The initiative aims to make it easier to access and use biodiversity data associated with published research, aligning with principles of Findable, Accessible, Interoperable, and Reusable (FAIR) data.
The data portals offer seamless integration of published articles and associated data elements with GBIF-mediated records. Now, researchers, educators, and conservation practitioners can discover and use the extensive species occurrence and other data associated with the papers published in each journal.
A video displaying an interactive map with occurrence data on the BDJ portal.
The collaboration between Pensoft and GBIF was recently piloted with the Biodiversity Data Journal (BDJ). Today, the BDJ hosted portal provides seamless access and exploration for nearly 300,000 occurrences of biological organisms from all over the world that have been extracted from the journal’s all-time publications. In addition, the portal provides direct access to more than 800 datasets published alongside papers in BDJ, as well as to almost 1,000 citations of the journal articles associated with those publications.
“The release of the BDJ portal and subsequent ones planned for other Pensoft journals should inspire other publishers to follow suit in advancing a more interconnected, open and accessible ecosystem for biodiversity research,” said Dr. Vince Smith, Editor-in-Chief of BDJ and head of digital, data and informatics at the Natural History Museum, London.
— GBIF @biodiversity.social/@gbif (@GBIF) March 10, 2025
“The programme will provide a scalable solution for more than thirty of the journals we publish thanks to our partnership with Plazi, and will foster greater connectivity between scientific research and the evidence that supports it,” said Prof. Lyubomir Penev, founder and chief executive officer of Pensoft.
On the new portals, users can search data, refining their queries based on various criteria such as taxonomic classification, and conservation status. They also have access to statistical information about the hosted data.
Together, the hosted portals provide data on almost 325,000 occurrence records, as well as over 1,000 datasets published across the journals.
Imagine walking into a museum and realising that every specimen—a rare deep-sea snail, a giant fossil bone, a pressed plant, the DNA bank, endless drawers of perfectly pinned insects, even the notebooks and dusty photographs in the archive—is part of a vast, interconnected web of knowledge. Now, imagine if all of these specimens—across every museum in the world—were seamlessly linked, their data unified and accessible to scientists, historians, educators, and conservationists everywhere. This vision is at the heart of collectomics—a groundbreaking new term introduced in a recent paper published in Natural History Collections and Museomics.
Top: for more than 200 years, relevant object information was most often recorded in the form of hand-written labels and inventories. Bottom: Natural history museums directly intersect with social sciences, although the connections often go unrecognised. Top left: Jan-Peter Kasper/Universität Jena, Top right: Sigrid Hof / Senckenberg Research Institute and Museum Frankfurt, Bottom left: image of Dr Fritz Haas (seated) and unnamed companions (men and women), in the act of collecting a new species Unio valentinus, Bottom right: natural history objects also appear in the context of art objects, photo: Emőke Dénes.
What is Collectomics, and Why Does It Matter?
At its core, the collectomics concept represents a holistic modern view of museum collections. This is not only about digitising collections, or about preserving species; rather this new approach shifts the perspective to treating collections as a single global dataset. Museums represent a dynamic and growing resource that can help answer some of the most pressing challenges in science and conservation. With the integration of digital tools, standardized data practices, and a commitment to open accessibility, collectomics offers a way to transform fragmented collections into a powerful, collective resource that also integrates the cultural and historical aspects of museum collections.
Collectomics envisions museums as interconnected nodes in a worldwide network, rather than isolated repositories of knowledge, and holds this ambition as the primary goal of collections digitisation. This framework allows researchers to trace the movement of species, monitor environmental changes over time, and predict future ecological shifts with greater accuracy. More importantly, it connects beyond the realm of natural sciences to other disciplines. Natural history specimens are objects that were collected by people—including often-uncredited local knowledge holders.
The accessory information about the life and work of those human facets informs our use of museum objects. For example, if we can identify the handwriting on an original collection label, the lifetime of that person can constrain the collecting date even if it was not written down, and this adds to the biological knowledge about the specimen. Conversely, the types of objects and observations recorded by a person inform the understanding of the historical context.
For an increasingly diverse range of scientists, museum data contribute to work without actually depending on physically examining the original objects. They can analyse high-resolution images, genetic data, and historical records without leaving their own labs. Collectomics puts the original objects as the centre of gravity, acknowledging that preserved specimens underpin the scientific replicability of this rapidly growing suite of applications.
Natural history collections are iconic in biodiversity research and yet much of their potential impact remains untapped. Photograph by Sven Tränkner, Senckenberg Museum Frankfurt, Germany.
Looking Ahead: How Collectomics Can Shape the Future
Beyond envisioned technical advancements, collectomics is fundamentally about people. It is about the researchers who dedicate their lives to studying biodiversity, the curators who meticulously preserve specimens, and the students who might one day make groundbreaking discoveries using these collections.
A database is more than just a digital version of a collection—it is structured, searchable, and interconnected, allowing for new patterns and insights to emerge. Physical collections, like a library, must follow a particular a priori organisation. Books on a shelf might be arranged by subject, author, the colour of the dustjacket, or just the order they were unpacked. Zoological and botanical collections are typically arranged taxonomically, while geological collections are organised stratigraphically. And just like running your eyes across a bookshelf, physically browsing a collection often turns up serendipitous inspiration and discovery. Once specimens and their associated data are digitised, different kinds of unexpected relationships and trends can be uncovered. In a collection organised based on systematics, it is almost impossible to answer simple geographical questions like “How many specimens do you have from Malaysia?” because the relevant material is scattered across countless diverse taxonomic groups. The power of digitisation is enabling cross-cutting queries, on geography, time, and the activities of human contributors. This does not replace the need for well organised, well maintained physical collections, but instead unlocks the full potential.
Digital records are only a small fraction of global museum records. The black line represents a linear increase of the number of collection objects in time from the late 1700s. The dashed lines show three model projections for digitisation: in the best-case model prediction, museums might achieve complete digitisation at the earliest around the year 2071, but if there is no acceleration (red line) the global digitisation gap will continue to increase.
The importance of collections digitisation has long been recognised. However, this has progressed in a patchwork of small projects, often funded for specific research interests. As collections are continuously growing, the rate of growth may be outpacing even modern digitsation efforts. Collectomics offers an outlook that depends on, and also motivates, a total-collections approach. The power of collectomics emerges only when it is applied to everything, everywhere, in interconnecting museum collections including natural history and beyond.
By making collections more accessible, collectomics also contributes to democratising and diversifying science. Historically, access to rare specimens was limited to those with the resources to travel or with institutional connections. But with a collectomics approach, a high school student in a small town can study the same butterfly as a leading entomologist at a major university. A researcher in the Global South can contribute just as meaningfully to biodiversity studies as someone in the Global North. By embracing this new framework, museums are not only preserving history—we are unlocking its full potential.
Original source
Sigwart JD, Schleuning M, Brandt A, Pfenninger M, Saeedi H, Borsch T, Häffner E, Lücking R, Güntsch A, Trischler H, Töpfer T, Wesche K, Consortium C (2025) Collectomics – towards a new framework to integrate museum collections to address global challenges. Natural History Collections and Museomics 2: 1-20. https://doi.org/10.3897/nhcm.2.148855
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A thin atmosphere, freezing temperatures, and a barrage of radiation: the surface of Mars is hardly a prime holiday destination. But can any life survive there?
Known for their extreme tolerance to harsh environments such as Earth’s deserts and polar regions, lichens have long been considered a leading candidate for Martian survival. And, for the first time, researchers have demonstrated that certain species can survive Mars-like conditions, including exposure to ionising radiation, while maintaining a metabolically active state.
Published in the open-access journal IMA Fungus, a new study highlights the potential for lichens to survive and function on the Martian surface, challenging previous assumptions that the planet is uninhabitable.
Experiment arrangement of vacuum chamber with the additional facility, including metal grate with lichens, cooling table, temperature, pressure and humidity sensors, X-ray lamp with the controller, CO2 valve with cylinder, controllers of vacuum chamber, pressure, cooling table, and computer.
But what exactly are lichens? It’s a little complicated. In fact, lichens are not a single organism, but rather a symbiotic association between a fungus and algae and/or cyanobacteria.
In this study, the fungal partner in lichen symbiosis remained metabolically active when exposed to Mars-like atmospheric conditions in darkness, including X-ray radiation levels expected on Mars over one year of strong solar activity.
Cetrariaaculeata.
The research focuses on two lichen species (yes, there are lichen species despite them being a symbiosis), Diploschistes muscorum and Cetraria aculeata, selected for their differing traits. The lichens were exposed to Mars-like conditions for five hours in a simulation of the planet’s atmospheric composition, pressure, temperature fluctuations, and X-ray radiation.
The findings suggest that lichens, particularly D. muscorum, could potentially survive on Mars despite the high doses of X-ray radiation associated with solar flares and energetic particles reaching the planet’s surface. These results challenge the assumption that ionising radiation is an insurmountable barrier to life on Mars and set the stage for further research on the potential for extraterrestrial microbial and symbiotic survival.
“Our study is the first to demonstrate that the metabolism of the fungal partner in lichen symbiosis remained active while being in an environment resembling the surface of Mars. We found that Diploschistes muscorum was able to carry out metabolic processes and activate defense mechanisms effectively.
“These findings expand our understanding of biological processes under simulated Martian conditions and reveal how hydrated organisms respond to ionizing radiation – one of the most critical challenges for survival and habitability on Mars. Ultimately, this research deepens our knowledge of lichen adaptation and their potential for colonizing extraterrestrial environments.”
Lead author of the paper, Kaja Skubała.
Further long-term studies investigating the impact of chronic radiation exposure on lichens have been recommended, as well as experiments assessing their survival in real Martian environments.
Skubała K, Chowaniec K, Kowaliński M, Mrozek T, Bąkała J, Latkowska E, Myśliwa-Kurdziel B (2025) Ionizing radiation resilience: how metabolically active lichens endure exposure to the simulated Mars atmosphere. IMA Fungus 16: e145477. https://doi.org/10.3897/imafungus.16.145477
Species belonging to the genus Thismia are some of the strangest and most magical-looking in the plant kingdom, which has earned them the nickname ‘fairy lanterns.’
No exception to the rule, a newly discovered Thismia species from eastern Peninsular Malaysia looks like something that belongs in a fantasy world.
Take a look below.
Thismia aliasii.
Standing just 11 cm tall, Thismia aliasii is an easy-to-miss and Critically Endangered new species described in the open-access journal PhytoKeys.
The genus Thismia consists of plants that are mycoheterotrophic, meaning they do not photosynthesise and instead rely entirely on fungi for their nutrition. The unusual flowers seen on Thismia species facilitate specialised pollination mechanisms involving small insects such as fungus gnats.
Thismia aliasii was first documented by co-author Mohamad Alias Shakri in 2019 during a field expedition in Terengganu’s Chemerong Forest Eco Park, not far from a hiking path.
Terengganu’s Chemerong Forest Eco Park, habitat of the new species.
“The discovery of Thismia aliasii is very interesting as it was found in a mountainous region known for its natural beauty. The discovery was made on the edge of a popular mountaineering trail, but, remarkably, the species was first recognised by Alias.
“It was not easy to obtain specimens for further study as its habitat is on the mountain and COVID time delayed search efforts. Fortunately, targeted field work to find this plant was successful with the support of NAGAO.”
Siti-Munirah Mat Yunoh, co-author of the paper.
Siti-Munirah Mat Yunoh with Thismia aliasii.From left to right Angan and Alias and Zubir with Thismia aliasii.
Thismia aliasii is provisionally classified as Critically Endangered (CR) under the IUCN Red List criteria, with only five individuals observed across multiple surveys. The primary threats to its survival stem from habitat degradation due to increasing hiking activities in the region.
This discovery adds to Terengganu’s reputation as a hotspot for Thismia diversity, being home to 13 species of the genus, including six endemics.
Siti-Munirah MY, Mohamad Alias S (2025) Thismia aliasii (Thismiaceae), a new species from Terengganu, Peninsular Malaysia. PhytoKeys 254: 175-188. https://doi.org/10.3897/phytokeys.254.136085
Guest blog post by Daniel Ayllón and Steve Railsback
Early in the morning, Daniel Ayllón and his research mates at the Universidad Complutense de Madrid drive towards the mountains near Madrid. They’re out to survey streams where the endangered Southern Iberian spined-loach and Northern Iberian spined-loach used to coexist. We say “used to,” because once again they fail to find the Northern Iberian spined-loach, probably locally extinct. Such extinctions are not unusual, as freshwater fishes are one of the most threatened groups of animals in the world. There are still many brown trout there, though; the water is still cold enough for them.
Salmonids (trout, salmon and char) are especially challenged by climate change because they need cold, oxygenated and clean water. Trout populations at low altitudes or low latitudes are thus particularly at risk; many in the Iberian Peninsula have been declining for decades as rivers warm and dry. Climate models project a bleak future: such Mediterranean populations will face hotter and drier streams, with more frequent and longer droughts and heat waves, and increasing competition from warm-water fish.
Brown trout (Salmo trutta). Photo by J. R. Pérez (AEMS-Ríos con Vida archive)
Despite these changes, local extinctions of trout are still rare, because salmonids are among the most adaptable and resilient of freshwater fishes. They are changing their physiology and phenology, growth and reproduction patterns, and life-history strategies to adjust to the new environmental conditions, via evolutionary, plastic and behavioural mechanisms. While evolutionary ecologists typically focus on genetic adaptation to forces such as climate change, behavioural plasticity could be even more important, because it is fast, reversible and often predictable.
In fact, thermoregulatory movements seem a ubiquitous behavioural mechanism in salmonids: individuals move up and down river networks to find less-stressful temperatures and better growth potential. Behavioural plasticity in circadian activity and habitat selection (deciding when and where to feed) also help trout resist short-term environmental changes. However, we don’t know how important changes in circadian activity─or behaviours in general─are to long-term population persistence in the face of climate change. So to shed light on this question, in a recent work published in Individual-based Ecology, weran two virtual experiments using the inSTREAM individual-based model to represent a trout population in northern Spain.
The Roncal study site on the River Eska (northern Spain). Photo by Benigno Elvira
Steve Railsback and his colleagues at Cal Poly Humboldt University and the US Forest Service’s Pacific Southwest Research Station in Arcata, California, have been developing, testing, and applying inSTREAM for 25 years. The central idea of individual-based models (IBMs) and of individual-based ecology in general is that a biological system can be described through its individual agents, their environment, and the interactions among agents and between agents and environment. The agents of a system (for example, all fish in a population) are modelled as unique and autonomous individuals with their own properties.
The controlled experiment of Harvey and White to quantify how trout trade off feeding vs. predation risk. The experimenters trained wild trout to feed at this dispenser, and then moved it to increasingly risky habitat. The feeding rate needed to keep the trout from leaving increases with the risk it perceives. IBMs like inSTREAM use knowledge about individual behaviour from experiments like this to predict complex population responses. Video by Jason L. White.
Agents also have behaviours: they make decisions, following simple rules or algorithms, independently of other individuals, and seek objectives such as surviving to reproduce in the future. These behaviours are adaptive: agents’ decisions depend on their state and the state of their environment. In this way, population-level results actually emerge from the behaviour of the individuals. In inSTREAM, model trout decide whether to feed vs. hide from predators at different times of day, assumed a trade-off between the need to feed and the predation risk it poses. Temperature has a strong effect on this trade-off because a fish’s metabolic rates, and thus the amount of food it needs, increase sharply with temperature.
Three members of the research team at the UCM conducting habitat surveys at the Roncal study site. In IBMs like inSTREAM, modelled populations and their environment are characterised by field data collected in surveys like this. Photo by Benigno Elvira.
What did we learn with our IBM? First, our simulations show what behavioural ecologists know from experiments: that during warm summers trout can meet their metabolic requirements only by feeding at multiple times of day and segregating temporally, so that fish of different size can feed at the same spot but at different times of day. Feeding during daytime is more profitable but riskier, while doing it at night is safer but less efficient, and feeding during twilight provides near-daytime growth and somewhat-reduced risk.
We then analysed how model trout change their circadian foraging behaviour under increasing climate change. As we expected, trout showed great behavioural plasticity: trout of all ages responded to warmer and drier conditions by increasing daytime feeding and overall foraging activity, although there were differences across age classes in the distribution of daily activity. Our second experiment used a great advantage of IBMs as a virtual laboratory: we can run experiments that are impossible in reality. We tested the importance of behavioural plasticity by simply turning the behaviour off. In our simulations, virtual populations of trout capable of flexible circadian feeding were more resistant to climate change─had higher biomass and a more balanced age structure─than were populations of trout that feed only during daytime.
These experiments reinforce that behavioural plasticity can be key for coping with environmental changes, so we shouldn’t minimise its relevance when predicting the persistence of salmonid populations in warming and drying rivers. This conclusion no doubt also applies to other taxa that have powerful adaptive behaviours.
This study epitomises individual-based ecology, the subject of Pensoft’s new journal: we use what we know from empirical research on individual physiology and behaviour, in an individual-based model, to study complex population responses of direct relevance to our changing world.
Research article:
Ayllón D, Railsback SF, Harvey BC, Nicola GG, Elvira B, Almodóvar A (2025) Behavioural plasticity in circadian foraging patterns increases resistance of brown trout populations to environmental change. Individual-based Ecology 1: e139560. https://doi.org/10.3897/ibe.1.e139560
Individual-based Ecology (IBE), a new open-access peer-reviewed journal by scholarly publisher and technology provider Pensoft, has now published its first articles, offering a fresh perspective on how the behaviour of individual organisms and ecological systems dynamics are linked.
The journal was launched in September 2024 with an official announcement made during the German Ecological Society’s 53rd annual conference (Freising, Germany).
To fill a known gap in knowledge, the journal focuses on individual-based perspectives in ecology, complementing other ecological disciplines. Current approaches cannot fully capture the mechanisms underlying ecological responses to change in drivers, the journal’s editors believe, as they rarely focus on the individual organisms who directly respond to change.
Four editors-in-chief lead IBE: Prof. Dr. Volker Grimm and Prof. Dr. Karin Frank of Helmholtz Centre for Environmental Research – UFZ, Prof. Dr. Mark E. Hauber of The City University /(CUNY) of New York, and Prof. Dr. Florian Jeltsch of the University of Potsdam. “This team represents an international and collaborative group who agree on the conceptual and empirical need for this new journal”- says Dr Mark E. Hauber, from the Graduate Center of CUNY, and a former guest professor in ecology at the University of Potsdam.
The journal is published under a diamond open-access model, which makes it free of charge for both readers and authors. It publishes a wide range of articles, including empirical, experimental, and modeling studies, as well as reviews, perspectives, and methodological papers.
By blending basic and applied research, IBE offers a transformative framework for addressing global challenges such as the loss of biodiversity and potential loss of ecosystem services.
“We propose a paradigm shift in ecological science, moving from simplifying frameworks that use species, population or community averages to an integrative approach that recognizes individual organisms as fundamental agents of ecological change,” advocates write in a forum paper just published in IBE’s first issue.
Examples of individual variation and its consequences: a individual variation describes the variation in traits, including behaviour, between or within individuals resulting from various processes such as microevolution and biotic filtering. It also explicitly includes variation induced by experience, health status or microbes and microbial communities associated with the host; b simplified example showing how successful colonisation or invasion depends on inter-individual variation in morphological or behavioural traits (González-Suárez et al. 2015; Dammhahn et al. 2020; Premier et al. 2020).
“By unravelling and predicting the dynamics of biodiversity in the Anthropocene through a comprehensive study of individual organisms, their variability and their interactions, individual-based global change ecology will provide a critical foundation for a better understanding if and how we can manage individual variation and behaviour for conservation and sustainability, taking into account individual-to-ecosystem pathways and feedbacks.”
Hierarchical organisation from genes to ecosystems. Individuals are the elementary particles of ecological systems, meaning that variation and interactions between individuals can scale up to emergent properties at the population, community and ecosystem levels. The different ecological levels are highly interconnected through both bottom-up and top-down processes. Elucidating these feedback loops through an individual-based lens is a prerequisite for understanding ecosystem resilience and response to global change.
“By taking into account the variation, behaviours, and interactions of individual organisms, individual-based ecology links the responses of organisms to the responses of ecosystems: if we understand enough about individuals, we can predict complex system dynamics, even under novel conditions,” the editors and colleagues write in a “manifesto” for individual-based ecology that they published in the new journal. “We intend the journal to show how the individual-based perspective, in empirical, theoretical, and computational studies, benefits all branches of ecology.”
IBE’s first published research articles provide excellent examples of the individual-based perspective of the journal. Church et al. explore, using an established model of brown trout, how the uptake of microplastics by fish with different personalities affects population size. Ayllón et al. use the same model to explore to what extent behavioural plasticity allows this species to cope with environmental change, in particular increasing temperatures. Railsback and Harvey argue that in many models the representation of mortality risk is too simple. They present a new method, “survival increase functions”, which is more realistic but still straightforward to calibrate.
The journal is supported by the Helmholtz Centre for Environmental Research (UFZ, Germany) and the City University of New York (CUNY, USA).
The journal utilises Pensoft’s innovative ARPHA platform, which offers a seamless end-to-end publishing experience, encompassing all stages between manuscript submission and article publication, indexation, dissemination and permanent archiving. As a journal of Pensoft, IBE joins a number of open-access scholarly outlets in ecology by the publisher.
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A team from the Leibniz Institute for the Analysis of Biodiversity Change (LIB) has discovered groundbreaking ways for rapidly digitizing collection data. Data of insect specimen labels can now be easily read with just a smartphone – and all wirelessly and using only free, already available apps!
Screenshots from a mobile phone showing the steps of scanning of real-time data collection, and examples of labels: A step 1: marking of the text to be captured via touch screen of the mobile phone (example – printed labels scanned on pin) B step 2: select from menu bar (at the right side under three dots) “Copy to computer” (example – printed labels scanned separately). C Capture of multidirectional printed labels scanned separately from the specimen in “Google Lens” D Capture of multiple distorted, printed labels scanned on the pinned specimen in “Google Lens” E Initial capture of a printed label scanned separately from the specimen in “Google Keep” F Extracted data resulting from E.
Why is this important?
Around 1.1 billion objects in the largest natural history museums worldwide remain undigitized and manual extraction of specimen label information for taxonomic revisions, another source for biodiversity data mobilization, is very time consuming. By digitizing these data, we can preserve valuable knowledge about our biodiversity, especially in times of climate change and human biodiversity crisis when many species are going extinct before they are even discovered.
This innovation will accelerate and advance global research and the preservation of our biological knowledge. And the best part? It’s not expensive and accessible to everyone – from professionals to amateur scientists!
Research article:
Ahrens D, Haas A, Pacheco TL, Grobe P (2025) Extracting specimen label data rapidly with a smartphone—a great help for simple digitization in taxonomy and collection management. ZooKeys 1233: 15-30. https://doi.org/10.3897/zookeys.1233.140726
On May 13, 2024 researchers discovered a highly invasive silver-cheeked toadfish (Lagocephalus sceleratus) in the Bay of Medulin, just off the coast of Croatia. The 52 cm, 1.3 kg male represents the northernmost record of the species in the Mediterranean, raising serious concerns about potential impacts on marine biodiversity, fisheries, and coastal tourism.
Specimen of Lagocephalussceleratus (♂) from Medulin Bay, Croatia.
Originating from the Indo-Pacific, Lagocephalus sceleratus is a ‘Lessepsian migrant’ (meaning it migrated through the artificially created Suez Canal) and has spread aggressively through the Mediterranean since its first sighting in 2003. This latest discovery is the fourth confirmed record of the species in the Adriatic and the first from its northernmost waters.
The area in the northern Adriatic Sea where Lagocephalussceleratus was caught, Medulin Bay, southern Istria, Croatia.
Recent evidence from the southern and eastern Mediterranean shows that bites from the powerful beak-like jaws of the species can result in severe injuries such as partial amputations of fingers. Its flesh and organs also contain a potent neurotoxin, tetrodotoxin, which can be lethal if consumed.
In Mediterranean coastal regions, Lagocephalus sceleratus has become an increasingly significant portion of small-scale fishing catches, often causing damage to fishing gear with its bite. Stomach analysis of the captured individual revealed a diet consisting of bivalves, gastropods, and sea urchins, suggesting potential disruptions to the Adriatic’s ecological balance.
Adriatic records of Lagocephalussceleratus.
“The presence of Lagocephalus sceleratus in the northern Adriatic is a clear warning sign of the species’ expanding range and potential ecological and economic consequences. Proactive monitoring and management strategies are important to mitigating its impact on local marine biodiversity, fisheries, and public safety.”
Dr Neven Iveša, co-author of the study.
Experts recommend increased monitoring, regulatory measures, and public awareness campaigns to address threats posed by the species. Targeted removal efforts, public education on handling and reporting sightings, and further research can also play a part in mitigating threats.
Iveša N, Buršić M, Dulčić J (2025) Northernmost Mediterranean record of the silver-cheeked toadfish, Lagocephalus sceleratus (Actinopterygii, Tetraodontiformes, Tetraodontidae). Acta Ichthyologica et Piscatoria 55: 77-81. https://doi.org/10.3897/aiep.55.146945
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A team of researchers from the Pontifical Catholic University of Ecuador, in collaboration with the Natural History Museum of London, has announced the discovery of three new species of torrent frogs belonging to the genus Hyloscirtus. The study, recently published in the journal ZooKeys, combines genetic, genomic, morphological, and bioacoustic analyses, revealing hidden diversity in one of the planet’s richest ecosystems.
Maximum likelihood phylogram of Hyloscirtus for DNA sequences of mitochondrial (12S rRNA, 16S rRNA, ND1 and adjacent tRNAs) and nuclear genes (RAG1 and c-myc). Bayesian posterior probabilities (pp × 100) are shown above branches and bootstrap values below. Asterisks represent values of 100%. Missing values indicate posterior probabilities and bootstrap < 50. Amazonian species of the H. bogotensis group are shown with colored boxes. Outgroup species are not shown and include two species of Boana and two of Dendropsophus. Voucher museum numbers are shown before the species name. For Ecuadorian populations, the province is provided after the species name. Abbreviations for other countries at the end of terminals: BOL (Bolivia), COL (Colombia), PAN (Panamá), PER (Perú), and VEN (Venezuela). UCS: unconfirmed candidate species.
Frogs in the mist
The research focuses on frog populations inhabiting the Amazonian cloud forests, a region known for its high biodiversity and conservation challenges. By combining DNA sequencing (both genomic and mitochondrial), detailed morphological studies, and the analysis of mating calls, the authors have identified three new species:
Hyloscirtus maycu
Hyloscirtus elbakyanae
Hyloscirtus dispersus
Hyloscirtus dispersus
Hyloscirtus elbakyanae
Hyloscirtus elbakyanae
Hyloscirtus dispersus
Hyloscirtus maycu
Hyloscirtus maycu
A tribute to open knowledge
As a recognition of the value of free access to scientific information, one of the newly described species has been named after Alexandra Elbakyan, programmer and creator of Sci-Hub. This website provides free access to scientific articles, allowing researchers worldwide to consult studies that would otherwise be locked behind expensive subscriptions—especially in low- and middle-income countries. Sci-Hub has been instrumental in democratizing scientific knowledge on a global scale.
Variation in life of Hyloscirtus elbakyanae.
Importance of the study
“This discovery not only expands our understanding of cloud forest biodiversity but also highlights the urgent need to conserve these ecosystems in the face of growing environmental threats,” said Andrea Varela, lead researcher of the study.
Geographic distribution of Amazonian species of the Hyloscirtus bogotensis group. Stars represent the type locality of H. albopunctulatus, H. phyllognathus and H. torrenticola.
The paper also examines the impact of the Andes on the diversification of this group. Colonization events across the Andes have been very rare; in the studied group, only two such events were recorded, over 14 million years ago, both from the Amazon towards the Pacific basin. These findings underscore the crucial role of the Andean barrier in the evolution and distribution of these species, offering a unique perspective on the complex biogeographic history of the Andes—one of the most biodiverse ecosystems on Earth.
Research article:
Varela-Jaramillo A, Streicher JW, Venegas PJ, Ron SR (2025) Three new species of torrent treefrogs (Anura, Hylidae) of the Hyloscirtus bogotensis group from the eastern Andean slopes and the biogeographic history of the genus. ZooKeys 1231: 233-292. https://doi.org/10.3897/zookeys.1231.124926
From the 10th to 14th March, 2025, Havana, Cuba, hosted the XIII Latin American Congress of Botany, a fantastic event that brought together botanists and mycologists from far and wide to share knowledge and celebrate the rich botanical heritage of Latin America.
Pensoft was proud to participate in the congress, showcasing its commitment to advancing plant research and establishing relationships with the global academic community. As always, the Pensoft team was thrilled to meet up with familiar authors, editors, and reviewers, as well as hundreds of new faces.
Eldis R. Bécquer
Alicia Rodriguez and Denitsa Peneva
Carolina Garrizo Garcia and Boriana Ovcharova
Rafael Silva and Boriana Ovcharova
Event organisers Alejandro Palmarola and Ramona Oviedo with Lyubomir Penev
The stand was adorned with many promotional materials featuring artwork by Denitsa Peneva, which proved to be a major draw for the attendees.
Promotional material at Pensoft’s stand.
On Friday, March 14, 2025, Pensoft’s CEO and Founder, Prof Dr Lyubomir Penev, delivered a compelling talk titled “Advancing Plant Taxonomy and Conservation through Scholarly Communication.” This presentation delved into the workflows and tools designed to streamline data publishing and enhance scholarly communication throughout the academic portfolio of the open-access publisher. Key aspects covered included semantic enrichment, data publishing, automated data import/export and science communication, all of which are crucial for advancing biodiversity research and conservation efforts.
The event marked another milestone in Pensoft’s ongoing efforts to bridge the gap between research and publication, ensuring that botanical knowledge reaches a wider audience and contributes to the conservation of plant diversity worldwide. As the botanical community looks forward to future gatherings, Pensoft remains ready to support and enhance the dissemination of botanical science globally.
