A new native bee species with a dog-like “snout” has been discovered in Perth bushland though Curtin-led research that sheds new light on our most important pollinators.
Published in the Journal of Hymenoptera Research, author Dr Kit Prendergast, from the Curtin School of Molecular and Life Sciences, has named the new species after her pet dog Zephyr after noticing a protruding part of the insect’s face looked similar to a dog’s snout, and to acknowledge the role her dog played in providing emotional support during her PhD.
Dr Prendergast said the rare and remarkable finding would add to existing knowledge about our evolving biodiversity and ensure the bees, named Leioproctus zephyr, were protected by conservation efforts.
“When I first examined the specimens that I collected during my PhD surveys discovering the biodiversity of native bees in urbanised regions of the southwest WA biodiversity hotspot, I was instantly intrigued by the bee’s very unusual face,” Dr Prendergast said.
“When I went to identify it, I found it matched no described species, and I was sure that if it was a known species, it would be quite easy to identify given how unusual it was in appearance.
“You can only confirm a particular species once you look at them under a microscope and go through the long process of trying to match their characteristics against other identified species, then going through museum collections.
“When perusing the WA Museum’s Entomology collection, I discovered that a few specimens of Leioproctus zephyrus had first been collected in 1979, but it had never been scientifically described.”
Dr Prendergast said she was excited to play a role in making this species known and officially naming them.
“Insects in general are so diverse and so important, yet we don’t have scientific descriptions or names for so many of them,” Dr Prendergast said.
“The Leioproctus zephyr has a highly restricted distribution, only occurring in seven locations across the southwest WA to date, and have not been collected from their original location. They were entirely absent from residential gardens and only present at five urban bushland remnants that I surveyed, where they foraged on two plant species of Jacksonia.
“Not only is this species fussy, they also have a clypeus that looks like a snout. Hence, I named them after my dog Zephyr. She has been so important to my mental health and wellbeing during the challenging period of doing a PhD and beyond.”
Through DNA barcoding, Dr Prendergast was able to confirm that the new species was most closely related to other species of unidentified Leioproctus.
The Principe Scops-Owl, the eighth known bird species endemic to the island, has a unique call and lives in a restricted range in the Príncipe Obô Natural Park.
A new species of owl has just been described from Príncipe Island, part of the Democratic Republic of São Tomé and Príncipe in Central Africa. Scientists were first able to confirm its presence in 2016, although suspicions of its occurrence gained traction from 1998, and testimonies from local people suggesting its existence could be traced back as far as 1928.
The new owl species was described in the open-access journal ZooKeys based on multiple lines of evidence such as morphology, plumage colour and pattern, vocalisations, and genetics. Data was gathered and processed by an international team led by Martim Melo (CIBIO and Natural History and Science Museum of the University of Porto), Bárbara Freitas (CIBIO and the Spanish National Museum of Natural Sciences) and Angelica Crottini (CIBIO).
The bird is now officially known as the Principe Scops-Owl, or Otus bikegila.
“Otus” is the generic name given to a group of small owls sharing a common history, commonly called scops-owls. They are found across Eurasia and Africa and include such widespread species as the Eurasian Scops-Owl (Otus scops) and the African Scops-Owl (Otus senegalensis).
The scientists behind the discovery further explain that the species epithet “bikegila” was chosen in homage of Ceciliano do Bom Jesus, nicknamed Bikegila – a former parrot harvester from Príncipe Island and now a ranger of its natural park.
“The discovery of the Principe Scops-Owl was only possible thanks to the local knowledge shared by Bikegila and by his unflinching efforts to solve this long-time mystery,” the researchers say. “As such, the name is also meant as an acknowledgment to all locally-based field assistants who are crucial in advancing the knowledge on the biodiversity of the world.”
In the wild, the easiest way to recognise one would be its unique call – in fact, it was one of the main clues leading to its discovery.
“Otus bikegila‘s unique call is a short “tuu” note repeated at a fast rate of about one note per second, reminiscent of insect calls. It is often emitted in duets, almost as soon as the night has fallen,” Martim Melo explains.
The entire Principe Island was extensively surveyed to determine the distribution and population size of the new species. Results, published in the journal Bird Conservation International, show that the Principe Scops-Owl is found only in the remaining old-growth native forest of Príncipe in the uninhabited southern part of the island. There, it occupies an area of about 15 km2, apparently due to a preference for lower elevations. In this small area (about four times the size of Central Park), the densities of the owl are relatively high, with the population estimated at around 1000-1500 individuals.
Nevertheless, because all individuals of the species occur in this single and very small location (of which a part will be affected in the near future by the construction of a small hydro-electric dam), researchers have proposed that the species should be classified as ‘Critically Endangered’, the highest threat level on the IUCN Red List. This recommendation must still be evaluated by the International Union for Conservation of Nature.
Monitoring the population will be essential to get more precise estimates of its size and follow its trends. For this purpose, a survey protocol relying on the deployment of automatic recording units and AI to retrieve the data from these has been designed and successfully tested.
“The discovery of a new species that is immediately evaluated as highly threatened illustrates well the current biodiversity predicament”, the researchers say. “On a positive note, the area of occurrence of the Principe Scops-Owl is fully included within the Príncipe Obô Natural Park, which will hopefully help secure its protection.”
Thisis the eighth known species of bird endemic to Príncipe, further highlighting the unusually high level of bird endemism for this island of only 139 km2.
Even though a new species of scops-owl was just described from Príncipe, genetic data indicated that the island was, surprisingly, likely the first in the Gulf of Guinea to be colonised by a species of scops-owl.
“Although it may seem odd for a bird species to remain undiscovered for science for so long on such a small island, this is by no means an isolated case when it comes to owls,” the researchers state. “For example, the Anjouan Scops-Owl was rediscovered in 1992, 106 years after its last observation, on Anjouan Island (also known as Ndzuani) in the Comoro Archipelago, and the Flores Scops-Owl was rediscovered in 1994, 98 years after the previous report.”
“The discovery of a new bird species is always an occasion to celebrate and an opportunity to reach out to the general public on the subject of biodiversity,” says Martim Melo. “In this age of human-driven extinction, a major global effort should be undertaken to document what may soon not be anymore,” he and his team state in their paper.
“Birds are likely the best studied animal group. As such, the discovery of a new bird species in the 21st century underscores both the actuality of field-based explorations aiming at describing biodiversity, and how such curiosity-driven endeavour is more likely to succeed when coupled with local ecological knowledge, the participation of keen amateur naturalists, and persistence,” they add.
They believe that this “new wave of exploration, carried out by professionals and amateurs alike”, will help rekindle the link to the natural world, which will be essential to help revert the global biodiversity crisis.
Research article:
Melo M, Freitas B, Verbelen P, da Costa SR, Pereira H, Fuchs J, Sangster G, Correia MN, de Lima RF, Crottini A (2022) A new species of scops-owl (Aves, Strigiformes, Strigidae, Otus) from Príncipe Island (Gulf of Guinea, Africa) and novel insights into the systematic affinities within Otus. ZooKeys 1126: 1-54. https://doi.org/10.3897/zookeys.1126.87635
Key figures from Naturalis Biodiversity Center, Plazi and Pensoft were amongst the first to sign the Declaration at the closing session of the First International Conference on FAIR Digital Objects (FDO2022)
Several of the BiCIKL partners signed the Leiden Declaration on FAIR Digital Objects, thereby committing to “a new environment that works as a truly meaningful data space,” as framed by the organisers of the conference, whose first instalment turned out to be the perfect occasion for the formal publication of the pact.
The conference brought together key international technical, scientific, industry and science-policy stakeholders with the aim to boost the development and implementation of FAIR Digital Objects (FDOs) worldwide. It was organised by the FDO Forum, an initiative supported by major global initiatives and by a variety of regional and national initiatives with the shared goal to achieve a better coherence amongst the increasing number of initiatives working on FDO-based designs and implementations.
By joining the Declaration’s signees, the BiCIKL partners formally committed to:
Support the FAIR guiding principles to be applied (ultimately) to each digital object in a web of FAIR data and services;
Support open standards and protocols;
Support data and services to be as open as possible, and only as restricted as necessary;
Support distributed solutions where useful to achieve robustness and scalability, but recognise the need for centralised approaches where necessary;
Support the restriction of standards and protocols to the absolute minimum;
Support freedom to operate wherever possible;
Help to avoid monopolies and provider lock-in wherever possible.
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During the event, Plazi and Pensoft held a presentation demonstrating how their Biodiversity Literature Repository turns taxonomic treatments ‘locked’ in legacy scientific literature into FAIR Digital Objects. As a result of the collaboration between Plazi and Pensoft – a partnership long-preceding their involvement in BiCIKL – this workflow has also been adapted to modern-day publishing, in order to FAIRify data as soon as it is published.
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Ahead of FDO2022, all submitted conference abstracts – including the one associated with Plazi’s presentation – were made publicly available in a collection of their own in Pensoft’s open-science journal Research Ideas and Outcomes (RIO). Thus, not only did the organisers make the conference outputs available to the participants early on, so that they can familiarise themselves with the upcoming talks and topics in advance, but they also ensure that the contributions are permanently preserved and FAIR in their own turn.
The conference collection, guest edited by Tina Loo (Naturalis Biodiversity Center), contains a total of 51 conference abstracts, where each is published in HTML, XML and PDF formats, and assigned with its own persistent identifier (DOI) just like the collection in its entirety (10.3897/rio.coll.190).
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Read more about the declaration and sign it yourself from this link. You can also follow the FDO Forum on Twitter (@FAIRDOForum).
The FAIR Data Place – the key and final product of the partnership – is meant to provide scientists with all types of biodiversity data “at their fingertips”
The Horizon 2020 – funded project BiCIKL has reached its halfway stage and the partners gathered in Plovdiv (Bulgaria) from the 22nd to the 25th of October for the Second General Assembly, organised by Pensoft.
The BiCIKL project will launch a new European community of key research infrastructures, researchers, citizen scientists and other stakeholders in the biodiversity and life sciences based on open science practices through access to data, tools and services.
BiCIKL’s goal is to create a centralised place to connect all key biodiversity data by interlinking 15 research infrastructures and their databases. The 3-year European Commission-supported initiative kicked off in 2021 and involves 14 key natural history institutions from 10 European countries.
BiCIKL is keeping pace as expected with 16 out of the 48 final deliverables already submitted, another 9 currently in progress/under review and due in a few days. Meanwhile, 21 out of the 48 milestones have been successfully achieved.
The hybrid format of the meeting enabled a wider range of participants, which resulted in robust discussions on the next steps of the project, such as the implementation of additional technical features of the FAIR Data Place (FAIR being an abbreviation for Findable, Accessible, Interoperable and Reusable).
This data includes biodiversity information, such as detailed images, DNA, physiology and past studies concerning a specific species and its ‘relatives’, to name a few. Currently, the issue is that all those types of biodiversity data have so far been scattered across various databases, which in turn have been missing meaningful and efficient interconnectedness.
Additionally, the FAIR Data Place, developed within the BiCIKL project, is to give researchers access to plenty of training modules to guide them through the different services.
Halfway through the duration of BiCIKL, the project is at a turning point, where crucial discussions between the partners are playing a central role in the refinement of the FAIR Data Place design. Most importantly, they are tasked with ensuring that their technologies work efficiently with each other, in order to seamlessly exchange, update and share the biodiversity data every one of them is collecting and taking care of.
By Year 3 of the BiCIKL project, the partners agree, when those infrastructures and databases become efficiently interconnected to each other, scientists studying the Earth’s biodiversity across the world will be in a much better position to build on existing research and improve the way and the pace at which nature is being explored and understood. At the end of the day, knowledge is the stepping stone for the preservation of biodiversity and humankind itself.
“Needless to say, it’s an honour and a pleasure to be the coordinator of such an amazing team spanning as many as 14 partnering natural history and biodiversity research institutions from across Europe, but also involving many global long-year collaborators and their infrastructures, such as Wikidata, GBIF, TDWG, Catalogue of Life to name a few,”
said BiCIKL’s project coordinator Prof. Lyubomir Penev, CEO and founder of Pensoft.
“The point is: do we want an integrated structure or do we prefer federated structures? What are the pros and cons of the two options? It’s essential to keep the community united and allied because we can’t afford any information loss and the stakeholders should feel at home with the Project and the Biodiversity Knowledge Hub.”
Joe Miller, Executive Secretary and Director at GBIF, commented:
“We are a brand new community, and we are in the middle of the growth process. We would like to already have answers, but it’s good to have this kind of robust discussion to build on a good basis. We must find the best solution to have linkages between infrastructures and be able to maintain them in the future because the Biodiversity Knowledge Hub is the location to gather the community around best practices, data and guidelines on how to use the BiCIKL services… In order to engage even more partners to fill the eventual gaps in our knowledge.”
“In an era of biodiversity change and loss, leveraging scientific data fully will allow the world to catalogue what we have now, to track and understand how things are changing and to build the tools that we will use to conserve or remediate. The challenge is that the data come from many streams – molecular biology, taxonomy, natural history collections, biodiversity observation – that need to be connected and intersected to allow scientists and others to ask real questions about the data. In its first year, BiCIKL has made some key advances to rise to this challenge,”
“As a partner, we, at the Biodiversity Information Standards – TDWG, are very enthusiastic that our standards are implemented in BiCIKL and serve to link biodiversity data. We know that joining forces and working together is crucial to building efficient infrastructures and sharing knowledge.”
The project will go on with the first Round Table of experts in December and the publications of the projects who participated in the Open Call and will be founded at the beginning of the next year.
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Learn more about BiCIKL on the project’s website at: bicikl-project.eu
For the 37th time, experts from across the world to share and discuss the latest developments surrounding biodiversity data and how they are being gathered, used, shared and integrated across time, space and disciplines.
Between 17th and 21st October, about 400 scientists and experts took part in a hybrid meeting dedicated to the development, use and maintenance of biodiversity data, technologies, and standards across the world.
For the 37th time, the global scientific and educational association Biodiversity Information Standards (TDWG) brought together experts from all over the globe to share and discuss the latest developments surrounding biodiversity data and how they are being gathered, used, shared and integrated across time, space and disciplines.
This was the first time the event happened in a hybrid format. It was attended by 160 people on-site, while another 235 people joined online.
“It’s wonderful to be in the Balkans and Bulgaria for our Biodiversity Information and Standards (TDWG) 2022 conference! Everyone’s been so welcoming and thoughtfully engaged in conversations about biodiversity information and how we can all collaborate, contribute and benefit,”
“Our TDWG mission is to create, maintain and promote the use of open, community-driven standards to enable sharing and use of biodiversity data for all,”
she added.
“We are proud to have been selected to be the hosts of this year’s TDWG annual conference and are definitely happy to have joined and observed so many active experts network and share their know-how and future plans with each other, so that they can collaborate and make further progress in the way scientists and informaticians work with biodiversity information,”
said Pensoft’s founder and CEO Prof. Lyubomir Penev.
“As a publisher of multiple globally renowned scientific journals and books in the field of biodiversity and ecology, at Pensoft we assume it to be our responsibility to be amongst the first to implement those standards and good practices, and serve as an example in the scholarly publishing world. Let me remind you that it is the scientific publications that present the most reliable knowledge the world and science has, due to the scrutiny and rigour in the review process they undergo before seeing the light of day,”
he added.
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In a nutshell, the main task and dedication of the TDWG association is to develop and maintain standards and data-sharing protocols that support the infrastructures (e.g., The Global Biodiversity Information Facility – GBIF), which aggregate and facilitate use of these data, in order to inform and expand humanity’s knowledge about life on Earth.
It is the goal of everyone volunteering their time and expertise to TDWG to enable the scientists interested in the world’s biodiversity to do their work efficiently and in a manner that can be understood, shared and reused by others. After all, biodiversity data underlie everything we know about the natural world.
If there are optimised and universal standards in the way researchers store and disseminate biodiversity data, all those biodiversity scientists will be able to find, access and use the knowledge in their own work much more easily. As a result, they will be much better positioned to contribute new knowledge that will later be used in nature and ecosystem conservation by key decision-makers.
On Monday, the event opened with welcoming speeches by Deborah Paul and Prof. Lyubomir Penev in their roles of the Chair of TDWG and the main host of this year’s conference, respectively.
The opening ceremony continued with a keynote speech by Prof. Pavel Stoev, Director of the Natural History Museum of Sofia and co-host of TDWG 2022.
He walked the participants through the fascinating biodiversity of Bulgaria, but also the worrying trends in the country associated with declining taxonomic expertise.
He finished his talk with a beam of hope by sharing about the recently established national unit of DiSSCo, whose aim – even if a tad too optimistic – is to digitise one million natural history items in four years, of which 250,000 with photographs. So far, one year into the project, the Bulgarian team has managed to digitise more than 32,000 specimens and provide images to 10,000 specimens.
The plenary session concluded with a keynote presentation by renowned ichthyologist and biodiversity data manager Dr. Richard L. Pyle, who is also a manager of ZooBank – the key international database for newly described species.
In his talk, he highlighted the gaps in the ways taxonomy is being used, thereby impeding biodiversity research and cutting off a lot of opportunities for timely scientific progress.
“But we do not have easy access to much of this information because the different databases are not well integrated. Taxonomy offers us the best opportunity to connect this information together, to answer important questions about biodiversity that we have never been able to answer before. The reason meetings like this are so important is that they bring people together to discuss ways of using modern informatics to greatly increase the power of the data we already have, and prioritise how we fill the gaps in data that exist. Taxonomy, and especially taxonomic data integration, is a very important part of the solution.”
Pyle also commented on the work in progress at ZooBank ten years into the platform’s existence and its role in the next (fifth) edition of the International Code of Zoological Nomenclature, which is currently being developed by the International Commission of Zoological Nomenclature (ICZN).
“We already know that ZooBank will play a more important role in the next edition of the Code than it has for these past ten years, so this is exactly the right time to be planning new services for ZooBank. Improvements at ZooBank will include things like better user-interfaces on the web to make it easier and faster to use ZooBank, better data services to make it easier for publishers to add content to ZooBank as part of their publication workflow, additional information about nomenclature and taxonomy that will both support the next edition of the Code, and also help taxonomists get their jobs done more efficiently and effectively. Conferences like the TDWG one are critical for helping to define what the next version of ZooBank will look like, and what it will do.”
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During the week, the conference participants had the opportunity to enjoy a total of 140 presentations; as well as multiple social activities, including a field trip to Rila Monastery and a traditional Bulgarian dinner.
While going about the conference venue and field trip localities, the attendees were also actively uploading their species observations made during their stay in Bulgaria on iNaturalist in a TDWG2022-dedicated BioBlitz. The challenge concluded with a total of 635 observations and 228 successfully identified species.
“Biodiversity provides the support systems for all life on Earth. Yet the natural world is in peril, and we face biodiversity and climate emergencies. The consequences of these include accelerating extinction, increased risk from zoonotic disease, degradation of natural capital, loss of sustainable livelihoods in many of the poorest yet most biodiverse countries of the world, challenges with food security, water scarcity and natural disasters, and the associated challenges of mass migration and social conflicts.
Solutions to these problems can be found in the data associated with natural science collections. DiSSCo is a partnership of the institutions that digitise their collections to harness their potential. By bringing them together in a distributed, interoperable research infrastructure, we are making them physically and digitally open, accessible, and usable for all forms of research and innovation.
At present rates, digitising all of the UK collection – which holds more than 130 million specimens collected from across the globe and is being taken care of by over 90 institutions – is likely to take many decades, but new technologies like machine learning and computer vision are dramatically reducing the time it will take, and we are presently exploring how robotics can be applied to accelerate our work.”
In his turn, Dr Donat Agosti, CEO and Managing director at Plazi – a not-for-profit organisation supporting and promoting the development of persistent and openly accessible digital taxonomic literature – said:
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At the closing plenary session, Gail Kampmeier – TDWG Executive member and one of the first zoologists to join TDWG in 1996 – joined via Zoom to walk the conference attendees through the 37-year history of the association, originally named the Taxonomic Databases Working Group, but later transformed to Biodiversity Information Standards, as it expanded its activities to the whole range of biodiversity data.
Then, in the final talk of the session, Deborah Paul took to the stage to present the progress and key achievements by the association from 2022.
Launched in 2017 on the Pensoft’s publishing platform ARPHA, the journal provides the quite unique and innovative opportunity to have both abstracts and full-length research papers published in a modern, technologically-advanced scholarly journal. In her speech, Deborah Paul reminded that BISS journal welcomes research articles that demonstrate the development or application of new methods and approaches in biodiversity informatics in the form of case studies.
Amongst the achievements of TDWG and its community, a special place was reserved for the Horizon 2020-funded BiCIKL project (abbreviation for Biodiversity Community Integrated Knowledge Library), involving many of the association’s members.
Having started in 2021, the 3-year project, coordinated by Pensoft, brings together 14 partnering institutions from 10 countries, and 15 biodiversity under the common goal to create a centralised place to connect all key biodiversity data by interlinking a total of 15 research infrastructures and their databases.
In fact, following the week-long TDWG 2022 conference in Sofia, a good many of the participants set off straight for another Bulgarian city and another event hosted by Pensoft. The Second General Assembly of BiCIKL took place between 22nd and 24th October in Plovdiv.
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You can also explore highlights and live tweets from TDWG 2022 on Twitter via #TDWG2022.
With more than 7000 individuals populating the Carpathian Mountains and neighboring areas, Romania has the highest density of brown bears in Europe. As they often inhabit human-dominated landscapes, conflicts with people are not uncommon.
“The media play an influential role in how the public perceives brown bears, thus, it can promote human-wildlife coexistence or exacerbate future conflicts”, they say.
The study found that news stories related to brown bears became common in Romanian media only after 2016, following the instatement of a provisional one-year ban on culling, and increased abruptly in 2021 following the whistleblowing of an alleged trophy hunting event.
The majority of reports were about human-bear interaction, hunting, and poaching, offering little context and information on how to avoid conflicts. Articles on the ecology and biology of brown bears were rare, which indicates less consideration of the ecological significance and the impact of human activities on their conservation status.
The attitude towards brown bears, perceived from the studied articles was predominantly negative (53%; 380 articles). In these articles, the authors used phrases such as: “At any moment the people can find themselves in front of a hungry bear;” “Beyond the horror they live with every day, they have lost their patience and trust in the authorities;” and “People are afraid of the worst.”
Even when reporting sightings of bears near populated areas and encounters with no casualties, Romanian media promoted a negative image of bears to their readership. “Focusing on alarming messages without offering evidence or advice can increase fear and undermine efforts to protect the species and the welfare of society,” the researchers said.
Importantly, the team found that media did not consult wildlife and conservation biologists when reporting on human-bear interactions or bear hunting and poaching events. “This can be because the experts are reluctant to be part of the debate, or because the media may not be interested in bringing more scientific context to their reports,” they reason.
“In conclusion, increasing the frequency of reporting interaction events with alarming messages can only lower the level of tolerance for wildlife and negatively influence political decisions regarding the management of the brown bear population.”
The researchers call for publishing detailed and evidence-informed news as a means to educate people to avoid conflict and facilitate the implementation of effective wildlife conservation and management strategies.
“Evidence-informed news can help authorities better understand conflicts and create bottom-up pathways toward an optimistic future for brown bears and Romanian society”, they conclude.
Research article:
Neagu AC, Manolache S, Rozylowicz L (2022) The drums of war are beating louder: Media coverage of brown bears in Romania. Nature Conservation 50: 65-84. https://doi.org/10.3897/natureconservation.50.86019
The uncertainty about a person’s identity hampers research, hinders the discovery of expertise, and obstructs the ability to give attribution or credit for work performed.
Worldwide, natural history institutions house billions of physical objects in their collections, they create and maintain data about these items, and they share their data with aggregators such as the Global Biodiversity Information Facility (GBIF), the Integrated Digitized Biocollections (iDigBio), the Atlas of Living Australia (ALA), Genbank and the European Nucleotide Archive (ENA).
Even though these data often include the names of the people who collected or identified each object, such statements may be ambiguous, as the names frequently lack any globally unique, machine-readable concept of their shared identity.
Despite the data being available online, barriers exist to effectively use the information about who collects or provides the expertise to identify the collection objects. People have similar names, change their name over the course of their lifetime (e.g. through marriage), or there may be variability introduced through the label transcription process itself (e.g. local look-up lists).
As a result, researchers and collections staff often spend a lot of time deducing who is the person or people behind unknown collector strings while collating or tidying natural history data. The uncertainty about a person’s identity hampers research, hinders the discovery of expertise, and obstructs the ability to give attribution or credit for work performed.
Disambiguation activities: the act of churning strings into verifiable things using all available evidence – need not be done in isolation. In addition to presenting a workflow on how to disambiguate people in collections, we also make the case that working in collaboration with colleagues and the general public presents new opportunities and introduces new efficiencies. There is tacit knowledge everywhere.
More often than not, data about people involved in biodiversity research are scattered across different digital platforms. However, with linking information sources to each other by using person identifiers, we can better trace the connections in these networks, so that we can weave a more interoperable narrative about every actor.
That said, inconsistent naming conventions or lack of adequate accreditation often frustrate the realization of this vision. This sliver of natural history could be churned to gold with modest improvements in long-term funding for human resources, adjustments to digital infrastructure, space for the physical objects themselves alongside their associated documents, and sufficient training on how to disambiguate people’s names.
The process of properly disambiguating those who have contributed to natural history collections takes time.
The disambiguation process involves the extra challenge of trying to deduce “who is who” for legacy data, compared to undertaking this activity for people alive today. Retrospective disambiguation can require considerable detective work, especially for scarcely known people or if the community has a different naming convention. Provided the results of this effort are well-communicated and openly shared, mercifully, it need only be done once.
At the core of our research is the question of how to solve the issue of assigning proper credit.
In our recent Methods paper, we discuss several methods for this, as well as available routes for making records available online that include not only the names of people expressed as text, but additionally twinned with their unique, resolvable identifiers.
First and foremost, we should maintain our own public biographical data by making full use of ORCID. In addition to preserving our own scientific legacy and that of the institutions that employ us, we have a responsibility to avoid generating unnecessary disambiguation work for others.
For legacy data, where the people connected to the collections are deceased, Wikidata can be used to openly document rich bibliographic and demographic data, each statement with one or more verifiable references. Wikidata can also act as a bridge to link other sources of authority such as VIAF or ORCID identifiers. It has many tools and services to bulk import, export, and to query information, making it well-suited as a universal democratiser of information about people often walled-off in collection management systems (CMS).
Once unique identifiers for people are integrated in collection management systems, these may be shared with the global collections and research community using the new Darwin Core terms, recordedByID or identifiedByID along with the well-known, yet text-based terms, recordedBy or identifiedBy.
Approximately 120 datasets published through GBIF now make use of these identifier-based terms, which are additionally resolved in Bionomia every few weeks alongside co-curated attributions newly made there. This roundtrip of data – emerging as ambiguous strings of text from the source, affixed with resolvable identifiers elsewhere, absorbed into the source as new digital annotations, and then re-emerging with these fresh, identifier-based enhancements – is an exciting approach to co-manage collections data.
Disambiguation work is particularly important in recognising contributors who have been historically marginalized. For example, gender bias in specimen data can be seen in the case of Wilmatte Porter Cockerell, a prolific collector of botanical, entomological and fossil specimens. Cockerell’s collections are often attributed to her husband as he was also a prolific collector and the two frequently collected together.
On some labels, her identity is further obscured as she is simply recorded as “& wife” (see example on GBIF). Since Wilmatte Cockerell was her husband’s second wife, it can take some effort to confirm if a specimen can be attributed to her and not her husband’s first wife, who was also involved in collecting specimens. By ensuring that Cockerell is disambiguated and her contributions are appropriately attributed, the impact of her work becomes more visible enabling her work to be properly and fairly credited.
Thus, disambiguation work helps to not only give credit where credit is due, thereby making data about people and their biodiversity collections more findable, but it also creates an inclusive and representative narrative of the landscape of people involved with scientific knowledge creation, identification, and preservation.
A future – once thought to be a dream – where the complete scientific output of a person is connected as Linked Open Data (LOD) is now.
Both the tools and infrastructure are at our disposal and the demand is palpable. All institutions can contribute to this movement by sharing data that include unique identifiers for the people in their collections. We recommend that institutions develop a strategy, perhaps starting with employees and curatorial staff, people of local significance, or those who have been marginalized, and to additionally capitalize on existing disambiguation activities elsewhere. This will have local utility and will make a significant, long-term impact.
The more we participate in these activities, the greater chance we will uncover positive feedback loops, which will act to lighten the workload for all involved, including our future selves!
The disambiguation of people in collections is an ongoing process, but it becomes easier with practice. We also encourage collections staff to consider modifying their existing workflows and policies to include identifiers for people at the outset, when new data are generated or when new specimens are acquired.
There is more work required at the global level to define, update, and ratify standards and best practices to help accelerate data exchange or roundtrips of this information; there is room for all contributions. Thankfully, there is a diverse, welcoming, energetic, and international community involved in these activities.
We see a bright future for you, our collections, and our research products – well within reach – when the identities of people play a pivotal role in the construction of a knowledge graph of life.
A good start is also to check Bionomia to find out what metrics exist now for your institution or collection and affiliated people.
The next steps for collections: 7 objectives that can help to disambiguate your institutions’ collection:
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Methods publication:
Groom Q, Bräuchler C, Cubey RWN, Dillen M, Huybrechts P, Kearney N, Klazenga N, Leachman S, Paul DL, Rogers H, Santos J, Shorthouse DP, Vaughan A, von Mering S, Haston EM (2022) The disambiguation of people names in biological collections. Biodiversity Data Journal 10: e86089. https://doi.org/10.3897/BDJ.10.e86089
Giovanni Vimercati is a postdoctoral researcher at the University of Fribourg, Switzerland, and most recently recipient of the Best Talk award (Early Career Researcher) at the 2022 NEOBIOTA conference held in mid-September in Tartu, Estonia.
As a sponsor of the event and publisher of the NeoBiota journal, Pensoft granted a complimentary publication in it to the awardee.
NeoBiota readers might already be familiar with Vimercati, whose name first appeared on its pages in a 2017 paper that used alien amphibians as a case study to identify the differences and potential difficulties with two impact assessment scoring tools: the Environmental Impact Classification of Alien Taxa (EICAT) and the Generic Impact Scoring System (GISS).
Then, in 2020 and 2021, the researcher had two research articles published in NeoBiota as lead author. The 2020 paper provided a summary of the frameworks assessing beneficial impacts of alien species, while in the 2021 study his team used a spatially-explicit stage-structured model to assess efficacy of past, present and alternative control strategies for invasive guttural toads (Sclerophrys gutturalis) in Cape Town.
In anticipation of Vimercati claiming the Best Talk award with a forthcoming submission to the journal, we asked him to join us for an interview and share his thoughts on his research.
Going back to the beginning, what sparked your interest in the study of invasive species in particular? What are the unique aspects of your research?
Like the episodic nature of many biological invasions, my first contact with the study of alien species was quite “unexpected”. Having a strong interest in herpetology, I had the luck to pursue my doctoral research at the Center of Excellence for Invasion Biology (CIB) in Stellenbosch, South Africa, where I studied the invasion of an alien amphibian species. My PhD study, and the highly stimulating community of researchers that characterized the CIB, made me realize not only that invasive species provide an invaluable opportunity to address ecological and evolutionary questions, but also how important it is to study their impact on biodiversity and human communities.
One unique aspect of my research since then has been its multidisciplinary character, as I have studied biological invasions from multiple angles simultaneously, by using mathematical models, physiological experiments, field surveys, remote sensing, literature reviews, meta analysis, and questionnaires. It seems a paradox, but the uniqueness of my research on biological invasions is that it has never really been unique!
Are there recent developments in the field that you find particularly interesting to explore?
As many other scientific disciplines, the field of invasion science is highly dynamic, and novel developments emerge every year. However, I find of particular interest the development of new approaches and tools to explore the links between biological invasions and the various socio-economic contexts. The use of online structured and semi-structured interviews, or the development of standardized socio-economic indicators are, for example, particularly promising for future studies.
In addition, the emergence of novel technological tools, for instance, linked to remote sensing, eDNA, stable isotopes and camera trapping, or the rapid increase in the computational power of modern CPUs, are allowing invasion scientists to collect and analyze data that used to be unaffordable, or simply unavailable. It is certainly an exciting moment to be an invasion scientist.
What do you find to be the biggest challenges as a researcher in your field?
I find that the proliferation of hypotheses and frameworks that characterize the field of invasion biology are particularly intriguing and challenging. Many of them work extremely well in certain conditions or across specific taxonomic groups, but they often lack generality or are marred by context dependence, which may limit their predictive power.
Addressing such a context dependence and finding ways to integrate various hypotheses and frameworks in invasion biology will be highly beneficial for understanding and forecasting biological invasions in the next decades.
Another challenge is to communicate the implications of our research to non-experts. I often wonder how stakeholders and policymakers from different cultural backgrounds or geographic regions perceive alien species and their impacts.
The theme of this year’s NEOBIOTA conference was “Biological Invasions in a Changing World”. To what extent can changes be anticipated and forecasted in order to make the work of assessing their impacts and mitigating damage easier?
I think that a key point would be to focus on specific indicators or proxies to measure these changes, so that different impacts and species can be quantified, both transparently and consistently.
In recent years, the field has produced a huge body of literature regarding impacts caused by alien species, but the results of these studies have not always been comparable. I feel that the development of the EICAT framework and its recent adoption by the IUCN as a global standard for measuring the magnitude of environmental impacts of alien species were two very important steps in this direction.
Your talk at the NEOBIOTA conference focused on the positive socio-economic impacts of invasive species. Why is this important for different stakeholders, including policy makers, but also local communities and individuals?
In my opinion, invasive species, and more generally alien species, can have various positive socio-economic impacts that should be identified and assessed rigorously. These impacts are often anecdotally reported or vaguely stated in the literature, a tendency that hampers our capacity to identify (and forecast) conflicts of interest among different stakeholders or understand their perceptions toward alien species.
In my talk, I presented the preliminary version of a framework that assesses positive socio-economic impacts. The framework is based on the capability approach, and aims to quantify the degree to which the well-being of certain human communities increases after the introduction of alien species. Of course, the scheme won’t be used in isolation, but rather in combination with other frameworks that assess the negative socio-economic and environmental impacts of alien species, so that their effects can be understood in their full complexity.
The PhD student at University of Kansas shares about her work on the amphibians and reptiles of the Philippenes that earned her the Best Poster Award at SAGE 2022
Now, the first author of the study, PhD student Camila G. Meneses (University of Kansas), who was awarded at SAGE 2022 for her poster: “A New Species of Fringed Forest Gecko, Genus Luperosaurus (Squamata: Gekkonidae), from Sibuyan Island, Central Philippines” joins us for an interview, sharing some further insights into her research and recent publication.
Congratulations for your Best Poster award at SAGE 2022! Can you introduce the topic of your poster to our readers? How does it fit in the broader context of your research?
The poster is entitled “A New Species of Fringed Forest Gecko, Genus Luperosaurus (Squamata: Gekkonidae), from Sibuyan Island, Central Philippines”. We are currently describing a new species of one of the rarest endemic Philippine lizards which corresponds to the Sibuyan Island population in central Philippines.
It is a poorly understood Southeast Asian and Southwest Pacific genus Luperosaurus, known popularly as fringed geckos, wolf geckos, or flap-legged geckos, and is documented here for the first time.
In the context of my research, visualizing historical, dry land connections that were once shared among modern islands has been crucial for understanding the distribution of biodiversity in the Philippines, an archipelago in which sea level oscillations during the Pleistocene undoubtedly influenced the assembly of regionalized floras and faunas. Sibuyan Island, separated by deep-water channels from neighboring landmasses, harbors distinct communities of amphibians and reptiles, many of which are island endemics.
Happy to see your Annotated List of Species for amphibians and reptiles from the central Philippines, which just got published in the open-access journal Check List. Can you tell us a bit more about the biodiversity of the region and what made you and your co-authors choose it for your survey?
Centers of endemism in the Philippine archipelago coincide with the physiography of the greater Pleistocene Aggregate Islands Complexes (PAICs) of Luzon, Palawan, Negros-Panay (West Visayan islands), Mindoro, Mindanao, and the Sulu Archipelago during Pliocene and Pleistocene sea level regressions according to Inger (1954) and Voris ( 2000). However, until relatively recently, little attention was paid to fully inventorying smaller islands like those in central Romblon Province. The province is not only known for its beautiful landscapes but also the seascape.
Sibuyan was identified as a focal site for this study because of its unique complex ecosystem with notable geologic history that contributed to its high endemism—oceanic origin, geographic isolation, elevational relief, and relatively intact forests. In addition, Sibuyan Island presents biogeographically compelling questions relating to the colonization history of organisms that could only have arrived on Sibuyan by dispersing over water .
We also considered that a comprehensive characterization of the diversity and distribution of amphibians and reptiles of Mount Guiting-Guiting would be highly desirable on the part of the local government, specifically the Protected Management Board and the regional Department of Environment and Natural Resources (Region IV-B) for future management planning. The additional information and data will strengthen their existing conservation programs, ideally by engaging local communities, wildlife managers, ecotourists, and university researchers in Romblon Province.
What are some of the unique or unexpected challenges you encounter in doing biogeographic research? How do you tackle them?
This is my first co-led (with the late young mammalogist, James Alvarez) big expedition in the country. The most challenging aspects for us as students this time are getting funding to do ridge to reef sampling for each season (wet and dry season), the inaccessibility of the area, and the unexpected natural calamities when we are at the peak of the mountain.
Biodiversity conservation efforts often depend on cooperation with non-experts in the field and wider support within the local community. What is the most important message that you hope your research helps transmit to the general audience?
Our knowledge of the endemic species diversity in these islands is still incomplete. It is of crucial importance to continue long-term, repeated biodiversity survey efforts that utilize a multifaceted approach and integration of an independent data stream for the understanding of small islands’ species community composition.
We encourage the conservation of the island’s seascape and landscape (one of the well-known tourist spots in the country), and we highly encourage interested students in nearby universities to continue studying the richly biodiverse areas in the province.
Finding excitement in your work is one of the great gifts of doing what you are passionate about. What brings you the most excitement?
For me, gradually getting answers for your own questions and making new discoveries are exciting, but of course the outstanding scenery, journey, experiences, skill sets being developed, and the stories we come to create during each expedition are priceless.
Did you happen to encounter your favorite species during the field surveys in Mount Guiting-Guiting Natural Park?
Honestly, when I am studying the diversity of amphibians and reptiles of Mt. Guiting-Guiting Natural Park, I consider every species that we collect my favorite.
Each survey site brings new knowledge (i.e., new elevation site recording, morphological variation, new distribution records, varied habitat type preferences of secretive species, etc). There are observations that have not been documented for some species in previous studies (even going back over 50 years ago in Brown and Alcala field collection, or more recently in the 2012 study by Siler et al.). This is especially the case for secretive RIG island endemics of amphibian and reptile species.
However, there are three species I can definitely say are my favorites — Brachymeles dalawangdaliri, Pseudogekko isapa, and the undescribed species of Fringed Forest Gecko These are very rare and secretive species of Philippine endemic lizards that can be found, we assumed, on Romblon Island Group and nowhere else in the world. Hence, the new collections are, we can say, very highly significant.
The first two have very few museum specimens, but we were lucky enough to document and collect enough samples to redescribe both species in terms of their morphological variations and know their first ever phylogenetic placement in relation to its related congeners (see Meneses et al. 2020). The third one is our new discovery of the Fringed-forest Gecko.
Soil and its macrofauna are an integral part of many ecosystems, playing an important role in decomposition and nutrient recycling. However, soil biodiversity remains understudied globally.
To help fill this gap and reveal the diversity of soil fauna in Hong Kong, a team of scientists from The Chinese University of Hong Kong initiated a citizen science project involving universities, non-governmental organisations and secondary school students and teachers.
“Involving citizens as part of the new knowledge generation process is important in promoting the understanding of biodiversity. Training younger-generation citizens to learn about biodiversity is of utmost importance and crucial to conservation engagement”
– say the researchers in their study, which was published in the open-access Biodiversity Data Journal.
Working side by side with university academics, taxonomists and non-governmental organisation members, students from 21 schools/institutes were recruited to collect soil animals near their campusesfor a year and record their observations.
Between October 2019 and October 2020, they monitored and sampled species across 21 sites of urban and semi-natural habitats in Hong Kong, collecting a total of 3,588 individual samples. Their efforts yielded 150 soil macrofaunal species, identified as arthropods (including insects, spiders, centipedes and millipedes), worms, and snails.
Most often, the students found millipedes (23 out of 150 species). They even helped identify two millipede species that are new to Hong Kong’s fauna: Monographis queenslandica and Alloproctoides remyi. The former is usually found in Australia – the researchers suggest it might have been introduced to the area many decades ago from Queensland or vice versa – and the latter has been observed in Reunion and Mauritius.
Millipedes like these two species can accelerate litter decomposition and regulate the soil carbon and phosphorus cycling, while earthworms can modify the soil structure and regulate water and organic matter cycling.
“Before the beginning of this project, the understanding of soil biodiversity in Hong Kong, including the understanding of its contained millipede species, was inadequate”
the researchers write in their paper.
Now, they believe that the identified macrofauna species and their 646 DNA barcodes have established a solid foundation for further research in soil biodiversity in the area.
Their project also serves an additional purpose. Unlike most conventional scientific studies, which are usually carried out by the government, non-governmental organisations or academics in universities alone, this study utilised a citizen science approach through creating a big community engaged with biodiversity. In doing so, it helped educate the public and raise awareness on the use of basic science techniques in understanding local biodiversity.
So, it may have inspired a new generation of future scientists: some students started millipede cultures in their own schools, and one school used the millipede breeding model to participate in a science and technology competition.
This study is a proof that local institutes and high schools can unite together with research teams at universities and perform scientific work, the study’s authors believe.
It “has raised public awareness and potentially opens up opportunities for the general public to engage in scientific research in the future.”
The team hopes that their approach could inspire future biodiversity sampling and monitoring studies to engage more citizen scientists.
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Research article:
So WL, Ting KW, Lai SY, Huang EYY, Ma Y, Chong TK, Yip HY, Lee HT, Cheung BCT, Chan MK, Consortium HKSB, Nong W, Law MMS, Lai DYF, Hui JHL (2022) Revealing the millipede and other soil-macrofaunal biodiversity in Hong Kong using a citizen science approach. Biodiversity Data Journal 10: e82518. https://doi.org/10.3897/BDJ.10.e82518