ranging from the individual citizen scientist, researchers to the most technologically advanced satellites in one EU-wide initiative. 

"Information on life on Earth is crucial to addressing global and local challenges, from environmental pressures and societal needs, to ecology and biodiversity research questions," commented Christoph Häuser in his interview.

View the full story on the Horizon 2020 site.

Global biodiversity loss is intensifying. But it is hard to assess progress towards the Aichi Biodiversity Targets for 2011–20 set by the Convention on Biological Diversity (CBD). Target 5, for instance, aims to halve global deforestation rates by 2020; but reliable indicators for deforestation that can be monitored remotely have not been developed or agreed on. National biodiversity monitoring programmes differ widely, most data sets are inconsistent, and few data are shared openly.

Read more on the topic in the original commentary article.

The fifth EU BON Policy brief focuses on the need for open data in biodiversity monitoring. The Group on Earth Observation’s Biodiversity Observation Network, of which EU BON is a part, has a vision to better monitor and manage the global biosphere for our common good. This creates research challenges that require use of all appropriate data. Yet, access to data is impaired because, traditionally, few data are released, they are often locked up in traditional scientific literature, or because of concerns over intellectual property rights.

Because of this, EU BON endorses the free and open exchange of data and knowledge in accordance with the "Joint Declaration on Open Science for the 21st Century", especially in regard to scientific information produced in Europe as outlined by the European Commission.

Find out more in the Policy Brief below:

Biodiversity Observation Networks (BONs) have recently become a hot topic on the scene of natural sciences. But what is their role in advancing our knowledge of biodiversity and associated ecosystem services?

A new paper in the Biodiversity journal uses the European Biodiversity Observation Network (EU BON) as an example, to explain how they can fill in gaps and address existing barriers in knowledge through implementing an integrated biodiversity information framework.

Biodiversity supports essential ecosystem services that are key to human well-being. The ongoing global biodiversity decline is a threat to humans, particularly in developing countries.

The Aichi biodiversity targets of the United Nations' Strategic Plan for Biodiversity set ambitious goals for protecting biodiversity from further decline, but gaps in knowledge still sit in the way of monitoring progress, hindering the assessment of the current status and future trends of biodiversity.

There is an urgent need for a paradigm shift with regards to how biodiversity data are collected, stored, shared and streamlined in order to tackle many sustainable development challenges ahead.

Solving issues of biodiversity knowledge gaps and data reuse are a main focus of the EU BON project and provide a European contribution to GEO (Group on Earth Observations) and the wider Global Earth Observation System of Systems (GEOSS).

The EU BON project aims at addressing the need for a shift towards an integrative biodiversity information framework, starting from collection to the final interpretation and packaging of data.

At the centre of the EU BON's efforts is promoting and adopting existing standards of good practice and integrating data within a single biodiversity portal in order to make it discoverable, accessible and digestible. The aim of the portal is to collect and standardize existing data sources, as well as to work towards translating and visualizing the collected raw data to show trends and prognoses useful to policy and society.

"Biodiversity data, information and knowledge are diverse, dispersed and disparate. It is hard for a non-specialist to make sense of raw data and often separate data sets and gaps in data prevent effective policy reporting. This is why progress towards the Aichi targets is often hard to calculate, and where BONs can play a central role by working towards standardization to achieve true interoperability of data sets." explains the lead author Dr. Florian T. Wetzel,Museum für Naturkunde (MfN), Berlin.

"For advancing with the biodiversity challenge and the Aichi Targets globally, regional BONs are needed, and this is where EU BON attempts to make a difference for Europe" adds Dr. Christoph L. Häuser, EU BON coordinator and Deputy Director General at MfN, Berlin.

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Original Source:

Florian T. Wetzel, Hannu Saarenmaa, Eugenie Regan, Corinne S. Martin, Patricia Mergen, Larissa Smirnova, Éamonn Ó Tuama, Francisco A. García Camacho, Anke Hoffmann, Katrin Vohland & Christoph L. Häuser (2015): The roles and contributions of Biodiversity Observation Networks (BONs) in better tracking progress to 2020 biodiversity targets: a European case study, Biodiversity, DOI: 10.1080/14888386.2015.1075902

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

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

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

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

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

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

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

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

Original Source:

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

Additional Information:

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

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

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

Data collection and analysis are at the core of modern research, and often take months or even years during which researchers remain uncredited for their contribution. A new plugin to a workflow previously developed by the Global Biodiversity Information Facility (GBIF) and Pensoft, and tested with datasets shared through GBIF and DataONE, now makes it possible to convert metadata into a manuscript for scholarly publications, with a click of a button.

Pensoft has currently implemented the feature for biodiversity, ecological and environmental data. Such records are either published through GBIF or deposited at DataONE, from where the associated metadata can be converted directly into data paper manuscripts within the ARPHA Writing Tool, where the authors may edit and finalize it in collaboration with co-authors and peers and submit it to the Biodiversity Data Journal (BDJ) with another click. Until now, the GBIF metadata have been exported into an RTF file. The new feature will be also part of future Pensoft projects, including the recently announced Research Ideas & Outcomes (RIO) Journaland the forthcoming Ecology and Sustainability Data Journal.

The concept of the data paper was introduced in the early 2000's by the Ecological Society of America in order to solve issues of handling big data and to make the metadata and the corresponding datasets discoverable and citable. It was then brought to the attention of the biodiversity community in 2011 as a result of a joint GBIF and Pensoft project and later implemented in the routine publishing process in all Pensoft journals.

Since then, Pensoft has been working with GBIF, and subsequently DataONE to automate the process of converting metadata into a human-readable data paper format. The novel workflow means that with only a couple of clicks, publishers of datasets on either GBIF, DataONE or any other portal storing metadata in the same format, may submit a manuscript for peer-review and open access citable publication in BDJ.

The process is simple, yet it brings a lot of benefits. Publishing data does not only mean a citable publication and, thus, credit to the authors and the repository itself, but it also provides the option to improve your work and collect opinion though peer-review. BDJ also shortens the distance between "narrative (text)" and "data" publishing.

"Metadata descriptions (e.g., data about the data) are of primary importance for data dissemination, sharing and re-use, as they give essential information on content, scope, purpose, fitness for use, authorship, usage rights, etc. to any potential user. Authoring detailed metadata in repositories can seem a tedious process, however DataONE users will now benefit from direct export of already created metadata into data paper manuscripts and have even better exposure of their work through discoverability mechanisms and scholarly citations," commented Dr Amber Budden, DataONE Director for Community Engagement and Outreach

"It is great to reap the fruits of a process that started back in 2010. The automated streamlining of biodiversity data between repositories and publisher is an elegant feature that makes publishing a data paper an easy and rewarding process to crown scientists data collection efforts and ensure its use and re-use," added Prof. Lyubomir Penev, Managing Director of Pensoft.

More detailed information on how data authors could use the workflow can be found on the Pensoft blog.

References:

Chavan V, Penev L (2011) The data paper: a mechanism to incentivize data publishing in biodiversity science. BMC Bioinformatics. 12(Suppl 15):S2. DOI: 10.1186/1471-2105-12-S15-S2

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

ecoSERVICES is seeking a new host institution to establish its international project office from 2016. Expressions of interest will be examined with the scientific steering committee on the week of 30 November 2015.

Currently hosted at the Institut Méditerranéen de Biodiversité et d’Ecologie (IMBE) in France, ecoSERVICES is seeking a new host for its international project office from 2016

The ideal host institution works on scientific issues related to biodiversity, ecosystem services and human well-being, at various scales from local or national to global; and meets a few practical specifications via direct funding or in-kind support for establishment of a fully operational office.

Expressions of interest need to be sent to Karine Payet-Lebourges by email with subject "ecoSERVICES IPO – Offer".

Applications will be examined with the scientific steering committee on the week of 30 November 2015.

More information here.

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

The training will have three subsets:

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

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

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