In the canopies of a South American rainforest, a tiny soldier termite has stunned a team of international scientists with its whale-like features.
Cryptotermes mobydicki, the name given to the termite by the international research team — led by a University of Florida scientist — boasts features of an elongated head and hidden mandibles. It resembles the iconic sperm whale from Herman Melville’s classic novel — hence its name.
These slides show views of the termite soldier’s frontal prominence and elongated head resembling the head of a sperm whale, and how in both the whale and termite, the mandibles are eclipsed by the head. Photo provided by Rudolph Scheffrahn.
“This termite is unlike anything we’ve ever seen,” said Rudolf Scheffrahn, professor of entomology at the UF Institute of Food and Agricultural Sciences (UF/IFAS).
The specimen was so distinctive that the team of international entomologists thought it was looking at specimens of an entirely new genus, said Scheffrahn, whose taxonomic research is based at the UF/IFAS Fort Lauderdale Research and Education Center.
This termite is unlike anything we’ve ever seen
Rudolf Scheffrahn
“The lateral view of the soldier’s frontal prominence and elongated head resembles the head of a sperm whale, and in both organisms, the mandibles are eclipsed by the head,” he said. “The whale’s eye and soldier’s antennal socket are comparatively positioned. After I noticed the resemblance to a sperm whale, my coauthors thought the name to be appropriate and whimsical, much like ‘ghost orchid’ or ‘Dumbo octopus.’”
The discovery adds a 16th species to the South American roster of Cryptotermes termites. A genetic family tree analysis shows that Cryptotermes mobydicki is closely related to other neotropical species found in Colombia, Trinidad and the Dominican Republic, giving scientists a new clue into the evolutionary story of this globally distributed genus.
Illustration from an early edition of Moby-Dick.
Researchers found the colony in a dead, standing tree about eight meters off the forest floor. It’s unusual anatomy highlights the diversity of termite evolution and the surprises still waiting in tropical ecosystems.
“The discovery of this distinctive new termite species underscores the vast number of unnamed organisms yet to be discovered on our planet,” said Scheffrahn.
To scientists, discovery is also a win for biodiversity. Every new species discovered adds to scientific understanding of life on earth, especially in a group as small as termites with only about 3,000 species worldwide.
There is also good news for Florida property owners. As a newly described drywood termite species, Cryptotermes mobydicki is no threat to homes or trade. Unlike other invasive termites that cause costly damage in parts of the southeastern United States, this species is found only in its rainforest habitat and does not spread beyond it.
Research article:
Scheffrahn RH, Buček A, Sillam-Dussès D, Šobotník J (2025) Cryptotermes mobydicki (Isoptera, Kalotermitidae), an extraordinary new termite species from French Guiana. ZooKeys 1258: 305-311. https://doi.org/10.3897/zookeys.1258.166021
Story originally published by: Lourdes Mederos, University of Florida/Institute of Food and Agricultural Sciences (UF/IFAS). Republished with permission.
A new white paper delivers a clear message: protecting biodiversity is not just an environmental issue. It is essential for food security, public health, climate stability, and the global economy.
The authors make a call for a decisive shift: from fragmented initiatives to a holistic, global approach to biodiversity research and policy, already demonstrated during a workshop at the 79th United Nations General Assembly and the Science Summit (UNGA79). A key part of this transformation concerns the role of research infrastructures in connecting science, technology, and policy: from vast biodiversity collections and genomic observatories, to ecosystem “digital twins” powered by supercomputers.
Behind the paper are a network of legal entities based in Europe and holding global interests, which includes biodiversity, ecology, and engineering communities, coordinated by the LifeWatch European Research Infrastructure Consortium (ERIC).
With their combined expertise and through European initiatives, such as Research Infrastructures, e-Infrastructures, the European Open Science Cloud (EOSC), the Digital Twin projects and academic publishers, these communities provide a basis for collaboration in strategically contributing to the implementation of the Kunming-Montreal Global Biodiversity Framework (K-M GBF) targets.
Biodiversity needs to be placed at the centre of the upcoming 2026 UN Summit of the Future and become a core pillar of the agenda after the 2030 deadline for the United Nations Sustainable Development Goals (UN SDGs).
The UN Pact for the Future should include biodiversity as a core pillar: “not only of environmental sustainability, but of equity, security, and intergenerational justice”.
urges the team.
To do this, the authors propose the establishment of a global alliance that will strategically integrate biodiversity conservation into the core priorities of the UN Summit of the Future and the post-SDG agenda.
This alliance is meant to join the voices of researchers, policymakers, indigenous knowledge holders, civil society, and industry to ensure that biodiversity underpins peace, prosperity, and justice as a universal enabler.
The white paper also demonstrates how the research infrastructures collectively contribute to the seven Strategic Considerations of the K-M GBF, outlined here in brief and further detailed in the full publication:
Contribution and rights of Indigenous Peoples and local communities: Ensuring fair recognition and sharing of benefits with indigenous peoples and local communities, thus integrating their knowledge into biodiversity science.
Collective efforts towards the targets of the K-M GBF: Coordinating biodiversity monitoring, databases, and digital infrastructures to track progress towards global conservation targets.
Fulfilment of the three principal objectives of the Convention on Biological Diversity (CBD) and its protocols: Studying or supporting the study of all aspects of biodiversity; and providing public and streamlined access to biodiversity information.
Implementation through science, technology, and innovation: Developing and offering technologically advanced and novel solutions for research, data sharing and management to various users; and promoting open science by publishing research findings and increasingly sharing more facets of the research process.
Ecosystem approach: Developing and implementing technologies that enable a cross-domain, multidisciplinary approach to studying biodiversity and ecosystems; and using holistic, cross-disciplinary methods to understand and predict biodiversity and environmental dynamics.
Cooperation synergies: Collaborating with organisations responsible for implementing the CBD, policy agents, international research projects; and participating in international forums and social, scientific and technical initiatives.
Biodiversity and health linkages: Demonstrating how healthy ecosystems support human health, food security, and resilience to pandemics by supporting interdisciplinary research through bringing together knowledge and data and uncovering links and interactions between humans and the environment.
“With the UN’s ‘Pact for the Future’ currently being shaped, we see a unique opportunity to anchor biodiversity as a unifying thread across global goals that will transform how societies respond to the intertwined crises of climate change, nature loss, and pollution,” say the authors.
The white paper is the latest contribution to the LifeWatch ERIC Strategic Working Plan Outcomes open-science collection meant to provide a one-stop access point to the most important deliverables by the European biodiversity and ecosystem research infrastructure, which is currently undergoing a significant upgrade as a response to the needs of its target communities and stakeholders.
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Original source:
Arvanitidis C, Barov B, Gonzalez Ferreiro M, Zuquim G, Kirrane D, Huertas Olivares C, Drago F, Pade N, Basset A, Deneudt K, Koureas D, Manola N, Mietchen D, Casino A, Penev L, Ioannidis Y (2025) From Knowledge to Solutions: Science, Technology and Innovation in Support of the UN SDGs. Research Ideas and Outcomes 11: e168765. https://doi.org/10.3897/rio.11.e168765
This publication is part of a collection:
LifeWatch ERIC Strategic Working Plan Outcomes Edited by Christos Arvanitidis, Cristina Huertas, Alberto Basset, Peter van Tienderen, Cristina Di Muri, Vasilis Gerovasileiou, Ana Mellado
Europe’s biodiversity and ecosystem research infrastructure. LifeWatch ERIC provides access to biodiversity and ecosystem data, services and other research products: its virtual workbenches and digital twins for biodiversity science enable researchers worldwide to analyse biodiversity patterns, processes, and changes in ecosystems, and derive evidence-based knowledge for science and policy.
CSC hosts one of the world’s most powerful supercomputers (LUMI), pioneering biodiversity digital twins and climate models. CSC provides critical support for data-intensive projects that link computing, AI, and environmental science.
A federation of hundreds of data centres providing global-scale computing, AI, and data services. EGI enables large-scale analysis of biodiversity and environmental data from sensors and satellites, supporting international collaboration.
A hub for marine research, coordinating Europe’s Digital Twin of the Ocean and global biodiversity data systems, such as WoRMS (World Register of Marine Species). VLIZ drives blue innovation and ocean data integration.
Europe’s infrastructure for marine biology, offering access to organisms, labs, and genomic observatories. EMBRC connects over 70 institutes across 10 countries, supporting research “from genes to ecosystems.”
The largest initiative to digitise and unify Europe’s natural science collections into a single, FAIR-data-based infrastructure. DiSSCo makes museum collections globally accessible, boosting taxonomic, ecological, and environmental research.
A European e-Infrastructure dedicated to building a globally connected, interoperable, and sustainable open research ecosystem, with Open Science at its core. By offering a suite of services covering the entire research lifecycle, guidelines, and practices that support the adoption of Open Access and FAIR data principles across its network of National Open Access Desks in 34 countries, OpenAIRE supports local researchers, funders, and policymakers in aligning with European and global open science policies.
Founded in 1992 “by scientists, for scientists”, the academic open-access publishing company is well known worldwide for its novel cutting-edge publishing tools, workflows and methods for text and data publishing of journals, books and conference materials. Through its Research and Technical Development department, the company is involved in various research and technology projects. Pensoft coordinated the EU project BiCIKL (2021-2024), which established a new community of Research Infrastructures and users of FAIR and interlinked biodiversity data.
The world’s largest computing society, established to foster ethical and responsible innovation. ACM brings global expertise in computing and AI to biodiversity research and policy.
A leading ICT and AI research institute advancing digital infrastructures and open science platforms. Athena connects computing innovation with biodiversity, humanities, and societal challenges.
A new study by palaeontologists from the Fundación Dinópolis, published in the journal Vertebrate Zoology, rewrites the evolutionary history of this dino group.
Close-up photograph of the Dacentrurus armatus skull found in Riodeva (Teruel, Spain).
Palaeontologists from the Fundación Conjunto Paleontológico de Teruel-Dinópolis have published new research in the prestigious scientific journal Vertebrate Zoology published by Senckenberg. The article describes a partial stegosaurian skull discovered in the municipality of Riodeva (Teruel, Spain) and proposes a new hypothesis about the evolutionary history of plated dinosaurs.
Stegosaurs were dinosaurs mainly characterized by being plant-eaters, moving on all fours, and displaying two rows of plates and/or spines from the neck to the end of the tail. The specimen studied was recovered during the palaeontological excavations led by the Fundación Dinópolis at the “Están de Colón” fossil site, located in sediments of the Villar del Arzobispo Formation, dating to the Late Jurassic epoch (around 150 million years ago). It is the best-preserved stegosaurian skull ever found in Europe and has been identified as belonging to the species Dacentrurus armatus.
Illustration of Dacentrurus armatus. Credit: Adrián Blázquez / Fundación Dinópolis.
Sergio Sánchez Fenollosa, a researcher at the Fundación Dinópolis and co-author of the study, explains: “The detailed study of this exceptional fossil has allowed us to reveal previously unknown aspects of the anatomy of Dacentrurus armatus, the quintessential European stegosaur, which in 2025 marks 150 years since its first description. Dinosaurian skulls are rarely preserved due to the extreme fragility of their bones. This discovery is key to understanding how stegosaurian skulls evolved.
Head of a Dacentrurus armatus sculpture on display at Dinópolis (Teruel, Spain).
Furthermore, alongside the anatomical study, we have also proposed a new hypothesis that redefines the evolutionary relationships of stegosaurs worldwide. As a result of this work, we have formalized the definition of a new group called Neostegosauria”.
According to the researchers, this new group includes medium to large-sized stegosaurian species that at least lived in what is now Africa and Europe during the Middle and Late Jurassic, in North America during the Late Jurassic, and in Asia during the Late Jurassic and Early Cretaceous.
Alberto Cobos, managing director of the Fundación Dinópolis and co-author of the publication, adds: “This dual achievement–both the study of an exceptional fossil and the proposal of a new evolutionary hypothesis–positions this research as a global reference in stegosaurian studies.
This fossil site from Riodeva continues to be a subject of research and still holds numerous relevant fossils, including more postcranial elements from the same adult specimen and, notably, juvenile individuals, a particularly rare combination in this type of dinosaurs. These discoveries continue to exponentially increase the palaeontological heritage of the province of Teruel, making it one of the iconic regions for understanding the evolution of life on Earth”.
Cranial reconstruction of a stegosaur, showing the studied fossil in its anatomical position.
Set of images of the most complete stegosaurian skull found in Europe, belonging to Dacentrurus armatus and recovered from Riodeva (Teruel, Spain).
This contribution from the Fundación Dinópolis, affiliated with the Dept. of Medio Ambiente y Turismo of the Gobierno de Aragón, is part of the activities of Research Group E04-23R FOCONTUR, funded by the Gobierno de Aragón (through the Dept. of Empleo, Ciencia y Universidades). Additionally, it is part of the research of the Unidad de Paleontología de Teruel, funded by the Gobierno de España (through the Ministry of Ciencia, Innovación y Universidades). The work at this site is also supported by the project titled Los yacimientos paleontológicos de la provincia de Teruel como factor de desarrollo territorial (IV), subsidized by the Gobierno de España and the Gobierno de Aragón through the Teruel Investment Fund (via the Dept. of Presidencia, Economía y Justicia).
Research article:
Sánchez-Fenollosa S, Cobos A (2025) New insights into the phylogeny and skull evolution of stegosaurian dinosaurs: An extraordinary cranium from the European Late Jurassic (Dinosauria: Stegosauria). Vertebrate Zoology 75: 165-189. https://doi.org/10.3897/vz.75.e146618
Image credit: Fundación Conjunto Paleontológico de Teruel-Dinópolis
Volunteers and members of the “Collections Club” of the Field Museum provide a blueprint for how community scientists can help researchers around the world.
Matt von Konrat teaching student volunteers how to digitize museum specimens. Photo by Michelle Kuo (c).
There are over three billion specimens and cultural objects housed in natural history collections around the world—things like fossils, dried plants, and pinned insects. Close to forty million of them are at the Field Museum in Chicago, mostly behind the scenes in a vast library documenting life on Earth.
These collections are used by scientists at the museum and around the world to explore what lived where and when and how living things have changed over time.
However, much of the information about these collections is hard to access, because there are no digital records of it.
Specimens from the “behind-the-scenes collections“ at the Field Museum. Photo by John Weinstein.
Community scientists volunteering at the Field Museum who have formed a Collections Club are helping to solve this problem.
So far, they’ve digitized more than a quarter-million collections items and records.
The Field Museum recently published a scientific paper in the journal NaturalHistory Collections and Museumomics about the work of these community scientists as a record of what they’ve accomplished and as a blueprint for other natural history collections to work with volunteers in their communities.
By the way, the Field Museum prefers to use the term “community scientists” rather than the synonymous “citizen scientists”, in order to emphasize that the work is a community effort. They also wish to be inclusive of all volunteers regardless of their citizenship status. Several community scientists are in fact listed as co-authors of the new.
“What’s remarkable is how the enthusiasm has sustained and grown,” says Matt von Konrat, Head of Botanical Collections at the Field Museum and the lead author of the paper.
“Our surveys show that participants are increasingly motivated by altruistic reasons—they want to contribute to science and support the museum’s mission.
The fact that many of our volunteers are now co-authors on this scientific paper shows how far we’ve come in breaking down traditional barriers between professional scientists and community researchers.”
Since 2015, over 3,800 volunteers have contributed more than 13,500 hours helping to digitize, catalog, and preserve specimens—equivalent to nearly eight years of full-time work. Their efforts have processed over 300,000 scientific specimens, records and objects, making valuable data accessible to researchers worldwide.
“At its core, the Field Museum strives to connect people to the natural world and the human story. The Collections Club reflects this mission by transforming over 300,000 specimens into a digital and physical legacy, providing scientists across the globe with the data they need to understand and protect our biodiversity,”
says von Konrat.
The program’s success has been driven by both in-person and virtual engagement opportunities, particularly through initiatives like WeDigBio (Worldwide Engagement for Digitizing Biocollections) and the Field Museum’s Collections Club. During the height of the COVID-19 pandemic, the program successfully pivoted to virtual participation, maintaining strong community connections when they were needed most.
Community scientists at the Field Museum’s 2019 WeDigBio event curating lichen specimens – a critical process unlocking scientific information from natural history collections. Photo by Robert Salm.
“There were so many dynamics working against us during COVID: sporadic closures and re-openings in Chicago of restaurants, parks, museums, and businesses. The ability for me to continue cataloging and repackaging specimens for the Field Museum was the only constant and sane reference for me; days of the week and working hours had no boundaries. I don’t think any other museum in Chicago had volunteers as dedicated as the Field Museum, and I was happy to be part of the experience.”
says Robert Salm, a volunteer in the Field Museum’s botanical collections.
A Mobile Museum display made by Field Museum Collections Club members Winne and Gwen Blake. Photo by Erryn Blake.
The impact extends beyond adults to inspire the next generation of scientists. In one touching example highlighted in the paper, two fifth-grade students were so inspired by their participation that they created their own “Mobile Museum” to share natural history with other young people. These young scientists are among the paper’s co-authors, demonstrating the program’s commitment to elevating youth voices in science.
According to the Blake family, whose children Winnie and Gwen created the Mobile Museum, “Collections Club makes science tangible, accessible, and real. It shows students that away from a conventional classroom setting, where science can feel like a chore, this program helps in contributing to a global community benefiting countless research efforts. The Mobile Museum was created as an extension of Collections Club to bring the passion for science to kids of all ages.”
Collections Club members Winne (blue shirt) and Gwen (pink shirt). Photo by Erryn Blake.
The Field Museum’s model demonstrates how institutions of any size can engage their communities in meaningful scientific work. The paper provides detailed recommendations and checklists for other organizations looking to develop similar programs.
“This success story wouldn’t have been possible without Chicago’s vibrant media landscape helping us reach new audiences,” said von Konrat.
“From local blogs to major television networks, each platform played a vital role in building this community of scientists.
We hope this model inspires other museums and research institutions to build similar programs.
Together, we are fostering a shared legacy that underscores the value of biodiversity and scientific heritage for future generations.”
The full research paper, published in the journal Natural History Collections and Museomics, provides a comprehensive overview of the program’s development and impact over nearly a decade of community engagement, while setting a new standard for inclusive scientific authorship.
Stay up-to-date with publications and news from the Natural History Collections and Museomics (NHCM) journal on social media on BlueSky, X and Facebook.
Research article:
von Konrat M, Rodriguez Y, Bailey C, Gwilliam III GF, Christian C, Aguero B, Ahn J, Albion Z, Allen JR, Bailey C, Blake E, Blake W, Blake G, Briscoe L, Budke JM, Campbell T, Chansler M, Clark D, Delapena R, Denslow M, Dodinval D, Dux E, Ellis S, Ellwood E, Enkhbayer M, Ens B, Evans NM, Fabian A, Ferguson A, Gaswick W, Golembiewski K, Grant S, Hancock L, Hansen K, Janney B, Jones J, Kachian Z, Kawasaki ML, Kellum K, Leek O, Lichamer A, Maier C, Mast A, Martinec JL, Mayer P, Mladek M, Nadhifah A, Neefus C, Nodulman M, Oliver M, Overberg K, Townsend Peterson A, Qazi-Lampert A, Rothfels C, Ryan ZA, Salm R, Schreiner D, Schreiner M, Tepe EJ, Turcatel M, Vega A, Wade H, Webbink K, Weinand D, Widhelm T, Zwingelberg M (2024) From spectators to stewards: Transforming public involvement in natural history collections. Natural History Collections and Museomics 1: 1-33. https://doi.org/10.3897/nhcm.1.138247
Yet another hectic year has passed for our team at Pensoft, so it feels right to look back at the highlights from the last 12 months, as we buckle up for the leaps and strides in 2025.
In the past, we have used the occasion to take you back to the best moments of our most popular journals (see this list of 2023 highlights from ZooKeys, MycoKeys, PhytoKeys and more!); share milestones related to our ARPHA publishing platform (see the new journals, integrations and features from 2023); or let you reminisce about the coolest research published across our journals during the year(check out our Top 10 new species from 2021).
In 2022, when we celebrated our 30th anniversary on the academic scene, we extended our festive spirit throughout the year as we dived deep into those fantastic three decades. We put up Pensoft’s timeline and finished the year with a New Species Showdown tournament, where our followers on (what was back then) Twitter voted twice a week for their favourite species EVER described on the pages of our taxonomic journals.
Spoiler alert: we will be releasing our 2024 Top 10 New Species on Monday, 23 December, so you’d better go to the right of this screen and subscribe to our blog!
As we realised we might’ve been a bit biased towards our publishing activities over the years, this time, hereby, we chose to present you a retrospection that captures our best 2024 moments from across the departments, and shed light on how the publishing, technology and project communication endeavours fit together to make Pensoft what it is.
In truth, we take pride in being an exponentially growing family of multiple departments that currently comprises over 60 full-time employees and about a dozen freelancers working from all corners of the world, including Australia, Canada, Belgium and the United Kingdom. Together, we are all determined to make sure we continuously improve our service to all who have trusted us: authors, reviewers, editors, client journals, learned societies, research institutions, project consortia and other external collaborators.
After all, great deeds are only possible when you team up with great like-minded people!
In 2024, at Pensoft, we were hugely pleased to see a significant growth in the published output at almost all our journals, including record-breaking numbers in both submissions and publications at flagship titles of ours, including the Biodiversity Data Journal, PhytoKeys and MycoKeys.
Later in 2024, our colleagues, who work together with our clients to ensure their journals comply with the requirements of the top scholarly databases before they apply for indexation, informed us that another two journals in our portfolio have had their applications to Clarivate’s Web of Science successfully accepted. These are the newest journal of the International Association of Vegetation Science: Vegetation and Classification, and Metabarcoding and Metagenomics: a journal we launched in 2017 in collaboration with a team of brilliant scientists working together at the time within the DNAquaNet COST Action.
In 2024, we also joined the celebrations of our long-time partners at the Museum für Naturkunde Berlin, whose three journals: Zoosystematics and Evolution, Deutsche Entomologische Zeitschrift and Fossil Record are all part of our journal portfolio. This year marked the 10th Open Access anniversary of the three journals.
In the meantime, we also registered a record in new titles either joining the Pensoft portfolio or opting for ARPHA Platform’s white-label publishing solution, where journal owners retain exclusivity for the publication of their titles, yet use ARPHA’s end-to-end technology and as many human-provided services as necessary.
Pensoft’s CEO and founder Prof. Dr. Lyubomir Penev with Prof. Dr. Marc Stadler, Editor-in-Chief of IMA Fungus and President of the International Mycological Association at the Pensoft booth at the 12th International Mycological Congress (August, the Netherlands).
Amongst our new partners are the International Mycological Association who moved their official journal IMA Fungus to ARPHA Platform. As part of Pensoft’s scholarly portfolio, the renowned journal joins another well-known academic title in the field of mycology: MycoKeys, which was launched by Pensoft in 2011. The big announcement was aptly made public at this year’s 12th International Mycological Congress where visitors of the Pensoft stand could often spot newly elected IMA President and IMA Fungus Chief editor: Marc Stadler chatting with our founder and CEO Lyubomir Penev by the Pensoft/MycoKeys booth.
On our end, we did not stop supporting enthusiastic and proactive scientists in their attempt to bridge gaps in scientific knowledge. In January, we launched the Estuarine Management and Technologies journal together with Dr. Soufiane Haddout of the Ibn Tofail University, Morocco.
Later on, Dr. Franco Andreone (Museo Regionale di Scienze Naturali, Italy) sought us with the idea to launch a journal addressing the role of natural history museums and herbaria collections in scientific progress. This collaboration resulted in the Natural History Collections and Museomics journal, officially announced at the joint TDWG-SPNHC conference in Okinawa, Japan in August.
Around this time, we finalised our similarly exciting journal project in partnership with Prof. Dr. Volker Grimm (UFZ, Germany), Prof. Dr. Karin Frank (UFZ, Germany), Prof. Dr. Mark E. Hauber (City University of New York) and Prof. Dr. Florian Jeltsch (University of Potsdam, Germany). The outcome of this collaboration is called Individual-based Ecology: a journal that aims to promote an individual-based perspective in ecology, as it closes the knowledge gap between individual-level responses and broader ecological patterns.
The three newly-launched journals are all published under the Diamond Open Access model, where neither access, nor publication is subject to charges.
As you can see, we have a lot to be proud of in terms of our journals. This is also why in 2024 our team took a record number of trips to attend major scientific events, where we got the chance to meet face-to-face with long-time editors, authors, reviewers and readers of our journals. Even more exciting was meeting the new faces of scientific research and learning about their own take on scholarship and academic journals.
Pensoft’s CEO and founder Prof. Dr. Lyubomir Penev welcomed editors at PhytoKeys to the Pensoft-PhytoKeys-branded booth at the XX International Botanical Congress in July 2024 (Spain).
We cannot possibly comment on Pensoft’s tech progress in 2024 without mentioning the EU-funded project BiCIKL (acronym for Biodiversity Community Integrated Knowledge Library) that we coordinated for three years ending up last April.
This 36-month endeavour saw 14 member institutions and 15 research infrastructures representing diverse actors from the biodiversity data realm come together to improve bi-directional links between different platforms, standards, formats and scientific fields.
Following these three years of collaborative work, we reported a great many notable research outputs from our consortium (find about them in the open-science project collection in the Research Ideas and Outcomes journal, titled “Towards interlinked FAIR biodiversity knowledge: The BiCIKL perspective”) that culminated in the Biodiversity Knowledge Hub: a one-stop portal that allows users to access FAIR and interlinked biodiversity data and services in a few clicks; and also a set of policy recommendations addressing key policy makers, research institutions and funders who deal with various types of data about the world’s biodiversity, and are thereby responsible to ensuring there findability, accessibility, interoperability and reusability (FAIR-ness).
Apart from coordinating BiCIKL, we also worked side-by-side with our partners to develop, refine and test each other’s tools and services, in order to make sure that they communicate efficiently with each other, thereby aligning with the principles of FAIR data and the needs of the scientific community in the long run.
During those three years we made a lot of refinements to our OpenBiodiv: a biodiversity database containing knowledge extracted from scientific literature, built as an Open Biodiversity Knowledge Management System, and our ARPHA Writing Tool. The latter is an XML-based online authoring environment using a large set of pre-formatted templates, where manuscripts are collaboratively written, edited and submitted to participating journals published on ARPHA Platform. What makes the tool particularly special is its multiple features that streamline and FAIRify data publishing as part of a scientific publication, especially in the field of biodiversity knowledge. In fact, we made enough improvements to the ARPHA Writing Tool that we will be soon officially releasing its 2.0 version!
OpenBiodiv – The Open Biodiversity Knowledge Management System
ARPHA Writing Tool 2.0
Amongst our collaborative projects are the Nanopublications for Biodiversity workflow that we co-developed with KnowledgePixels to allow researchers to ‘fragment’ their most important scientific findings into machine-actionable and machine-interpretable statements. Being the smallest units of publishable information, these ‘pixels of knowledge’ present an assertion about anything that can be uniquely identified and attributed to its author and serve to communicate a single statement, its original source (provenance) and citation record (publication info).
Nanopublications for Biodiversity
In partnership with the Swiss-based Text Mining group of Patrick Ruch at SIB and the text- and data-mining association Plazi, we brought the SIB Literature Services (SIBiLS) database one step closer to solidifying its “Biodiversity PMC” portal and working title.
Understandably, we spent a lot of effort, time and enthusiasm in raising awareness about our most recent innovations, in addition to our long-standing workflows, formats and tools developed with the aim to facilitate open and efficient access to scientific data; and their integration into published scholarly work, as well as receiving well-deserved recognition for their collection.
We just can’t stress it enough how important and beneficial it is for everyone to have high-quality FAIR data, ideally made available within a formal scientific publication!
🗨️Imagine if ALL these links were provided as hyperlinks within a #scholarly publication!
Pensoft’s CTO Teodor Georgiev talks about innovative methods and good practices in the publication of biodiversity data in scholarly papers at the First national meeting of the Bulgarian Barcode of Life (BgBOL) consortium (December, Bulgaria).
🤔What is a Data Paper?
👍 A means to describe a #dataset – like the ones on @GBIF – in a standardised, widely accepted #scientific article format.
👇🧵Highlights from @LyuboPenev's talk at the int'l symposium "#BiodiversityData in montane & arid Eurasia" in Kazakhstan 🇰🇿
Pensoft’s CEO and founder Prof. Dr. Lyubomir Penev presenting his “Data papers on biodiversity” talk at the “Biodiversity data in montane and arid Eurasia” symposium jointly organized by GBIF and by the Institute of Zoology of Republic of Kazakhstan (November, Kazakhstan).
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📸Today, at the @EASEeditors symposium, our @teodorpensoft gave a sneak peek into the AI-assisted tools at @ARPHAplatform we have been working on (e.g. Word -> JATS XML conversion) and the #ARPHA Writing Tool 2.0 (coming up in early 2025)!🎉
Pensoft’s CTO Teodor Georgiev presents new features and workflows currently in testing at the ARPHA Writing Tool 2.0 at the EASE Autumn Symposium 2024 (online event).Pensoft’s Head of Journal development, Marketing and PR Iva Boyadzhieva talks about Pensoft’s data publishing approach and innovations at the German Ecological Society 53rd Annual Conference (September, Germany).
Pensoft as a science communicator
At our Project team, which is undoubtedly the fastest developing department at Pensoft, science communicators are working closely with technology and publishing teams to help consortia bring their scientific results closer to policy actors, decision-makers and the society at large.
Ultimately, bridging the notorious chasm between researchers and global politics boils down to mutual understanding and dialogue.
Pensoft’s communication team attended COP16 (November 2024, Colombia) along with partners at the consortia of CO-OP4CBD, BioAgora and RESPIN: three Horizon Europe projects, whose communication and dissemination is led by Pensoft.
Throughout 2024, the team, comprising 20 science communicators and project managers, has been working as part of 27 EU-funded project consortia, including nine that have only started this year (check out all partnering projects on the Pensoft website, ordered from most recently started to oldest). Apart from communicating key outcomes and activities during the duration of the projects, at many of the projects, our team has also been actively involved in their grant proposal drafting, coordination, administration, platform development, graphic and web design and others (see all project services offered by Pensoft to consortia).
📸As leaders of the “Stakeholder engagement, comms & dissemination” WP at @BCubedProject, we joined the annual meeting to report on project branding, #scicomm & #DataManagement.
Naturally, we had a seat on the front row during many milestones achieved by our partners at all those 27 ongoing projects, and communicated to the public by our communicators.
Amongst those are the release of the InsectsCount web application developed within the Horizon 2020 project SHOWCASE. Through innovative gamification elements, the app encourages users to share valuable data about flower-visiting insects, which in turn help researchers gain new knowledge about the relationship between observed species and the region’s land use and management practices (learn more about InsectsCount on the SHOWCASE prroject website).
Another fantastic project output was the long-awaited dataset of maps of annual forest disturbances across 38 European countries derived from the Landsat satellite data archive published by the Horizon Europe project ForestPaths in April (find more about the European Forest Disturbance Atlas on the ForestPaths project website).
In a major company highlight, last month, our project team participated in COP29 in Baku, Azerbaijan with a side event dedicated to the role of open science and science communication in climate- and biodiversity-friendly policy.
Pensoft’s participation at COP29 – as well as our perspective on FAIR data and open science – were recently covered in an interview by Exposed by CMD (a US-based news media accredited to cover the event) with our science communicator Alexandra Korcheva and project manager Boris Barov.
You see, A LOT of great things worth celebrating happened during the year for us at Pensoft: all thanks to ceaselessly flourishing collaboration based on transparency, trust and integrity. Huge ‘THANK YOU!’ goes to everyone who has joined us in our endeavours!
Here’s to many more shared achievements coming up in 2025!
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Happy World Animal Day! Today is all about celebrating the incredible species roaming our planet and promoting action for animal rights and welfare.
To mark this special day, we have collected some of our favourite animals published across Pensoft’s journal portfolio.
1. The ‘cute but deadly’ velvet worm
The Tiputini velvet worm (Oroperipatus tiputini). Credit: Roberto José León.
Look at those adorable little legs!
Oroperipatus tiputini is a velvet worm that researchers published as a new species in Zoosystematics and Evolution. These invertebrates are known as “living fossils” because they evolved over 500 million years ago, long before the dinosaurs.
The Tiputini velvet worm (Oroperipatus tiputini) adult and juvenile.
Despite its friendly appearance, the Tiputini velvet worm is an accomplished hunter that shoots a sticky substance from a pair of glands near its face to trap its prey!
Some creatures look like they belong to an era long ago.
But this one has only just been discovered! Found near American Samoa at a depth of 300 m, Nautilus samoaensis was one of three new nautilius species published in ZooKeys in 2023.
Underwater photos of living Nautilus samoaensis.
Sadly, these enigmatic molluscs with beautiful shells are facing population decline, and even extinction, due to the activity of unregulated fisheries.
Any ideas why Neopalpa donaldtrumpi was given its name?
Found in California, Arizona, and some areas of Mexico, this species was named days before Donald J. Trump became the the 45th President of the United States of America.
Neopalpa donaldtrumpi.
Researcher Dr Vazrick Nazari hoped that the fame around the blonde-haired moth would raise awareness for the importance of further conservation efforts for the species’ fragile habitat.
We think this fish may have taken the advice “keep your chin up” a bit too literally.
The longnosed stargazer (Ichthyscopus lebeck) looks like this for good reason – it buries itself in sand, with just its eyes visible, and leaps upwards to ambush prey.
Blue is a rare colour in nature, which is a shame because this tarantula from Thailand looks spectacular. The stylish spider sports iridescent streaks of neon colour on its legs, back, and mouthparts.
Chilobrachys natanicharum was already known in the pet trade as the electric blue tarantula, but a study published ZooKeys finally confirmed it as a unique species.
Tailless whip scorpion (Phrynus whitei). Credit: Fugus Guy via WikiMedia Commons.
Sorry about this one.
Phrynus whitei is an amblypygid – an order of arachnids also known as whip spiders or tailless whip scorpions. Despite its unsettling appearance, it is generally calm around humans and is non-venomous.
While we have enjoyed collecting a few of our favourite species featured in Pensoft journals, it is important to remember the value of every animal, regardless of cuteness or weirdness.
By supporting research and action that aims to protect our planet’s species, we can continue to enjoy our planet’s bizarre biodiversity that never fails to surprise and delight. Happy World Animal Day!
The demand for the digitization of natural history collections has increased with the advancement of imaging technologies. Large collections composed of millions of insect specimens are exploring efficient strategies and new technologies to digitize them. However, many of these new systems are quite elaborate and expensive, creating a need for more affordable and easy-to-use equipment.
75-by-47-cm foam platform with pinned insects in dorsal and lateral positions.
Creating a digital image for every specimen is an essential part of the DNA barcoding workflow at the Centre for Biodiversity Genomics (CBG). A newly designed imaging rig has enabled the CBG to quickly and efficiently image specimens at high quality while controlling the specimen’s orientation to emphasize key morphological characters. This system allowed the CBG to take some 190,000 images over the past year.
The SLR rig is placed on a heavy-base table to minimize vibration. The inset shows the actual rig area with specimens on the styrofoam base.
Our new ZooKeys study describes this imaging rig, which was mainly created for pinned specimens. It is inexpensive and easy to install as it uses a camera mounted to a CNC machine rig to photograph specimens at high capacity. By using a foam board to array specimens, the user can choose their orientation, which contrasts some existing methods that do not provide such flexibility. This setup produces 95 high quality images within half an hour.
Panel of example images taken with the SLR rig.
The flexibility of the imaging rig could benefit many potential users who are looking for an accessible method for larger collections of specimens. By alternating various parameters, such as the distance between the camera and specimens or the type of camera and lens used, users can adapt their system to specimens of varying sizes. With further changes to the array, the imaging rig can also be adapted to support imaging specimens on slides, within vials, or other storage solutions.
Within theBiodiversity Community Integrated Knowledge Library (BiCIKL) project, 14 European institutions from ten countries, spent the last three years elaborating on services and high-tech digital tools, in order to improve the findability, accessibility, interoperability and reusability (FAIR-ness) of various types of data about the world’s biodiversity. These types of data include peer-reviewed scientific literature, occurrence records, natural history collections, DNA data and more.
By ensuring all those data are readily available and efficiently interlinked to each other, the project consortium’s intention is to provide better tools to the scientific community, so that it can more rapidly and effectively study, assess, monitor and preserve Earth’s biological diversity in line with the objectives of the likes of the EU Biodiversity Strategy for 2030 and the European Green Deal. Their targets require openly available, precise and harmonised data to underpin the design of effective measures for restoration and conservation, reminds the BiCIKL consortium.
Since 2021, the project partners at BiCIKL have been working together to elaborate existing workflows and links, as well as create brand new ones, so that their data resources, platforms and tools can seamlessly communicate with each other, thereby taking the burden off the shoulders of scientists and letting them focus on their actual mission: paving the way to healthy and sustainable ecosystems across Europe and beyond.
Now that the three-year project is officially over, the wider scientific community is yet to reap the fruits of the consortium’s efforts. In fact, the end of the BiCIKL project marks the actual beginning of a European- and global-wide revolution in the way biodiversity scientists access, use and produce data. It is time for the research community, as well as all actors involved in the study of biodiversity and the implementation of regulations necessary to protect and preserve it, to embrace the lessons learned, adopt the good practices identified and build on the knowledge in existence.
This is why amongst the BiCIKL’s major final research outputs, there are two Policy Briefs meant to summarise and highlight important recommendations addressed to key policy makers, research institutions and funders of research. After all, it is the regulatory bodies that are best equipped to share and implement best practices and guidelines.
Most recently, the BiCIKL consortium published two particularly important policy briefs, both addressed to the likes of the European Commission’s Directorate-General for Environment; the European Environment Agency; the Joint Research Centre; as well as science and policy interface platforms, such as the EU Biodiversity Platform; and also organisations and programmes, e.g. Biodiversa+ and EuropaBON, which are engaged in biodiversity monitoring, protection and restoration. The policy briefs are also to be of particular use to national research funds in the European Union.
One of the newly published policy briefs, titled “Uniting FAIR data through interlinked, machine-actionable infrastructures”, highlights the potential benefits derived from enhanced connectivity and interoperability among various types of biodiversity data. The publication includes a list of recommendations addressed to policy-makers, as well as nine key action points. Understandably, amongst the main themes are those of wider international cooperation; inclusivity and collaboration at scale; standardisation and bringing science and policy closer to industry. Another major outcome of the BiCIKL project: the Biodiversity Knowledge Hub portal is noted as central to many of these objectives and tasks in its role of a knowledge broker that will continue to be maintained and updated with additional FAIR data-compliant services as a living legacy of the collaborative efforts at BiCIKL.
The second policy brief, titled “Liberate the power of biodiversity literature as FAIR digital objects”, shares key actions that can liberate data published in non-machine actionable formats and non-interoperable platforms, so that those data can also be efficiently accessed and used; as well as ways to publish future data according to the best FAIR and linked data practices. The recommendations highlighted in the policy brief intend to support decision-making in Europe; expedite research by making biodiversity data immediately and globally accessible; provide curated data ready to use by AI applications; and bridge gaps in the life cycle of research data through digital-born data. Several new and innovative workflows, linkages and integrative mechanisms and services developed within BiCIKL are mentioned as key advancements created to access and disseminate data available from scientific literature.
While all policy briefs and factsheets – both primarily targeted at non-expert decision-makers who play a central role in biodiversity research and conservation efforts – are openly and freely available on the project’s website, the most important contributions were published as permanent scientific records in a BiCIKL-branded dedicated collection in the peer-reviewed open-science journal Research Ideas and Outcomes (RIO). There, the policy briefs are provided as both a ready-to-print document (available as supplementary material) and an extensive academic publication.
Currently, the collection: “Towards interlinked FAIR biodiversity knowledge: The BiCIKL perspective” in the RIO journal contains 60 publications, including policy briefs, project reports, methods papers, conference abstracts, demonstrating and highlighting key milestones and project outcomes from along the BiCIKL’s journey in the last three years. The collection also features over 15 scientific publications authored by people not necessarily involved in BiCIKL, but whose research uses linked open data and tools created in BiCIKL. Their publications were published in a dedicated article collection in the Biodiversity Data Journal.
There are about 25,000 islands in the Pacific Ocean. The most remote of them are in North and East Polynesia, the Hawaiian Islands, and French Polynesia. Biologists have been attracted to these regions since the 18th century, but French Polynesia has received much less attention compared to the Hawaiian Islands.
A view of the area where Olpium caputi was found. Photo by Frédéric A. Jacq
Contributions to our knowledge of the pseudoscorpions of French Polynesia date from the 1930s and are associated with the Pacific Entomological Survey. Since then, the French Polynesian pseudoscorpion fauna has consisted of only four known species.
A female individual of Olpium caputi.
Thanks to international cooperation, a team of enthusiastic scientists has published the first discovery of a new species of pseudoscorpion from French Polynesia. Between 2017 and 2020, they studied French Polynesia’s fauna and environment for the French Polynesian Agricultural Service and as a part of a large-scale survey of arthropods. During their research work, they collected a few pseudoscorpion specimens on Huahine and Tahiti in the Society Islands.
Among them is a new species named Olpium caputi, collected by sieving moss at 1,450 m about sea level on the Mont Marau Summit, Tahiti, one of the Society Islands archipelago. Its scientific name honours Zuzana Čaputová, the President of Slovakia.
“As a female leader, she takes a strong stance and supports women and scientists. Even in the 21st century, women in science or top positions are rare. The rarity of the research in French Polynesia, the uniqueness of the discovery, and the fact that the new species is a female, led us to name it after this inspiring woman who can be a role model of courage and perseverance for many women,” says Jana Christophoryová, who led the study.
The paper is published in the open-access, peer-reviewed journal ZooKeys.
The team:
Katarína Krajčovičová of Bratislavské regionálne ochranárske združenie – BROZ, Bratislava, and Jana Christophoryová of Comenius University, Bratislava, are both zoologists, who specialize in the taxonomy, distribution, and ecology of pseudoscorpions. Frédéric Jacq, botanist, and Thibault Ramage, entomologist, are independent naturalists who have been working on improving the faunistic and taxonomic knowledge of French Polynesia for over 15 years.
Research article:
Krajčovičová K, Ramage T, Jacq FA, Christophoryová J (2024) Pseudoscorpions (Arachnida, Pseudoscorpiones) from French Polynesia with first species records and description of new species. ZooKeys 1192: 29-43. https://doi.org/10.3897/zookeys.1192.111308
Dikow, an esteemed entomologist specialising in Diptera and cybertaxonomy, is the new Editor-in-Chief of the leading scholarly journal in systematic zoology and biodiversity
Esteemed entomologist specialising in true flies (order Diptera) and cybertaxonomy, Dr Torsten Dikow was appointed as the new Editor-in-Chief of the leading open-access peer-reviewed journal in systematic zoology and biodiversity ZooKeys.
Today, Dikow is a Research Entomologist and Curator of Diptera and Aquatic Insects at the Smithsonian National Museum of Natural History (Washington, DC, USA), where his research interests encompass the diversity and evolutionary history of the superfamily Asiloidea – or asiloid flies – comprising curious insect groups, such as the assassin flies / robber flies and the mydas flies. Amongst an extensive list of research publications, Dikow’s studies on the diversity, biology, distribution and systematics of asiloid flies include the description of 60 species of assassin flies alone, and the redescription of even more through comprehensive taxonomic revisions.
During his years as a postdoc at the Field Museum (Illinois, USA), Dikow was earnestly involved in the broader activities of the Encyclopedia of Life through its Biodiversity Synthesis Center (BioSynC) and the Biodiversity Heritage Library (BHL). There, he would personally establish contacts with smaller natural history museums and scientific societies, and encourage them to grant digitisation permissions to the BHL for in-copyright scientific publications. Dikow is a champion of cybertaxonomic tools and making biodiversity data accessible from both natural history collections and publications. He has been named a Biodiversity Open Data Ambassador by the Global Biodiversity Information Facility (GBIF).
Dikow is no stranger to ZooKeys and other journals published by the open-access scientific publisher and technology provider Pensoft. For the past 10 years, he has been amongst the most active editors and a regular author and reviewer at ZooKeys, Biodiversity Data Journal and African Invertebrates.
“Publishing taxonomic revisions and species descriptions in an open-access, innovative journal to make data digitally accessible is one way we taxonomists can and need to add to the biodiversity knowledge base. ZooKeys has been a journal in support of this goal since day one. I am excited to lend my expertise and enthusiasm to further this goal and continue the development to publish foundational biodiversity research, species discoveries, and much more in the zoological field,”
ZooKeys is a peer-reviewed, open-access, rapidly disseminated journal launched to accelerate research and free information exchange in taxonomy, phylogeny, biogeography and evolution of animals. ZooKeys aims to apply the latest trends and methodologies in publishing and preservation of digital materials to meet the highest possible standards of the cybertaxonomy era.
ZooKeys publishes papers in systematic zoology containing taxonomic/faunistic data on any taxon of any geological age from any part of the world with no limit to manuscript size. To respond to the current trends in linking biodiversity information and synthesising the knowledge through technology advancements, ZooKeys also publishes papers across other taxon-based disciplines, such as ecology, molecular biology, genomics, evolutionary biology, palaeontology, behavioural science, bioinformatics, etc.
