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).

How can we monitor Europe-wide farmland biodiversity so that it makes sense to farmers, is ecologically credible and scientifically sound and can be implemented for a reasonable price? Two new studies answer these questions.

First, stakeholders were asked, which indicators provided best "value for money" for their purpose. Habitat, plant species and farm management indicators ranked highest. Wild bees, earthworms and spiders as important providers of ecosystem services came next. Together they form a minimum set of indicators which provides non-redundant information and which can make dominant changes in farmland biodiversity visible.

Researchers from the FP7 funded EU projects "Biodiversity Indicators for European Farming Systems (BioBio)" and "Building the European Biodiversity Observation Network (EU BON)", then developed cost estimates for nine monitoring scenarios and the authors conclude that a continent-wide farmland biodiversity monitoring scheme would require only a modest share of the Common Agricultural Policy (CAP) budget (2014-2020).

Cost assessments showed that the farmland biodiversity monitoring scenarios require 0·01% - 0·74% of the total CAP budget and 0·04% - 2·48% of the CAP budget specifically allocated to environmental targets. With 30% of the CAP devoted to environmental targets (more than 120 billion EURO), investing in a monitoring process seems a logical choice given these results. The researchers provide a framework for individual countries to start farmland biodiversity monitoring, building towards a coherent European picture.

The studies were published in the Journal of Applied Ecology and the Journal of Environmental Management.

"Despite scientific proof that monitoring increases the (cost) efficiency of policy measures, monitoring rarely gets included in policy programme budgets. We identified that the cost are not as high as feared. To further facilitate implementation, the study provides stepping stones to build a European monitoring scheme, offering a choice in indicators and using regions as a unit of trend analysis," explains Dr. Ilse Geijzendorffer, the lead author of the Journal of Applied Ecology paper.

Post-doctoral scientist position is open for the project "Towards an integrated prediction of Land & Sea Responses to global change in the Mediterranean Basin" (LaSeR-Med), which focusses on integrated socio-ecological modelling. The duration of the contract is initially one year, with a possible extension for a second year, depending on the initial results. The post-doc will be based within the Mediterranean Institute of marine and terrestrial Biodiversity and Ecology (IMBE) in Aix-en-Provence, France. The project is part of the Labex OT-Med (http://www.otmed.fr/).

Applicants should hold a doctoral degree in physics, chemistry, microbiology, geosciences, environmental sciences or a related field of science. They should be familiar with modelling biogeochemical interactions between ecosystems and capable to further develop existing numerical ecosystem models. Programming skills (C) and modelling experience are therefore mandatory. Knowledge of R and of Unix/Linux environment will be an advantage. The candidate should have good written and oral communication skills. For work, good skills in the English language will be essential.

The project:

Terrestrial and marine ecosystems are connected through groundwater, river discharge and nutrient outflows (especially N and P). River catchments in the Mediterranean are N-intensive regions, mostly due to intensive agriculture in the North and to crop N2 fixation or food & feed import in the South. The fraction of nutrient reaching the sea constitutes significant anthropogenic forcing of many marine biological processes. For simulating the dynamics of the first levels of the marine food web (from nutrients to jellyfishes), the ocean biogeochemical model, Eco3M-MED, used and developed by the Mediterranean Institute of Oceanography (MIO) within OT-Med, currently uses N and P measurements at river mouths, e.g. for the Rhône.

In order to estimate the impacts of global change on the functioning of marine ecosystems, the project aims at modeling the dependency of N and P outflows to the Mediterreanean sea toward land management. Land management is modelled as part of the agro-ecosystem model LPJmL (Bondeau et al., 2007), that has been especially adapted to the Mediterranean cropping systems (Fader et al., 2015). Among others, LPJmL simulates the daily carbon and water cycles, and the river discharges to the sea. Following existing approaches in the scientific literature, the post-doc will implement the nutrient N and P transfer in LPJmL, covering the net nutrient inputs to the river catchments by accounting for the processes occurring at the agro-ecosystem level (N2 biological fixation, fertilization, atmospheric deposition) and the net food and feed imports. Since only a minor fraction of the net nutrient inputs from Mediterranean basins reaches the sea, the retention along the nutrient cascade will have to be added to the LPJmL river routing scheme, similarly to the method used by the Riverstrahler model. Once the nutrient transfers have been introduced into LPJmL, simulations will be validated using current climate and land use forcing for comparisons with the existing observations from river outlets. Finally, future conditions will be assessed by using the model with scenarios of changing regional climate and land use / land management.

Your application:

Applications should contain a suitable motivation letter describing your anticipated role in the project, a CV, a list of scientific publications and the names of at least two scientists that can be contacted for references. They must be sent to Ms. Gabriela Boéri (gabriela.boeri@imbe.fr). Please prepare your application as a single file in pdf-format.

Questions about the project or the position can be directed to Dr. Alberte Bondeau (alberte.bondeau@imbe.fr). The position will be filled as soon as a suitable candidate has been found – work should start soon after that date. The salary and contract conditions will be determined according to standards set by Aix-Marseille University – questions in this regard can be directed to Sophie Pekar (pekar@otmed.fr).

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

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

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

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

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

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

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

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

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

From 9 to 11 November in Vienna, Austria the EU H2020 project Detecting changes in essential ecosystem and biodiversity properties – towards a Biosphere Atmosphere Change Index: BACI has organised a special workshop titled "Remote sensing applications related to land use/change" with the aim to facilitate co-design and co-production of knowledge with regard to innovative applications of remote sensing products.

EU BON project partner Duccio Rocchini was among the invited lecturers at the event. His talk titled "Like in a Rubik’s cube: Recomposing Biodiversity Information by Remote Sensing Data" introduced some experience from EU BON.

The overarching objective of BACI is to tap into the unrealized potential of existing and scheduled space-borne Earth observation data streams to detect changes in ecosystem functioning and services that have repercussions for essential biodiversity variables, land use potentials, and land-atmosphere interactions.

Butterfly monitoring at local, national, regional, and global levels is the topic of the first of the GEO BON Technical Series reports produced to provide stakeholders with practical guidance for biodiversity conservation.

The report is jointly produced by GEO BON, EU BON, UNEP-WCMC, the German Centre for Integrative Biodiversity Research (iDiv) and Dutch Butterfly Conservation, as a follow up of a joint workshop, which took place in December 2014, to catalyse the process for the development of global butterfly monitoring guidelines and the creation of a new specialist butterfly monitoring group.

The report titled "Guidelines for Standardised Global Butterfly Monitoring" provides a suite of standard field protocols that can measure butterfly population change over various spatial and temporal scales, and that can be applied in any part of the world.

The importance of butterfly monitoring programmes lies in the fact that they provide information about population trends and changes that can be then used as indicators of biodiversity and environmental change outside of the butterfly context.

The guidelines are intended for scheme coordinators, i.e. people wishing to establish butterfly monitoring in any part of the world. The guidelines explain how to set up butterfly monitoring that can provide consistent and comparable results between sites and between years, consistent with international standards.

The ambition behind this new publication is that butterfly populations around the world are well monitored, thereby providing vital information on how these insect populations and other parts of biodiversity are changing. This information is important for feeding into local, national, regional, and global decision-making to help reduce biodiversity loss as well as raising awareness of butterflies and biodiversity in general.

Original Source:

Van Swaay, C., Regan, E., Ling, M., Bozhinovska, E., Fernandez, M., Marini-Filho, O.J., Huertas, B., Phon, C.-K., Kőrösi, A., Meerman, J., Pe’er, G., Uehara-Prado, M., Sáfián, S., Sam, L., Shuey, J., Taron, D., Terblanche, R., and Underhill, L. (2015). Guidelines for Standardised Global Butterfly Monitoring. Group on Earth Observations Biodiversity Observation Network, Leipzig, Germany. GEO BON Technical Series 1, 32pp.

A joint WP2/3/4/6/7 workshop took place on 23-24 November 2015 in Cambridge, UK. The overall goal of the workshop was to identify synergies and overlapping objectives across WP3/4 and 6/7 and beyond and to thereby identify applications of EU BON’s tools to decision-making, including at the policy level.

The idea for this small, focused workshop emerged as a result of the popularity and outreach achieved by the Aquamaps North-Sea fisheries infographic, developed under WP6. This infographic has demonstrated how the AquaMaps modelling tool can help answer a clear policy or question relevant to decision-making.

Under EU BON, WP3 and WP4 have developed some powerful tools, and more are in the making. The next challenge for EU BON is to use these tools to address policy-relevant issues/questions and to link EU-BON’s modelling capacity to policy needs. Producing cutting-edge innovations is important, but their implementation for policy and decision-making needs is what has real impact.

This is what the Cambridge workshop was about - bringing different players together to identify the right ways to make EU BON innovation policy relevant.

Outcomes of the meeting:

• An improved vision of how to ‘market’ EU BON’s products for end-users;

• A better understanding of the end-users and the barriers that they face in accessing and using biodiversity data tools; and

• Improved collaboration between EU BON Work Packages and a coherent vision for future synergies.

A new special issue titled "Connecting the Dots: Integrating Biodiversity Observations to Better Track the CBD 2020 Targets" looks at Biodiversity Observatios and the ways that can be integrated into the CBD 2020 targers, for better results in biodiversity conservation.

The issue, where a number of GEO BON partners are authors, explores a wide variety of aspects of Biodiveristy Observations, including data management, integration of in-stiu data, the roles and contricutions of BONs, contextualization with the UN's Sustainable Developmen Goals, and many more.

For more information and to see what is included in the Special Issue, click here.

The Museum für Naturkunde and the Botanic Garden and Botanical Museum are honored to be hosting the 31st Annual Meeting of the Society for the Preservation of Natural History Collections (SPNHC) as well as the 2nd International Conference on Biodiversity Biobanking of the Global Genome Biodiversity Network (GGBN) in Berlin from June, 20 to June, 25, 2016. The conferences will be held in parallel at the andel’s Hotel Berlin, Landsberger Allee.

• SPNHC conference web site: http://www.spnhc2016.berlin/, conference theme: "Green Museum – How to practice what we preach?"
• GGBN conference web site: https://meetings.ggbn.org/conference/ggbn/2016/index, conference theme: "Meeting the Challenge: How to Preserve a Cross-Section of the Tree of Life"

The registration for both conferences is now open. Please check the conference web sites for information on the conference program, field trips, social events, accommodation, registration and abstract submission. All social events and field trips as well as the opening session on Tuesday are joint events for attendees of both conferences. During lunch and coffee breaks one will have the chance to visit the vendor booths and chat with attendees of both conferences. The sessions of both conferences cover complementary topics to avoid duplications.

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

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

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

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

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

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

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

Original Source:

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

A new paper "Combining internal and external motivations in multi-actor governance arrangements for biodiversity and ecosystem services" published in the journal Environmental Science & Policy looks at ways to motivate actions for biodiversity conservation and ecosystem services provision. The paper is a result of the EU FP7 funded project BIOMOT.

Abstract: 

This paper analyses the possibility of building a mutually supportive dynamics between internally and externally motivated behaviour for biodiversity conservation and ecosystem services provision. To this purpose a face to face survey amongst 169 key actors of 34 highly successful and prominent biodiversity arrangements in seven EU countries was conducted. The main finding of the paper is the feasibility of combining inherently intrinsically motivated behaviours (providing enjoyment, pleasure from experimentation and learning, aesthetic satisfaction) and internalized extrinsic motivations (related to the identification with the collective goals of conservation policy) through a common set of governance features. Successful initiatives that combine internal and external motivations share the following features: inclusive decision making processes, a broad monitoring by "peers" beyond the core staff of the initiatives, and a context that is supportive for the building of autonomous actor competences. These findings are in line with the psycho-sociological theory of motivation, which shows the importance of a psycho-social context leading to a subjective perception of autonomy and a sense of competence of the actors.

Original Source: 

Tom Dedeurwaerdere, Jeroen Admiraal, Almut Beringer, Flavia Bonaiuto, Lavinia Cicero, Paula Fernandez-Wulff, Janneke Hagens, Juha Hiedanpää, Paul Knights, Erica Molinario, Paolo Melindi-Ghidi, Florin Popa, Urban Šilc, Nathalie Soethe, Tiina Soininen, Jose Luis Vivero, Combining internal and external motivations in multi-actor governance arrangements for biodiversity and ecosystem services, Environmental Science & Policy, Volume 58, April 2016, Pages 1-10, ISSN 1462-9011, http://dx.doi.org/10.1016/j.envsci.2015.12.003

EU BON has signed memoranda of understanding with almost thirty institutions and projects from across Europe and outside to state its desire for collaboration and exchange of expertise. Among the early partners in this list is the LTER-Europe group, focussed on the integration of scientific research  and ecosystem research approaches, including the human dimension.

Dr. Mark Frenzel who took part in the EU BON Third Stakeholder roundtable in December 2015, gives an overview of his impressions from the meeting as well as his ideas on the co-work between LTER-Europe and EU BON.

Credit: Florian Wetzel

Q: The LTER-Europe network looks at conceptualizing Long-Term Ecosystem Research (LTER) as an essential component of world-wide efforts to better understand ecosystems. How is the network planning to achieve this?

A: This is / will be achieved mainly by funded project work. Actually the H2020 eLTER project is the most important backbone, an ESFRI eLTER initiative is running too. In terms of content there are several challenges which need to be addressed: (1) Harmonisation in terms of what and how is being measured at LTER sites, (2) collection and representation of metadata about sites, actors and data sets within the web tool DEIMS, (3) open access of data and DOI registration of data sets, (4) considering the human component as a major driver for changes in ecosystems by including socio-economy and socio-ecology in the LTER approach.      
 

Q: How would EU BON and its planned European biodiversity portal be beneficial to LTER-Europe and its aims in the next years?

A: Biodiversity is not the only, but an important focus within LTER. It depends on the services and benefits connected with this portal and its long-term perspective. The most important added value I would see in an elaborated framework-based agreement on the set of  "essential biodiversity variables" which will be a compromise between importance and feasibility. This selection process should be well tuned with the relevant players in this field.
 

Q: The LTER-Europe network includes several hundreds of sites that are collecting large amounts of data  – how can this data be used for improving our knowledge of biodiversity, particularly for policy-relevant questions?

A: The big advantage (and potential) of LTER-Europe sites is the coverage in terms of geography and bioms, the general shortcoming is in the heterogeneous reasons why these sites have been set up (e.g. for monitoring air pollution) and that there is no targeted funding (in terms of a specific research question) for all sites.

Not all sites are dealing with biodiversity data. First, suitable sites need to be selected according to metadata in DEIMS (https://data.lter-europe.net/deims/). Second, data sets according to fitting topics have to be compiled (perhaps no easy task, as datasets up to now are not exhaustively documented). Site managers of representative sites (depending on the question to be addressed) could be motivated to create a common standardised data sets (needs external funding depending on the resources necessary for the task or at least a very attractive research question) responding to e.g. policy needs. Moreover, the long-term knowledge of site coordinators about the development and the important drivers of change at their sites (e.g. by assessing ecosystem services) comprises valuable meta information about the context of data sets.

Data obtained from the sites could potentially help with policy-relevant questions like status of endangered species or status of ecosystem service relevant system parameters which could be extracted from LTER sites.
 

Q: According to you what are the next three most urgent step in order to achieve better understanding of ecosystem services and their benefits for policy, economics and society?

A: (1) reliable data and suitable scale of data, (2) understanding the effect of scale on ecosystem services, (3) make use of large networks to approach this issue, bring the results down to a scale understandable for the layman.
 

About LTER-Europe:

Long-Term Ecosystem Research (LTER) is an essential component of world-wide efforts to better understand ecosystems. 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.

Are you in Eastern Europe and actively involved in monitoring and managing biodiversity data? Then the EU BON "Biodiversity data sharing and data publishing workshop" might just be the thing for you.

The event will take place on 22-23 March 2016 in Sofia, Bulgaria with focus on publishing of biodiversity data, in particular species occurrences, sample-based and citizen science data. The training will include a practical session during which participants will be assisted by experienced trainers from the EU BON project. To register and for more information, click here.

The sessions on data sharing will cover introductory overview of key concepts, demonstration and practical exercise using the GBIF Integrated Publishing Toolkit (IPT). The Global Biodiversity Information Facility (GBIF) is the world's largest initiative for enabling free access to biodiversity data via internet.

Special attention will be paid to data paper publishing led by specialists from Pensoft Publishers - a company well known among biodiversity scientists worldwide for technologically cutting-edge open access journals, such as: Research Ideas and Outcomes, ZooKeys, Biodiversity Data Journal, Nature Conservation, and a strong advocate of data publishing. Registration of data in GEO registry system will be also addressed during the workshop.

The following topics will be covered (detailed program will follow):

• The data publishing landscape, gaps and mobilization efforts
• Demonstration and practical session on data publishing using the GBIF IPT: step-by-step demo will show in detail (and in practice) how to publish a dataset using IPT.
• The Data Publishing Toolkit at EU BON: Automated creation of data papers, data and text integrated publishing via the ARPHA Publishing Platform
• Citizen Science gateway and demo of PlutoF Citizen Science module
• GoldenGate Imagine tool and copyright issues
• Registration of data in the GEO Registry System

Context and background: 

Addressing global problems, such as biodiversity loss and impacts of climate change requires open access to data. This was concluded by world leaders at Johannesburg Summit in 2002 when they established the Group for Earth Observations (GEO). EU BON (Building the European Biodiversity Observation Network) seeks to enhance biodiversity data availability and integration, and is the European contribution to the GEO Biodiversity Observation Network.

All biodiversity databases need to be integrated in GEO. Therefore, EU BON undertakes capacity building of biodiversity communities (e.g. researchers, citizen scientists, non-governmental organisations) that are involved in collecting and disseminating biodiversity information, including monitoring initiatives.

To register and for more information, click here.

The Faculty of Geo-Information Science and Earth Observation (ITC) at the University of Twente has recently launched an investment programme to strengthen its international academic fields. For 11 pioneering-multidisciplinairy projects a PhD-position is made available, three of them already are filled in. The Department of Natural Resources (NRS) specialises in advanced spatial and temporal analysis and technique development for the environment as well as sustainable agriculture.

Job Description: 

For more information visit the official job offer.

From 26 to 28 January 2016, EU BON hosted its first Biodiversity Portal Hackathon in Seville, Spain. The event marked an important milestone for the project, paving the way towards one of the most important EU BON products - the European Biodiversity Portal.

It is a well known fact that current biodiversity observation systems and environmental datasets are unbalanced in coverage and not well integrated. This brings the need of a new system which will facilitate access to such knowledge and will effectively improve the work in the field of biodiversity observation in general.

Participants at the Biodiversity Portal Hackathon in Seville, Spain; Credit: Pensoft

The ultimate goal of EU BON is to create an European Biodiversity Portal which will collect and present biodiversity data from across Europe in a consistent and re-usable way. The portal will then feed into a global equivalent developed by the Group on Earth Observation’s Biodiversity Observation Network (GEO BON).

But what are the benefits from and what are the challenges in front of such an ambitious project?

Following the Biodiversity Data Portal hackathon, Dr. Hannu Saarenmaa, leader of WP 2 Data integration and interoperability, and Juan José Negro answered these questions in a video interview: 

Creating and maintaining a biodiversity data collection has been a much-needed worldwide exercise for years, yet there is no single standard on how to do this. This has led to a myriad of datasets often incompatible with each other. To make the most out of biodiversity data and to ensure that its use for environmental monitoring and conservation is both easy and legal, EU BON published recommendations that provide consistent Europe-wide Data Publishing Guidelines and Recommendations in the EU BON Biodiversity Portal.

The report "Data Policy Recommendations for Biodiversity Data. EU BON Project Report" featured in the Research Ideas & Outcomes (RIO) journal, is the first contribution in a pioneering comprehensive project outputs compilation taking advantage of RIO's unique option to publish collections of project results.

Lyubomir Penev presenting the EU BON collection in RIO at the project's biodiversity data sharing and data publishing workshop in Sofia; Credit: Pensoft

Biodiversity data and information provide important knowledge for many biological, geological, and environmental research disciplines. Additionally, they are crucial for the development of strong environmental policies and the management of natural resources. Information management systems can bring together a wealth of information and a legacy of over 260 years of biological observations which are now dispersed in a myriad of different documents, institutions, and locations.

EU BON aims to build a comprehensive "European Biodiversity Portal" that will incorporate currently scattered Europe-wide biodiversity data, while at the same time helping to realize a substantial part of the worldwide Group on Earth Observations Biodiversity Observation Network (GEO BON). To achieve this ambitious plan, EU BON identifies the strong need for a coherent and consistent data policy in Europe to increase interoperability of data and make its re-use both easy and legal.

"Biodiversity data and information should not be treated as commercial goods, but as a common resource for the whole human society. The EU BON data sharing agreement is an important step in this direction," comments the lead author of the report Dr. Willi Egloff from Plazi, Switzerland.

In its report, the EU BON project analysis available single recommendations and guidelines on different topics. On this basis, the report provides structured guidelines for legislators, researchers, data aggregators, funding agencies and publishers to be taken into consideration towards providing standardized, easy-to-find, re-shareable and re-usable biodiversity data.

"We are extremely happy that EU BON is among the first to take advantage of our project outputs collections option in RIO. The first report they are publishing with us deals with issues of opening up data, and digitizing and collecting scientific knowledge, all close to RIO's mission to open up the research process and promote open science," says Prof. Lyubomir Penev, Founder and Publisher of RIO.

Original Source:

Egloff W, Agosti D, Patterson D, Hoffmann A, Mietchen D, Kishor P, Penev L (2016) Data Policy Recommendations for Biodiversity Data. EU BON Project Report. Research Ideas and Outcomes2: e8458. doi: 10.3897/rio.2.e8458

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

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

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

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

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

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

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

Original Sources:

Rationale of the roundtables

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

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

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

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

Open access to biodiversity is key for addressing pertinent ecological issues such as biodiversity loss and impacts of climate change. On 22 & 23 March 2016, experts from EU BON met with scientists, policy makers and practitioners from across Europe to discuss issues of biodiversity data sharing, curation and publishing.

The workshop, which took place in Sofia, Bulgaria, introduced participants to key concepts, demonstration and practical exercise in biodiversity data sharing using the GBIF Integrated Publishing Toolkit (IPT). Practical training sessions led by Larissa Smirnova from the Royal Museum for Central Africa (Belgium) and Kyle Braak from GBIF demonstrated the integration and management of datasets in GBIF. A step-by-step demo and practical session on how to publish a data was also featured in the workshop.

Participants at the EU BON data sharing & data publishing workshop in Sofia; Credit: Pensoft

Special attention was paid to innovative data publishing practices in a session led by the local hosts Pensoft Publishers who introduced their ARPHA publishing platform, as well as its new journal Research Ideas & Outcomes (RIO), which publishes unconventional output types across the research cycle, including data and software descriptions, workflows, methods and many more.

PlutoF demonstrated its citizen science gateway and  demonstrated how the citizen science data can be managed using the CS module. Plazi also presented their GoldenGate Imagine tool, optimized for marking up, enhancing, and extracting text and data from PDF files.

    
Sessions at the at the EU BON data sharing & data publishing workshop in Sofia; Credit: Pensoft

The importance of measuring species diversity as an indicator of ecosystem health has been long recognized and it seems that satellite remote sensing (SRS) has proven to be one of the most cost-effective approaches to identify biodiversity hotspots and predict changes in species composition. What is the real potential of SRS and what are the pitfalls that need to be avoided to achieve the full potential of this method is the topic of a new research, published in the journal Remote Sensing in Ecology and Conservation.

The new study, supported by the FP7 funded EU project EU BON takes the assessment of diversity in plant communities as a case study. Showing the difficulties to achieve high results by relying only on field data, the paper discusses the advantages of SRS methods.

"In contrast to field-based methods, SRS allows for complete spatial coverages of the Earth's surface under study over a short period of time. Furthermore, it provides repeated measures, thus making it possible to study temporal changes in biodiversity," explains Dr. D. Rocchini from Fondazione Edmund Mach, lead author and WP deputy leader / task leader in EU BON. "In our research we provide a concise review of the potential of satellites to help track changes in plant species diversity, and provide, for the first time, an overview of the potential pitfalls associated with the misuse of satellite imagery to predict species diversity. "

Traditionally, assessment of biodiversity at local and regional scales relies on the one hand on local diversity, or the so called alpha-diversity, and on the other, on species turnover, or beta-diversity. Only in combination of these two measures can lead to an estimate of the whole diversity of an area.

While the assessment of alpha-diversity is relatively straightforward, calculation of beta-diversity could prove to be quite challenging. This is where increased collaboration between the remote sensing and biodiversity communities is needed in order to properly address future challenges and developments.

The new research shown the high potential of remote sensing in biodiversity studies while also identifying the challenges underpinning the development of this interdisciplinary field of research.

"Further sensitivity studies on environmental parameters derived from remote sensing for biodiversity mapping need to be undertaken to understand the pitfalls and impacts of different data collection processes and models. Such information, however, is crucial for a continuous global biodiversity analysis and an improved understanding of our current global challenges."concludes Dr. Rocchini.

Original Source:

Rocchini, D., Boyd, D. S., Féret, J.-B., Foody, G. M., He, K. S., Lausch, A., Nagendra, H., Wegmann, M., Pettorelli, N. (2016), Satellite remote sensing to monitor species diversity: potential and pitfalls. Remote Sensing in Ecology and Conservation, 2: 25-36. doi: 10.1002/rse2.9

A new EU BON acknowledging data article provides a virtual species set as a valuable tool in biodiversity monitoring. 

Abstract

Predicting species potential and future distribution has become a relevant tool in biodiversity monitoring and conservation. In this data article we present the suitability map of a virtual species generated based on two bioclimatic variables, and a dataset containing more than 700,000 random observations at the extent of Europe. The dataset includes spatial attributes such as: distance to roads, protected areas, country codes, and the habitat suitability of two spatially clustered species (grassland and forest species) and a wide-spread species.

Original Source:

Garzon-Lopez, C.X., Bastin, L., Foody, G.M., Rocchini, D. (2016). A virtual species set for robust and reproducible Species Distribution Modelling tests. Data in Brief, 7: 476-479. doi: http://dx.doi.org/10.1016/j.dib.2016.02.058

A new EU BON acknowledged article looks at the recently introduced in scientific literature methods for constructing Spatially Explicit Rarefaction (SER) and their implication for ecologists and conservation biologist. The research was published in the journal Ecological Indicators.

Abstract: 

Recently, methods for constructing Spatially Explicit Rarefaction (SER) curves have been introduced in the scientific literature to describe the relation between the recorded species richness and sampling effort and taking into account for the spatial autocorrelation in the data. Despite these methodological advances, the use of SERs has not become routine and ecologists continue to use rarefaction methods that are not spatially explicit. Using two study cases from Italian vegetation surveys, we demonstrate that classic rarefaction methods that do not account for spatial structure can produce inaccurate results. Furthermore, our goal in this paper is to demonstrate how SERs can overcome the problem of spatial autocorrelation in the analysis of plant or animal communities. Our analyses demonstrate that using a spatially-explicit method for constructing rarefaction curves can substantially alter estimates of relative species richness. For both analyzed data sets, we found that the rank ordering of standardized species richness estimates was reversed between the two methods. We strongly advise the use of Spatially Explicit Rarefaction methods when analyzing biodiversity: the inclusion of spatial autocorrelation into rarefaction analyses can substantially alter conclusions and change the way we might prioritize or manage nature reserves.

Original Source: 

Bacaro, G., Altobelli, A., Camelletti, M., Ciccarelli, D., Martellos, S., Palmer, M.W., Ricotta, C., Rocchini, D., Scheiner, S.M., Tordoni, E., Chiarucci, A. (2016). Incorporating spatial autocorrelation in rarefaction methods: implications for ecologists and conservation biologists. Ecological Indicators, 69: 233-238. [5years-IF: 3.494] doi: http://dx.doi.org/10.1016/j.ecolind.2016.04.026

ECSA – the European Citizen Science Association is the latest addition to our ever growing group of associated partners. The Memorandum of Understanding handover took place at the reception of the ECSA Conference at the Museum für Naturkunde on 19 May 2016.

ECSA is a network of Citizen Science initiatives, research institutes, universities, museums, other organisations and individuals from 20 EU countries, Switzerland, Israel and the US, who are working together with the mission to connect citizens and science through fostering active participation. ECSA is a registered non-profit association administered by a Secretariat hosted at the Museum für Naturkunde, Leibniz Institute for Evolution and Biodiversity Research (MfN) in Berlin, Germany. 

See the full list of associated partners here.

Photo: Signing the MoU between ECSA Chair of Data, Tools and Technology Committee Dr. Jaume Piera and EU BON's Project manager Anke Hoffmann; Credit: Hwaja Götz

Due to the exponential growth of biodiversity information in recent years, the questions of how to mobilize such vast amounts of data has become more tangible than ever. Best practices for data sharing, data publishing, and involvement of scientific and citizen communities in data generation are the main topic of a recent report by the EU FP7 project Building the European Biodiversity Observation Network (EU BON), published in the innovative Research Ideas & Outcomes (RIO) journal.

The report "Data sharing tools for Biodiversity Observation Networks" provides conceptual and practical advice for implementation of the available data sharing and data publishing tools. A detailed description of tools, their pros and cons, is followed by recommendations on their deployment and enhancement to guide biodiversity data managers in their choices.

"We believe publishing this report in RIO makes a lot of sense given the journal's innovative concept of publishing unconventional research outcomes such as project reports. This feature provides projects like EU BON with the chance to showcase their results effectively and timely. The report provides a useful practical guide for biodiversity data managers and RIO gives the project an opportunity to share findings with anyone who will make use of such information", explains Prof. Lyubomir Penev, Managing Director of Pensoft and partner in EU BON.

The new report is the second EU BON contribution featured in a dedicated project outcomes collection in RIO. Together with the data policy recommendations it provides a comprehensive set of resources for the use of biodiversity data managers and users.

"We did our biodiversity data sharing tools comparison from the perspective of the needs of the biodiversity observation community with an eye on the development of a unified user interface to this data - the European Biodiversity Portal (EBP)", add the authors.

The scientists have identified two main challenges standing in front of the biodiversity data community. On the one hand, there is a variety of tools but none can as stand alone, satisfy all the requirements of the wide variety of data providers. On the other hand, gaps in data coverage and quality demand more effort in data mobilization.

"For the time being a combination of tools combined in a new work-flow, makes the most sense for EU BON to mobilize biodiversity data," comment the report authors on their findings. "There is more research to be done and tools to be developed, but for the future there is one firm conclusion and it is that the choice of tools should be defined by the needs of those observing biodiversity - the end user community in the broadest sense - from volunteer scientists to decision makers."

Original Source:

Smirnova L, Mergen P, Groom Q, De Wever A, Penev L, Stoev P, Pe'er I, Runnel V, Camacho A, Vincent T, Agosti D, Arvanitidis C, Bonet F, Saarenmaa H (2016) Data sharing tools adopted by the European Biodiversity Observation Network Project. Research Ideas and Outcomes 2: e9390. doi: 10.3897/rio.2.e9390

The 10th GEO European Projects Workshop that took place from 31 May - 2 June, in Berlin, was a success for EU BON in many ways. Among the significant achievements was signing a Memorandum of Understanding with the ConnectinGEO project to add this important initiative to our ever-growing list of associated partners.

The MoU handed over by EU BON coordinator Dr. Christoph Häuser to Dr. Joan Masó, coordinator of ConnectinGEO.

Handing over the MoU between Christoph Häuser, EU BON (left) and Joan Masó, ConnectinGEO (right); Credit: EU BON

ConnectinGEO is under the umbrella of GEOSS and the EU funding with the aim of linking existing coordinated Earth observation networks with the science and technology (S&T) communities, the industry sector and the GEOSS and Copernicus stakeholders. The goal is to facilitate a broader and more accessible knowledge base to support the needs of the GEO Societal Benefit Areas (SBAs) and their users. A broad range of subjects from climate, natural resources and raw materials, to the emerging UN Sustainable Development Goals (SDGs) will be addressed.

Set to compile the largest biodiversity data collection for Europe to date, the EU-funded FP7 project Building the European Biodiversity Observation Network (EU BON) has now launched the beta-version of its European Biodiversity Portal.

Despite being a beta version, this release already addresses the main aim to offer a unique service for analysing and understanding biodiversity change in Europe. For instance, users can explore how relative abundance of species (within a larger group) changes over time by using big data mediated by GBIF. There is also a spatial browser for locating datasets in any part of the world, which may be usable for computing the EBVs for species populations.

Additionally, an online analytical data processing (OLAP) toolbox has been included in this release. Based on GEOSS technology, the new portal lets users harvest and simultaneously access data from several directories, including GBIF, LTER, EuMon (coming), PESI, and GEOSS sources.

Started in 2012, the five-year project EU BON has been working towards building this new European Biodiversity Portal where scattered and various information and tools are collected, highlighted and widely shared for future research.

The service will provide all interested parties with a professional database platform with a large amount of implications. For example, coordinators can receive information about related monitoring programs in different countries. Initiatives could integrate their data and compare the trends and status across different countries and regions.

"The ultimate goal of EU BON is to build a comprehensive European Biodiversity Portal that will then feed into a Global Portal currently developed by GEO BON. This initiative will provide a completely new holistic way for analyzing global trends and processes.", concludes Dr. Hannu Saarenmaa, University of Eastern Finland and Work Package leader in EU BON.

We invite everyone to test the new portal and send us their feedback and suggestions for improvements via our Feedback Form.

A new opinion piece published in the journal Global Change Biology looks at the development of biodiversity scenarios and their inclusion of  future land-use changes.

Abstract: 

Camera trapping is a powerful and now widely used tool in scientific research on wildlife ecology and management. It provides a unique opportunity for collecting knowledge, investigating the presence of animals, or recording and studying behaviour. Its visual nature makes it easy to successfully convey findings to a wide audience.

The new book provides a much-needed guide to the sound use of camera trapping for the most common ecological applications to wildlife research. Each phase involved in the use of camera trapping is covered:

- Selecting the right camera type 
- Set-up and field deployment of your camera trap 
- Defining the sampling design: presence/absence, species inventory, abundance; occupancy at species level; capture-mark-recapture for density estimation; behavioural studies; community-level analysis 
- Data storage, management and analysis for your research topic, with illustrative examples for using R and Excel 
- Using camera trapping for monitoring, conservation and public engagement.

Each chapter in this edited volume is essential reading for students, scientists, ecologists, educators and professionals involved in wildlife research or management.

Find out more in the promotional video.

About the authors

Francesco Rovero is an ecologist and conservation scientist with a PhD in animal ecology. He is currently the Curator for Tropical Biodiversity at MUSE Science Museum in Trento, Italy. 

Fridolin Zimmermann is a carnivore conservation scientist with a PhD on Eurasian lynx conservation and ecology. He is currently coordinator of the large carnivore monitoring in Switzerland at Carnivore Ecology and Wildlife Management (KORA).

Collectively they have nearly 30 years of professional experience in the use of camera trapping for wildlife research, and have worked on a range of species, habitat and study types.

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

Abstract: 

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

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

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

Original reseach:

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

The EU BON workshop "Biodiversity research for and by citizens in Eastern Europe: tools, information services and public engagement" was organized to present the EU BON citizen science gateway, share accomplishments of the project, promote products, raise and discuss challenges of citizen science and facilitate networking between countries, especially eastern and central European countries.

There were 33 participants from Baltic countries and Finland and EU BON partners from Norway, Spain, Israel and Brussels. First day was showcasing the citizen science initiatives in Estonia, following best practice examples from EU BON consortium. During the second day the participants got a chance to learn the tools and methods for citizen science data management by ECSA and EU BON. This was followed by world cafe style discussion about the needs of citizen science initiatives and Pan-European citizen science gateway. One of the important conclusions for Baltic countries is that there is a need for stronger collaboration and supportive infrastructure to make citizen science more effective and also deliver accessible data to research community.

Some workshop participants also took part of Tartu Mini-BioBlitz on 29th June, first BioBlitz in Estonia. BioBlitz participants observed 239 species of animals, plants and fungi .

.

Workshop agenda

Read a first hand report form the workshop in the two great blog posts by Egle Marija Ramanauskaite (a workshop participant from Lithuania):

http://seplute.tumblr.com/post/146841955105/citsci-overtakes-the-baltics-citizen-science

http://seplute.tumblr.com/post/146844410470/citizen-science-workshop-in-tartu-recap-of-day-2

EU projects EuMon and EU BON call out to monitoring programs to share data and expertise for building the European Biodiversity Portal.

Combining forces, two large scale EU projects, EuMon and EU BON, are set to compile the largest data collection on biodiversity monitoring activities in Europe to date. Using existing biodiversity data and metadata collected by the two projects, the initiative is a stepping stone in completing a comprehensive European Biodiversity Portal. The projects now call out to monitoring programs across the Old Continent and beyond, to join in, provide information about their schemes and share their expertise for the cause.

For its life span between 2004 and 2008 the project EU-wide monitoring methods and systems of surveillance for species and habitats of Community interest (EuMon) created Europe's most comprehensive metadata catalogue of biodiversity monitoring activities.

Started in 2012, the five-year project Building the European Biodiversity Observation Network(EU BON) has been working towards building a new European Biodiversity Portal where this information is collected, highlighted and widely shared for future research and applied biodiversity conservation. The beta version is now all set up and available to test here.

To answer knowledge gaps since the project has ended in 2008, the original EuMon monitoring meta database is being further expanded with new information on data availability and access, as well as with new remote sensing data. Previously underrepresented, the marine realm is now also included in the EuMon collection.

"Monitoring data has received a central stage in recent years, a process largely facilitated by the instalment of the Intergovernmental Platform on Biodiversity and Ecosystem Services (IPBES). However, while knowledge about monitoring efforts is important, we still miss a large variety of available programs and biodiversity data", explains EuMon's Project Leader Prof. Dr. Klaus Henle, Helmholtz Centre for Environmental Research - UFZ.

"We, therefore, currently aim to increase and update the number of monitoring programs in the EuMon catalogue, as the catalogue still covers less than half of all existing programs in Europe", adds EuMon Project Coordinator, Dirk Schmeller, UFZ.

In a joint initiative EuMon and EU BON are now looking to create the opportunity for monitoring program coordinators to publish their data by using the data publishing service of the EU BON portal (data embargos also possible).

The service will provide all interested parties with a professional database platform with a large amount of implications. For example, coordinators can receive information about related monitoring programs in different countries. Initiatives could integrate their data and compare the trends and status across different countries and regions. Volunteers can find contacts about schemes in their regions they may consider to join.

Using the data publishing service of EU BON will also facilitate data sharing with the Global Biodiversity Information Facility.

"The ultimate goal of EU BON is to build a comprehensive European Biodiversity Portal that will then feed into a Global Portal currently developed by GEO BON. This initiative will provide a completely new holistic way for analyzing global trends and processes. We invite projects from across Europe to publish their datasets via the European Biodiversity Portal and become a part of this one-of-a-kind initiative", concludes Dr. Hannu Saarenmaa, University of Eastern Finland and Work Package leader in EU BON.

How to take part:

To access the EuMon database, please visit http://eumon.ckff.si/biomat. For sharing information about your monitoring program, please register here. You will then be able to provide metadata about your scheme via a simple online questionnaire. Answering the full set of questions is desirable, but not compulsory.

A recent article in the academic journal Science published by Prof. Urmas Kõljalg and colleagues aims to explain the possibilities for identifying species determined based on DNA samples only.

The article was published as a response to David Hibbetts paper "The invisible dimension of fungal diversity". The American mycologist Hibbett argues that huge amount of fungal species cannot be identified and described scientifically as the international code does not permit describing new species based on DNA samples derived from molecular surveys of the environment. However, the Estonian and Swedish scientists show – analysing the same data – how DNA based fungal species have been identified and communicated for several years now using database UNITE (https://unite.ut.ee).

In the forests of Laos the mushroom season has already begun.  Among the mushrooms presented on these dishes one can most likely also find species scientifically yet undescribed. The digital object identifiers (DOIs) system created by the scientists in Tartu permits comunication of these species already before they have been granted scientific names. Writing about poisonous mushrooms for example helps to keep people informed, so that cases of intoxication can be avoided more often. (Photo: Urmas Kõljalg)

"Traditionally species are determined based on their morphology and anatomy, in printed books – traditional keys to nature – species are displayed on pictures and in written descriptions. But DNA of fungi can also be found in samples of soil, of leaves, of air, in these circumstances we do not actually have the fungus itself and we cannot identify it visually," Urmas Kõljalg explains the core of the matter. "In this case, species can be determined evaluating their DNA sequences."

The UNITE Species Hypotheses approach demonstrates how the DNA based fungal species can be referred to in a proper scientific manner already before they have been described formally according to the code. This can be done using unique digital object identifiers (DOIs) given to all fungal species in the UNITE database. This keeps all the references automatically connected and machine-readable by other databases as well.

"Even if the species will have its name ten years from now, the DOI code will help us go back and see, where the species was first described and who found it," Urmas Kõljalg says.

For several years now by leading species classification platforms based on DNA sequences more than half a million DOI codes have been used as identifiers of fungal species. UNITE fungal codes are used by the most influential gene bank NCBI also. The UNITE system uses a new paradigm in identifying species, this paradigm was first described by Urmas Kõljalg and colleagues in 2013.

UNITE – the global unified system for the DNA based fungal species – contains information of all the fungal species known from sequence data, hundreds of researchers from all over the world are collaborating. UNITE is hosted by PlutoF cloud, which permits creating very complex databases for various biodiversity data, including DOIs. The development of PlutoF system is supported by the Estonian research infrastructures roadmap project NATARC (http://natarc.ut.ee), EU BON (http://eubon.eu), etc. All scientists can use PlutoF for free.

The EU project EKLIPSE has joined our family of associated partners. The MoU was signed by Dr. Carsten Neßhöver, UFZ, on behalf of EKLIPSE project Coordinator Dr. Allan Watt (NERC-Centre for Ecology and Hydrology, Edinburgh, UK) and Dr. Anke Hoffmann, on behalf of EU BON Coordinator Dr. Christoph Häuser, during the 2016 GEO BON Open Science Conference & All Hands Meeting in Leipzig, Germany.

Dr. Carsten Neßhöver and Dr. Anke Hoffmann at the handing of the MoU; Credit: EKLIPSE

EKLIPSE is a EU project that will set up a sustainable and innovative way of knowing, networking and learning about biodiversity and ecosystem services. EKLIPSE is an unusual project in several ways, particularly:

• The project is funded for four years to develop a sustainable mechanism  that will be in place for many years to come.

• The development of the support mechanism through the project is facilitated by project partners. Their role is to facilitate linkages between science, policy and society, through different actions, such as knowledge synthesis, identifying research priorities, and building the Network of Networks  that will support the other actions.

Key in ensuring the effectiveness of conservation efforts and maintaining ecosystem health, measuring biodiversity can benefit greatly when remote sensing data comes into the equation. A new EU BON related paper, published in the journal Ecological Indicators, proposes open source solutions for measuring the important Rao's Q index, when it comes to remote sensing data.

Abstract: 

Measuring biodiversity is a key issue in ecology to guarantee effective indicators of ecosystem health at different spatial and time scales. However, estimating biodiversity from field observations might present difficulties related to costs and time needed. Moreover, a continuous data update for biodiversity monitoring purposes might be prohibitive. From this point of view, remote sensing represents a powerful tool since it allows to cover wide areas in a relatively low amount of time. One of the most common indicators of biodiversity is Shannon's entropy H′, which is strictly related to environmental heterogeneity, and thus to species diversity. However, Shannon's entropy might show drawbacks once applied to remote sensing data, since it considers relative abundances but it does not explicitly account for distances among pixels’ numerical values. In this paper we propose the use of Rao's Q applied to remotely sensed data, providing a straightforward R-package function to calculate it in 2D systems. We will introduce the theoretical rationale behind Rao's index and then provide applied examples based on the proposed R function.

Original Source: 

Rocchini, D., Marcantonio, M., Ricotta, C. (2017). Measuring Rao's Q diversity index rom remote sensing: an open source solution. Ecological Indicators, 72: 234-238. [5years-IF: 3.649] DOI:10.1016/j.ecolind.2016.07.039

A new editorial, published in the Journal of Apllied Ecology looks at modelling and monitoring as methods for adaptive biodiversity management in the 21st century.

Abstract: 

With increasing threats on biodiversity, informed conservation decisions need to be based on currently observed and future predicted trends of biodiversity (Pereira, Navarro & Martins 2012; Guisan et al. 2013). In this regard, two essential components supporting informed biodiversity conservation decisions are good monitoring data to assess recent and ongoing trends (Collen et al. 2013; Pereira et al. 2013) and robust models to anticipate possible future trends (Pereira et al. 2010a; Akc
akaya et al. 2016). Models benefit from robust monitoring data sets, that is repeated observations of biodiversity, as they need data to be fitted or validated, but models can also help assess data representativeness (e.g. by highlighting any bias), support proper data collection (e.g. covering the relevant gradients) or be used to make more effective use of biodiversity observations (Guisan et al. 2006, 2013; Ferrier 2011).

Read more in the open access paper.

The GEO XIII Plenary in St. Petersburg  enjoyed a huge interest and support from many member governments, agencies and networks with around 400 registered participants this year.

Having taken place from 7-10 November 2016, the event featured a plenary, a number of side events and exhibition to give a chance to participants to meet up and discuss ideas and progress.

  
Left: The EU BON booth at the GEO exhibition - F. Wetzel, Ch. Häuser, H. Saarenmaa; Right: Director General  J.E. Smits and Christoph Häuser; Credits: F. Wetzel

The Final EU BON Meeting is scheduled to take place from 14-16 March 2017 at the Royal Belgian Institute of Natural Sciences in Brussels and at the stunning backdrop of Botanic Garden in Meise.

EU BON invites all interested parties to mark the dates in their diaries and come to learn about the project’s results and outputs some of which are presented in this newsletter and some are yet to come.

More information is available on the Conference website: http://symposium.eubon.eu

Published just recently, a new open access EU BON article discusses the need for additional research efforts beyond standard biodiversity monitoring to reconstruct the impacts of major anthropogenic pressures and to identify meaningful temporal baselines for biodiversity.

The article, published in Scientific Reports, reports on the temporal baselines that could be drawn from biodiversity monitoring schemes in Europe and compares those with the rise of important anthropogenic pressures.

With most biodiversity monitoring schemes initiated late in the 20th century, well after anthropogenic pressures had already reached half of their current magnitude, the team of scientists found that setting temporal baselines from biodiversity monitoring data would underestimate the full range of impacts of major anthropogenic pressures.

The authors stress that these limitations need to be explicitly acknowledged when designing management strategies and policies as they seriously constrain our ability to identify relevant conservation targets aimed at restoring or reversing biodiversity losses.

Find out more in the original research paper:

Mihoub J B, Henle K, Titeux N, Brotons L, Brummitt N A, Schmeller D S (2017) Setting temporal baselines for biodiversity: the limits of available monitoring data for capturing the full impact of anthropogenic pressures. Scientific Reports. http://dx.doi.org/10.1038/srep41591

While development and implementation of data publishing and sharing practices and tools have long been among the core activities of the academic publisher Pensoft, it is well-understood that as part of scholarly publishing, open data practices are also currently in transition, and hence, require a lot of collaborative and consistent efforts to establish.

Based on Pensoft's experience, and elaborated and updated during the Framework Program 7 EU BON project, a new paper published in the EU BON dedicated collection in the open science journal Research Ideas and Outcomes (RIO), outlines policies and guidelines for scholarly publishing of biodiversity and biodiversity-related data. Newly accumulated knowledge from large-scale international efforts, such as FORCE11 (Future of Research Communication and e-Scholarship), CODATA (The Committee on Data for Science and Technology), RDA (Research Data Alliance) and others, is also included in the Guidelines.

The present paper discusses some general concepts, including a definition of datasets, incentives to publish data and licences for data publishing. Furthermore, it defines and compares several routes for data publishing, namely: providing supplementary files to research articles; uploading them on specialised open data repositories, where they are linked to the research article; publishing standalone data papers; or making use of integrated narrative and data publishing through online import/download of data into/from manuscripts, such as the workflow provided by the Biodiversity Data Journal. Among the guidelines, there are also comprehensive instructions on preparation and peer review of data intended for publication.

Although currently available for journals using the developed by Pensoft journal publishing platform ARPHA, these strategies and guidelines could be of use for anyone interested in biodiversity data publishing.

Apart from paving the way for a whole new approach in data publishing, the present paper is also a fine example of science done in the open, having been published along with its two pre-submission public peer reviews. The reviews by Drs. Robert Mesibov and Florian Wetzel are both citable via their own Digital Object Identifiers (DOIs).

###

Original source:

Penev L, Mietchen D, Chavan V, Hagedorn G, Smith V, Shotton D, Ó Tuama É, Senderov V, Georgiev T, Stoev P, Groom Q, Remsen D, Edmunds S (2017) Strategies and guidelines for scholarly publishing of biodiversity data. Research Ideas and Outcomes 3: e12431. https://doi.org/10.3897/rio.3.e12431

Europe’s regions are facing rising sea levels and more extreme weather, such as more frequent and more intense heatwaves, flooding, droughts and storms due to climate change, according to the latest European Environment Agency report published on 25 Jan 2017. The report assesses the latest trends and projections on climate change and its impacts across Europe and finds that better and more flexible adaptation strategies, policies and measures will be crucial to lessen these impacts.

Find a summary of the report's Key Findings, or download the full report.

The discipline of taxonomy is highly reliant on previously published photographs, drawings and other images as biodiversity data. Inspired by the uncertainty among taxonomists, a team, representing both taxonomists and experts in rights and copyright law, has traced the role and relevance of copyright when it comes to images with scientific value. Their discussion and conclusions are published in the latest paper added in the EU BON Collection in the open science journal Research Ideas and Outcomes (RIO).

Taxonomic papers, by definition, cite a large number of previous publications, for instance, when comparing a new species to closely related ones that have already been described. Often it is necessary to use images to demonstrate characteristic traits and morphological differences or similarities. In this role, the images are best seen as biodiversity data rather than artwork. According to the authors, this puts them outside the scope, purposes and principles of Copyright. Moreover, such images are most useful when they are presented in a standardized fashion, and lack the artistic creativity that would otherwise make them 'copyrightable works'.

"It follows that most images found in taxonomic literature can be re-used for research or many other purposes without seeking permission, regardless of any copyright declaration," says Prof. David J. Patterson, affiliated with both Plazi and the University of Sydney.

Nonetheless, the authors point out that, "in observance of ethical and scholarly standards, re-users are expected to cite the author and original source of any image that they use." Such practice is "demanded by the conventions of scholarship, not by legal obligation," they add.

However, the authors underline that there are actual copyrightable visuals, which might also make their way to a scientific paper. These include wildlife photographs, drawings and artwork produced in a distinctive individual form and intended for other than comparative purposes, as well as collections of images, qualifiable as databases in the sense of the European Protection of Databases directive.

In their paper, the scientists also provide an updated version of the Blue List, originally compiled in 2014 and comprising the copyright exemptions applicable to taxonomic works. In their Extended Blue List, the authors expand the list to include five extra items relating specifically to images.

"Egloff, Agosti, et al. make the compelling argument that taxonomic images, as highly standardized 'references for identification of known biodiversity,' by necessity, lack sufficient creativity to qualify for copyright. Their contention that 'parameters of lighting, optical and specimen orientation' in biological imaging must be consistent for comparative purposes underscores the relevance of the merger doctrine for photographic works created specifically as scientific data," comments on the publication Ms. Gail Clement, Head of Research Services at the Caltech Library.

"In these cases, the idea and expression are the same and the creator exercises no discretion in complying with an established convention. This paper is an important contribution to the literature on property interests in scientific research data - an essential framing question for legal interoperability of research data," she adds.

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Original source:

Egloff W, Agosti D, Kishor P, Patterson D, Miller J (2017) Copyright and the Use of Images as Biodiversity Data. Research Ideas and Outcomes 3: e12502. https://doi.org/10.3897/rio.3.e12502

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

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

Credit: Donat Agosti

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

Group Photo; Credit: D. Schmeller

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

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

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

Learn more about these tools in our Final Brochure.

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

A recent story, featured on CORDIS News, focuses on EU BON and its achievements. Based on a recent project's publication in ‘Nature – Scientific Reports’ and information from the project, the new item discusses important project outcomes, including the European Biodiversity Portal, and their contribution to drawing a more accurate picture of current biodiversity to aid efforts for sustainable governance of natural resources.

Here is a snippet from the news feature on CORDIS: 

A recent article published in the journal ‘Scientific Reports’ states, ‘Monitoring schemes provide an important source of information on biodiversity change, guiding further research, conservation assessment and planning.’ The article cites The European Biodiversity Portal, designed and implemented by the EU-funded EU BON project that offers researchers, policy-makers, and others interested in biodiversity, easy access to insights on trends and modelling techniques.

The project worked on the establishment and adoption of new data standards, the development of tools to enable collaborative research and the encouragement of citizen-scientists. As a result, EU BON, by building the European Biodiversity Observation Network, has created advanced techniques for data analysis along with new approaches for modelling and strategies for future biodiversity monitoring.

Read the full publication here.

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

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

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

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

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

The ECOPOTENTIAL H2020 project, focusing its activities on blending Earth Observations from remote sensing, field measurements, data analysis and modeling of current and future ecosystem conditions and services, is organizing this workshop in Brussels on the 10th of January 2018, from 9.00 to 17:30. 

The main objective of the workshop is to prospect the state-of-the-art of Remote Sensing as a Sentinel tool to monitor, characterize and understand the state, ongoing changes and effectiveness of conservation and management actions of natural landscapes and to facilitate an open debate among scientists and the involved Institutions. This workshop is part of the multiple events organized by the ECOPOTENTIAL Project on the week of 9th-12th of January 2018, starting on Jan 9th with the opening of the photo-exhibition with the same title, on display at the European Parliament. 

Registration: http://ves.cat/emIm

Agenda: http://www.ecopotential-project.eu/images/ecopotential/img_news/Spaced-workshop-AGENDA-Jan-10-2018.pdf

Event's website: http://www.ecopotential-project.eu/2015-08-19-15-19-05/2015-10-16-13-48-29/205-spaced-using-earth-observations-to-protect-natural-landscapes.html

Just accepted, a new paper in Conservation Letters looks at the barriers and solutions to the use of conservation science in policy. The main data used in the paper are from a global multi-lingual survey filled in by 758 research scientists, practitioners, or people in policy positions, executed as part of the EU BON project.

"The most interesting result from our study is that there is agreement (perhaps surprisingly!) between research scientists, practitioners, and people in policy positions about the main barriers preventing the use of conservation science in policy. Although barriers such as lack of policy relevant science, lack of understanding of science on the part of policy-makers, and limited awareness of policy processes from researchers, featured in the top-ten barriers included in the online survey, they were not the most highly ranked," shares lead author David C. Rose in a dedicated post on his blog Academic Optimism.

Read more in the blog post: https://academicoptimism.wordpress.com/2018/04/22/overcoming-the-barriers-to-the-use-of-conservation-science-in-policy-time-for-action/

The original research is available at: https://doi.org/10.1111/conl.12564

Abstract: 

Conservation policy decisions can suffer from a lack of evidence, hindering effective decision‐making. In nature conservation, studies investigating why policy is often not evidence‐informed have tended to focus on Western democracies, with relatively small samples. To understand global variation and challenges better, we established a global survey aimed at identifying top barriers and solutions to the use of conservation science in policy. This obtained the views of 758 people in policy, practice, and research positions from 68 countries across six languages. Here we show that, contrary to popular belief, there is agreement about how to incorporate conservation science into policy, and there is thus room for optimism. Barriers related to the low priority of conservation were considered to be important, while mainstreaming conservation was proposed as a key solution. Therefore, priorities should include the elaboration of public policy pathways with education initiatives that promote the importance of long‐term conservation‐compatible policies.

Biodiversity data are sparse, biased and collected at many resolutions. So techniques are needed to combine these data and provide some clarity. This is where downscaling comes in. Downscaling predicts the occupancy of a species in a given area. That is, the number of grid squares a species is predicted to occupy in a standard grid of equally sized squares. Downscaling uses the intrinsic patterns in the spatial organization of an organism’s distributions to predict what the occupancy would be, given the occupancy at a coarser resolution.

Groom et al. (2018) tests different downscaling models on birds and plants in four countries and in different landscapes and shows which models work best. The results show that all models work similarly, irrespective of the type of organism and landscape. However, some models were biased, either under- or overestimating occupancy. However, a few models were both reliable and unbiased. This means we can automate calculation of species occupancy. Workflows can harvest data from many sources and calculate species metrics in a timely manner, potentially delivering warnings so that interventions can be made.

Species invasions, habitat degradation and mass extinctions are not a future threat, they are happening now. Understanding how we should react, and what policies we need should be underpinned by solid evidence. Imagine if we had systems where we could monitor biodiversity just like we monitor the climate in easy to understand numbers that are both accurate and sensitive to change.

Pro-iBiosphere meeting 2 will be held from 11 to 14 February 2013 in Leiden. It will consist of three workshops on: e-platforms & e-tools for taxonomy Legacy literature – Semantic mark-up generation, data quality and user-participation infrastructure Prospective Literature – Toward Best Practices for data acquisition and curation using e-tools for taxonomy. More information can be found at: http://wiki.pro-ibiosphere.eu/wiki/Workshops_Leiden_February_2013

The European Union funded EU BON "Building the European Biodiversity Observation Network" project held its official Kick-off Meeting, taking place from 13 to 15 February 2013 in Berlin. An International Symposium "Nature and Governance – Biodiversity Data, Science, and the Policy Interface" preceded the kick-off (11-12 February 2013), to discuss the current landscape of monitoring and integration of biodiversity data, and stress on the relevance of EU BON on both European and global scales.

The EU BON project will be working towards advancement and development of the technological platform for GEO BON (Group on Earth Observations Biodiversity Observation Network), which operates and systemizes biodiversity data on a global scale.