Showing papers in "Biodiversity Data Journal in 2016"

Testing the Global Malaise Trap Program – How well does the current barcode reference library identify flying insects in Germany?

Abstract: BACKGROUND Biodiversity patterns are inherently complex and difficult to comprehensively assess. Yet, deciphering shifts in species composition through time and space are crucial for efficient and successful management of ecosystem services, as well as for predicting change. To better understand species diversity patterns, Germany participated in the Global Malaise Trap Program, a world-wide collection program for arthropods using this sampling method followed by their DNA barcode analysis. Traps were deployed at two localities: "Nationalpark Bayerischer Wald" in Bavaria, the largest terrestrial Natura 2000 area in Germany, and the nature conservation area Landskrone, an EU habitats directive site in the Rhine Valley. Arthropods were collected from May to September to track shifts in the taxonomic composition and temporal succession at these locations. NEW INFORMATION In total, 37,274 specimens were sorted and DNA barcoded, resulting in 5,301 different genetic clusters (BINs, Barcode Index Numbers, proxy for species) with just 7.6% of their BINs shared. Accumulation curves for the BIN count versus the number of specimens analyzed suggest that about 63% of the potential diversity at these sites was recovered with this single season of sampling. Diversity at both sites rose from May (496 & 565 BINs) to July (1,236 & 1,522 BINs) before decreasing in September (572 & 504 BINs). Unambiguous species names were assigned to 35% of the BINs (1,868) which represented 12,640 specimens. Another 7% of the BINs (386) with 1,988 specimens were assigned to genus, while 26% (1,390) with 12,092 specimens were only placed to a family. These results illustrate how a comprehensive DNA barcode reference library can identify unknown specimens, but also reveal how this potential is constrained by gaps in the quantity and quality of records in BOLD, especially for Hymenoptera and Diptera. As voucher specimens are available for morphological study, we invite taxonomic experts to assist in the identification of unnamed BINs.

Abyssal fauna of the UK-1 polymetallic nodule exploration claim, Clarion-Clipperton Zone, central Pacific Ocean: Echinodermata.

Abstract: We present data from a DNA taxonomy register of the abyssal benthic Echinodermata collected as part of the Abyssal Baseline (ABYSSLINE) environmental survey cruise 'AB01' to the UK Seabed Resources Ltd (UKSRL) polymetallic-nodule exploration claim 'UK-1' in the eastern Clarion-Clipperton Zone (CCZ), central Pacific Ocean abyssal plain. Morphological and genetic data are presented for 17 species (4 Asteroidea, 4 Crinoidea, 2 Holothuroidea and 7 Ophiuroidea) identified by a combination of morphological and genetic data. No taxa matched previously published genetic sequences, but 8 taxa could be assigned to previously-described species based on morphology, although here we have used a precautionary approach in taxon assignments to avoid over-estimating species ranges. The Clarion-Clipperton Zone is a region undergoing intense exploration for potential deep-sea mineral extraction. We present these data to facilitate future taxonomic and environmental impact study by making both data and voucher materials available through curated and accessible biological collections.

Taxonomic revision of Rochefortia Sw. (Ehretiaceae, Boraginales).

Abstract: Background Rochefortia is a small taxon of woody plants in the Ehretiaceae (Boraginales) exhibiting coriaceous leaves with cystoliths, small whitish flowers and drupaceous fruits containing four pyrenes. It shares the dioecious sex distribution with its sister group Lepidocordia and can be delimited from the latter (and all other Ehretiaceae) by the presence of thorns. Neotropical Rochefortia is distributed over most Caribbean islands, Central America and northern South America. Twenty-eight validly published names (corresponding to twenty-one typified taxa at the species level and below) are available in Rochefortia, but the precise number of species to be accepted has been elusive before this revision.

An Open Standard for Camera Trap Data.

Abstract: Camera traps that capture photos of animals are a valuable tool for monitoring biodiversity. The use of camera traps is rapidly increasing and there is an urgent need for standardization to facilitate data management, reporting and data sharing. Here we offer the Camera Trap Metadata Standard as an open data standard for storing and sharing camera trap data, developed by experts from a variety of organizations. The standard captures information necessary to share data between projects and offers a foundation for collecting the more detailed data needed for advanced analysis. The data standard captures information about study design, the type of camera used, and the location and species names for all detections in a standardized way. This information is critical for accurately assessing results from individual camera trapping projects and for combining data from multiple studies for meta-analysis. This data standard is an important step in aligning camera trapping surveys with best practices in data-intensive science. Ecology is moving rapidly into the realm of big data, and central data repositories are becoming a critical tool and are emerging for camera trap data. This data standard will help researchers standardize data terms, align past data to new repositories, and provide a framework for utilizing data across repositories and research projects to advance animal ecology and conservation.

Challenges with using names to link digital biodiversity information.

Abstract: The need for a names-based cyber-infrastructure for digital biology is based on the argument that scientific names serve as a standardized metadata system that has been used consistently and near universally for 250 years. As we move towards data-centric biology, name-strings can be called on to discover, index, manage, and analyze accessible digital biodiversity information from multiple sources. Known impediments to the use of scientific names as metadata include synonyms, homonyms, mis-spellings, and the use of other strings as identifiers. We here compare the name-strings in GenBank, Catalogue of Life (CoL), and the Dryad Digital Repository (DRYAD) to assess the effectiveness of the current names-management toolkit developed by Global Names to achieve interoperability among distributed data sources. New tools that have been used here include Parser (to break name-strings into component parts and to promote the use of canonical versions of the names), a modified TaxaMatch fuzzy-matcher (to help manage typographical, transliteration, and OCR errors), and Cross-Mapper (to make comparisons among data sets). The data sources include scientific names at multiple ranks; vernacular (common) names; acronyms; strain identifiers and other surrogates including idiosyncratic abbreviations and concatenations. About 40% of the name-strings in GenBank are scientific names representing about 400,000 species or infraspecies and their synonyms.

India Biodiversity Portal: An integrated, interactive and participatory biodiversity informatics platform.

Abstract: BACKGROUND This paper describes a growing biodiversity platform, launched in 2008, which organizes knowledge on the biodiversity of India. The main objective and originality of the India Biodiversity Portal (IBP) is to aggregate curated biodiversity data of different kinds (e.g. distribution maps, temporal distribution or life history) in an integrated platform where amateurs and experts can easily interact. NEW INFORMATION Since its launch, the platform has seen an exceptional increase in both user activity and biodiversity data. Currently the portal has descriptions of over 20,400 species, and has aggregated approximately 1,280,000 observations covering more than 30,000 species, which already constitutes a unique source of information for scientists and stakeholders in conservation. Over 8500 users have registered on the portal. The amount of data generated and to be generated in the next few years by this portal will certainly help the effective implementation of biodiversity conservation and management in one of the most ecologically diverse countries in the world.

Capturing biodiversity: linking a cyanobacteria culture collection to the "scratchpads" virtual research environment enhances biodiversity knowledge.

Abstract: BACKGROUND Currently, cyanobacterial diversity is examined using a polyphasic approach by assessing morphological and molecular data (Komarek 2015). However, the comparison of morphological and genetic data is sometimes hindered by the lack of cultures of several cyanobacterial morphospecies and inadequate morphological data of sequenced strains (Rajaniemi et al. 2005). Furthermore, in order to evaluate the phenotypic plasticity within defined taxa, the variability observed in cultures has to be compared to the range in natural variation (Komarek and Mares 2012). Thus, new tools are needed to aggregate, link and process data in a meaningful way, in order to properly study and understand cyanodiversity. NEW INFORMATION An online database on cyanobacteria has been created, namely the Cyanobacteria culture collection (CCC) (http://cyanobacteria.myspecies.info/) using as case studies cyanobacterial strains isolated from lakes of Greece, which are part of the AUTH culture collection (School of Biology, Aristotle University of Thessaloniki). The database hosts, for the first time, information and data such as morphology/morphometry, biogeography, phylogeny, microphotographs, distribution maps, toxicology and biochemical traits of the strains. All this data are structured managed, and presented online and are publicly accessible with a recently developed tool, namely "Scratchpads", a taxon-centric virtual research environment allowing browsing the taxonomic classification and retrieving various kinds of relevant information for each taxon.

Aquatic Insects from the Caatinga: checklists and diversity assessments of Ubajara (Ceará State) and Sete Cidades (Piauí State) National Parks, Northeastern Brazil

Abstract: Diversity and distribution of Neotropical aquatic insects is still poorly known, with many species to be recorded and many others to be described, due to the small number of taxonomists and sparse faunistic studies. This knowledge is especially poor in the Caatinga Domain in Northeastern Brazil, even though, this region may have played an important historical role in the spatial evolution of faunas of forested areas in northern South America.

A taxonomic monograph of the assassin bug genus Zelus Fabricius (Hemiptera: Reduviidae): 71 species based on 10,000 specimens.

Abstract: The New World assassin bug genus Zelus Fabricius, 1803 (Insecta: Hemiptera: Heteroptera: Reduviidae: Harpactorinae: Harpactorini) is revised based on more than 10,000 specimens. Seventy-one species are recognized and twenty-four described as new: Zelus aithaleos sp. n., Zelus amblycephalus sp. n., Zelus antiguensis sp. n., Zelus auralanus sp. n., Zelus bahiaensis sp. n., Zelus banksi sp. n., Zelus casii sp. n., Zelus championi sp. n., Zelus cordazulus sp. n., Zelus fuliginatus sp. n., Zelus gilboventris sp. n., Zelus gracilipes sp. n., Zelus grandoculus sp. n., Zelus kartaboides sp. n., Zelus lewisi sp. n., Zelus panamensis sp. n., Zelus paracephalus sp. n., Zelus rosulentus sp. n., Zelus russulumus sp. n., Zelus spatulosus sp. n., Zelus truxali sp. n., Zelus umbraculoides sp. n., Zelus umbraculus sp. n., and Zelus xouthos sp. n. Five species, Zelus araneiformis Haviland, 1931, Zelus gradarius Bergroth, 1905, Zelus modestus (Stal, 1862), Zelus subfasciatus Stal, 1860 and Zelus vittaticeps Stal, 1866, are removed from Zelus and placed incertae sedis within Harpactorini. Nine new synonyms are recognized (senior synonym in parentheses): Zelus atripes Champion, 1898 syn. nov. (=Zelus conjungens [Stal, 1860]), Zelus dispar Fabricius, 1803 syn. nov. (=Zelus pedestris Fabricius, 1803), Zelus formosus Haviland, 1931 syn. nov. (=Zelus laticornis Herrich-Schaeffer, 1853), Zelus obscuridorsis (Stal, 1860) syn. nov. (=Zelus pedestris), Zelus pallidinervus Haviland, 1931 syn. nov. (=Zelus kartabensis Haviland, 1931), Zelus personatus Berg, 1879 syn. nov. (=Zelus versicolor Herrich-Schaeffer, 1848), Zelus trimaculatus Champion, 1898 syn. nov. (=Zelus means Fabricius, 1803), Zelus trimaculicollis (Stal, 1855) syn. nov. (=Zelus means), and Zelus tristis Haviland, 1931 syn. nov. (=Zelus laticornis). Zelus conjungens (Stal, 1860) stat. rev. Is resurrected from junior synonymy with zealous armillatus (Lepeletier & Seville, 1825). Zelus ambulans Stal, 1862 stat. rev. and Zelus cognatus (Costa, 1862) stat. rev. are resurrected from synonymy with Zelus exsanguis Stal, 1862. Iquitozelus Berenger syn. nov. is synonymized with Zelus and its only species transferred to Zelus, hence resulting in a new combination, Zelus couturieri (Berenger, 2003) comb. nov. Lectotypes, paralectotypes or neotypes are designated for a number of species. Habitus images, illustrations of male genitalia, distribution maps and measurements are provided for nearly all species. The three previously recognized subgenera of Zelus are found to be based upon superficial characters and these divisions do not reflect natural groupings. Using sets of characters, especially those of the male genitalia, eleven species groups are proposed. It is also hypothesized that Zelus is closely related to three other New World genera: Atopozelus Elkins, Ischnoclopius Stal and an undescribed genus "Hartzelus" [manuscript name]. Zelus is endemic to the New World, occurring naturally in the Caribbean and all but one of the continental countries, with introductions to Pacific islands, Europe and Chile.

Biological richness of a large urban cemetery in Berlin. Results of a multi-taxon approach.

Abstract: Background Urban green spaces can harbor a considerable species richness of plants and animals. A few studies on single species groups indicate important habitat functions of cemeteries, but this land use type is clearly understudied compared to parks. Such data are important as they (i) illustrate habitat functions of a specific, but ubiquitous urban land-use type and (ii) may serve as a basis for management approaches.

Flies from L.A., The Sequel: A further twelve new species of Megaselia (Diptera: Phoridae) from the BioSCAN Project in Los Angeles (California, USA)

Abstract: Background Presented are continued results from the BioSCAN Project, an urban biodiversity study sampling primarily from private backyards in Los Angeles, California (USA). Presented are continued results from the BioSCAN Project, an urban biodiversity study sampling primarily from private backyards in Los Angeles, California (USA). New information Twelve new species of Megaselia (Diptera: Phoridae) are described: M. baileyae, M. friedrichae, M. gonzalezorum, M. joanneae, M. losangelensis, M. phyllissunae, M. pongsaiae, M. shatesae, M. stoakesi, M. studentorum, M. voluntariorum, M. wongae.

Species Conservation Profiles compliant with the IUCN Red List of Threatened Species

Abstract: The International Union for Conservation of Nature (IUCN; www.iucn.org) is the world ́s largest environmental network, with 1,300 member organizations and relying on the input of about 16,000 experts. It provides knowledge and tools that enable and promote the sustainable development at a global level. Among its many outputs, the Red List of Threatened Species (www.iucnredlist.org) is the most widely known and used, by researchers, politicians and the general public. The IUCN Red List is arguably the most useful worldwide list of species at risk of extinction (Lamoreux et al. 2003). Its usefulness is based on its reliance on a number of objective criteria (IUCN 2012). Threatened species are assessed as either Critically Endangered (CR), Endangered (EN) or Vulnerable (VU), but extinct or non-threatened species are also assessed and listed. Besides extinction risk assessment, the Red List provides a plethora of useful information on each species assessed, including distribution, trends, threats and conservation actions. The quantity and quality of this information allows the Red List to be used in multiple ways, such as to raise awareness about threatened species, guide conservation efforts and funding, set priorities for protection, measure site irreplaceability and vulnerability, influence environmental policies and legislation and evaluate and monitor the state of biodiversity (Gärdenfors et al. 2001, Rodrigues et al. 2006, Baillie et al. 2008, Mace et al. 2008, Martín-López et al. 2009). ‡,§ |,¶ ¶ #,¶ #,¶

Checklist of British and Irish Hymenoptera - Ichneumonidae.

Abstract: Background The checklist of British and Irish Ichneumonidae is revised, based in large part on the collections of the Natural History Museum, London and the National Museums of Scotland, Edinburgh. Distribution records are provided at the country level. New information Of the 2,447 species regarded as valid and certainly identified, 214 are here recorded for the first time from the British Isles. Neorhacodinae is considered to be a separate subfamily rather than a synonym of Tersilochinae. Echthrini is treated as a junior synonym of the tribe Cryptini, not Hemigastrini. Echthrus Gravenhorst and Helcostizus Forster are classified in Cryptini rather than, respectively, Hemigastrini and Phygadeuontini.

Cyanobacteria of Greece: an annotated checklist.

Abstract: Background The checklist of Greek Cyanobacteria was created in the framework of the Greek Taxon Information System (GTIS), an initiative of the LifeWatchGreece Research Infrastructure (ESFRI) that has resumed efforts to compile a complete checklist of species reported from Greece This list was created from exhaustive search of the scientific literature of the last 60 years All records of taxa known to occur in Greece were taxonomically updated New information The checklist of Greek Cyanobacteria comprises 543 species, classified in 130 genera, 41 families, and 8 orders The orders Synechococcales and Oscillatoriales have the highest number of species (158 and 153 species, respectively), whereas these two orders along with Nostocales and Chroococcales cover 93% of the known Greek cyanobacteria species It is worth mentioning that 18 species have been initially described from Greek habitats The marine epilithic Ammatoidea aegea described from Saronikos Gulf is considered endemic to this area Our bibliographic review shows that Greece hosts a high diversity of cyanobacteria, suggesting that the Mediterranean area is also a hot spot for microbes

NightLife: A cheap, robust, LED based light trap for collecting aquatic insects in remote areas.

Abstract: Inland waters cover less than 1% of our planet's surface, yet provide habitat to approximately one hundred thousand aquatic insect species, i.e. those with at least one aquatic lifestage (Balian et al. 2008, Dijkstra et al. 2014). Considering the taxonomic deficit in these groups this figure is likely a significant underestimate of the true aquatic insect diversity (Dijkstra et al. 2014). The majority of aquatic insect diversity is comprised of true flies (Diptera), followed by caddisflies (Trichoptera), beetles (Coleoptera), dragonflies (Odonata), stoneflies (Plecoptera) and mayflies (Ephemeroptera) (Balian et al. 2008, Dijkstra et al. 2014). The ecology of these groups has been the focus of significant study due to their role as bioindicators of water quality, as many species are sensitive to pollution and sudden changes in their environment (Rosenberg and Resh 1993). In addition many aquatic dipteran species are vectors of disease (e.g. Currie and Adler 2008, Rueda 2008). Aquatic insects are surveyed using a variety of methods including light trapping (e.g. Collier et al. 1997) which attracts emergent adults, and often mayfly subadults, using mercury vapour (MV) bulbs or actinic fluorescent tubes. Light trapping can be either active: attended light sheets, or passive: a combination of a light with a trap (Hardwick 1968, Hienton 1974). Passive traps allow samples from multiple sites to be collected in parallel by an individual in the field, with the number of sampling sites limited by the size and weight of each trap. Current Lights Mercury vapour (MV) bulbs work by passing an arc of electric current through ionised mercury vapour; as a result these bulbs require a relatively high current to maintain the arc and thus are limited to use with either mains power or a petrol / diesel powered generator. Remote areas therefore cannot be sampled without significant effort. In addition MV bulbs are excessively bright for attracting aquatic insects, and tend to draw large numbers of night flying lepidoptera and other non-target species. MV bulbs are also delicate, easily damaged in transport and liable to break if exposed to rain during operation due to thermal fracture of the glass, and their high operating temperature is a waste of power. Actinic fluorescent tubes also use mercury, but their method of operation requires a smaller current draw. While an improvement over MV bulbs, the current draw of fluorescent tubes does still require sizeable batteries if they are to be used in remote locations. For example a single 4W flourescent tube requires a 6v 12Ah battery weighing up to 2kg for an approximate 12hr run time. Fluorescent tubes are also delicate and liable to damage under field conditions. Both MV bulbs and actinic fluorescent tubes contain mercury, which if released in the field can be hazardous for the environment. An ideal aquatic insect light trap would have these properties: Be able to run from small, standard, [potentially] rechargeable batteries. Use low power light sources, at frequencies targeted for insect vision. Be robust enough for field use without special packing or travel arrangements. Be capable of autonomous operation. Light Emitting Diodes Light Emitting Diodes (LEDs) are semiconductor devices that are used in a wide range of scientific, home and commercial lighting solutions due to the following properties: low power / high-efficiency (compared to incandescent / fluorescent) narrow spectral emissions (i.e. specific colours) long-life low-operating temperature durable (enclosed in a solid epoxy case rather than hollow glass) small size and weight These same properties also lend themselves to the use of LEDs in insect collection.

Vegetation and floristics of a lowland tropical rainforest in northeast Australia.

Abstract: Background: Full floristic data, tree demography, and biomass estimates incorporating non-tree life forms are seldom collected and reported for forest plots in the tropics. Established research stations serve as important repositories of such biodiversity and ecological data. With a canopy crane setup within a tropical lowland rainforest estate, the 42-ha Daintree Rainforest Observatory (DRO) in Cape Tribulation, northern Australia is a research facility of international significance. We obtained an estimate of the vascular plant species richness for the site, by surveying all vascular plant species from various mature-phase, remnant and open vegetation patches within the site. We also integrate and report the demography and basal areas of trees ≥ 10 cm diameter at breast height (dbh) in a new 1- ha core plot, an extension to the pre-existing forest 1-ha plot under the canopy crane. In addition, we report for the canopy crane plot new demography and basal areas for smaller size shrubs and treelets subsampled from nine 20 m quadrats, and liana basal area and abundance from the whole plot. The DRO site has an estimated total vascular plant species richness of 441 species, of which 172 species (39%) are endemic to Australia, and 4 species are endemics to the Daintree region. The 2 x 1-ha plots contains a total of 262 vascular plant species of which 116 (1531 individuals) are tree species ≥ 10 cm dbh. We estimate a stem basal area of 34.9 m ha, of which small stems (tree saplings and shrubs <10cm dbh) and lianas collectively contribute c.4.2%. Comparing the stem density-diversity patterns of the DRO forest with other tropical rainforests globally, our meta-analysis shows that DRO forests has a comparatively high stem density and moderate species diversity, due to the influence of cyclones. These data will provide an important foundation for ecological and conservation studies in lowland tropical forest. New information: We present a floristic checklist, a life form breakdown, and demography data from two 1-ha rainforest plots from a lowland tropical rainforest study site. We also present a meta-analysis of stem densities and species diversity from comparable-sized plots across the tropics.

Checklist of British and Irish Hymenoptera - Braconidae

Abstract: The checklist of British and Irish Braconidae is revised, based in large part on the collections of the National Museums of Scotland, Edinburgh, and the Natural History Museum, London. Distribution records are provided at the country level together with extensive synonymy and bibliography.

A dataset of fishes in and around Inle Lake, an ancient lake of Myanmar, with DNA barcoding, photo images and CT/3D models

Abstract: BACKGROUND Inle (Inlay) Lake, an ancient lake of Southeast Asia, is located at the eastern part of Myanmar, surrounded by the Shan Mountains. Detailed information on fish fauna in and around the lake has long been unknown, although its outstanding endemism was reported a century ago. NEW INFORMATION Based on the fish specimens collected from markets, rivers, swamps, ponds and ditches around Inle Lake as well as from the lake itself from 2014 to 2016, we recorded a total of 948 occurrence data (2120 individuals), belonging to 10 orders, 19 families, 39 genera and 49 species. Amongst them, 13 species of 12 genera are endemic or nearly endemic to the lake system and 17 species of 16 genera are suggested as non-native. The data are all accessible from the document "A dataset of Inle Lake fish fauna and its distribution (http://ipt.pensoft.net/resource.do?r=inle_fish_2014-16)", as well as DNA barcoding data (mitochondrial COI) for all species being available from the DDBJ/EMBL/GenBank (Accession numbers: LC189568-LC190411). Live photographs of almost all the individuals and CT/3D model data of several specimens are also available at the graphical fish biodiversity database (http://ffish.asia/INLE2016; http://ffish.asia/INLE2016-3D). The information can benefit the clarification, public concern and conservation of the fish biodiversity in the region.

Survey of the ants (Hymenoptera: Formicidae) of the Greek Thrace

Abstract: The ant fauna of Greece has been an object of investigations for almost two centuries, but most of the contributions were restricted to particular parts or regions of the country. The first comprehensive checklist, comprising the past studies on Greek ants, was done only recently by Legakis (2011). In the last few years, the ant fauna of Greece was more intensively studied as part of the inventory of the ants of the Mediterranean region (Borowiec and Salata 2012, Borowiec and Salata 2013, Borowiec and Salata 2014b, Borowiec and Salata 2014a, Salata and Borowiec 2015a, Salata and Borowiec 2015b, Salata and Borowiec 2015c). Based on the above mentioned studies, it turned out that the Greek ant fauna is probably the richest in Europe, with about 280 recorded species including almost 20 endemic to this country. Among the geographic regions of Greece, Macedonia has richest ant fauna with at least 158 species recorded, followed by Dodecanese (111), Ionian Islands (107), East Aegean Islands (106), Peloponnese (102), Crete (98), Sterea Ellas (72), Thessaly (67), Cyclades (46), and Epirus (42) respectively (Borowiec & Salata unpublished data). The ants of Greek Thrace have been more or less neglected so far. This region has not been studied in recent years, while older data are very scarce. As a result, only 12 species were mentioned from this region (Legakis 2011). Greek Thrace (or Western Thrace) is one of the geographic and historical regions of Greece. It is the eastern-most mainland part of the country, bordered by Greek Macedonia to the west, Bulgaria to the north (the southern part of Bulgaria is also known as the Bulgarian or Northern Thrace), Turkish (or Eastern) Thrace to the east and the Aegean Sea to the south. Most of the northern part of Greek Thrace is occupied by the Rhodope Mountains. Larger plains are situated especially in the south-western, central and north-eastern part of the region. A Mediterranean climate prevails in the southern part of Thrace and is modified by continental influences in the Rhodope Mountains (Encyclopaedia Britannica 2015). To improve the knowledge on Thracian ants, we conducted two field trips, in spring 2014 and in summer 2015, and included some previously collected unpublished material. Altogether, we compiled the samples from more than 70 localities throughout the region. As a result we present a check-list of all ant species recorded so far in Greek Thrace with comments on the taxonomy and distribution of poorly known or unnamed species.

Metabarcoding of marine nematodes - evaluation of reference datasets used in tree-based taxonomy assignment approach.

Abstract: Metabarcoding of marine nematodes – evaluation of reference datasets used in tree-based taxonomy assignment approach

Marine Bryozoa of Greece: an annotated checklist

Abstract: BACKGROUND Until today, a complete checklist of Bryozoa of the Greek seas had never been published and species records were scattered in several taxonomic and ecological studies. The aim of this paper is to produce a first checklist of marine bryozoan species of Greece, in the framework of the Greek Taxon Information System (GTIS) initiative of the LifeWatchGreece Research Infrastructure (ESFRI), by reviewing the existing literature and following the recent trends in the taxonomy of this group. . NEW INFORMATION The marine bryozoan fauna of Greece comprises 237 species, classified in 127 genera, 66 families, 3 orders, and 2 classes. The vast majority belongs to the class Gymnolaemata (177 Cheilostomatida and 21 Ctenostomatida), while the remaining 39 species are Stenolaemata (all Cyclostomatida). Among these species, 12 are considered endemic to the eastern Mediterranean, while another 12 species are non-indigenous.

Introduction to the Greek Taxon Information System (GTIS) in LifeWatchGreece: the construction of the Preliminary Checklists of Species of Greece.

Abstract: The Greek Taxon Information System is an initiative of the LifeWatchGreece Research Infrastructure (ESFRI) that is resuming efforts to compile a complete checklist of all species reported from the Greek territory Such an effort is necessary as a requirement for all signatories of the Convention on Biological Diversity (Greece is a signatory since 1994) Over an estimation published in 2004 according to which 50,000 species are present in Greece, belonging to most kingdoms except bacteria and viruses, a list of 35,000 valid species (and subspecies) has been assembled from previous national and European initiatives and specialized databases on various groups A new database will be progressively set up in the LifeWatchGreece Infrastructure within the near future Before the dissemination of this dataset, it is important that the checklists will be validated by specialists for each taxonomic group The first step already accomplished was to build and publish Preliminary Checklists for some taxonomic groups of marine fauna, which have been validated by specialists on the basis of their expertise and secondary literature The publication of these Preliminary Checklists is expected to increase the visibility and usability of the database in the future not only to the scientific community but also to the broader domain of biodiversity management, especially in cases where no such checklists have been published yet The guidelines used to test the first taxonomic groups are presented in this paper Keywords Biodiversity, global species databases, biodiversity management, data management

The Global Registry of Biodiversity Repositories: A Call for Community Curation.

Abstract: The Global Registry of Biodiversity Repositories is an online metadata resource for biodiversity collections, the institutions that contain them, and associated staff members. The registry provides contact and address information, characteristics of the institutions and collections using controlled vocabularies and free-text descripitons, links to related websites, unique identifiers for each institution and collection record, text fields for loan and use policies, and a variety of other descriptors. Each institution record includes an institutionCode that must be unique, and each collection record must have a collectionCode that is unique within that institution. The registry is populated with records imported from the largest similar registries and more can be harmonized and added. Doing so will require community input and curation and would produce a truly comprehensive and unifying information resource.

Spider diversity (Arachnida: Araneae) in Atlantic Forest areas at Pedra Branca State Park, Rio de Janeiro, Brazil.

Abstract: Background There has never been any published work about the diversity of spiders in the city of Rio de Janeiro using analytical tools to measure diversity. The only available records for spider communities in nearby areas indicate 308 species in the National Park of Tijuca and 159 species in Marapendi Municipal Park. These numbers are based on a rapid survey and on an one-year survey respectively. New information This study provides a more thorough understanding of how the spider species are distributed at Pedra Branca State Park. We report a total of 14,626 spider specimens recorded from this park, representing 49 families and 373 species or morphospecies, including at least 73 undescribed species. Also, the distribution range of 45 species was expanded, and species accumulation curves estimate that there is a minimum of 388 (Bootstrap) and a maximum of 468 species (Jackknife2) for the sampled areas. These estimates indicates that the spider diversity may be higher than observed.

New records and detailed distribution and abundance of selected arthropod species collected between 1999 and 2011 in Azorean native forests.

Abstract: AMCS was supported by a Marie Curie Intra-European Fellowship (IEF 331623 ‘COMMSTRUCT’) and by a Juan de la Cierva Fellowship (IJCI-2014-19502) funded by the Spanish ‘Ministerio de Economia y Competitividad’.

Parasitism of Hymenoepimecis manauara Pádua & Oliveira (Hymenoptera: Ichneumonidae: Pimplinae) on Leucauge henryi Mello-Leitão (Araneae: Tetragnathidae) in Brazilian Amazonian

Abstract: BACKGROUND A parasitoid wasp Hymenoepimecis manauara Padua & Oliveira, 2015 was recorded parasitizing, for the first time, a female spider of Leucauge henryi Mello-Leitao, 1940 in the Amazon rainforest, Brazil. Images, description of the cocoon and comments about this interaction were added. NEW INFORMATION First record of Hymenoepimecis manauara parasitizing Leucauge henryi with description of cocoon and comments about this interaction.

Optimized R functions for analysis of ecological community data using the R virtual laboratory (RvLab)

Abstract: Background: Parallel data manipulation using R has previously been addressed by members of the R community, however most of these studies produce ad hoc solutions that are not readily available to the average R user Our targeted users, ranging from the expert ecologist/microbiologists to computational biologists, often experience difficulties in finding optimal ways to exploit the full capacity of their computational resources In addition, improving performance of commonly used R scripts becomes increasingly difficult especially with large datasets Furthermore, the implementations described here can be of significant interest to expert bioinformaticians or R developers Therefore, our goals can be summarized as: (i) description of a complete methodology for the analysis of large datasets by combining capabilities of diverse R packages, (ii) presentation of their application through a virtual R laboratory (RvLab) that makes execution of complex functions and visualization of results easy and readily available to the end-user New information: In this paper, the novelty stems from implementations of parallel methodologies which rely on the processing of data on different levels of abstraction and the availability of these processes through an integrated portal Parallel implementation R packages, such as the pbdMPI (Programming with Big Data – Interface to MPI) package, are used to implement Single Program Multiple Data (SPMD) parallelization on primitive mathematical operations, allowing for interplay with functions of the vegan package The dplyr and RPostgreSQL R packages are further integrated offering connections to dataframe like objects (databases) as secondary storage solutions whenever memory demands exceed available RAM resources The RvLab is running on a PC cluster, using version 312 (2014-10-31) on a x86_64-pc-linux-gnu (64-bit) platform, and offers an intuitive virtual environmet interface enabling users to perform analysis of ecological and microbial communities based on optimized vegan functions A beta version of the RvLab is available after registration at: https://portallifewatchgreeceeu/

iCollections - Digitising the British and Irish Butterflies in the Natural History Museum, London.

Abstract: BACKGROUND The Natural History Museum, London (NHMUK) has embarked on an ambitious programme to digitise its collections . The first phase of this programme has been to undertake a series of pilot projects that will develop the necessary workflows and infrastructure development needed to support mass digitisation of very large scientific collections. This paper presents the results of one of the pilot projects - iCollections. This project digitised all the lepidopteran specimens usually considered as butterflies, 181,545 specimens representing 89 species from the British Isles and Ireland. The data digitised includes, species name, georeferenced location, collector and collection date - the what, where, who and when of specimen data. In addition, a digital image of each specimen was taken. This paper explains the way the data were obtained and the background to the collections which made up the project. NEW INFORMATION Specimen-level data associated with British and Irish butterfly specimens have not been available before and the iCollections project has released this valuable resource through the NHM data portal.

CIGESMED for divers: Establishing a citizen science initiative for the mapping and monitoring of coralligenous assemblages in the Mediterranean Sea.

Abstract: Background Over the last decade, inventorying and monitoring of marine biodiversity has significantly benefited from the active engagement of volunteers. Although several Citizen Science projects concern tropical reef ecosystems worldwide, none of the existing initiatives has yet specifically focused on their Mediterranean equivalents. Mediterranean coralline reefs, known as “coralligenous”, are bioherms primarily built by calcifying rhodophytes on hard substrates under dim-light conditions; they are considered hotspots of biodiversity and are extremely popular among divers due to their complex structure, conspicuous biological wealth and high aesthetic value. Nevertheless, data on their distribution, structure and conservation status is lacking for several Mediterranean areas while they are vulnerable to an increasing number of threats. New information In the framework of CIGESMED SeasEra (ERAnet) project a specialized Citizen Science project was launched, aiming to engage enthusiast divers in the study and monitoring of Mediterranean coralligenous assemblages through the gathering of basic information regarding their spatial occurrence, assemblage structure and associated pressures or threats. For its active implementation, a data collection protocol and a multilingual website were developed, comprising an educational module and a data submission platform. Georeferenced data reporting focuses on: (a) basic topographic and abiotic features for the preliminary description of each site, and the creation of data series for sites receiving multiple visits; (b) presence and relative abundance of typical conspicuous species, as well as (c) existence of pressures and imminent threats, for the characterization and assessment of coralligenous assemblages. A variety of tools is provided to facilitate end users, while divers have the choice to report additional information and are encouraged to upload their photographs. The long-term goal is the development of an active community of amateur observers providing widespread and ecologically significant data on coralligenous assemblages.

The cicadas (Hemiptera: Cicadidae) of India, Bangladesh, Bhutan, Myanmar, Nepal and Sri Lanka: an annotated provisional catalogue, regional checklist and bibliography.

Abstract: BACKGROUND The cicadas of the Indian subcontinent, like many other insects in the region, have remained understudied since the early part of the 20th Century, and await modern taxonomic, systematic and phylogenetic treatment. This paper presents an updated systematic catalogue of cicadas (Hemiptera: Cicadidae) from India, Bangladesh, Bhutan, Myanmar, Nepal and Sri Lanka, the first in over a century. NEW INFORMATION This paper treats 281 species, including: India and Bangladesh (189 species), Bhutan (19 species), Myanmar (81 species), Nepal (46 species) and Sri Lanka (22 species). For each species all recognized junior synonyms are included with information on the type material and additional specimens where relevant. The global distributional range and notes on the taxonomy of each species are included where appropriate. Two lists are provided: (1) species known to occur in India and Bangladesh (treated as a geographic unit), Bhutan, Myanmar, Nepal and Sri Lanka; and (2) species previously listed from these countries in error. A bibliography of species descriptions is provided, with the papers containing the original descriptions provided where copyright allows.