“In the present biodiversity crisis scenario, it is critical that we do not neglect basic scientific disciplines like taxonomy, since cataloguing biodiversity is a fundamental step towards its preservation.”
The knowledge of biodiversity in allegedly well-known places is not as complete as one would expect and its detailed study by researchers continues to offer surprises, is what we find out in a new study of the flora of south-central Spain.
Now, Spanish botanists from Pablo de Olavide University (Seville, Spain) have described a new plant species of the papyrus family (Cyperaceae) restricted to the La Mancha region in south-central Spain. This region is in fact well-known for classic literary fans, who might recognise the name as the main setting in Miguel de Cervantes’ (1547–1616) masterpiece Don Quixote.
Artistic recreation depicting Don Quixote and his squire Sancho Panza with the iconic La Mancha windmills, and a Carex quixotiana’s habitat. Image by Faro Míguez.
The epic novel, which tells the story of the life and journeys of Alonso Quijano, a Spanish hidalgo (nobleman), who becomes the knight-errant Don Quixote de la Mancha, is commonly considered to be one of the greatest literary works ever written, with its number of editions and translations thought to be only surpassed by those of the Bible.
The new species, now scientifically known as Carex quixotiana, belongs to sedges of the genus Carex, a group of herbs included in the papyrus family (Cyperaceae). The classification (taxonomy) of these plants is difficult, as it is a highly diverse and widely distributed genus, whose species are frequently hard to tell apart. In fact, C. quixotiana has itself evaded the eyes of expert botanists for decades, because of its close resemblance to related species.
“Cryptic species are frequent in complex plant groups, such as sedges, and integrative studies encompassing different data sources (e.g. morphology, molecular phylogeny, chromosome number, ecological requirements) are needed to unravel systematic relationships and accurately describe biodiversity patterns,”
says Dr. Martín-Bravo, senior author of the paper.
After a preliminary genetic study pointed to something odd about specimens of what was later to be known as Carex quixotiana, the authors set off on exhaustive field collecting campaigns across La Mancha. As they studied additional populations of the plant in further detail, using morphology, phylogenetics, and chromosome number, the scientists confirmed that they were looking at a species previously unknown to science. Understandably, the distribution range of the newly discovered species, restricted to the mountain ranges surrounding La Mancha (Sierra Madrona and Montes de Toledo), made the authors think about Cervantes’ masterpiece.
So far only known from 16 populations, Carex quixotiana prefers habitats with high water availability, such as small streams, wet meadows and riverside (riparian) forests.
Since little is known about the species’ demographics, including the number of mature individuals in the wild, further investigation is required to determine its conservation status. However, based on what they have learnt so far about the species, the authors of the present study assume that:
“it is an Iberian endemic with a relatively small number of populations and distribution range, which would benefit from legal protection and inclusion in in-situ/ex-situ conservation programmes.”
“In the present biodiversity crisis scenario, it is critical that we do not neglect basic scientific disciplines like taxonomy, since cataloguing biodiversity is a fundamental step towards its preservation and, thus, sustainable management,”
say the researchers.
In conclusion, the scientists point to their results as yet another proof of how much there is still to learn about Earth’s biodiversity, even when it comes to supposedly well-known organisms, such as flowering plants, and countries, whose flora is presumed to be fully documented. The “Flora Iberica”, for example, which covers Spain and Portugal, has only recently been finalised, the team reminds us.
Close-up images of reproductive parts (inflorescences known as spikes) of the newly described species Carex quixotiana. Photo by Modesto Luceño.
Research article:
Benítez-Benítez C, Jiménez-Mejías P, Luceño M, Martín-Bravo S (2023) Carex quixotiana (Cyperaceae), a new Iberian endemic from Don Quixote’s land (La Mancha, S Spain). PhytoKeys 221: 161-186. https://doi.org/10.3897/phytokeys.221.99234
OpenBiodiv is a biodiversity database containing knowledge extracted from scientific literature, built as an Open Biodiversity Knowledge Management System.
Apart from coordinating the Horizon 2020-funded project BiCIKL, scholarly publisher and technology provider Pensoft has been the engine behind what is likely to be the first production-stage semantic system to run on top of a reasonably-sized biodiversity knowledge graph.
OpenBiodiv is a biodiversity database containing knowledge extracted from scientific literature, built as an Open Biodiversity Knowledge Management System.
As of February 2023, OpenBiodiv contains 36,308 processed articles; 69,596 taxon treatments; 1,131 institutions; 460,475 taxon names; 87,876 sequences; 247,023 bibliographic references; 341,594 author names; and 2,770,357 article sections and subsections.
In fact, OpenBiodiv is a whole ecosystem comprising tools and services that enable biodiversity data to be extracted from the text of biodiversity articles published in data-minable XML format, as in the journals published by Pensoft (e.g. ZooKeys, PhytoKeys, MycoKeys, Biodiversity Data Journal), and other taxonomic treatments – available from Plazi and Plazi’s specialised extraction workflow – into Linked Open Data.
“I believe that OpenBiodiv is a good real-life example of how the outputs and efforts of a research project may and should outlive the duration of the project itself. Something that is – of course – central to our mission at BiCIKL.”
explains Prof Lyubomir Penev, BiCIKL’s Project Coordinator and founder and CEO of Pensoft.
“The basics of what was to become the OpenBiodiv database began to come together back in 2015 within the EU-funded BIG4 PhD project of Victor Senderov, later succeeded by another PhD project by Mariya Dimitrova within IGNITE. It was during those two projects that the backend Ontology-O, the first versions of RDF converters and the basic website functionalities were created,”
he adds.
At the time OpenBiodiv became one of the nine research infrastructures within BiCIKL tasked with the provision of virtual access to open FAIR data, tools and services, it had already evolved into a RDF-based biodiversity knowledge graph, equipped with a fully automated extraction and indexing workflow and user apps.
Currently, Pensoft is working at full speed on new user apps in OpenBiodiv, as the team is continuously bringing into play invaluable feedback and recommendation from end-users and partners at BiCIKL.
As a result, OpenBiodiv is already capable of answering open-ended queries based on the available data. To do this, OpenBiodiv discovers ‘hidden’ links between data classes, i.e. taxon names, taxon treatments, specimens, sequences, persons/authors and collections/institutions.
Thus, the system generates new knowledge about taxa, scientific articles and their subsections, the examined materials and their metadata, localities and sequences, amongst others. Additionally, it is able to return information with a relevant visual representation about any one or a combination of those major data classes within a certain scope and semantic context.
Users can explore the database by either typing in any term (even if misspelt!) in the search engine available from the OpenBiodiv homepage; or integrating an Application Programming Interface (API); as well as by using SPARQL queries.
On the OpenBiodiv website, there is also a list of predefined SPARQL queries, which is continuously being expanded.
“OpenBiodiv is an ambitious project of ours, and it’s surely one close to Pensoft’s heart, given our decades-long dedication to biodiversity science and knowledge sharing. Our previous fruitful partnerships with Plazi, BIG4 and IGNITE, as well as the current exciting and inspirational network of BiCIKL are wonderful examples of how far we can go with the right collaborators,”
EIVE 1.0 is the most comprehensive system of ecological indicator values of vascular plants in Europe to date. It can be used as an important tool for continental-scale analyses of vegetation and floristic data.
Geographic coverage of the 31 ecological indicator value systems that entered the calculation of the consensus system of EIVE 1.0 (image from the original article).
It took seven years and hundreds of hours of work by an international team of 34 authors to develop and publish the most comprehensive system of ecological indicator values (EIVs) of vascular plants in Europe to date.
EIVE 1.0 provides the five most-used ecological indicators, M – moisture, N – nitrogen, R – reaction, L – light and T – temperature, for a total of 14,835 vascular plant taxa in Europe, or between 13,748 and 14,714 for the individual indicators. For each of these taxa, EIVE contains three values: the EIVE niche position indicator, the EIVE niche width indicator and the number of regional EIV systems on which the assessment was based. Both niche position and niche width are given on a continuous scale from 0 to 10, not as categorical ordinal values as in the source systems.
Evidently, EIVE can be an important tool for continental-scale analyses of vegetation and floristic data in Europe.
It will allow to analyse the nearly 2 million vegetation plots currently contained in the European Vegetation Archive (EVA; Chytrý et al. 2016) in new ways.
Since EVA apart from elevation, slope inclination and aspect hardly contains any in situ measured environmental variables, the numerous macroecological studies up to date had to rely on coarse modelled environmental data (e.g. climate) instead. This is particularly problematic for soil variables such as pH, moisture or nutrients, which can change dramatically within a few metres.
Here, the approximation of site conditions by mean ecological indicator values can improve the predictive power substantially (Scherrer and Guisan 2019). Likewise, in broad-scale vegetation classification studies, mean EIVE values per plot would allow a better characterisation of the distinguished vegetation units. Lastly, one should not forget that most countries in Europe do not have a national EIV system, and here EIVE could fill the gap.
Violin plots showing largely continuous value distributions of the niche position and niche width values of the five indicators in EIVE 1.0 (image from the original article).
Almost on the same day as EIVE 1.0 another supranational system of ecological indicator values in Europe has been published by Tichý et al. (2023) with a similar approach.
Thus, it will be important for vegetation scientists in Europe to understand the pros and cons of both systems to allow the wise selection of the most appropriate tool:
EIVE 1.0 is based on 31 regional EIV systems, while Tichý et al. (2023) uses 12.
Both systems provide indicator values for moisture, nitrogen/nutrients, reaction, light and temperature, while Tichý et al. (2023) additionally has a salinity indicator.
Tichý et al. (2023) aimed at using the same scales as Ellenberg et al. (1991), which means that the scales vary between indicators (1–9, 0–9, 1–12), while EIVE has a uniform interval scale of 0–10 for all indicators.
Only EIVE provides niche width in addition to niche position. Niche width is an important aspect of the niche and might be used to improve the calculation of mean indicator values per plot (e.g. by weighting with inverse niche width).
The taxonomic coverage is larger in EIVE than in Tichý et al. (2023): 14,835 vs. 8,908 accepted taxa and 11,148 vs. 8,679 species.
EIVE provides indicator values for accepted subspecies, while Tichý et al. (2023) is restricted to species and aggregates. Separate indicator values for subspecies might be important for two reasons: (a) subspecies often strongly differ in at least one niche dimension; (b) many of the taxa now considered as subspecies have been treated at species level in the regional EIV systems.
Tichý et al. (2023) added 431 species not contained in any of the source systems based on vegetation-plot data from the European Vegetation Archive (EVA; Chytrý et al. 2016) while EIVE calculated the European indicator values only for taxa occurring at least in one source system.
While both systems present maps that suggest a good coverage across Europe, Tichý et al. (2023)’s source systems largely were from Central Europe, NW Europe and Italy, but, unlike EIVE, these authors did not use source systems from the more “distal” parts of Europe, such as Sweden, Faroe Islands, Russia, Georgia, Romania, Poland and Spain, and they used only a small subset of indicators of the EIV systems of Ukraine, Greece and the Alps.
In a validation with GBIF-derived data on temperature niches, Dengler et al. (2023) showed that EIVE has a slightly stronger correlation than Tichý et al. (2023)’s indicators (r = 0.886 vs. 0.852).
The correlation of EIVE-T values of species with GBIF-derived temperature niche data was high and even higher when restricting the calculation to those species whose consensus value was based on at least four sources (image from the original article).
How did EIVE manage to integrate all EIV systems in Europe that contained at least one of the selected indicators for vascular plants, while Tichý et al. (2023) used only a small subset?
This difference is mainly due to a more complex workflow in EIVE (which also was one of the reasons why the preparation took so long). First, Tichý et al. (2023) restricted their search to EIV systems and indicators that had the same number of categories as the “original” Ellenberg system.
Second, from these they discarded those that showed a too low correlation with Ellenberg. By contrast, EIVE’s workflow allowed the use of any system with an ordinal (or even metric) scale, irrespective of the number of categories or the initial match with Ellenberg et al. (1991).
EIVE also did not treat one system (Ellenberg) as the master to assess all others but considered each of them equally valid. While indeed the individual EIV systems are often quite inconsistent, i.e. even if they refer to Ellenberg, the same value of an indicator in one system might mean something different in another system, our iterative linear optimisation enabled us to adjust all 31 systems for the five indicators to a common basis.
This in turn allowed deriving EIVE as the consensus system of all the source systems. The fact that in our validation of the temperature indicator, EIVE performed better than Tichý et al. (2023) and much better than most of the regional EIV systems might be attributable to the so-called “wisdom of the crowd”, going back to the statistician Francis Galton who found that averaging numerous independent assessments (even by laymen) of a continuous quantity can leads to very good estimates of the true value.
Apart from the indicator values themselves, EIVE has a second main feature that might not be so obvious at first glance, but which actually took the EIVE team, including several taxonomists, more time than the workflow to generate the indicator values themselves: the taxonomic backbone. EIVE for vascular plants is fully based on the taxonomic concept (including the synonymic relationships) of the Euro+Med Plantbase.
However, since Euro+Med lacks an important part of taxa that are frequently recorded in vegetation plots, to make our backbone fully usable to vegetation science, we expanded it beyond Euro+Med to something called “Euro+Med augmented”. We particularly added hybrids, neophytes and aggregates, three groups of plants hitherto only very marginally covered in Euro+Med. All additions were done by experts consistently with the taxonomic concept of Euro+Med and are fully documented. Likewise, many additional synonym relationships had to be added that were missing in Euro+Med.
Finally, we implemented the so-called “concept synonymy” (see Jansen and Dengler 2010), which allows the assignment of the same name from different sources to different accepted names (“taxonomic concepts”). This applies mainly to nested taxa that are treated at different levels in different sources, e.g. once as species with several subspecies, once as aggregate with several species. However, there are also some cases of misapplied names (i.e. names that were not used in agreement with their nomenclatural type in certain EIV systems). Such cases generally cannot be solved by the various tools for automatic taxonomic cleaning, but require experts who make a case-by-case decision.
The whole taxonomic workflow of EIVE is fully transparent with an R code that “digests”:
(a) the names as they are in the source systems,
(b) the official Euro+Med database and
(c) tables that document our additions and modifications (with reasons and references).
This comprehensive documentation will allow continuous and efficient improvement in the future, be it because of taxonomic novelties adopted in Euro+Med or because EIVE’s experts decide to change certain interpretations. That way, “Euro+Med augmented” and the accompanying R-based workflow can also be a valuable tool for other projects that wish to harmonise plant taxonomic information from various sources at a continental scale, e.g. in vegetation-plot databases such as GrassPlot (Dengler et al. 2018) and EVA (Chytrý et al. 2016).
The publication of EIVE 1.0 is not the endpoint, but rather a starting point for future developments in a community-based approach.
Together with interested colleagues from outside, the EIVE core team plans to prepare better and more comprehensive releases of EIVE in the future, including updates to its taxonomic backbone.
Future releases of EIVE will be published in fixed versions, typically together with a paper that describes the changes in the content.
As steps for the next two years, we anticipate that we will first add further taxa (bryophytes, lichens, macroalgae) and some additional indicators, both of which are relatively easy with our established R-based workflow. Then we plan EIVE 2.0 that will use the approx. 2 million vegetation plots in EVA (Chytrý et al. 2016) to re-calibrate EIVE for all taxa (see http://euroveg.org/requests/EVA-data-request-form-2022-02-10-Dengleretal.pdf).
We invite you to get into contact with us if you have:
(a) a new or overlooked indicator value system for any taxonomic group in Europe and adjacent areas (including comprehensive datasets of measured environmental data in vegetation plots);
(b) suggestions for improvements of our taxonomic backbone;
(c) a paper idea in the EIVE context that you would like to realise together with the EIVE core team (since everything is OA, you can, of course, use EIVE 1.0 for any possible purpose without notifying us as long as you cite EIVE properly).
Last but not least, any test of the validity and performance of EIVE, alone or in comparison with Tichý et al. (2023), with in situ measured environmental variables, locally or even continentally, would be most welcome.
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This Behind the paper post refers to the article Ecological Indicator Values for Europe (EIVE) 1.0 by Jürgen Dengler, Florian Jansen, Olha Chusova, Elisabeth Hüllbusch, Michael P. Nobis, Koenraad Van Meerbeek, Irena Axmanová, Hans Henrik Bruun, Milan Chytrý, Riccardo Guarino, Gerhard Karrer, Karlien Moeys, Thomas Raus, Manuel J. Steinbauer, Lubomir Tichý, Torbjörn Tyler, Ketevan Batsatsashvili, Claudia Bita-Nicolae, Yakiv Didukh, Martin Diekmann, Thorsten Englisch, Eduardo Fernandez Pascual, Dieter Frank, Ulrich Graf, Michal Hájek, Sven D. Jelaska, Borja Jiménez-Alfaro, Philippe Julve, George Nakhutsrishvili, Wim A. Ozinga, Eszter-Karolina Ruprecht, Urban Šilc, Jean-Paul Theurillat, and François Gillet published in Vegetation Classification and Survey (https://doi.org/10.3897/VCS.98324).
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Follow the Vegetation Classification and Survey journal on Facebook and Twitter.
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Brief personal summaries:
Jürgen Dengler is a Professor of Vegetation Ecology at the Zurich University of Applied Science (ZHAW) in Wädenswil, Switzerland. Among others, he cofounded the European Vegetation Database (EVA), the global vegetation-plot database “sPlot” and the “GrassPlot” database of the Eurasian Dry Grassland Group. His major research interests are grassland ecology, grassland conservation, biodiversity patterns, macroecology, vegetation change, broad-scale vegetation classification, methodological developments in vegetation ecology and ecoinformatics.
Florian Jansen is a Professor of Landscape Ecology at the University of Rostock, Germany. His research interests are vegetation ecology and dynamics, mire ecology including greenhouse gas emissions, and numerical ecology with R. He (co-)founded the German Vegetation Database vegetweb.de, the European Vegetation Database (EVA), and the global vegetation-plot database “sPlot”. He wrote the R package eHOF for modelling species response curves along one-dimensional ecological gradients.
François Gillet is an Emeritus Professor of Community Ecology at the University of Franche-Comté in Besançon, France. His major research interests are vegetation diversity, ecology and dynamics, grassland and forest ecology, integrated synusial phytosociology, numerical ecology with R, dynamic modelling of social-ecological systems.
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References:
Chytrý, M., Hennekens, S.M., Jiménez-Alfaro, B., Knollová, I., Dengler, J., Jansen, F., Landucci, F., Schaminée, J.H.J., Aćić, S., (…) & Yamalov, S. 2016. European Vegetation Archive (EVA): an integrated database of European vegetation plots. Applied Vegetation Science 19: 173–180.
Dengler J, Wagner V, Dembicz I, García-Mijangos I, Naqinezhad A, Boch S, Chiarucci A, Conradi T, Filibeck G, … Biurrun I (2018) GrassPlot – a database of multi-scale plant diversity in Palaearctic grasslands. Phytocoenologia 48: 331–347.
Dengler, J., Jansen, F., Chusova, O., Hüllbusch, E., Nobis, M.P., Van Meerbeek, K., Axmanová, I., Bruun, H.H., Chytrý, M., (…) & Gillet, F. 2023. Ecological Indicator Values for Europe (EIVE) 1.0. Vegetation Classification and Survey 4: 7–29.
Ellenberg H, Weber HE, Düll R, Wirth V, Werner W, Paulißen D (1991) Zeigerwerte von Pflanzen in Mitteleuropa. Scripta Geobotanica 18: 1–248.
Jansen F, Dengler J (2010) Plant names in vegetation databases – a neglected source of bias. Journal of Vegetation Science 21: 1179–1186.
Midolo, G., Herben, T., Axmanová, I., Marcenò, C., Pätsch, R., Bruelheide, H., Karger, D.N., Acic, S., Bergamini, A., Bergmeier, E., Biurrun, I., Bonari, G., Carni, A., Chiarucci. A., De Sanctis, M., Demina, O., (…), Dengler, J., (…) & Chytrý, M. 2023. Disturbance indicator values for European plants. Global Ecology and Biogeography 32: 24–34.
Scherrer D, Guisan A (2019) Ecological indicator values reveal missing predictors of species distributions. Scientific Reports 9: Article 3061.
Tichý, L, Axmanová, I., Dengler, J., Guarino, R., Jansen, F., Midolo, G., Nobis, M.P., Van Meerbeek, K., Aćić, S., (…) & Chytrý, M. 2023. Ellenberg-type indicator values for European vascular plant species. Journal of Vegetation Science 34: e13168.
The scientific name and English-language common name acknowledge the importance of maintaining equitable and safe access to outdoor spaces for all people.
Dr. Chris Martine, Bucknell’s David Burpee Professor, examining a Solanum scalarium plant at its only currently known location on the Escarpment Walk, Judbarra National Park, Northern Territory, Australia. Photo by Angela McDonnell
A new species of Australian bush tomato described from the Garrarnawun Lookout in Judbarra National Park provides a compelling example of the need to provide equal and safe access to natural places. Bucknell University postdoctoral fellow Tanisha Williams and biology professor Chris Martine led the study following a chance encounter with an unusual population of plants during a 2019 research expedition to the Northern Territory.
Martine, who has studied northern Australia’s bush tomatoes for more than 20 years, immediately sensed that the plants were representative of a not-yet-described species, so he, Angela McDonnell (St. Cloud State University), Jason Cantley (San Francisco State University), and Peter Jobson (Northern Territory Herbarium in Alice Springs) combed the local area for plants to closely study and make research collections from. The task was made easier by the fact that the Garrarnawun Lookout is accessible by a set of dozens of human-made stone steps running directly from the unpaved parking area to the peak of the sandstone outcrop – without which the new species might have otherwise gone unnoticed.
The botanists were able to collect numerous new specimens and have now published the new species description in the open-access journal PhytoKeys, choosing the name Solanum scalarium as a nod to the steps leading to the plant and the unusual ladder-like prickles that adorn the flowering stems. The Latin “scalarium” translates to “ladder”, “staircase” or “stairs.”
Photo of Solanum scalarium, a newly-described bush tomato species from the Northern Territory, Australia, showing the unusual ladder-like arrangement of prickles on male floral stems. Plants grown in the Rooke Biology Research Greenhouse at Bucknell University were closely studied by undergraduate student Jonathan Hayes (Biology ‘22) under the supervision of Drs. Tanisha Williams and Chris Martine. Photo by J. Hayes
“This Latin name does relate to the appearance of this species, how it looks,” says first-author Williams. “But it is also a way for us to acknowledge how important it is to create ways for people to interact with nature; not just scientists like us, but everyone.”
Solanum scalarium: immature green fruits enclosed in prickly calyx. Photo by Angela McDonnell
According to the authors, a recent study done by the Department of Local Government, Sport and Cultural Industries in Western Australia found that 8 in 10 people felt it is important to have access to natural spaces, both locally and outside of their current jurisdictions. However, one in three persons felt dissatisfied with the current outdoor spaces available to them and many identified barriers to access and participation in outdoor activities that include urbanization – which is especially credited for the growing number of Australians that lack outdoor experiences.
Importantly, the awareness of who has access and feels safe to participate in outdoor activities is being recognized throughout Australia and the lack of diversity in participation from culturally diverse and marginalized populations has been identified as an issue. Key indices such as ethnic background, socio-economic status, physical abilities and gender, are indicators of low outdoor recreation participation.
“These disparities of who are and are not participating and who feels safe and welcomed are artifacts of historic and current environmental and social injustices,” notes Williams. “To overcome these injustices and increase access and participation from diverse groups, intentional and targeted efforts are needed to provide a range of outdoor experiences that attract people from all of the 270 plus ancestries with which Australians identify with and special attention should be placed on groups historically excluded from outdoor spaces.”
Dr. Tanisha Williams, Bucknell’s Richard E. and Yvonne Smith Post-doctoral Fellow, on the rim of the Wolfe Creek Meteorite Crater during fieldwork in Western Australia in June 2022. Photo by Chris Martine
Also now known as the Garrarnawun Bush Tomato, Solanum scalarium is a distant cousin of the cultivated eggplant and a close relative to a number of other Australian species recently discovered by Martine and colleagues that were also published in PhytoKeys including Solanum plastisexum, named to reflect the diversity of sex forms across Earth’s organisms; and Solanum watneyi, named for the space botanist of the book/film The Martian.
The scientists hope that the naming of this latest new species highlights the importance of building community around natural spaces.
Solanum scalarium in the field, type locality. Photos by Angela McDonnell
“We suggest the use of Garrarnawun Bush Tomato for the English-language common name of the species,” the authors write, “In recognition of the Garrarnawun Lookout near where the type collection was made, a traditional meeting place of the Wardaman and Nungali-Ngaliwurru peoples whose lands overlap in this area.”
Access to nature is not just a concern in Australia.
“In the United States, where most of the authors of this paper are located, “access” is one thing but safety and equitability are another,” says Martine, “The U.S. National Parks Service reports that around 95% of those who visit federal parks are white. Meanwhile, African Americans, Latinos, women, and members of the LGBTQIA+ communities often report feeling unwelcome or unsafe in outdoor spaces.”
“If African Americans, for example, are already apprehensive in a country where they make up 13% of the population, it should be understandable that they are hesitant to be part of a community where they represent as little as 1% of participants.”
Dr. Tanisha Williams, Bucknell’s Richard E. and Yvonne Smith Post-doctoral Fellow, and Dr. Chris Martine, Bucknell’s David Burpee Professor, in Western Australia in June 2022. Photo by Claire Marino
Williams suggests that James Edward Mills, author of The Adventure Gap (2014) put it best:
“It’s not enough to say that the outdoors is free and open for everyone to enjoy. Of course it is! But after four centuries of racial oppression and discrimination that systematically made Black Americans fear for their physical safety, we must also make sure that we create a natural environment where people of color can not only feel welcome but encouraged to become active participants as outdoor enthusiasts and stewards dedicated to the protection of the land.”
Recent Bucknell graduate Jonathan Hayes, who measured and analyzed the physical characters of the new species using plants grown from seed in a campus greenhouse, joins Williams, McDonnell, Cantley, Jobson, and Martine as a co-author on the publication.
Research Article:
Williams TM, Hayes J, McDonnell AJ, Cantley JT, Jobson P, Martine CT (2022) Solanum scalarium (Solanaceae), a newly-described dioecious bush tomato from Judbarra/Gregory National Park, Northern Territory, Australia. PhytoKeys 216: 103-116. https://doi.org/10.3897/phytokeys.216.85972
Which one is the species that springs to mind when you think about the most awesome discoveries in recent times?
In an age where we more than ever need to appreciate and preserve the magnificent biodiversity inhabiting the Earth, we decided to go for a lighter and fun take on the work of taxonomists that often goes unnoticed by the public.
From the ocean depths surrounding Indonesia to the foliage of the native forests of Príncipe Island and into the soils of Borneo, we started with 16 species described as new to science in journals published by Pensoft over the years.
Out of these most amazing creatures, over the past several weeks we sought to find who’s got the greatest fandom by holding a poll on Twitter (you can follow it further down here or via #NewSpeciesShowdown).
Grand Finale – here comes the champion!
Truly, we couldn’t have a more epic final!
The two competitors come from two kingdoms, two opposite sides of the globe, and the “pages” of two journals, namely PhytoKeys and Evolutionary Systematics.
While we need to admit that we ourselves expected to crown an animal as the crowd-favourite, we take the opportunity to congratulate the botanists amongst our fans for the well-deserved win of Nepenthes pudica (see the species description)!
Find more about the curious one-of-a-kind pitcher plant in this blog post, where we announced its discovery following the new species description in PhytoKeys in June 2022:
Back then, N. pudica gave a good sign about its worldwide web appeal, when it broke the all-time record for online popularity in a competition with all plant species described in PhytoKeys over the journal’s 22-year history of taxonomic papers comrpising over 200 issues.
What’s perhaps even more curious, is that there is only one species EVER described in a Pensoft-published journal that has so far triggered more tweets than the pitcher plant, and that species is the animal that has ended up in second place in the New Species Showdown: a tiny amphibian living in Peru, commonly known as the the Amazon Tapir Frog (Synapturanus danta).Which brings us once again to the influence of botanists in taxonomic research.
Read more about its discovery in the blog post from February 2022:
Another thing that struck us during the tournament was that there was only one species described in our flagship journal in systematic journal ZooKeys: the supergiant isopod Bathynomus raksasa, that managed to fight its way to the semi-finals, where it lost against S. danta.
This makes us especially proud with our diverse and competitive journal portfolio full of titles dedicated to biodiversity and taxonomic research!
The rules
Twice a week, @Pensoft would announce a match between two competing species on Twitter using the hashtag #NewSpeciesShowdown, where everyone could vote in the poll for their favourie.
Disclaimer
This competition is for entertainment purposes only. As it was tremendously tough to narrow the list down to only sixteen species, we admit that we left out a lot of spectacular creatures.
To ensure fairness and transparency, we made the selection based on the yearly Altmetric data, which covers articles in our journals published from 2010 onwards and ranks the publications according to their online mentions from across the Web, including news media, blogs and social networks.
We did our best to diversify the list as much as possible in terms of taxonomic groups. However, due to the visual-centric nature of social media, we gave preference to immediately attractive species.
The first tie of the New Species Showdown was between the olinguito: Bassaricyon neblina (see species description) and the “snow-coated” tussock moth Ivela yini (see species description).
In the second battle, we faced two marine species discovered in the Indian Ocean and described in ZooKeys. The supergiant isopod B. raksasa (see species description) won against the Rose Fariy Wrasse C. finifenmaa (see species description) with strong 75%.
✨Tapir “chocolate” frog S. danta claims the #NewSpeciesShowdown victory against the transparent Glass frog H. yaku by 73%! 🙌Congrats to all who voted for the tiny but very pretty frog which was described only this year in @EvolSystematics! pic.twitter.com/kAFrmepyJa
In the third battle, we faced two frog species: the tapir ‘chocolate’ frog described in Evolutionary Systematics (see species description) winning against the ‘glass frog’ described in Zookeys (see species description) with 73%.
With 62% of the votes, the two-species tournament saw the Harryplax severus crab grab the win against another species named after a great wizard from the Harry Potter universe: the Salazar’s pit viper, which was described in the journal Zoosystematics and Evolution in 2020. The “unusual” crustacean was described back in 2017 in ZooKeys. As its species characters matched no genus known to date, the species also established the Harryplax genus.
Earlier this year, the 1st #plant to grow underground pitcher was described in @PhytoKeys & quickly became the most tweeted paper EVER published in our #botany#journal! So, it isn't too hard to see how it won with 68% against the Demon's orchid in this #NewSpeciesShowdown!🔝 1/3 pic.twitter.com/toC6epfVus
With the fifth battle in the New Species Showdown taking us to the Kingdom of Plants, we enjoyed a great battle between the first pitcher plant found to grow its pitchers underground to dine (see the full study) and the Demon’s orchid, described in 2016 from a single population spread across a dwarf montane forest in southern Colombia (read the study). Both species made the headlines across the news media around the world following their descriptions in our flagship botany journal PhytoKeys.
Next, we saw the primitive dipluran Haplocampa wagnelli (read its species description in Subterranean Biology) – a likely survivor of the Ice Age thanks to the caves of Canada – win the public in a duel against Xuedytes bellus (described in ZooKeys in 2017), also known as the Most cave-adapted trechine beetle in the world!
We had a close battle between the Principe Scops-owl Otus bikegila (see species description published in our ZooKeys earlier in 2022) and the blue-tailed Monitor lizard Varanus semotus (also first ‘known’ from the pages of ZooKeys, 2016). Being adorable species, but also ‘castaways’ on isolated islands in the Atlantic, they made great sensations upon their discovery.In fact, the reptile won with a single vote!
In the last battle of Round 1, the ‘horned’ tarantula C. attonitifer claimed the victory with a strong (80%) advantage from its competitor with a rebel name: the freshwater crayfish C. snowden (species description in ZooKeys from 2015). Described in African Invertebrates in 2019, the arachnid might be one amongst many ‘horned’ baboon spiders, yet there was something quite extraordinary about its odd protuberance. Furthermore, it came to demonstrate how little we know about the fauna of Angola: a largely underexplored country located at the intersection of several ecoregions.
In the first quarter-final round, in the close battle, the isopod ’emerged’ from the ocean depths of Indonesia B. raksasa (species description in Zookeys from 2020) claimed the victory with just a few votes difference (58%!) from its competitor: lovely olinguito B. neblina, also described in Zookeys but back in 2013.
After a challenging round, the ‘chocolate’ Tapir #frog S. danta (discovery published in @EvolSystematics) makes it to the semi-final leaving its competitor #crab Harryplax severus behind!
In the second round of the quarter-final, the tapir ‘chocolate’ frog S. danta (described in Evolutionary Systematics this year) claimed the victory with a significant advantage (69%) over its competitor crab H. severus described in Zookeys in 2017.
The third battle in Round 2 secured a place at the semi-finals for the only plant to get this far in the New Species Showdown. If you are dedicated to the mission of proving the plant kingdom superior: keep supporting Nepenthes pudica in the semi-finals and beyond! In the meantime, read the full description of the species, published in our PhytoKeys in June.
The last quarter-final send the Angolan ‘horned’ tarantula to the next round. Described in African Invertebrates in 2019, its discovery would have likely remained a secret had it not been for the local tribes who provided the research team with crucial information about the curious arachnid.
Curiously enough, by winning against the ‘supergiant’ isopod B. raksasa – also known around the Internet as the ‘Darth Vader of the seas’ – the Amazonian anuran S. danta outcompetes the last species in the New Species Showdown representing our flagship taxonomy journal: ZooKeys.
In a dramatic turn of events, the tight match between the Angolan tarantula C. attonitifer , whose ‘horn’ protruding from its back surprised the scientists because of its unique structure and soft texture, and the first pitcher plant whose ‘traps’ can be found underground in Borneo, ended up with the news that the New Species Showdown will be concluding with a battle between the kingdoms Animalia and Plantae! What a denouement!
If you have gone to the Pensoft website at any point in 2022, visited our booth at a conference, or received a newsletter from any of our journals, by this time, you must be well aware that in 2022 – more precisely, on 25 December – we turned 30. And we weren’t afraid to show it!
Pensoft’s team happy to showcase the 30-year story of the company at various events this year. Left: Maria Kolesnikova at the annual Biodiversity Information Standards (TDWG 2022) conference, hosted by Pensoft in Sofia, Bulgaria. Right: Iva Boyadzhieva at the XXVI International Congress of Entomology (ICE 2022) in Helsinki, Finland.
Indeed, 30 is not that big of a number, as many of us adult humans can confirm. Yet, we take pride in reminiscing about what we’ve done over the last three decades.
The truth is, 30 years ago, we wouldn’t have been able to picture this day, let alone think that we’d be sharing it with all of you: our journal readers, authors, editors and reviewers, collaborators in innovation, project partners, and advisors.
Long story short, we wanted to do something special and fun to wrap up our anniversary year. While we have been active in various areas, including development of publishing technology concerning open and FAIR access and linkage for research outcomes and underlying data; and multiple EU-supported scientific projects, we have always been associated with our biodiversity journal portfolio.
Besides, who doesn’t like to learn about the latest curious creature that has evaded scientific discovery throughout human history up until our days? 😉
In 2018, NHM London’s digitisation team started a project to digitise non-type herbarium material from the legume family. A recent data paper in the Biodiversity Data Journal reports on the outcomes.
You can find the original blog post by the Natural History Museum of London, reposted here with minor edits.
Legumes are a group of plants that include soybeans, peas, chickpeas, peanuts and lentils. They are a significant source of protein, fibre, carbohydrates, and minerals in our diet and some, like the cowpea, are resistant to droughts.
The project’s outcomes were published in a data paper in the Biodiversity Data Journal. Within the project, the digitisation team aimed to collectively digitise non-type herbarium material from the legume family. This includes rosewood trees (Dalbergia), padauk trees (Pterocarpus) and the Phaseolinae subtribe that contains many of the beans cultivated for human and animal food.
Guinea, Ethiopia, Sudan, Kenya, Uganda, Tanzania, Mozambique, Malawi and Madagascar
Asian
Bangladesh, Myanmar, Nepal, New Guinea and India
Southern and Central American
Guatemala, Honduras, El Salvador, Nicaragua, Bolivia, Argentina and Brazil
ODA-listed Countries
The legume groups: Dalbergia, Pterocarpus and Phaseolinae,were chosen for digitisation to support the development of dry beans as a sustainable and resilient crop, and to aid conservation and sustainable use of rosewood and padauk trees. Some of these beans, especially cow pea and pigeon pea, are sustainable and resilient crops, as they can be grown in poor-quality soils and are drought stress resistant. This makes them particularly suitable for agricultural production where the growing of other crops would be difficult.
Digitally discoverable herbarium specimens can provide important information about the distribution of individual species, as well as highlighting which species occur naturally together.
While there have been collaborative efforts between herbaria in the past, these have tended to prioritise digitisation of type specimens: the example specimens for which a species is named.
Types are important to identification, but being individual specimens, they don’t offer insights into species distribution over time. By focusing on the non-types across the world and over the last 200 years, we have released a brand-new resource to the global scientific community.
Searching for beans
This collection was digitised by creating an inventory record for each specimen, attaching images of each herbarium sheet, and then transcribing more data and georeferencing the specimens, providing an accurate locality in space and time for their collection.
We originally had four months and three members of staff to digitise over 11,000 specimens. The Covid-19 lockdown was ironically rather lucky for this project as it enabled us to have more time to transcribe and georeference all of the records.
say the researchers behind the digitisation project.
Map showing breakdown of records by country.
“We were able to assign country-level data to 10,857 out of the total number of 11,222 records. We were also able to transcribe the collectors’ names from the majority of our specimen labels (10,879 out of 11,222). Only 770 out of the 2,226 individuals identified during this project collected their specimens in ODA listed countries. The highest contributors were: Richard Beddome (130 specimens), Charles Clarke (110), Hans Schlieben (98) and Nathaniel Wallich (79). The breakdown of records by ODA country can be seen in the chart below. “
Map showing breakdown of records by country and pie chart showing distribution by ODA listed countries.
From our data, we can see the peak decade of collection was the 1930s, with almost half (4,583 specimens or 49,43%) collected between 1900 and 1950 (Fig. 10).
This peak can be attributed to three of our most prolific collectors: Arthur Kerr, John Gossweiler and Georges Le Testu, all of whom were most active in the 1930s. The oldest specimen (BM013713473) was collected by Mark Catesby (1683-1749) in the Bahamas in 1726.
they explain.
An interesting, but perhaps unsurprising, finding is that our collection is strongly male-dominated.
There are only two women (Caroline Whitefoord and Ynes Mexia) in the list of our top 50 plant collectors and they are not close to the most prolific collectors.
We identified more women in the rest of our records, but their contribution is on average less than 25 specimens per person in the dataset consisting of more than 10,000 specimens. In contrast, the top five male collectors contributed 10% of our collection.
they continued
Releasing Rosewoods
Both the Pterocarpus and Dalbergia genera include species that are used as expensive good quality timber that is prone to illegal logging. Many species such as Pterocarpus tinctorius are also listed on the International Union for Conservation of Nature (IUCN) Red List of Threatened Species. By releasing this new resource of information on all these plants from three of the biggest herbaria in the world, we can share this datа with the people who are taking care of biodiversity in these countries. The data can be used to identify hotspots, where the tree is naturally growing and protect these areas. These data would also allow much closer attention to be paid to areas that could be targets for illegal logging activity.
Pterocarpus tinctorius is a species of padauk tree that is listed as endangered on the IUCN Red List.
Cowpea (Vigna unguiculata) is a food and animal feed crop grown in the semi-arid tropics.
The ODA-listed countries are economically impoverished and disproportionately prone to be disadvantaged with the changing climate whether from flood or drought or increase in temperature.
Using data to identify good, nutritious plant species that can be grown in such conditions can therefore benefit local communities, potentially reducing dependence on imports, aid and on less resilient crops.
the team adds in conclusion.
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This dataset is now openly available on the Museum’s Data Portal and a data paper about this work has been released in the Biodiversity Data Journal.
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Stay in touch with the Digitisation team by following us on Instagram and Twitter.
Don’t forget to also follow the Biodiversity Data Journal on Twitter and Facebook.
Recent botanical expeditions in Caquetá department (southeastern Colombia) have uncovered the enormous richness of plant species in this region. Research led by W. Trujillo in the Andean foothills has allowed the unveiling of at least 90 species of Piper in the region, highlighting northwestern Amazonia as one of the richest regions for the genus. Here, four new species of Piper new to science are described.
Andean foothills in Caquetá, Colombia. Photo by William Trujillo
This publication is the result of a collaboration between three institutions and five researchers, each contributing their experience and strengths: main author William Trujillo (Fundación La Palmita), with M. Alejandra Jaramillo (Universidad Militar Nueva Granada), Edwin Trujillo Trujillo, Fausto Ortiz and Diego Toro (Centro de Investigaciones Amazónicas Cesar Augusto Estrada Gonzalez, Universidad de la Amazonia). W. Trujillo, a native of Caquetá, has dedicated the last ten years to the study of Piper species in his department. M. A. Jaramillo has been studying the phylogenetics, ecology and evolution of the genus for more than 20 years. Edwin Trujillo is a local botanist well versed in the flora of Caquetá and the Colombian Amazon. Fausto Ortiz and Diego Toro are trained in plant molecular biology methods and lead this area at Universidad de la Amazonia.
Amazonian slopes of the Andes, Caquetá with Iriartea deltoidea palms. Photo by William Trujillo
Caquetá is situated where the Andes and the Amazon meet in southern Colombia, in the northwestern Amazon. Several researchers have highlighted the importance of the northwest Amazon for high biodiversity and our lack of knowledge of the region. Fortunately, ongoing studies led by W. Trujillo and E. Trujillo are unveiling the immense diversity of plants in Caquetá, showing the importance of local institutions in the knowledge of Amazonian flora. There are many species in the region yet to be described and discovered. Leadership from local institutions and collaboration with experts are vital to appreciating the great relevance of plants from Caquetá.
Piper indiwasii, branch with leaves and spikes. Photo by William Trujillo
Two of the species in this manuscript (Piper indiwasii and Piper nokaidoyitau) bear names inspired by the indigenous tribes that live in Caquetá. The name indiwasii comes from a Quechua word meaning “house of the sun” and is also the name of one of the National Parks where the species lives in southern Colombia. In its turn, nokaidoyitau comes from the Murui language and means “tongue of the toucan,” the way the Murui Indians of the Colombian Amazon call the species of Piper. In fact, local communities rely on these plants for medicinal purposes, using them against inflammations or parasites, or to relieve various ailments.
branch with leaves and spikesbranch with leaves and flowering spikesPiper nokaidolyitau. Photos by William Trujillo
Furthermore, the other two new species (Piper hoyoscardozii and Piper velae) honor two Amazonian naturalists, the authors’ dear friend Fernando Hoyos Cardozo, and Dr. Vela. Fernando, who was a devoted botanist and companion in W. Trujillo’s botanical expeditions. Dr. Vela, a naturalist and conservation enthusiast who sponsored Trujillo’s trips, was killed in 2020. We miss him immensely. His death is a significant loss for the environment in Caquetá.
branch with leaves and fruiting spikesDetails of the leaves base, internodes and fruiting spikePiper velae. Photos by William Trujillo
The team’s joint effort will continue to describe new species, explore unexplored regions, and inspire new and seasoned researchers to dive into the magnificent diversity of the Colombian Amazon.
Piper hoyoscadozii, branch with leaves and fruiting spikes. Photo by Fernando Hoyos
Research article:
Trujillo W, Trujillo ET, Ortiz-Morea FA, Toro DA, Jaramillo MA (2022) New Piper species from the eastern slopes of the Andes in northern South America. PhytoKeys 206: 25–48. https://doi.org/10.3897/phytokeys.206.75971
While every Flora publication is an incredibly valuable scientific resource, Vol. 45 is the first in the series to be made available in digital format, following its publication in the open-access journal PhytoKeys
The 45th volume of the Flora of Cameroon pilots a novel “Flora” section in the journal to promote accessibility and novelty in plant taxonomy
Dedicated to Annonaceae, the 45th volume of the Flora of Cameroon is the result of over 15 years of work on the systematics of this major pantropical group, commonly known as the Custard apple family or the Soursop family, and its diversity in one of the most biodiverse African countries, whose flora has remained understudied to this date.
In their publication, the authors: Thomas L. P. Couvreur, Léo-Paul M. J. Dagallier, Francoise Crozier, Jean-Paul Ghogue, Paul H. Hoekstra, Narcisse G. Kamdem, David M. Johnson, Nancy A. Murray and Bonaventure Sonké, describe 166 native taxa representing 163 species in 28 native genera, including 22 species known solely from Cameroon. The team also provides keys to all native genera, species, and infraspecific taxa, while a detailed morphological description and a distributional map are provided for each species.
Specimen of Uvariastrum zenkeri from Cameroon. Photo by Thomas L.P. Couvreur.
Amongst the findings featured in the paper is the discovery of a previously unknown species of a rare tree that grows up to 6 metres and is so far only known from two localities in Cameroon. As a result of their extensive study, the authors also report that the country is the one harbouring the highest number of African species for the only pantropical genus of Annonaceae: Xylopia.
While every Flora publication presents an incredibly valuable scientific resource due to its scale and exhaustiveness, what makes Volume 45 of the Flora of Cameroon particularly special and important is that it is the first in the series to be made available in digital format, following its publication in the peer-reviewed, open-access journal PhytoKeys.
Available in the open-access scholarly journal PhytoKeys, the latest volume of the Flora of Cameroon features perks like displaying occurrences of treated taxa side-by-side when reading the publication in HTML.
As such, it is not only available to anyone, anywhere in the world, but is also easily discoverable and minable online, as it benefits from the technologically advanced publishing services provided by the journal that have been specially designed to open up biodiversity data. While the full-text publication is machine-readable, hence discoverable by search algorithms, various data items, such as nomenclature, descriptions, images and occurrences, are exported in relevant specialised databases (e.g. IPNI, Plazi, Zenodo, GBIF). In their turn, the readers who access the HTML version of the publication may enjoy the benefits of this semantically enriched format, as they navigate easily within the text, and access further information about the mentioned and hyperlinked taxa.
In fact, the Annonaceae contribution is the first to use the newly launched publication type in PhytoKeys: Flora.
Yet, to keep up with the much treasured tradition, the new publication is also available in print format, accompanied by its classic cover design.
In the field: Narcisse G. Kamdem (Université de Yaoundé I, Cameroon), co-author of the Flora of Cameroon – Annonaceae Vol 45. Photo by Thomas L.P. Couvreur.
When we spoke with the team behind the Flora, we learnt that they are all confident that having the new volume in both print and open-access digital formats, is expected to rekindle the interest in the series, especially amongst younger botanists in Cameroon.
“The hybrid publication is a response to the reluctance to publish new volumes of these series. The hybrid version pioneered in Volume 45, is an opportunity for any scientist to freely access this fundamental work, and eventually use it in future studies. Also, the online and open access format is intended to stimulate botanists to author family treatments without the fear of not having their work published online in an academic journal with an Impact Factor,”
“The chosen format marks a qualitative leap in the presentation of the Flora of Cameroon and will be of interest to young botanists, who until now might have found the old presentation of the Flora unrewarding,” adds Prof. Bonaventure Sonké, last author and Head of the Biology Department of the Université de Yaoundé 1, Cameroon.
In the field: Prof. Bonaventure Sonké, last author and Head of the Biology Department of the Université de Yaoundé 1. Photo by Thomas L.P. Couvreur.
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As an extensive contribution to a previously understudied area of research, the value of the new publication goes beyond its appreciation amongst plant taxonomists.
“The Flore du Cameroun series is considered as a showcase of the National Herbarium of Cameroon, which promotes knowledge of the flora of Cameroon at all levels. Being able to identify plants and trees is the first and foremost step to addressing the issue of ill-management of forest regions in Cameroon and the Congo Basin as a whole. If planning continues to rely on badly made identification, the forecasts about our resources are not good at all,” says Prof. Jean Betti Largarde, Head of the National Herbarium of Cameroon, and Editor-in-Chief of the Flora of Cameroon.
Narcisse G. Kamdem, co-author of the Flora of Cameroon. Photo by Thomas L.P. Couvreur.
“Plant taxonomy is the basic discipline for the knowledge, conservation and sustainable management of biodiversity, including animals, plants and habitats. Young Cameroonian botanists, privileged to having such floristic richness in their country, are invited to take an interest in it. This is the field that opens the mind and makes it possible to address all other aspects of botanical research and development in relation to natural resources,”
adds Jean Michel Onana.
Research article:
Specimen of Sirdavidia solanona in its natural habitat. Photo by Thomas L.P. Couvreur.
Couvreur TLP, Dagallier L-PMJ, Crozier F, Ghogue J-P, Hoekstra PH, Kamdem NG, Johnson DM, Murray NA, Sonké B (2022) Flora of Cameroon – Annonaceae Vol 45. PhytoKeys 207: 1-532. https://doi.org/10.3897/phytokeys.207.61432
For almost 12 years now, PhytoKeys has been providing high-quality, peer-reviewed resources on plant taxonomy, phylogeny, biogeography and evolution, freely available open access.
PhytoKeys, Pensoft’s open-access, peer-reviewed botany systematics journal, has been around for over a decade. Since its launch in 2010, it has published almost 30,000 pages in more than 1,200 works. As PhytoKeys hits the milestone of its 200th issue – which presented a monograph of wild and cultivated chili peppers – there’s plenty to look back to.
For almost 12 years now, PhytoKeys has been providing high-quality, peer-reviewed resources on plant taxonomy, phylogeny, biogeography and evolution, freely available open access.
As our flagship botany journal, PhytoKeys is part of our concerted effort to help advance taxonomic studies. The more we know about biodiversity, the better we are equipped to protect it.
This is why, in a time when so many species are getting wiped out from the face of the Earth before we even become aware of their existence, it is truly exciting that we can sometimes be the bearer of good news.
Take the story of Gasteranthus extinctus from Ecuador – doesn’t its name sound a lot like extinct to you? That’s because the scientists named it based on specimens collected some 15 years earlier. So, they suspected that during the time in between, the species had already become extinct.
Yet, this is a happy-ending story: in a surprising turn of events, the plant was rediscovered 40 years after its last sighting. Gasteranthus extinctus is the hopeful message that we all needed: there’s still so much we can do to protect biodiversity.
Long believed to have gone extinct, Gasteranthus extinctus was found growing next to a waterfall at Bosque y Cascada Las Rocas, a private reserve in coastal Ecuador containing a large population of the endangered plant. Photo by Riley Fortier.
Over the time, we saw some ground-breaking botany research. We welcomed some record-breaking new plant species, such as the 3.6-meter-tall begonia, and the smallest Rafflesia that measures around 10 cm in diameter.
We witnessed the discoveries of some truly beautiful flowers.
We helped unveil some taxonomic mysteries – like the bamboo fossil that wasn’t a bamboo, or the 30-meter new species of tree that was “hiding in plain sight”.
Published less than two months ago, Nepenthes pudica broke all kinds of popularity records at PhytoKeys: it became the journal’s all-time most popular work, with thousands of shares on social media, more than 70 news outlets covering its story, and upward of 70,000 views on YouTube.
Publishing in PhytoKeys is always a pleasure. I appreciate the quick but rigorous peer review process and reasonably short time from initial submission to the final publication.
Every week, PhytoKeys publishes dozens of pages of quality botany research. Every week, we’re amazed at the discoveries made by botanists around the world. In a field that is so rapidly evolving, and with so much remaining to be unveiled, the future sure seems promising!
The three most important taxonomic ranks used to classify organisms are family, genus and species, especially the latter two, which make up the scientific binomials used to communicate about biodiversity, and indeed about all aspects of biology. While the description of a new plant family is now a very rare event, the same is not true for genera. Indeed, delimitation of genera within many plant families remains in a state of considerable flux, because many traditionally recognized genera do not correspond to evolutionary groups. This causes unwelcome instability in scientific names of species and is why work to delimit genera lies at the heart of much current research in systematic botany.
This is very much the case for subfamily Caesalpinioideae, the second largest subfamily of the legume family, which is the focus of this new special issue of the open-access, peer-reviewed journal PhytoKeys. With around 4,600 species of mostly trees, shrubs and lianas, distributed right across the tropics in rainforests, dry forests and savannas, Caesalpinioideae represent a spectacularly diverse lineage of tropical woody plants.
New analyses of DNA sequences of 420 species of Caesalpinioideae presented herereveal that 22 of the 152 currently recognized genera do not coincide with natural evolutionary groups, i.e., in phylogenetic terms, they are non-monophyletic. The aim of this special issue is to re-define as many of these problematic genera as possible in order to bring them into line with natural evolutionary lineages. To achieve this, nine new genera of Caesalpinioideae are described, five previously recognized genera are resurrected, and three genera shown to be nested within other genera are consigned to synonymy.
Many of the species in these new genera are important, conspicuous, ecologically abundant, and, in some cases, geographically widespread trees in tropical forests. For example, the three species of the new genus Osodendron are important large canopy trees in tropical rain forests and riverine gallery forests across a broad swathe of west and central Africa. In recent decades these species have been successively placed in different genera including Cathormion, Samanea and Albizia, among others. The neglected generic placement of these African trees has finally been resolved via analyses of DNA sequences, and a new generic home for them has been established.
In contrast, two of the genera newly described in this special issue, Mezcala and Boliviadendron, each with just a single species, are much more elusive plants occupying very narrowly restricted geographical ranges. Mezcala occurs across just a few square km of the central Balsas Depression in south-central Mexico and Boliviadendron is known from just two interior valleys of the Bolivian Andes. Establishing these two lineages as distinct genera highlights the importance of conserving these globally rare evolutionary lineages.
Choosing names for new taxa is one of the delights and privileges of the practising taxonomist. Derivations of the names of the nine new genera described in this special issue span features of the plants themselves and the locations where they grow, as well as names of fellow legume researchers honoured with genera named in recognition of their contributions. For example, Osodendron is named after ‘Oso’ a food that is prepared in West Africa from seeds of one of the species now placed in the new genus. Mezcala is named for the indigenous Mezcala culture of the Balsas region in Mexico where the genus is found. Boliviadendron is named as such because it is a tree that grows in Bolivia and nowhere else. The new genus name Heliodendron is derived from the Greek helios (sun) and dendron (tree) because it grows in the sunshine state of Queensland in Australia and its flowers are arranged in sun-like globose heads.
Leaves and fruits of the new genus Naiadendron from Amazonian rainforest. Photo by Glocimar Pereira-Silva
Finally, Naiadendron celebrates the Brazilian Amazon where the genus grows, and the famous German botanist Carl Friedrich Philipp von Martius (1794–1868), who named the Brazilian Amazon after the Naiads, Greek mythology’s nymphs of freshwater.
Four of the genera newly described in this Special Issue are named after prominent contemporary legume taxonomists, three women and one man: Gretheria for Rosaura Grether, a Mexican specialist on the genus Mimosa, Ricoa for Lourdes Rico, another Mexican botanist who worked on legumes based at Kew, Marlimorimia, in honour of Marli Pires Morim of the Jardim Botânico do Rio de Janeiro, Brazil in recognition of her contributions to the taxonomy of mimosoid legumes, and Gwilymia named for Gwilym Lewis, in honour of one of the world’s most experienced and productive legume taxonomists who is legume research leader in the Herbarium at the Royal Botanic Gardens, Kew.
The new genus Gwilymia in Brazil. Photos by Marcelo Simon
One of the central achievements of the work on Caesalpinioideae presented in this Special Issue is that for the first time a truly pantropical analysis of this large group of plants has been accomplished. A global synthesis is essential to work out how many genera there are.
For example, by sampling across Asia, Africa, Madagascar, North and South America, it has become clear that the Old World species of the important pantropical genus Albizia are not closely related to Albizia in the Americas, prompting splitting of the genus and resurrection of the name Pseudalbizziafor the New World species. All elements of the former Albizia – the last so-called ‘dustbin’ genus in the mimosoid legumes – are accounted for in this special issue (here, here and here). Similarly, the genus Prosopis, one of the most important silvopastoral tree genera of the dryland tropics, has traditionally encompassed elements spanning the New and Old Worlds that are here shown to comprise four distinct evolutionary lineages, two in the Old World and two in the Americas, here treated as four separate genera.
Changes to the scientific names of species are not always immediately welcomed by users, but over time, establishment of a classification that is based on robust evidence about evolutionary history will result in greater nomenclatural stability and in named taxa that are aligned with natural groups and hence biologically more informative. This special issue, reshaping the generic system of a species-rich group of legumes, is an important step towards that goal.
Photo credits: Globimar Pereira-Silva, Steen Christensen, William Hawthorne, Colin Hughes, Luciano de Queiroz, Marcelo Simon.
