Pensoft blog - Part 92

As Good as Gold: Publishing platform ARPHA is proud supporter of Peer Review Week 2016 and Gold star sponsor of Publons’ Sentinels of Science

In the heat of this year’s Peer Review Week, themed “Recognition for Review”, we would like to express how and why we are so proud to be part of it and Publons’ initiative Sentinels of Science, meant to recognize the true guardians of quality science, or in other words, the peer reviewers.

Being a high-tech and modern publishing solution, developed by Pensoft with the mindset that to adapt to the future, means to innovate, ARPHA itself was set to take the quite stagnant current peer review practice forward from day one.

This is why and how we provide a range of peer review options for every author submitting their work to any journal, published on the ARPHA platform. For example, here are the four-stages of the open peer review process operating in our flagship Research Ideas and Outcomes (RIO) Journal:

Author-organised, pre-submission review, available to all journals that make use of our ARPHA Writing Tool, which is our way to take the common get-a-friend-to-proofread-your-work practice to a whole new, transparent and technologically facilitated level. The review happens in real time with the author and the reviewers being able to work together in the ARPHA online environment. It is not mandatory, but we encourage it strongly. All pre-submission reviews provided on authors’ request in RIO can be published along with the article, bearing DOI and citation details.
Pre-submission technical and editorial check is another benefit, provided by the journal’s editorial office to those who are using the ARPHA Writing Tool. If necessary, it can take up several rounds, until the manuscript is improved to the level appropriate for direct submission to the journal.
The community-sourced, post-publication, open peer review is the next review stage provided to all articles published in RIO and all other ARPHA journals.
In addition, RIO also provides journal-organised, post-publication open peer review upon author’s request. In all other ARPHA journals this review stage happens mandatory before publication.

To facilitate peer review in any journal published on the platform, ARPHA consolidates every review automatically into a single online file, which makes it possible for reviewers to comment in real time, even during the authoring process. Once posted, the whole peer review history is archived along with the associated files.

To recognize peer review even further, ARPHA registers automatically each of our peer reviewers, along with their work, on Publons, thanks to the integration of all Pensoft journals with the platform, created to credit reviewers and their contributions.

With this vision of peer review, we simply could not stay clear of the aspiring Sentinels of Science initiative, started by Publons. It only made sense for us to step in, which logically led to the ARPHA logo appearing in the Gold star sponsors list.

On Friday, 23rd September, Publons will announce the recipients of the inaugural Sentinels of Science Award – the top reviewers and editors for the past year. So, tune in this Friday at 4:00 P.M. (BST) and do not forget to join the Twitter conversation via hashtags #PeerRevWk16 and #RecognizeReview.

Living together in mud: New bivalve species dwelling on a sea cucumber discovered in Japan

Most bivalves live in sand or mud or attached to rock surface. However, a new bivalve species described from Japan lives on a sea cucumber.

Ryutaro Goto, postdoctoral fellow in Museum of Zoology and Department of Ecology and Evolutionary Biology, University of Michigan, and Hiroshi Ishikawa, amateur malacologist in Japan, have their paper, describing the new species, published in the open access journal ZooKeys.

The new species, named Borniopsis mortoni(Galeommatoidea), was discovered in mudflats at the mouth of the Souzu River, southwestern Shikoku Island, Japan.

This bivalve has tiny brownish shells (up to 4.1 mm in length). The species lives attached by both its foot and byssal threads to the body surface of the earthworm-like sea cucumberPatinapta ooplax (Synaptidae). Individuals of B. mortoni are often found on the same host, yet sometimes there could be more than 10 individuals existing side-by-side.

The new species is dedicated to a famous British malacologist Brian Morton, emeritus professor of University of Hong Kong. He has described many interesting Pseudopythina species from mudflats in Hong Kong, now assigned to the genus Borniopsis.

Host sea cucumbers burrow in mudflats. Most likely, the B. mortoni bivalve uses the host burrows as shelter from predators.

The new species is one of the smallest species in this genus. With the burrow of the host sea cucumber being very narrow, the small body size of B. mortoni is probably a corresponding adaptation.

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Original source:

Goto R, Ishikawa H (2016) Borniopsis mortoni sp. n. (Heterodonta, Galeommatoidea, Galeommatidae sensu lato), a new bivalve commensal with a synaptid sea cucumber from Japan. ZooKeys 615: 33-45. doi: 10.3897/zookeys.615.8125

Crab from the Chinese pet market turns out to be a new species of a new genus

Shimmering carapaces and rattling claws make colourful freshwater crabs attractive to pet keepers. To answer the demand, fishermen are busy collecting and trading with the crustaceans, often not knowing what exactly they have handed over to their client.

Luckily for science and nature alike, however, such ‘stock’ sometimes ends up in the hands of scientists, who recognise their peculiarities and readily dig into them to make the next amazing discovery. Such is the case of three researchers from University of New South Wales, Australia, The Australian Museum, Sun Yat-sen University, China, and National Chung Hsing University, Taiwan, who have found a new species and even a new genus of freshwater crab, and now have it published in the open access journal ZooKeys.

Knowing about the growing demand for eye-catching freshwater crabs from southern China, the authors took a look at the ornamental fish market to eventually identify an individual with unusually structured male gonopod, which in crustaceans is a swimming appendage modified to serve as a reproductive organ. Having their interest drawn by the peculiar crab, lead author Chao Huang managed to persuade the fish dealer to let them survey the collection site located in northern Guangdong, southern China.

Despite superficial resemblance to an already existing freshwater crab genus, at second glance, the crab turned out to be quite distinct thanks to a unique set of features including the carapace, the gonopod and the relatively long and slender legs. Once the molecular analyses’ results were also in, the authors had enough evidence to assign the freshwater crab as a species and even a genus new to science.

Being a primarily aquatic species, the new crab prefers the pools of limestone hillstreams, therefore its name Yuebeipotamon calciatile, where calciatile means ‘living on limestone’. To adapt to the habitat, the species seems to have developed its characteristic slender legs, which make it easier for the crab to climb and move around whenever the short-lived limestone hillstreams make it search for a new home.

The carapace of the new crab is usually coloured in maroon to dark brown, while the claws and legs are reddish to purplish. Interestingly, the adults are much more vivid compared to the juveniles.

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Original source:

Citation: Huang C, Shih H-T, Mao SY (2016) Yuebeipotamon calciatile, a new genus and new species of freshwater crab from southern China (Crustacea, Decapoda, Brachyura, Potamidae). ZooKeys 615: 61-72. doi: 10.3897/zookeys.615.9964

New species of butterflyfish in the deep reefs of now Earth’s largest protected area Papahānaumokuākea

In the midst of the ongoing IUCN World Conservation Congress in Honolulu, scientists from Bishop Museum and NOAA published a description of a new species of butterflyfish from deep reefs of the Papahānaumokuākea Marine National Monument in the remote Northwestern Hawaiian Islands, which was recently expanded by President Barack Obama to become world’s largest protected area. The study is published in the open-access scientific journal ZooKeys.

“Butterflyfish are among the most conspicuous fishes on the reefs,” said Richard Pyle, Bishop Museum researcher and first author on the publication. “They are colorful, beautiful, and have been well-studied worldwide. Thus, finding a new species of butterflyfish is a rare event.”

RPyleCollectingHolotypeP.basabei — Author Dr Richard Pyle collecting an individual of the new butterflyfish P. basabei

Coral reefs at depths of 100 to 500 feet, also known as mesophotic coral ecosystems or the coral-reef “twilight zone,” are among the most poorly explored of all marine ecosystems. Deeper than scuba divers can safely venture, and shallower than most submersible-based exploration, these reefs represent a new frontier for coral-reef research.

“Discoveries such as this underscore how poorly explored our deep coral reefs are,” said Randall Kosaki, NOAA scientist and co-author of the study. “Virtually every deep dive reveals a reef that no human being has ever laid eyes on.” Pyle and Kosaki have pioneered the use of advanced mixed-gas diving systems known as rebreathers (because they recycle the diver’s breathing gas). Rebreathers allow deeper and longer dives, enabling new opportunities for exploring and documenting deep coral reef habitats throughout the world’s tropical seas.

The new butterflyfish was first seen in submersible video over twenty years ago, at depths exceeding 600 feet. At the time, Pyle and University of Hawai‘i marine biologist E.H. “Deetsie” Chave recognized it as a potential new species. However, because of the extreme depths, it was years before technical divers using rebreather technology were able to collect specimens for proper scientific documentation.

Using this technology, NOAA and Museum researchers have encountered the new butterflyfish regularly during deep exploratory dives up to 330 feet on NOAA expeditions to the Monument, where the specimens for the scientific description were collected

The new fish, Prognathodes basabei, is named after Pete Basabe, a veteran local diver from Kona, Hawai‘i who, over the years, has assisted with the collection of reef fishes for numerous scientific studies and educational displays. Basabe, an experienced deep diver himself, was instrumental in providing support for the dives that produced the first specimen of the fish that now bears his name.

The Holotype, the Author, the Publisher Author Dr Richard Pyle (left) with Pensoft's and ZooKeys' founder Prof Lyubomir Penev (right) with the new butterflyfish P. basabei — The Holotype, the Author, the Publisher
Author Dr Richard Pyle (left) and Pensoft’s and ZooKeys’ founder Prof Lyubomir Penev (right) with the new butterflyfish P. basabei

At the urging of Native Hawaiian leaders, conservationists, and many marine scientists, President Obama recently expanded the Papahānaumokuākea Marine National Monument. At 582,578 square miles, Papahānaumokuākea is now the largest protected area on Earth.

“This new discovery illustrates the conservation value of very large marine protected areas,” said Kosaki. “Not only do they protect the biodiversity that we already know about, they also protect the diversity we’ve yet to discover. And there’s a lot left to discover.”

Original source:
Pyle RL, Kosaki RK (2016) Prognathodes basabei, a new species of butterflyfish (Perciformes, Chaetodontidae) from the Hawaiian Archipelago. ZooKeys 614: 137-152. doi: 10.3897/zookeys.614.10200

Species conservation profile of a critically endangered endemic for the Azores spider

Subject to continuing population decline due to a number of factors, an exclusively cave-dwelling (troglobitic) spider endemic to the Azores is considered as Critically Endangered according to the IUCN Red List criteria.

To provide a fast output, potentially benefiting the arachnid’s survival, scientists from the IUCN – Spider and Scorpion Specialist Group and the Azorean Biodiversity Group (cE3c) at University of Azores, where the main objective is to perform research that addresses societal challenges in ecology, evolution and the environment, also known as the three E’s from the centre’s name abbreviation, teamed up with colleagues from University of Barcelona, Spain, and the Finnish Museum of Natural History.

Together, they make use of a specialised novel publication type feature, called Species Conservation Profile, created by the open access journal Biodiversity Data Journal, to provide scholarly credit and citation for the IUCN Red List species page, as well as pinpoint the population trends and the reasons behind them.

The studied spider species (scientifically called Turinyphia cavernicola) is a pale creature with long legs, large eyes and a total size of merely 2 mm in length. These spiders never leave their underground habitats, which are strictly humid lava tubes and volcanic pits. There they build sheet webs in small holes and crevices on the walls of the caves.

Not only is the species restricted to a single island within the Azorean archipelago (Portugal), but it is only found in three caves. Furthermore, out of the three, only one of them is home to a sustainable large population. These caves are under severe threat due to pasture intensification, road construction and tourist activities.

Although there is not much information about the species distribution through the years, with the spider having been discovered as recently as in 2008, the authors make the assumption that originally there have been significantly greater populations. Not only have they studied thoroughly another fifteen caves located on the island without finding any individuals, but they have identified increasing anthropogenic impact on the habitat.

“The species original distribution was potentially very large compared with the current,” the scientists explain. “Relatively intensive searches in and around the current caves where the species occurs have failed to find additional subpopulations.”

“The trend of decline is based on the assumption that this species can occur in all these caves and that the absence is due to anthropogenic disturbance on caves during the last 50 years,” they note.

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Original source:

Borges P, Crespo L, Cardoso P (2016) Species conservation profile of the cave spiderTurinyphia cavernicola (Araneae, Linyphiidae) from Terceira Island, Azores, Portugal.Biodiversity Data Journal 4: e10274. doi: 10.3897/BDJ.4.e10274

A nonet of new plant species from Africa emphasizes the importance of herbaria in botany

Combining modern molecular methods, with more traditional morphological ones, a recent revision of the custard apple genus Monanthotaxis has revealed a nonet of new species.

Lying unnoticed on shelves, some of these species had to wait for many decades to be discovered with methods, unavailable at the time of their collection. Some collected 40 years ago, some as far back as a 100, the nine new species are described in the open access journal Phytokeys to showcase the importance of herbarium collections in Botany.

“Although for many of the new species good flowering material became available only recently, this does prove the importance of herbaria, and the need for exploring their collections,” explains the lead author, PhD student Paul H. Hoekstra, Naturalis Biodiversity Center and Wageningen University. “On the other hand, using DNA techniques we were able to link recently collected sterile collections to several of these poorly collected species, enabling us to improve their conservation assessment.”

Confined to tropical Africa and Madagascar, species from this genus all share similar features such as a typical climbing habit and bluish-green or glaucous leaves.

Two of the newly described species come from West Africa, four from western Central Africa, and for the remaining three Tanzania, Southern Mozambique and the Comoros host one each. This distribution comes in confirmation of a general pattern in recent revisions of both the custard apple family Annonaceae and other tropical African forest taxa, where most new species are found in western central Africa and Tanzania.

Giving important information about areas of potential botanical and ecological interest, this trend is supported by the high level of conservation concern among the newly described species. With five species classified as critically endangered, two as endangered, one as vulnerable the need of further collecting and studying those species and exploration of the relevant areas is warranted.

“Exploring those areas for new species is rather important if we want to have a real idea of their truly amazing botanical diversity,” explains Hoekstra. “Madagascar, for example, is also an area with many undescribed species, a fact also true for our group of interest,Monanthotaxis, and we anticipate for at least another seven new species to be described from this area.”

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Original Source:

Hoekstra PH, Wieringa JJ, Chatrou LW (2016) A nonet of novel species of Monanthotaxis (Annonaceae) from around Africa. PhytoKeys 69: 71-103. doi: 10.3897/phytokeys.69.9292

Trapped in a nuclear weapon bunker wood ants survive for years in Poland

Having built their nest over the vertical ventilation pipe of an old nuclear weapon bunker in Poland, every year a large number of wood ants fall down the pipe to never return back to their colony.

Curiously, although trapped in extremely severe conditions underground, the ants have already upped their numbers to these of big, mature natural colonies, while also carrying on with their basic activities of nest maintenance, constructing and moulding. This unique population is described in the open access Journal of Hymenoptera Research by the team of Polish scientist Wojciech Czechowski, Polish Academy of Science.

The studied colony is still unique, despite the fact that there are previously known similar cases, such as a black garden ant colony that found a home in a chassis of an immobilised car, where the insects had built their nest from mud and dry plant remnants stuck to the underbody. Another wood ant colony is known to have lived in almost complete darkness within a cubic wooden box with no openings apart from a narrow slit at the bottom of one side. Yet, unlike the ants from the bunker, they have all had access to the outside world, having deliberately made their own choice to settle in such extraordinary locations.

Thanks to an yearly campaign set to count the hibernating in the same bunker bats, the ant population was discovered in 2013. Interestingly, when the ants were checked on in 2015, the researchers not only found the population still surviving, but even increasing its numbers.

According to the estimates, they counted at least several hundred thousand workers, arguably close to a million. Moreover, when the researchers went back to the bunker in 2016, they found the mound’s damage, caused on their previous visit, repaired, which showed the population still managed to maintain their nest almost as if they were leading a normal life.

The ant ‘colony’ was found to have built an earthen mound in a small 2.3 m high room with a base area of 3 m x 1.2 m. Normally, such wood ants settle exclusively on large forested islands, where they can forage enough food to answer the high energy demand of the colony.

However, the confined space within the bunker has not been the only obstacle the ants have been facing in their underground trap. Beside the lacking food and light, the ‘colony’ had to also deal with the low temperatures between the one-metre thick ferroconcrete walls. All year long it was no more than 10 °C.

Understandably, the severe conditions within the bunker made reproduction effectively impossible. Although the scientists did undertake a special search for larvae, pupae, empty cocoons or queens, they found nothing. Nor did they find signs of male offspring.

Looking for an answer why the population was still seemingly thriving, the scientists deducted that there was a constant influx of newly fallen ants. The metal plate that once covered the pipe outlet had obviously rusted so much that it has been collapsing under a big wood ant colony’s mound built right over the pipe. In fact, the mortality in the bunker is quite high, but the regular ‘newcomers’ turn out to be overcompensating for the dead ants.

“To conclude, the wood ant ‘colony’ described here – although superficially looking like a functioning colony with workers teeming on the surface of the mound – is rather an example of survival of a large amount of workers trapped within a hostile environment in total darkness, with constantly low temperatures and no ample supply of food,” say the authors.

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Original source:

Czechowski W, Rutkowski T, Stephan W, Vepsäläinen K (2016) Living beyond the limits of survival: wood ants trapped in a gigantic pitfall. Journal of Hymenoptera Research 51: 227-239. doi: 10.3897/jhr.51.9096

Aztec treasure unearthed: New earth snake species discovered in Mexico

A new gem has been added to the vast treasure of Mexican reptiles. Mexican scientists recently described a new and strikingly colored species of earth snake from the mountains of Puebla and Veracruz in east-central Mexico.

These burrowing reptiles are seldom encountered and, consequently, have been poorly studied. Furthermore, several species have restricted distribution, making them particularly vulnerable to extinction. The description of the new species was published in the open access journalZooKeys.

Looking to shed light on the evolutionary history and diversity of earth snakes, Luis Canseco-Márquez and Adrián Nieto-Montes de Oca, Universidad Nacional Autónoma de México, started to collect samples of these rarely seen critters.

A sample from east-central Mexico exhibited a unique set of traits among earth snakes, one of them showing striking orange and black banding pattern. They realized that these snakes represented a new species and proceeded to describe it in collaboration with scientists Carlos J. Pavón-Vázquez, Universidad Nacional Autónoma de México, and Marco A. López-Luna,Universidad Juárez Autónoma de Tabasco. The specimens of the new species were deposited in the herpetological collections of the Museo de Zoología “Alfonso L. Herrera” and the Instituto Tecnológico Superior de Zongolica.

The new species is the fourth described by Nieto-Montes de Oca and collaborators for the last fourteen years from the Mexican highlands. Funding from the Mexican Council for Science and Technology (CONACYT) has allowed the team to discover other species of earth snake in Oaxaca, Guerrero, and Puebla.

“Most of these snakes have notably small geographic ranges and sometimes are only found in one type of vegetation. This makes them particularly vulnerable to the destruction of their habitat. It is important to know them before it gets too late,” note the scientists.

Genetic data and careful anatomical examination have been vital to understand the real diversity within the group. “These snakes are remarkably similar to each other and it has been only through molecular analyses and rigorous specimen examination that we have come close to understand how diverse they are,” explain the authors.

The region in which the species is found has not been thoroughly explored yet. Therefore, it seems likely that it could yield future discoveries. Additionally, the work made by the researchers suggests the existence of other undescribed species of earth snake.

“Our analyses suggest that this group is more diverse than previously thought. They have proven to be an exciting model to understand the patterns of biological richness in the Mexican mountains,” conclude the authors.

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Original source:

Canseco-Márquez L, Pavón-Vázquez CJ, López-Luna MA, Nieto-Montes de Oca A (2016) A new species of earth snake (Dipsadidae, Geophis) from Mexico. ZooKeys 610: 131-145. doi:10.3897/zookeys.610.8605

The rain frog that turned into a Sleeping beauty is a new species from the Peruvian Andes

A new species of rain frog was discovered in the premontane forests of the Peruvian central Andes. Referring to the mountain chain’s local name, the amphibian’s name translates to ‘Sleeping beauty’. Another striking thing about the new frog is the contrasting bright red that coats its groins, shanks and thighs.

Discovered and described by Drs Germán Chávez, Centro de Ornitología y Biodiversidad (CORBIDI), and Alessandro Catenazzi, affiliated with both CORBIDI and Southern Illinois University, the frog is now published in the open access journal ZooKeys.

Like many new species, the new amphibian is also named after the place where it has been found. However, in this case the name is no ordinary one, since the mountain is locally known as Sleeping beauty, reflecting what the local population saw in its panoramic view – a reclined sleeping woman. Therefore, the scientists suggest its common English name to be Sleeping beauty rain frog.

The rain frog’s colouration is no less impressive. Its bright-red groins, shanks and thighs, set against a predominantly yellowish-brown body, distinguish it from other related frogs at a glimpse.

“When we heard the chorus of males, first thought was: such a strange call!” recalls Dr Germán Chávez. “When we saw this amazing frog, we knew that it is a new species. No other frog has that bright red colour on rear limbs!”

The new frog, formally called Pristimantis pulchridormientes (from Latin “pulcher” translating to beautiful, and “dormientes” – sleeping) grows to about 20 mm. It has so far been found at only two localities spread 27 km apart in the Huánuco Region. Its habitat ranges between 1000 and 1700 m in elevation.

Although the area is yet to be researched in detail, the authors speculate that due to the very fragmented habitat surrounded by orange plantations and corn cropland, the distributional range of the Sleeping beauty frog is highly likely to be quite disturbed as well.

The rain frog genus, where the new species belong, Pristimantis, is one of the most astounding, richest and understudied groups in the Neotropics. Furthermore, within the Tingo Maria National Park the biodiversity has been even more neglected in the past due to terrorism and drug trafficking limiting its accessibility in the 80s and the 90s.

“Tingo Maria National Park is one of most amazing places to watch fauna, and we are convinced that is the main shelter for many endemic species from central Perú, in fact this is one of several discoveries which we hope to publish in a future,” conclude the authors.

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Original source:

Chávez G, Catenazzi A (2016) A new species of frog of the genus Pristimantis from Tingo María National Park, Huánuco Department, central Peru (Anura, Craugastoridae). ZooKeys 610: 113-130. doi: 10.3897/zookeys.610.8507

Unusual new zoantharian species is the first described solitary species in over 100 years

A very unusual new species of zoantharian surprised Drs Takuma Fujii and James Davis Reimer, affiliated with Kagoshima University and University of the Ryukyus.

The scientists stumbled upon a solitary individual polyp while conducting SCUBA surveys around the southern Japanese island of Okinawa. They noticed that the creatures were buried almost completely in the soft sediment of the seafloor. It was only their oral disks and tentacles that were protruding above the surface.

Generally, most known zoantharians are colonial (hence their common name of ‘colonial anemones’), and many dwell in shallow waters of subtropical and tropical regions, where their large colonies can be found on coral reefs.

However, these newly discovered polyps were not only leading solitary lives. They were also found to lack zooxanthellae, single-celled organisms that coexist in symbiosis with certain marine invertebrates, also typical for the majority of zoantharians.

The discovery of this unusual new species is reported in the open access journal ZooKeys.

Solitary zoantharian species, such as this one, are known from scant few reports, and only three species are described, all reported more than 100 years ago from the Indo-Pacific region. Overall, very little is known about the hereby studied genus Sphenopus.

The new species, named Sphenopus exilis, is much smaller than the other three Sphenopus species, with its polyps measuring approximately 3 cm in length. It is currently only known from two bays on the east coast of Okinawa Island.

Both of the bays where Sphenopus exilis is found are threatened by development, with one of the bays currently the center of controversy over a proposed American military base expansion and landfill.

“This report demonstrates how much more research is needed on these understudied ecosystems”, stated lead author Dr. Takuma Fujii.

“The only reason this species was discovered was that the right person was in the right place at the right time”, added co-author Dr. James Reimer.

“Such research also shows how important it is to have specialist researchers participate in surveys — otherwise, we might be missing a lot of the biodiversity present in the marine realm simply because we don’t know what we are looking at,” he concluded.

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Original source:

Fujii T, Reimer JD (2016) A new solitary free-living species of the genus Sphenopus (Cnidaria, Anthozoa, Zoantharia, Sphenopidae) from Okinawa-jima Island, Japan. ZooKeys 606: 11-24. doi: 10.3897/zookeys.606.9310