Tag: taxonomy

Pensoft journals integrated with Catalogue of Life to help list the species of the world

While not every taxonomic study is conducted with a nature conservation idea in mind, most ecological initiatives need to be backed by exhaustive taxonomic research. There simply isn’t a way to assess a species’ distributional range, migratory patterns or ecological trends without knowing what this species actually is and where it is coming from.

In order to facilitate taxonomic and other studies, and lay the foundations for effective biodiversity conservation in a time where habitat loss and species extinction are already part of our everyday life, the global organisation Catalogue of Life (CoL) works together with major programmes, including GBIF, Encyclopedia of Life and the IUCN Red List, to collate the names of all species on the planet set in the context of a taxonomic hierarchy and their distribution.

Recently, the scholarly publisher and technological provider Pensoft has implemented a new integration with CoL, so that it joins in the effort to encourage authors publishing global taxonomic review in any of the publisher’s journals to upload their taxonomic contributions to the database.

Whenever authors submit a manuscript containing a world revision or checklist of a taxon to a Pensoft journal, they are offered the possibility to upload their datasets in CoL-compliant format, so that they can contribute to CoL, gain more visibility and credit for their work, and support future research and conservation initiatives.

Once the authors upload the dataset, Pensoft will automatically notify CoL about the new contribution, so that the organisation can further process the knowledge and contact the authors, if necessary.

In addition, CoL will also consider for indexing global taxonomic checklists, which have already been published by Pensoft.

It is noteworthy to mention that unlike an automated search engine, CoL does not simply gather the uploaded data and store them. All databases in CoL are thoroughly reviewed by experts in the relevant field and comply with a set of explicit instructions.

“Needless to say that the Species 2000 / Catalogue of Life community is very happy with this collaboration,” says Dr. Peter Schalk, Executive Secretary.

“It is essential that all kinds of data and information sharing initiatives in the realm of taxonomy and biodiversity science get connected, in order to provide integrated quality services to the users in and outside of our community. The players in this field carry responsibility to forge partnerships and collaborations that create added value for science and society and are mutually reinforcing for the participants. Our collaboration is a fine example how this can be achieved,” he adds.

“With our extensive experience in biodiversity research, at Pensoft we have already taken various steps to encourage and support data sharing practices,” says Prof. Lyubomir Penev, Pensoft’s founder and CEO. To better serve this purpose, last year, we even published a set of guidelines and strategies for scholarly publishing of biodiversity data as recommended by our own experience. Furthermore, at our Biodiversity Data Journal, we have not only made the publication of open data mandatory, but we were also the first to implement integrated narrative and data publication within a single paper.”

“It only makes sense to collaborate with organisations, such as Catalogue of Life, to make sure that all these global indexers are up-to-date and serve the world’s good in preserving our wonderful biodiversity,” he concludes.

Named after Stanley Kubrick, a new species of frog is a ‘clockwork orange’ of nature

Two new treefrog species were discovered in the Amazon Basin of Bolivia, Peru, and Brazil. Both had been previously misidentified as another superficially identical species.

Curiously, one of them received a name translating to ‘demon’ or ‘devil’. The second one was named in honor of famous American filmmaker Stanley Kubrick, because of his masterpiece A Clockwork Orange.

Having conducted analyses of genetic, morphologic, and bioacoustic data, scientists C. Daniel Rivadeneira, Dr. Pablo J. Venegas, and Dr. Santiago R. Ron concluded that the amphibians represented two previously unknown species that used to go by the name of the Sarayacu treefrog (Dendropsophus parviceps).

As a result of this research collaboration between Ecuador’s Catholic University (PUCE) and Peru’s Centro de Ornitología y Biodiversidad (CORBIDI), the treefrogs were recently described as new to science in the open access journal ZooKeys.

The scientists remind that, back in 1972, when Anthony Burgess explained the title of his famous novel A Clockwork Orange, he said: “I’ve implied the junction of the organic, the lively, the sweet – in other words, life, the orange – and the mechanical, the cold, the disciplined (…)”

“Without knowing, he was also giving a good metaphor to describe ecosystems,” comment the researchers. “Nature works as the interplay between life and its cold, mechanical, and disciplined physical matrix.”

Furthermore, both new frogs, scientifically listed as D. kubricki and D. kamagarini, are characterized by having a bright orange blotch on the shanks, reminiscent of the ‘orange pieces of nature’.

On the other hand, the species name kamagarini refers to ‘demon’ or ‘devil’, as per its translation from the Matsigenka language spoken in southeastern Peru. One of the characteristic features of the new species D. kamagarini are namely its horn-like protuberances on the upper eyelids.

Amphibians are important pieces in ecosystems as secondary consumers in food chains. They also play a significant role in decomposition and nutrient cycling.

Stanley Kubrick – arguably one of the most brilliant and influential film directors of all time – left an immemorial legacy in cinema. His masterpiece, A Clockwork Orange (1971), was based on Anthony Burgess’s 1962 novel of the same name.

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Original source:

Rivadeneira CD, Venegas PJ, Ron SR (2018) Species limits within the widespread Amazonian treefrog Dendropsophus parviceps with descriptions of two new species (Anura, Hylidae). ZooKeys 726: 25-77. https://doi.org/10.3897/zookeys.726.13864

Seven new spider species from Brazil named after 7 famous fictional spider characters

Several literary classics from the fantasy genre are further immortalised and linked together thanks to a Brazilian research team who named seven new spiders after them.

Spider characters from A Song of Ice and Fire, Harry Potter, The Lord of the Rings, The Silmarillion, H. P. Lovecraft’s The Call of Cthulhu and the children’s favourite Charlotte’s Web and Little Miss Spider each gave a name to a new small cave-dwelling six-eyed spider inhabiting northern Brazil.

Discovered in iron caves across the state of Pará, northern Brazil, the new species belong to the same Neotropical genus Ochyrocera. They are described in a new research article published in the open access journal ZooKeys by Dr Antonio Brescovit, Dr Igor Cizauskas and Leandro Mota – all affiliated with Instituto Butantan, Sao Paulo.

Interestingly, while all seven previously unknown species prefer staying in the shadows underground, none of them has the adaptations characteristic for exclusively cave-dwelling organisms, such as loss of pigmentation and reduced or missing eyes. They are classified as edaphic troglophile species, which means that they are capable of completing their life cycle away from sunlight, but are not bound to the deepest recesses. Often crawling near the surface, they can even be spotted outside the caves. To describe the species, the scientists collected about 2,000 adult specimens following a 5-year series of field collection trips.

The list of ‘fantasy’ spiders begins with Ochyrocera varys named after Lord Varys from George R. R. Martin’s book series A Song of Ice and Fire. Lord Varys is also known as the Spider because of his manipulative skills and ability to ‘weave’ and command his networks of eyes-and-ears across two continents.

The name of Ochyrocera atlachnacha refers to the Spider God Atlach-Nacha from the universe created by H. P. Lovecraft. Atlach-Nacha is a giant spider with a human-like face which lives in the caves beneath a mountain and spins a web believed to link the world with the Dreamlands.

Two species are named after spider characters from the classic works by J. R. R. Tolkien. Ochyrocera laracna is a species named after the well-known giant spider Laracna (Shelob in English) who attacks main characters Frodo and Sam on their way to Mordor in The Lord of the Rings’ second volume – The Two Towers.

On the other hand, the Brazilian spider’s sibling – Ochyrocera ungoliant – is linked to Laracna’s mother. Ungoliant appears in Tolkien’s book The Silmarillion, whose events take place prior to those of The Lord of the Rings’ second volume The Two Towers. According to the story, Ungoliant translates to Dark Spider in Elvish.

Another staple in the 20th-century fantasy literature, the Harry Potter series, written by J. K. Rowling, also enjoys the attention of the researchers. The species Ochyrocera aragogue is an explicit reference to the talking Aragog, who lives in the dark recesses of the Forbidden Forest. In the second volume of the series, Harry Potter and the Chamber of Secrets, he confronts Harry Potter and Ron Weasley.

The authors do not fail to pay tribute to much less violent spiders known from popular children books. David Kirk’s Little Miss Spider inspires the name of Ochyrocera misspider. The character is remembered with her words: “We have to be good to bugs; all bugs.”

The Ochyrocera charlotte species refers to Charlotte, the spider from E. B. White’s classic Charlotte’s Web who befriends the main character – Wilbur the pig.

It is highly likely that there are many species and populations of this group of spiders yet to be discovered in the Neotropics, since the lack of previous studies in the region. However, the area and its biodiversity are impacted by mining.

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Original source:

Brescovit AD, Cizauskas I, Mota LP (2018) Seven new species of the spider genus Ochyrocera from caves in Floresta Nacional de Carajás, PA, Brazil (Araneae, Ochyroceratidae). ZooKeys 726: 87-130. https://doi.org/10.3897/zookeys.726.19778

Three new species of zoantharians described from coral reefs across the Indo-Pacific

One of them was named after the president of Palau, Tommy Remengesau, in honour of his and the nation’s support to the authors and marine conservation

Three new species of zoantharians were discovered by researchers from the University of the Ryukyus and Kagoshima University, Japan, and the Palau International Coral Reef Center. Despite not being previously known, all three species were found widely across the Indo-Pacific, with at least two species found in the Red Sea, the Maldives, Palau, and southern Japan.

Zoantharians, or colonial anemones, include species popular in the pet trade such as Zoanthus or Palythoa, but the new species are all much more cryptic, living in marine caves, cracks, or at depths below most recreational SCUBA diving (>20 m). The research was published December 29, 2017, in the open-access journal ZooKeys.

The three new species belong to the genus Antipathozoanthus, which contains species that only live on top of black coral colonies. However, surprisingly, one of the new species does not live on black corals, but instead in narrow cracks in coral reefs.

“We think that the new species, Antipathozoanthus obscurus, has evolved away from needing to be on top of black corals to take advantage of the available space in coral reef cracks”, said lead researcher Hiroki Kise.

“This is yet another example of how much diversity is right underneath our noses, but we still know nothing about it.”

Coral reefs, which are widely threatened by rising temperatures from global warming, are generally believed to harbour very high numbers of species, including yet many undescribed or unknown species.

Amongst the other two new species is Antipathozoanthus remengesaui, named after the current president of Palau, Tommy Remengesau.

“Much of our work was based in Palau”, said senior author Dr. James Reimer, “and we wished to acknowledge the fantastic support we have received from the nation. Palau is considered at the forefront of marine conservation, and much of this is thanks to President Remengesau’s vision.”

While the new discoveries shed more light on our understanding of coral reef biodiversity, this work is far from done. In fact, the researchers themselves estimate they still have up to ten more zoantharian species to describe from the waters of Palau and Okinawa.

“Marine diversity of coral reefs is amazing, with new surprises all the time”, said Kise, “and biodiversity scientists still have a lot more work to do.”

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Original source:

Kise H, Fujii T, Masucci GD, Biondi P, Reimer JD (2017) Three new species and the molecular phylogeny of Antipathozoanthus from the Indo-Pacific Ocean (Anthozoa, Hexacorallia, Zoantharia). ZooKeys 725: 97-122. https://doi.org/10.3897/zookeys.725.21006

Evolutionary Systematics joins Pensoft’s portfolio of open access scholarly journals

Evolutionary Systematics is the latest authoritative journal to join the lines of the open access titles published on the Pensoft-developed technologically advanced journal publishing platform ARPHA.

Launched in 1884 and 1912, respectively, University of Hamburg’s journal Mitteilungen aus dem Hamburgischen Zoologischen Museum und Institut and Entomologische Mitteilungen are now resurrected under the name of Evolutionary Systematics.

Rebranded and refreshed, the journal has acquired a long list of technological user-friendly innovations, while simultaneously keeping its well-known expertise and devotion to whole-organism biology and collection-related research.

Its first issue in collaboration with Pensoft comprises two editorials dedicated to the extensive tradition and the bright future of the journal along with seven articles are already live on the journal’s new website.

Right underneath the new sleek look and feel welcoming users from the journal’s homepage, there are a lot of high-tech perks to benefit authors, readers, reviewers and editors alike.

Thanks to the fast-track and convenient publishing provided by ARPHA, each manuscript is carried through all stages from submission and reviewing to dissemination and archiving without ever leaving the platform’s singular collaboration-friendly online environment.

Furthermore, all publications are available in three formats (PDF, XML, HTML), complete with a whole set of semantic enhancements, so that the articles are easy to find, accessed and harvested by both humans and machines.

“We are happy to have joined forces with Lyubomir Penev and his professional team at Pensoft Publishers, once again now after having already successfully established together Zoosystematics and Evolution as an international journal of the Berlin Natural History Museum,” say editors Prof. Dr. Matthias Glaubrecht, Prof. Dr. Andreas Schmidt-Rhaesa and Dr. Martin Husemann.

“Certainly, I’m pleased to welcome Evolutionary Systematics to the family of Pensoft,” says the publisher’s founder and CEO Prof. Lyubomir Penev. “Combining our own solid experience in scholarly publishing with their amazing background, dating back to 19th century, will definitely benefit not only the two of us as collaborators, but all our present and future readers and users as well.”

Amongst the first papers, there is the description of the Bob Marley’s Intertidal Spider – a new arachnid species that emerged at low tide to the surprise of the research team of Drs. Barbara Baehr, Robert Raven and Danilo Harms. Once the scientists concluded it was a previously unknown species, they were quick to associate it with the reggae legend’s song “High Tide or Low Tide”.

The first issue also features the description of the Grey Wolf Spider – a common, yet enigmatic new species, which prompted the establishment of a new genus all to itself. The inaugural issue goes on to also announce as many as seven species of goblin spiders new to science . Their discovery results from a genus review involving a significant collection from the Otonga Nature Reserve, Ecuador.

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Additional information:

About Pensoft:

Pensoft is an independent academic publishing company, well-known worldwide for its innovations in the field of semantic publishing, as well as for its cutting-edge publishing tools and workflows. In 2013, Pensoft launched the first ever end to end XML-based authoring, reviewing and publishing workflow, as demonstrated by the Pensoft Writing Tool (PWT) and the Biodiversity Data Journal (BDJ), now upgraded to the ARPHA Publishing Platform. Flagship titles include: Research Ideas and Outcomes (RIO), One Ecosystem, ZooKeys, Biodiversity Data Journal, PhytoKeys, MycoKeys, and more.

New species of marine spider emerges at low tide to remind scientists of Bob Marley

It was 02:00h on 11 January 2009 when the sea along the coastline of Australia’s “Sunshine State” of Queensland receded to such an extent that it exposed a population of water-adapted spiders. The observant researchers who would later describe these spiders as a species new to science, were quick to associate their emergence with reggae legend Bob Marley and his song “High Tide or Low Tide”.

In their paper, published in the open access journal Evolutionary Systematics, the team of Drs. Barbara Baehr, Robert Raven and Danilo Harms, affiliated with Queensland Museum and the University of Hamburg, describe the new Bob Marley’s intertidal spider and also provide new information on two of its previously known, yet understudied, relatives from Samoa and Western Australia.

Unlike the spiders which people are familiar with, the intertidal species, whose representative is Bob Marley’s namesake, are truly marine. They have adapted to the underwater life by hiding in barnacle shells, corals or kelp holdfast during high tide. To breathe, they build air chambers from silk. Once the sea water recedes, though, they are out and about hunting small invertebrates that roam the surfaces of the nearby rocks, corals and plants.

The new species, listed under the scientific name of Desis bobmarleyi, is described based on male and female specimens spotted and collected from brain coral on that night in January.

Both sexes are characterised by predominantly red-brown colours, while their legs are orange-brown and covered with a dense layer of long, thin and dark grey hair-like structures. The females appear to be larger in size with the studied specimen measuring nearly 9 mm, whereas the male was about 6 mm long.

While the exact distribution range of the newly described species remains unknown, it is currently recorded from the intertidal zones of the Great Barrier Reef on the north-eastern coast of Queensland.

“The song ‘High Tide or Low Tide’ promotes love and friendship through all struggles of life,” explain the authors for their curious choice of a name. “It is his music that aided a field trip to Port Douglas in coastal Queensland, Australia, to collect spiders with a highly unique biology.”

Apart from reporting their research, the scientists use their paper to pay tribute to a German naturalist from the late 19th century – Amalie Dietrich, as well as the famous Jamaican singer and songwriter. Both admirable figures, even if representative of very different fields, are seen by the authors as examples of “the adventurous and resilient at heart” human nature in pursuit of freedom and independence.

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Original source:

Baehr BC, Raven R, Harms D (2017) “High Tide or Low Tide”: Desis bobmarleyi sp. n., a new spider from coral reefs in Australia’s Sunshine State and its relative from Sāmoa (Araneae, Desidae, Desis). Evolutionary Systematics 1: 111-120. https://doi.org/10.3897/evolsyst.1.15735

Citizen scientists discover 6 new species of beetles in Borneo

Scientists estimate that 80% of the world’s animal and plant species are still unknown. Although the work of taxonomists (whose job is to describe and name those) is appreciated by the general public, funding for taxonomy is dwindling. Moreover, while the areas hosting most of the unknown biodiversity are under threat, time is running out.

To help solve this problem, Taxon Expeditions has become the first organisation in the world to initiate field courses for citizen scientists in biodiversity hotspots, with the aim of discovering, describing, naming, and publishing new species under the slogan “You can be Darwin too”.

“Relying on extra hands means that unknown species can be discovered faster and,” says Taxon Expeditions director and biologist Dr. Iva Njunjic, “for some of that work, you don’t even need to be a trained taxonomist.”

Taxon Expedition’s first field course to the remote 30-kilometre-wide Maliau Basin in Malaysian Borneo, yielded six new species. Three of those, all tiny beetles living in rainforest leaf litter, are published today in the Biodiversity Data Journal. The other three, belonging to the family Elmidae (riffle beetles) will be published next year.

Citizen scientists discovered these species during a field exercise employing the method of ‘Winkler extraction’. Using this technique, dead leaves are collected from the rainforest floor before being sieved, so that hundreds of tiny soil-dwelling insects can be revealed.

Professor Menno Schilthuizen recognised three of those as new species. Under his guidance, the participants studied, photographed and drew the specimens in the expedition’s field lab, extracted their DNA and finalised a draft ready for publication.

The participants also came up with the original names for the three new species. English teacher Sean Otani from Japan decided to name Colenisia chungi after Malaysian entomologist Arthur Chung. The names for Clavicornaltica sabahensis and Dermatohomoeus maliauensis referring to the studied sites were suggested by staff and rangers of Maliau Conservation Area during the farewell party for the course.

All collected samples are deposited in the insect collection of Universiti Malaysia Sabah and the rest of the results – in online databases. This way, these discoveries will help other biologists working on Borneo’s biodiversity.

In March 2018, Taxon Expeditions will again head for Maliau Basin with a new group of participants, hopefully discovering more new species for science. Meanwhile, this year’s team look back on having contributed to real scientific discoveries.

“I had no idea how different, how exciting, how interesting it was going to be. It has been an amazing experience,” says retired corporate account manager Mary Erickson from Canada.

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Original source:

Schilthuizen M, Seip LA, Otani S, Suhaimi J, Njunjic I (2017) Three new minute leaf litter beetles discovered by citizen scientists in Maliau Basin, Malaysian Borneo (Coleoptera: Leiodidae, Chrysomelidae). Biodiversity Data Journal 5: e21947. https://doi.org/10.3897/BDJ.5.e21947

A genus of European paper wasps revised for the first time using integrative taxonomy

The European and Mediterranean species of the paper wasp genus Polistes were recently revised by scientists at the SNSB-Zoologische Staatssammlung München (ZSM).

For the first time for this group scientists applied an integrative taxonomic approach which combines traditional morphological methods with modern DNA barcoding.

As a result, the researchers were able to identify a new species from Morocco. For this well-researched wasp group, this is an actual sensation.

The study is published in the open access journal ZooKeys.

The Munich researchers analysed more than 260 wasp specimens collected from across the study area with the help of DNA barcoding.

They managed to identify all species and determine their distribution. In addition, based on the genetic data, they were able to evaluate morphological characters for each species and created a completely new key for identification.

The wasps of the genus Polistes belong to the family Vespidae. The genus is represented by 17 species in Europe and the Mediterranean, with four species occurring in Germany. Within the genus, 13 species are social, with the queen overwintering and founding a new nest with up to 200 workers. Four species are parasitic and have no workers.

Although Polistes has been well-known in Central Europe for more than 200 years, knowledge of Mediterranean species has so far been scarce. Many species of the genus exhibit only subtle morphological differences and show high levels of colour variation, further complicating their identification.

An important result of this research is the separation of species of the Polistes gallicus species complex into three distinct species. Moreover, the genetic data led to the discovery of a new species, represented by a single specimen from the High Atlas Mountains in Morocco. This was an unexpected result for the researchers. The species was named Polistes maroccanus.

Another very surprising result was the discovery of high levels of genetic variation within Polistes dominula, a species commonly found in Central Europe, indicating the presence of up to three different and hitherto unrecognized species – a case requiring further investigation.

Integrative taxonomy is an approach that combines different scientific methods to reliably differentiate species. In particular, DNA barcoding has proven to be a useful technique for the identification of species and for the discovery of new species. The method allows to identify most species quickly and accurately, even those species that are difficult to identify using traditional methods based on morphological characters.

DNA barcoding uses a short gene fragment that differs in almost all species worldwide. The sequences are stored in an online database and can be used for identification. The method derives its name for being reminiscent of the barcodes similar to those found on products in supermarkets that allow quick and error-free identification at the checkout.

DNA barcoding is part of a global research initiative led by the Canadian scientist Paul Hebert from the University of Guelph. The ZSM is a project partner and involved in assembling DNA barcodes of the German animal species. In addition to ZSM researchers, scientists from Switzerland and the Netherlands contributed to the Polistes project.

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Original source:

Schmid-Egger C, van Achterberg K, Neumeyer R, Morinière J, Schmidt S (2017) Revision of the West Palaearctic Polistes Latreille, with the descriptions of two species – an integrative approach using morphology and DNA barcodes (Hymenoptera, Vespidae). ZooKeys 713: 53-112. https://doi.org/10.3897/zookeys.713.11335

Artificial neural networks could power up curation of natural history collections

Deep learning techniques manage to differentiate between similar plant families with up to 99 percent accuracy, Smithsonian researchers reveal

Millions, if not billions, of specimens reside in the world’s natural history collections, but most of these have not been carefully studied, or even looked at, in decades. While containing critical data for many scientific endeavors, most objects are quietly sitting in their own little cabinets of curiosity.

Thus, mass digitization of natural history collections has become a major goal at museums around the world. Having brought together numerous biologists, curators, volunteers and citizens scientists, such initiatives have already generated large datasets from these collections and provided unprecedented insight.

Now, a study, recently published in the open access Biodiversity Data Journal, suggests that the latest advances in both digitization and machine learning might together be able to assist museum curators in their efforts to care for and learn from this incredible global resource.

A team of researchers from the Smithsonian Department of Botany, Data Science Lab, and Digitization Program Office recently collaborated with NVIDIA to carry out a pilot project using deep learning approaches to dig into digitized herbarium specimens.

*Smithsonian researchers classifying digitized herbarium sheets.*

Their study is among the first to describe the use of deep learning methods to enhance our understanding of digitized collection samples. It is also the first to demonstrate that a deep convolutional neural network–a computing system modelled after the neuron activity in animal brains that can basically learn on its own–can effectively differentiate between similar plants with an amazing accuracy of nearly 100%.

In the paper, the scientists describe two different neural networks that they trained to perform tasks on the digitized portion (currently 1.2 million specimens) of the United States National Herbarium.

The team first trained a net to automatically recognize herbarium sheets that had been stained with mercury crystals, since mercury was commonly used by some early collectors to protect the plant collections from insect damage. The second net was trained to discriminate between two families of plants that share a strikingly similar superficial appearance.

*Sample herbarium specimen image of stained clubmoss.*

The trained neural nets performed with 90% and 96% accuracy respectively (or 94% and 99% if the most challenging specimens were discarded), confirming that deep learning is a useful and important technology for the future analysis of digitized museum collections.

“The results can be leveraged both to improve curation and unlock new avenues of research,” conclude the scientists.

“This research paper is a wonderful proof of concept. We now know that we can apply machine learning to digitized natural history specimens to solve curatorial and identification problems. The future will be using these tools combined with large shared data sets to test fundamental hypotheses about the evolution and distribution of plants and animals,” says Dr. Laurence J. Dorr, Chair of the Smithsonian Department of Botany.

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Original source:

Schuettpelz E, Frandsen P, Dikow R, Brown A, Orli S, Peters M, Metallo A, Funk V, Dorr L (2017) Applications of deep convolutional neural networks to digitized natural history collections. Biodiversity Data Journal 5: e21139. https://doi.org/10.3897/BDJ.5.e21139

New open-access journal Metabarcoding & Metagenomics joins the lines of publisher Pensoft

The new innovative academic journal makes use of the one-of-a-kind publishing platform ARPHA and its collaborative writing tool via the ARPHA-XML workflow

A new innovative open-access academic journal Metabarcoding and Metagenomics (MBMG) is launched to welcome novel papers from both basic and applied aspects.

Focusing on genetic approaches to study biodiversity across all ecosystems, MBMG covers a considerably large scope of research including environmental, microbial and applied metabarcoding and metagenomics (especially DNA-based bioassessment and -monitoring, quarantine, nature conservation, species invasions, eDNA surveillance), as well as associated topics, such as molecular ecology, DNA-based species delimitation and identification, and other emerging related fields. Submissions of bioinformatic approaches to MBMG (algorithms, software) are also encouraged.

Featuring novel article formats and data publishing workflows, MBMG is to reflect the rapid growth in the use of metabarcoding and metagenomics in life and environmental sciences.

Issued via ARPHA – the first ever publishing platform to support manuscripts all the way from authoring to peer review to publication and dissemination, designed by the academic publisher and technology provider Pensoft, the new journal is to host a wide range of outcomes from across the research cycle, including data, models, methods, workflows, software, perspectives, opinions, implementation strategies, as well as conventional research articles.

While the above-mentioned publication types are already available in other journals published on the ARPHA platform, such as Research Ideas and Outcomes (RIO), Biodiversity Data Journal and One Ecosystem, MBMG provides five extra domain-specific article types, namely: Emerging Technique, Applied Study, DNA Barcode Release, Primer Validation and Probe Validation.

The journal’s articles are to be available in three formats (PDF, XML, HTML) and full of semantic enhancements for better human- and machine-readability and discoverability. The XML-based workflow also ensures that content and data are available for extraction, indexing and re-use immediately after publication.

With Pensoft standing for transparent, reproducible and open science, the authors at MBMG are strongly encouraged to make all data publicly available either within the publication itself, or to link to external repositories. In their turn, the peer reviewers are also suggested to provide public access to their reviews and identities.

In time for the launch, MBMG has already gathered a team of experienced and renowned scientists from across the globe together on its editorial and advisory board.

“I am pleased to introduce the Metabarcoding and Metagenomics journal to the family of Pensoft,” says Prof. Lyubomir Penev, Founder and Managing Director at Pensoft. “With its exhaustive scope and advanced services and concept, I believe it fills fantastically a niche in our strong portfolio of mostly biodiversity- and ecology-themed journals.”

“Metabarcoding and metagenomics approaches are rapidly progressing and revolutionise research and its application alike,” Chief Editor Prof. Florian Leese states. “With the MBMG journal we provide an ideal platform to respond to this rapidly growing field, nucleate the emerging knowledge and stimulate further development.”

The first batch of research papers published in MBMG are now available on their new website.

“MBMG not only complements the range of journals in the field of molecular environmental life sciences, but also stands out as a novel outlet providing several unique features designed to help researchers to prepare for, and professionally deal with, the massive “deluge” of data,” reads the Editorial.

To celebrate the launch, MBMG starts with a tempting offer to potential authors: publishing will be completely free of charge during the beginning stages of the journal.

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