Category: Zookeys

Scientists discover bent-toed gecko species in Cambodia

Originally published by North Carolina Museum of Natural Sciences

A new species of bent-toed gecko (Cyrtodactylus phnomchiensis) has been described from Cambodia’s Prey Lang Wildlife Sanctuary by Wild Earth Allies Biologist Thy Neang in collaboration with North Carolina Museum of Natural Sciences‘ Herpetologist Bryan Stuart. This new species is described in ZooKeys.

The species was discovered by Thy Neang during Wild Earth Allies field surveys in June-July 2019 on an isolated mountain named Phnom Chi in the Prey Lang Wildlife Sanctuary when he encountered an unusual species of bent-toed gecko. “It was an extremely unexpected discovery. No one thought there were undescribed species in Prey Lang,” said Neang.

The geckos were found to belong to the C. irregularis species complex that includes at least 19 species distributed in south¬ern and central Vietnam, eastern Cambodia, and southern Laos. This is the first member of the complex to be found west of the Mekong River, demonstrating how biogeographic barriers can lead to speciation. Additionally, the geckos were unique in morphological characters and mitochondrial DNA, and distinct from C. ziegleri to which they are most closely related. Researchers have named the species Cyrtodactylus phnomchiensis after Phnom Chi mountain where it was found.

A new species of bent-toed gecko (Cyrtodactylus phnomchiensis) has been discovered in Cambodia’s Prey Lang Wildlife Sanctuary by Wild Earth Allies Biologist Thy Neang in collaboration with Bryan Stuart of the North Carolina Museum of Natural Sciences.
Photo by Thy Neang

Bent-toed geckos of the genus Cyrtodactylus are one of the most species-diverse genera of gekkonid lizards, with 292 recognized species. Much of the diversity within Cyrtodactylus has been described only during the past decade and from mainland Southeast Asia, and many of these newly recognized species are thought to have extremely narrow geographic ranges. As such, Cyrtodactylus phnomchiensis is likely endemic to Phnom Chi, which consists of an isolated small mountain of rocky outcrops (peak of 652 m elevation) and a few associated smaller hills, altogether encompassing an area of approximately 4,464 hectares in Kampong Thom and Kratie Provinces within the Prey Lang Wildlife Sanctuary, Cambodia.

The forest habitat in Phnom Chi remains in relatively good condition, but small-scale illegal gold extraction around its base threatens the newly discovered species. A second species of lizard, the scincid Sphenomorphus preylangensis, was also recently described from Phnom Chi by a team of researchers including Neang. These new discoveries underscore the importance of Prey Lang Wildlife Sanctuary for biodiversity conservation and the critical need to strengthen its management.

Habitat at Phnom Chi, the type locality of the newly described bent-toed gecko.
Photo by Thy Neang

Further, an assessment of C. phnomchiensis is urgently warranted by the IUCN Red List of Threatened Species (IUCN 2020) because of its small area of occupancy, status as relatively uncommon, and ongoing threats to its habitat.

“This exciting discovery adds another reptile species to science for Cambodia and the world. It also highlights the global importance of Cambodia’s biodiversity and illustrates the need for future exploration and biological research in Prey Lang,”

said Neang.

“When [Neang] first returned from fieldwork and told me that he had found a species in the C. irregularis group so far west of the Mekong River in Cambodia, I did not believe it. His discovery underscores how much unknown biodiversity remains out there in unexpected places. Clearly, Prey Lang Wildlife Sanctuary is important for biodiversity and deserves attention,”

said Neang’s co-author Stuart of the North Carolina Museum of Natural Sciences.

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Original source:

Neang T, Henson A, Stuart BL (2020) A new species of Cyrtodactylus (Squamata, Gekkonidae) from Cambodia’s Prey Lang Wildlife Sanctuary. ZooKeys 926: 133-158. https://doi.org/10.3897/zookeys.926.48671

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For more information on Wild Earth Allies, please visit: https://www.wildearthallies.org.

For more information on the North Carolina Museum of Natural Sciences, please visit:https://www.naturalsciences.org.

Plazi and Pensoft join forces to let biodiversity knowledge of coronaviruses hosts out

Pensoft’s flagship journal ZooKeys invites free-to-publish research on key biological traits of SARS-like viruses potential hosts and vectors; Plazi harvests and brings together all relevant data from legacy literature to a reliable FAIR-data repository

To bridge the huge knowledge gaps in the understanding of how and which animal species successfully transmit life-threatening diseases to humans, thereby paving the way for global health emergencies, scholarly publisher Pensoft and literature digitisation provider Plazi join efforts, expertise and high-tech infrastructure. 

By using the advanced text- and data-mining tools and semantic publishing workflows they have developed, the long-standing partners are to rapidly publish easy-to-access and reusable biodiversity research findings and data, related to hosts or vectors of the SARS-CoV-2 or other coronaviruses, in order to provide the stepping stones needed to manage and prevent similar crises in the future.

Already, there’s plenty of evidence pointing to certain animals, including pangolins, bats, snakes and civets, to be the hosts of viruses like SARS-CoV-2 (coronaviruses), hence, potential triggers of global health crises, such as the currently ravaging Coronavirus pandemic. However, scientific research on what biological and behavioural specifics of those species make them particularly successful vectors of zoonotic diseases is surprisingly scarce. Even worse, the little that science ‘knows’ today is often locked behind paywalls and copyright laws, or simply ‘trapped’ in formats inaccessible to text- and data-mining performed by search algorithms. 

This is why Pensoft’s flagship zoological open-access, peer-reviewed scientific journal ZooKeys recently announced its upcoming, special issue, titled “Biology of pangolins and bats”, to invite research papers on relevant biological traits and behavioural features of bats and pangolins, which are or could be making them efficient vectors of zoonotic diseases. Another open-science innovation champion in the Pensoft’s portfolio, Research Ideas and Outcomes (RIO Journal) launched another free-to-publish collection of early and/or brief outcomes of research devoted to SARS-like viruses.

Due to the expedited peer review and publication processes at ZooKeys, the articles will rapidly be made public and accessible to scientists, decision-makers and other experts, who could then build on the findings and eventually come up with effective measures for the prevention and mitigation of future zoonotic epidemics. To further facilitate the availability of such critical research, ZooKeys is waiving the publication charges for accepted papers.

Meanwhile, the literature digitisation provider Plazi is deploying its text- and data-mining expertise and tools, to locate and acquire publications related to hosts of coronaviruses – such as those expected in the upcoming “Biology of pangolins and bats” special issue in ZooKeys – and deposit them in a newly formed Coronavirus-Host Community, a repository hosted on the Zenodo platform. There, all publications will be granted persistent open access and enhanced with taxonomy-specific data derived from their sources. Contributions to Plazi can be made at various levels: from sending suggestions of articles to be added to the Zotero bibliographic public libraries on virus-hosts associations and hosts’ taxonomy, to helping the conversion of those articles into findable, accessible, interoperable and reusable (FAIR) knowledge.

Pensoft’s and Plazi’s collaboration once again aligns with the efforts of the biodiversity community, after the natural science collections consortium DiSSCo (Distributed System of Scientific Collections) and the Consortium of European Taxonomic Facilities (CETAF), recently announced the COVID-19 Task Force with the aim to create a network of taxonomists, collection curators and other experts from around the globe.

Research on bats and pangolins – potential vectors of zoonotic pandemics like COVID-19 – invited to a free-to-publish special issue in ZooKeys

Captively bred pangolins. 
Photo by Hua L. et al., taken from their study on the current status, problems and future prospects of captive breeding of pangolins, openly accessible in ZooKeys at: https://doi.org/10.3897/zookeys.507.6970

Accepted papers will be published free of charge in recognition of the emergency of the current global situation

Was it the horseshoe bat or could it rather be one of the most traded mammal in the world: the pangolin, at the root of the current devastating pandemic that followed the transmission of the zoonotic SARS-CoV-2 virus to a human host, arguably after infected animal products reached poorly regulated wet markets in Wuhan, China, last year? 

To make matters worse, the current situation is no precedent. Looking at the not so distant past, we notice that humanity has been repeatedly falling victim to viral deadly outbreaks, including Zika, Ebola, the Swine flu, the Spanish flu and the Plague, where all are linked to an animal host that at one point, under specific circumstances transferred the virus to people. 

Either way, here’s a lesson humanity gets to learn once again: getting too close to wildlife is capable of opening the gates to global disasters with horrific and irreversible damage on human lives, economics and ecosystems. What is left for us to understand is how exactly these transmission pathways look like and what are the factors making certain organisms like the bat and the pangolin particularly efficient vectors of diseases such as COVID-19 (Coronavirus). This crucial knowledge could’ve been easier for us to grasp had we only obtained the needed details about those species on time.

Aligning with the efforts of the biodiversity community, such as the recently announced DiSSCo and CETAF COVID-19 Task Force, who intend to create an efficient network of taxonomists, collection curators and other experts from around the globe and equip them with the tools and large datasets needed to combat the unceasing pandemic, the open-access peer-reviewed scholarly journal ZooKeys invites researchers from across the globe to submit their work on the biology of bats and pangolins to a free-to-publish special issue. 

The effort will be coordinated with the literature digitisation provider Plazi, who will extract and liberate data on potential hosts from various journals and publishers. In this way, these otherwise hardly accessible data will be re-used to support researchers in generation of new hypotheses and knowledge on this urgent topic.

By providing further knowledge on these sources and vectors of zoonotic diseases, this collection of publications could contribute with priceless insights to make the world better prepared for epidemics like the Coronavirus and even prevent such from happening in the future. 

Furthermore, by means of its technologically advanced infrastructure and services, including expedite peer review and publication processes, in addition to a long list of indexers and databases where publications are registered, ZooKeys will ensure the rapid publication of those crucial findings, and will also take care that once they get online, they will immediately become easy to discover, cite and built on by any researcher, anywhere in the world. 

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The upcoming “Biology of bats and pangolins” special issue is to add up to some excellent examples of previous research on the systematics, biology and distribution of pangolins and bats published in ZooKeys. 

In their review paper from 2015, Chinese scientists looked into the issues and prospects around captive breeding of pangolins. A year later, their colleagues at South China Normal University provided further insights into captive breeding, in addition to new data on the reproductive parameters of Chinese pangolins.

Back in 2013, a Micronesian-US research studied the taxonomy, distribution and natural history of flying fox bats inhabiting the Caroline Islands (Micronesia). A 2018 joint study on bat diversity in Sri Lanka focused on chiropteran conservation and management; while a more recent article on the cryptic diversity and range extension of the big-eyed bats in the genus Chiroderma. 

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For more information, visit ZooKeys website. 

Follow ZooKeys on Twitter and Facebook.

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References:

Buden D, Helgen K, Wiles G (2013) Taxonomy, distribution, and natural history of flying foxes (Chiroptera, Pteropodidae) in the Mortlock Islands and Chuuk State, Caroline Islands. ZooKeys 345: 97-135. https://doi.org/10.3897/zookeys.345.5840

Edirisinghe G, Surasinghe T, Gabadage D, Botejue M, Perera K, Madawala M, Weerakoon D, Karunarathna S (2018) Chiropteran diversity in the peripheral areas of the Maduru-Oya National Park in Sri Lanka: insights for conservation and management. ZooKeys 784: 139-162. https://doi.org/10.3897/zookeys.784.25562

Hua L, Gong S, Wang F, Li W, Ge Y, Li X, Hou F (2015) Captive breeding of pangolins: current status, problems and future prospects. ZooKeys 507: 99-114. https://doi.org/10.3897/zookeys.507.6970

Lim BK, Loureiro LO, Garbino GST (2020) Cryptic diversity and range extension in the big-eyed bat genus Chiroderma (Chiroptera, Phyllostomidae). ZooKeys 918: 41-63. https://doi.org/10.3897/zookeys.918.48786

Zhang F, Wu S, Zou C, Wang Q, Li S, Sun R (2016) A note on captive breeding and reproductive parameters of the Chinese pangolin, Manis pentadactyla Linnaeus, 1758. ZooKeys 618: 129-144. https://doi.org/10.3897/zookeys.618.8886

All microgastrinae wasps from around the world finally together in a 1,089-page monograph

With 3,000 known species and thousands more left to describe, the wasps of the subfamily Microgastrinae are the single most important group of parasitoids attacking the larvae of butterflies and moths, many of which are economically important pests. Consequently, these wasps have a significant impact on both the world’s economy and biodiversity.

Due to their affinities, these wasps are widely used in biological control programs to manage agricultural and forestry pests around the globe. Further, they have also been prominently featured in many basic and applied scientific research (e.g. chemical ecology, biodiversity studies, conservation biology, genomics, behavioural ecology). However, the information about Microgastrinae species is scattered across hundreds of papers, some of which are difficult to find. To make matters worse, there has never been an authoritative checklist of the group at a planetary scale.

All currently available information about the group is now brought together in a large monograph of 1,089 pages, published in the open-access, peer-reviewed journal ZooKeys. The publication presents a total of 2,999 valid extant species belonging to 82 genera. On top of that, the monograph features fossil species and genera, unavailable names and the institutions that store the primary types of all listed species.

Moreover, the researchers have included extensive colour illustrations of all genera and many species (thousands of images in 250 image plates); brief characterisation and diagnosis of all genera; detailed species distributions (within biogeographical regions and per individual country); synopsis of what is known on host-parasitoid associations; summary of available DNA barcodes; estimations of the group diversity at world and regional levels; as well as notes on individual species upon request.

“Compiling this annotated checklist was, more than anything, a labour of love,”

says Dr. Jose Fernandez-Triana of the Canadian National Collection of Insects, lead author of the paper.

Monograph paper openly published in ZooKeys at
https://doi.org/10.3897/zookeys.920.39128

“For the past six or seven years, we have spent thousands of hours pouring through hundreds of publications, reading original descriptions in old manuscripts, checking type specimens in many collections worldwide, exchanging information with colleagues from all continents. For the past year or so, I basically stopped all other ongoing research projects I was involved with, to focus solely (almost obsessively!) on finishing this manuscript. The work was often tedious and mind-numbing, and many times I had the temptation to delay the completion of the paper for a later time. However, I was lucky that the other co-authors were just as passionate as myself, and we all pushed each other to finish the task when energy ran low.”

Fifteen species of microgastrinae wasps showing the incredible diversity within the subfamily. Note the variety of colours and shapes.
Image by Dr. Jose Fernandez-Triana

“For the past few years, the Microgastrinae wasps have been one of the most intensively studied groups of insects, at least from a taxonomic perspective,” he adds. “Just to give you an idea: between 2014 and 2019 a total of 720 new species of Microgastrinae were described worldwide. That is an average of one new species every three days, sustained over a six-year period and showing no signs of slowing down.”

He also points out that many scientists from many different countries and biogeographical regions have been involved in the description of the new species. The paper recognises them all and their contributions in the Acknowledgements section.

“You could even say that we are witnessing a renaissance in the study of this group of wasps. However, even then, what has been done is only the tip of the iceberg, as we estimated that only 5 to 10% of all Microgastrinae species have been described. That means that we do not have a name, let alone detailed knowledge, for 90-95% of the remaining species out there. Perhaps, there could be up to 50,000 Microgastrinae wasp species worldwide. It is truly humbling when you consider the magnitude of the work that lies ahead.”

Yet, it is not only a matter of counting huge numbers of species. More importantly, many of those species either have already been put in use as biocontrol agents against a wide range of agricultural and forestry pests, or have the potential to be in the future.

For applied scientists, working with hyperdiverse and poorly known groups such as Microgastrinae is even more perplexing. Navigating the maze of old names, synonyms (species described more than one time under different names), homonyms (same names applied to different species), or unavailable names (names that do not conform to the rules of the International Commission of Zoological Nomenclature) is a daunting task. Often, that results in the same species being referred to in several different ways by different authors and academic works. Consequently, many historical references are full of misleading or even plainly wrong information. Meanwhile, it is very difficult to seek out the useful and correct information.

The present annotated checklist could work as a basic reference for anyone working with or interested in the parasitoid wasps of the subfamily Microgastrinae. In the future, the authors hope to produce revised editions, thus continuing to incorporate new information as it is generated, and to also correct possible mistakes.

“We welcome all kinds of criticisms and suggestions. And we hope that biocontrol practitioners will also help us, the taxonomists, to improve future versions of this work. However, for the time being, let me say that it is a tremendous relief to get this first version out!”

concludes Dr. Fernandez-Triana.

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Original source:

Fernandez-Triana J, Shaw MR, Boudreault C, Beaudin M, Broad GR (2020) Annotated and illustrated world checklist of Microgastrinae parasitoid wasps (Hymenoptera, Braconidae). ZooKeys 920: 1-1089. https://doi.org/10.3897/zookeys.920.39128.

Taxonomist Day at Pensoft: Three species in the WoRMS’ Top 10 Marine Species of 2019 described in our journals

Happy Taxonomist Appreciation Day, everyone!

In a lovely tradition, the World Register of Marine Species (WoRMS) issued the Top 10 Marine Species of 2019 for the ninth time around on time for this special day! 

In what has also already become a tradition we are particularly proud of, it’s not one, but several species described as new to science in Pensoft journals that make it to the renowned list! Even if it’s a slight step back from last year’s five entries, this year, we see a total of three species making it to the list: the Vibranium Fairy Wrasse (Cirrhilabrus wakanda) and the Green Rat Clingfish (Barryichthys algicola), both published in ZooKeys, and Thiel’s Boring Amphipod (Bircenna thieli) first known from the pages of Evolutionary Systematics.

Struggling to put a face to the name? Let us bring the stories behind these fantastic discoveries for you: 


The real-life fairy wrasse, whose scales shine bright like sci-fi vibranium

Even if the “twilight zone” – the ocean depths from 60 to 150 meters underneath the water surface, are long known to be teeming with all sorts of fascinating reef-dwelling lifeforms that still await discovery, California Academy of Sciences’ (CAS) initiative Hope for Reefs and partners are already concerned with the protection of these fragile habitats. One of the ways they do this is by deploying the taxonomic approach: recording and defining every creature the current environmental crisis could be putting in danger.

One of the latest discoveries made by the CAS team and Yi-Kai Tea, lead author and PhD student at the University of Sydney, is a stunning wrasse species with colours so mesmerising and vibrant that immediately triggered the creativity of the scientists. Discovered amongst the dusky coral reefs of eastern Zanzibar, off the coast of Tanzania, the species received the scientific name Cirrhilabrus wakanda in a nod to the Marvel Entertainment comics and movie Black Panther, where Wakanda is a mythical nation. 

The fish also goes under its common name: Vibranium Fairy Wrasse, because of its hypnotising scales reminiscent of the fictional metal. In the franchise, the vibranium is a rare, robust and versatile ore capable of manipulating energy. In its turn, the scales of the Vibranium Fairy Wrasse have a pigment so strong, their shades survive even when preserved.

“When we thought about the secretive and isolated nature of these unexplored African reefs, we knew we had to name this new species after Wakanda,”

said Yi-Kai Tea.

Story via Forbes*

Find more in the WoRMS’ press release.

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Research article in ZooKeys:

Conway KW, Moore GI, Summers AP (2019) A new genus and two new species of miniature clingfishes from temperate southern Australia (Teleostei, Gobiesocidae). ZooKeys 864: 35-65. https://doi.org/10.3897/zookeys.864.34521


The clingy, yet long unknown green fish

You might think that a common name for a genus of tiny, less than 21 mm long marine inhabitants, such as ‘Rat Clingfish’ is way too unusual already, but it’s getting even more curious when you find out about those species’ mind-boggling lifestyle. 

These two miniature clingfishes were first spotted around microalgae in Australia back in the 1980s and since then they would puzzle scientists so much they would simply refer to them as “Genus B”. However, this was about to change, when in 2019, the US-Australian research team of Drs Kevin W. Conway, Glenn I. Moore and Adam P. Summers collected and studied enough specimens found in dense stands of macroalgae in intertidal and shallow subtidal areas along the coast of southern Australia. There, the two clingfishes use their well-developed adhesive discs located on their tummies to attach to the microalgae. Because of their miniature size, they have evolved multiple reduced and novel distinctive features.

As a result of their study, we now have the genus Barryichthys, whose common name is Rat Clingfish, and two new to science species assigned to it: the Brown Rat Clingfish (Barryichthys hutchinsi) and the Green Rat Clingfish (Barryichthys algicola), where the latter was found to be particularly intriguing thanks to its peculiar green colouration and a species name translated to “one who inhabits the algae”.

Find more in the WoRMS’ press release.

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Research article in ZooKeys:

Conway KW, Moore GI, Summers AP (2019) A new genus and two new species of miniature clingfishes from temperate southern Australia (Teleostei, Gobiesocidae). ZooKeys 864: 35-65. https://doi.org/10.3897/zookeys.864.34521 


The boring vegetarian amphipod  

Another impressive creature with a taste for algae described in 2019 from Australia is the Thiel’s Boring Amphipod, which is indeed boring. The tiny crustacean, which can be found in colonies of hundreds in Tasmania, eats its way through its favourite bull kelp leaving behind tunnels.

Another peculiarity about the species is its head, which when seen from the front resembles that of an ant!

With its species name: Bircenna thieli, the scientists behind the study – Drs Elizabeth Hughes (Natural History Museum of London, UK) and Anne-Nina Lörz (University of Hamburg, Germany) pay tribute to respected crustacean expert Prof. Dr. Martin Thiel, who had originally collected some of the studied specimens.

Find more in the WoRMS’ press release.

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Research article in Evolutionary Systematics:

Hughes LE, Lörz A-N (2019) Boring Amphipods from Tasmania, Australia (Eophliantidae: Amphipoda: Crustacea). Evolutionary Systematics 3(1): 41-52. https://doi.org/10.3897/evolsyst.3.35340

Exceptional catapulting jump mechanism in a tiny beetle could be applied in robotic limbs

The fascinating and highly efficient jumping mechanism in flea beetles is described in a new research article in the open-access journal Zookeys. Despite having been known since 1929, the explosive jump – which is also the reason behind the colloquial name of this group of leaf beetles – has so far not been fully understood.

By joining forces, a team of Chinese and US scientists, led by Dr Xingke Yang, Siqin Ge and Yongying Ruan of the Chinese Academy of Sciences and Dr Alexander Konstantinov of the Agricultural Research Service at the U.S. Department of Agriculture, tested the existing theories, using micro-computed tomography (micro-CT scans), 3D reconstructions, high-speed filming and dissection. Following their experiments, the scientists provided comprehensive insights into the mechanics behind the spectacular jump in flea beetles and reported, for the first time, the role of a structure found in the legs of these insects, known as “elastic plate”.

The flea beetles (members of the tribe Alticini) are plant feeders that belong to a hyperdiverse group of about 9,900 species and occur in various environments worldwide: from lowland tropical rain forests to high-altitude mountain meadows and deserts. Most of them live, feed and procreate on the upper leaf surface of their host plants, thus making them particularly vulnerable to predators, including birds, ants and spiders. One of their defence mechanisms is their incredible jumping skills, which allow the beetles to escape an approaching predator in an instant.

The apparatus responsible for this exceptional jump is hidden inside the beetle’s hind legs and is relatively simple. It contains only three sclerotised parts and a few muscles. Yet, it is, in reality, a highly efficient “catapult”, able to propel the beetle at a distance hundreds of times its body length. Using micro-computed tomography, 3D reconstructions and high-speed filming data, the scientists revealed that the acceleration during the jump can reach an explosive peak of 8,650 m/s2, which is 865 times the acceleration of gravity. The peak power output of the hind legs of the beetle peaked at 2.24 × 105 W/kg (per unit mass). This is about 450 times the capabilities of the fastest known muscle and 100~200 times that of a powerful rally car engine.

The 3D reconstructions revealed two processes inside the hind leg that amplify the power output of the beetle’s muscles and reduce energy waste.

Firstly, the tibial extensor and tibial flexor muscles contract simultaneously and cumulatively build up elastic strain energy inside the femur (the longest segment of an insect’s leg). The energy is stored in a sclerotised structure, called a metafemoral spring, while another two structures inside the leg, previously known as “triangular plate” and “elastic plate”, act together as a trigger for the catapult mechanism. When the trigger is released, the metafemoral spring contracts and converts elastic potential energy into kinetic energy, which allows the flea beetle to attain an extraordinarily high acceleration. Instead of gradual acceleration throughout the jump, the flea beetle employs a ‘high-efficiency mechanism’ at the start, in order to store colossal strain energy to be released later on.

Thus, flea beetles avoid muscle fatigue (energy waste) and improve their jumping performance to the point where they can do over 30 consecutive jumps, as recorded by the scientists in their laboratory experiments. In nature, this mechanism is an adaptation for the insects to escape predators by quickly disappearing from the leaf surfaces where they normally spend their lives. In fact, it is this “explosive” jump that, according to the researchers, is amongst the key traits responsible for the high evolutionary success and remarkable species diversity in flea beetles.

In conclusion, the scientists note that the catapulting jump mechanism in flea beetles is so efficient and yet so simple that it might find an excellent use in robotics, as well as in engineering and industrial installations. In their research paper, they also propose a design of a bionic limb inspired by the studied beetles.

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Original source:

Ruan Y, Konstantinov AS, Shi G, Tao Y, Li Y, Johnson AJ, Luo X, Zhang X, Zhang M, Wu J, Li W, Ge S, Yang X (2020) The jumping mechanism of flea beetles (Coleoptera, Chrysomelidae, Alticini), its application to bionics and preliminary design for a robotic jumping leg. ZooKeys 915: 87-105. https://doi.org/10.3897/zookeys.915.38348

French mathematician and spider aficionado Cédric Villani honoured with a new orb-weaver

Considered as one of the best studied spiders, the orb-weavers remain poorly known in the central parts of the Palearctic ecozone. Hence, an international research team took to the Caucasus, Middle East and Central Asia. Their article in the open-access peer-reviewed journal ZooKeys documents three new-to- science species, where one is named after the Indo-Iranian god of light Mithra. Another carries the name of the flamboyant French mathematician and spider aficionado Cédric Villani.

With their astonishingly precise spiral webs, orb-weaving spiders are the arachnid analogy of first-class mathematicians, note the researchers behind the study

Despite being considered as one of the best-studied spiders in the Palearctic, the orb-weaver spiders (family Araneidae) remain poorly known in the central parts of the ecozone. To bridge the knowledge gaps, an international research team of researchers took to the Caucasus, Middle East and Central Asia to study two of those genera: Araniella and Neoscona. 

As a result, in their article, recently published in the open-access scientific journal ZooKeys, arachnologists Alireza Zamani (University of Turku, Finland), Yuri M. Marusik (Institute for Biological Problems of the North RAS, Russia) and Anna Šestáková (The Western Slovakian Museum, Slovakia) describe three new-to-science species, where one: Araniella villanii – carries the name of the flamboyant French mathematician and spider aficionado Cédric Villani, who has been dubbed the “Lady Gaga of Mathematics”. Even if unknown until now, the species turned out to have a wide distribution, ranging from south-western Iran to eastern Kazakhstan and northern India. 

A female specimen of the newly described orb-weaver species Araniella villanii on its web (Kazakhstan)
Photo by Alireza Zamani

“It’s a well-known fact within the arachnological community that spiders are masters of mathematics and architecture. Orb-web spiders, in particular, tend to build beautiful and architecturally aesthetic webs, some of which are formed in spirals in line with the repetitive pattern of the golden ratio,”

explains lead author of the study Alireza Zamani.

The web of the garden orb-web spider Araneus diadematus, for example, usually has 25 to 30 radial threads forming an astonishingly precise angle of about 15°, which the spider carefully measures using its front legs. According to scientific observations, if the front legs are removed, the regularity of the angles between adjacent radial threads is impaired. 

A female specimen of the newly described orb-weaver species Araniella villanii on its web (Kazakhstan)
Photo by Alireza Zamani

For these and many other reasons, spiders must have been an inspiration for mathematicians like Cédric Villani, who has publicly shown a mysterious love for these arachnids. Awarded the Fields Medal (some say it is the Mathematics equivalent of the Nobel Prize) in 2010 and having served as the director of Sorbonne University‘s Institut Henri Poincaré from 2009 to 2017, the Frenchman’s love for spiders is quite evident, thanks to the constant presence of a spider brooch on his lapel. Although he has never explained the reason behind his appreciation of these eight-legged wonders, now he has a real, even scientifically sound connection to them in the real world. 

Apart from Araniella villanii, whose scientific name honours the prominent scientist and recognises his love for spiders, the other two newly-described species also have a story behind their names. One of them: Neoscona isatis, discovered in central Iran, was named after the historical name of its type locality; and Araniella mithra, known from north-western, central and south-western Iran, was named after Mithra, the god of light in the ancient Indo-Iranian mythology.

Curiously, spiders in the genus Araniella are green in colour due to certain bile pigments (biliverdin) that make them very difficult to spot in their natural habitat, as they live mostly on leaves.

French mathematician and spider aficionado Cédric Villani (left) with lead author and discoverer of the three new-to-science orb-weaver spiders Alireza Zamani (right) in Iran (2015)

“I met Mr. Villani in May 2015 at University of Tehran, where he was an invited speaker. We got to briefly talk about our shared interest in spiders, and I had the opportunity to present him an Iranian wolf spider as a souvenir!”

recalls Zamani.

“It’s important to note that, with the efforts of taxonomists, new species are being discovered and described with an average rate of 18,000 species per year, but simultaneously both known and undescribed species go extinct due to human activities, with the current rate being within or even higher than the range of the newly described ones. A first step towards conservation of biodiversity includes taxonomic research to document species and to define hotspots of species diversity in order to protect such carefully selected habitats,”

he points out.
A female specimen of the newly described orb-weaver species Araniella villanii in its natural habitat (Kazakhstan)
Photo by Anatoliy Ozernoy

“However, with the current situation of low funding for taxonomic research, the number of students doing taxonomic research is in severe decline and the current average ‘shelf life’ (between discovery and description) of a new species remains at about 21 years. Araniella villanii is a great example of how much we don’t know about our biodiversity.”

Despite being discovered all the time, new species mostly have very restricted ranges and are only known from a few nearby localities. Orb-weaver spiders have very good dispersal abilities and it is relatively uncommon to detect new species of them.

“Araniella villanii is known from a few localities in southwestern Iran, eastern Kazakhstan and northern India, a distribution range covering at least ten countries, and yet the species was unknown to science until now. I think that the message that this particular discovery implies is that while there are such widely-distributed undescribed species out there, we need more and more taxonomic research, both in the field and in the natural history museum collections, which house a considerable number of undescribed species, in order to preserve the remaining biodiversity on earth, before it’s too late”.

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Original source:

Zamani A, Marusik YM, Šestáková A (2020) On Araniella and Neoscona (Araneae, Araneidae) of the Caucasus, Middle East and Central Asia. ZooKeys 906: 13-40. https://doi.org/10.3897/zookeys.906.47978

On the edge between science & art: historical biodiversity data from Japanese “gyotaku”

Japanese cultural art of ‘gyotaku’, which means “fish impression” or “fish rubbing”, captures accurate images of fish specimens. It has been used by recreational fishermen and artists since the Edo Period. Distributional data from 261 ‘Gyotaku’ rubbings were extracted for 218 individual specimens, roughly representing regional fish fauna and common fishing targets in Japan through the years. The results of the research are presented in a paper published by Japanese scientists in open-access journal Zookeys.

Japanese cultural art of ‘gyotaku’, which means “fish impression” or “fish rubbing”, captures accurate images of fish specimens. It has been used by recreational fishermen and artists since the Edo Period. Distributional data from 261 ‘Gyotaku’ rubbings were extracted for 218 individual specimens, roughly representing regional fish fauna and common fishing targets in Japan through the years. The results of the research are presented in a paper published by Japanese scientists in open-access journal Zookeys.

Historical biodiversity data is being obtained from museum specimens, literature, classic monographs and old photographs, yet those sources can be damaged, lost or not completely adequate. That brings us to the need of finding additional, even if non-traditional, sources. 

In Japan many recreational fishers have recorded their memorable catches as ‘gyotaku’ (魚拓), which means fish impression or fish rubbing in English. ‘Gyotaku’ is made directly from the fish specimen and usually includes information such as sampling date and locality, the name of the fisherman, its witnesses, the fish species (frequently its local name), and fishing tackle used. This art has existed since the last Edo period. Currently, the oldest ‘gyotaku’ material is the collection of the Tsuruoka City Library made in 1839.

Traditionally, ‘gyotaku’ is printed by using black writing ink, but over the last decades colour versions of ‘gyotaku’ have become better developed and they are now used for art and educational purposes. Though, the colour prints are made just for the means of art and rarely include specimen data, sampling locality and date.

In the sense of modern technological progress, it’s getting rarer and rarer that people are using ‘gyotaku’ to save their “fishing impressions”. The number of personally managed fishing-related shops is decreasing and the number of original ‘gyotaku’ prints and recreational fishermen might start to decrease not before long.

Smartphones and photo cameras are significantly reducing the amount of produced ‘gyotaku’, while the data from the old art pieces are in danger of either getting lost or diminished in private collections. That’s why the research on existing ‘gyotaku’ as a data source is required.

A Japanese research team, led by Mr. Yusuke Miyazaki, has conducted multiple surveys among recreational fishing shops in different regions of Japan in order to understand if ‘gyotaku’ information is available within all the territory of the country, including latitudinal limits (from subarctic to subtropical regions) and gather historical biodiversity data from it.

In total, 261 ‘gyotaku’ rubbings with 325 printed individual specimens were found among the targeted shops and these data were integrated to the ‘gyotaku’ database. Distributional data about a total of 235 individuals were obtained within the study.

The observed species compositions reflected the biogeography of the regions and can be representative enough to identify rare Red-listed species in particular areas. Some of the studied species are listed as endangered in national and prefectural Red Lists which prohibits the capture, holding, receiving and giving off, and other interactions with the species without the prefectural governor’s permission. Given the rarity of these threatened species in some regions, ‘gyotaku’ are probably important vouchers for estimating historical population status and factors of decline or extinction.

“Overall, the species composition displayed in the ‘gyotaku’ approximately reflected the fish faunas of each biogeographic region. We suggest that Japanese recreational fishers may be continuing to use the ‘gyotaku’ method in addition to digital photography to record their memorable catches” , concludes author of the research, Mr. Yusuke Miyazaki.


Gyotaku rubbing from the fish store in Miyazaki Prefecture
Credit: Yusuke Miyazaki
License: CC-BY 4.0

Gyotaku rubbing of the specimen from Kanagawa found in the shop in Tokyo
Credit: Yusuke Miyazaki
License: CC-BY 4.0

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Original source:

Miyazaki Y, Murase A (2019) Fish rubbings, ‘gyotaku’, as a source of historical biodiversity data. ZooKeys 904: 89-101. https://doi.org/10.3897/zookeys.904.47721

Facebook and Instagram gave away the presence of the ‘Japan pig’ seahorse in Taiwan

Japan pig seahorse (Hippocampus japapigu) in its natural habitat at Hejie, Kenting, Taiwan

Credit: Chao-Tsung Chen
License: CC-BY 4.0

While monitoring of cryptic and elusive tiny creatures, such as pygmy seahorses that measure only 13 to 27 mm, might be too costly and time-consuming for research teams and institutions, the underwater activity might be proving of particular interest to photography and diving enthusiasts.

At least, this is what comes across from the recent reports of five miniature species identified from Taiwanese waters by local citizen scientists and passed along via Facebook and Instagram. Amongst the findings, there are two species that had never before been reported from the country, including last year’s media sensation: the ‘Japan pig’, considered to only be found in the “Land of the Rising Sun”. The study, conducted by the team Mr. Joseph Heard,  Drs Jeng-Ping Chen and Colin Wen from Tunghai University and Taiwan Ocean Research Institute, is published in ZooKeys, the very same open-access journal that saw the description of the species in 2018.

The scientists note that pygmy seahorses are largely unknown species and even basic information regarding their habitats is largely inconsistent and based on unofficial reports. As monitoring of marine wildlife can be expensive and time-consuming, especially regarding its small and cryptic representatives, the researchers decided to use “Phone a Friend” lifeline. Scuba divers and underwater photographers were approached on social media to help investigate pygmy seahorse diversity in Taiwan.

Their call resulted in 259 social media items, including 75 photos of 78 miniature creatures from their natural habitats at five different locations. Identified as five separate species, their discovery ranks Taiwan as one of the world’s biodiversity hotspots for pygmy seahorse, given that there are only seven species of pygmy seahorses out there.

A Japan pig seahorse (Hippocampus japapigu) in its natural habitat at Green Island, Taiwan.
Credit: Jolly Huang
License: CC-BY 4.0

Four of those were found at Green Island alone, a small volcanic Pacific island, measuring only 15 km2. 

Pygmy seahorse specimen collection from Taiwan for future examination is still undergoing.

Heard J, Chen J-P, Wen CKC (2019) Citizen science yields first records of Hippocampus japapigu and Hippocampus denise (Syngnathidae) from Taiwan: A hotspot for pygmy seahorse diversity. ZooKeys 883: 83-90. https://doi.org/10.3897/zookeys.883.39662 

Data mining applied to scholarly publications to finally reveal Earth’s biodiversity

At a time when a million species are at risk of extinction, according to a recent UN report, ironically, we don’t know how many species there are on Earth, nor have we noted down all those that we have come to know on a single list. In fact, we don’t even know how many species we would have put on such a list.

The combined research including over 2,000 natural history institutions worldwide, produced an estimated ~500 million pages of scholarly publications and tens of millions of illustrations and species descriptions, comprising all we currently know about the diversity of life. However, most of it isn’t digitally accessible. Even if it were digital, our current publishing systems wouldn’t be able to keep up, given that there are about 50 species described as new to science every day, with all of these published in plain text and PDF format, where the data cannot be mined by machines, thereby requiring a human to extract them. Furthermore, those publications would often appear in subscription (closed access) journals.

The Biodiversity Literature Repository (BLR), a joint project ofPlazi, Pensoft and Zenodo at CERN, takes on the challenge to open up the access to the data trapped in scientific publications, and find out how many species we know so far, what are their most important characteristics (also referred to as descriptions or taxonomic treatments), and how they look on various images. To do so, BLR uses highly standardised formats and terminology, typical for scientific publications, to discover and extract data from text written primarily for human consumption.

By relying on state-of-the-art data mining algorithms, BLR allows for the detection, extraction and enrichment of data, including DNA sequences, specimen collecting data or related descriptions, as well as providing implicit links to their sources: collections, repositories etc. As a result, BLR is the world’s largest public domain database of taxonomic treatments, images and associated original publications.

Once the data are available, they are immediately distributed to global biodiversity platforms, such as GBIF–the Global Biodiversity Information Facility. As of now, there are about 42,000 species, whose original scientific descriptions are only accessible because of BLR.

The very basic principle in science to cite previous information allows us to trace back the history of a particular species, to understand how the knowledge about it grew over time, and even whether and how its name has changed through the years. As a result, this service is one avenue to uncover the catalogue of life by means of simple lookups.

So far, the lessons learned have led to the development of TaxPub, an extension of the United States National Library of Medicine Journal Tag Suite and its application in a new class of 26 scientific journals. As a result, the data associated with articles in these journals are machine-accessible from the beginning of the publishing process. Thus, as soon as the paper comes out, the data are automatically added to GBIF.

While BLR is expected to open up millions of scientific illustrations and descriptions, the system is unique in that it makes all the extracted data findable, accessible, interoperable and reusable (FAIR), as well as open to anybody, anywhere, at any time. Most of all, its purpose is to create a novel way to access scientific literature.

To date, BLR has extracted ~350,000 taxonomic treatments and ~200,000 figures from over 38,000 publications. This includes the descriptions of 55,800 new species, 3,744 new genera, and 28 new families. BLR has contributed to the discovery of over 30% of the ~17,000 species described annually.

Prof. Lyubomir Penev, founder and CEO of Pensoft says,

“It is such a great satisfaction to see how the development process of the TaxPub standard, started by Plazi some 15 years ago and implemented as a routine publishing workflow at Pensoft’s journals in 2010, has now resulted in an entire infrastructure that allows automated extraction and distribution of biodiversity data from various journals across the globe. With the recent announcement from the Consortium of European Taxonomic Facilities (CETAF) that their European Journal of Taxonomy is joining the TaxPub club, we are even more confident that we are paving the right way to fully grasping the dimensions of the world’s biodiversity.”

Dr Donat Agosti, co-founder and president of Plazi, adds:

“Finally, information technology allows us to create a comprehensive, extended catalogue of life and bring to light this huge corpus of cultural and scientific heritage – the description of life on Earth – for everybody. The nature of taxonomic treatments as a network of citations and syntheses of what scientists have discovered about a species allows us to link distinct fields such as genomics and taxonomy to specimens in natural history museums.”

Dr Tim Smith, Head of Collaboration, Devices and Applications Group at CERN, comments:

“Moving the focus away from the papers, where concepts are communicated, to the concepts themselves is a hugely significant step. It enables BLR to offer a unique new interconnected view of the species of our world, where the taxonomic treatments, their provenance, histories and their illustrations are all linked, accessible and findable. This is inspirational for the digital liberation of other fields of study!”

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Additional information:

BLR is a joint project led by Plazi in partnership with Pensoft and Zenodo at CERN.

Currently, BLR is supported by a grant from Arcadia, a charitable fund of Lisbet Rausing and Peter Baldwin.