Uses of GBIF in scientific research

Peer-reviewed research citing GBIF as a data source, with at least one author from Russian Federation.
Extracted from the Mendeley GBIF Public Library.

List of publications

  • Feuda, R., Bannikova, A., Zemlemerova, E., Di Febbraro, M., Loy, A., Hutterer, R., Aloise, G., Zykov, A., Annesi, F., Colangelo, P., 2015.

    Tracing the evolutionary history of the mole, Talpa europaea , through mitochondrial DNA phylogeography and species distribution modelling

    Biological Journal of the Linnean Society 114(3) 495-512.

    Our understanding of the effect of Pleistocene climatic changes on the biodiversity of European mammals mostly comes from phylogeographical studies of non-subterranean mammals, whereas the influence of glaciation cycles on subterranean mammals has received little attention. The lack of data raises the question of how and to what extent the current amount and distribution of genetic variation in subterranean mammals is the result of Pleistocene range contractions/expansions. The common mole (Talpa europaea) is a strictly subterranean mammal, widespread across Europe, and represents one of the best candidates for studying the influence of Quaternary climatic oscillation on subterranean mammals. Cytochrome b sequences, as obtained from a sampling covering the majority of the distribution area, were used to evaluate whether Pleistocene climate change influenced the evolution of T. europaea and left a trace in the genetic diversity comparable to that observed in non-subterranean small mammals. Subsequently, we investigated the occurrence of glacial refugia by comparing the results of phylogeographical analysis with species distribution modelling. We found three differentiated mitochondrial DNA lineages: two restricted to Spain and Italy and a third that was widespread across Europe. Phylogenetic inferences and the molecular clock suggest that the Spanish moles represent a highly divergent and ancient lineage, highlighting for the first time the paraphyly of T. europaea. Furthermore, our analyses suggest that the genetic break between the Italian and the European lineages predates the last glacial phase. Historical demography and spatial principal component analysis further suggest that the Last Glacial Maximum left a signature both in the Italian and in the European lineages. Genetic data combined with species distribution models support the presence of at least three putative glacial refugia in southern Europe (France, Balkan Peninsula and Black Sea) during thelast glacial maximum that likely contributed to post-glacial recolonization of Europe. By contrast, the Italian lineage remained trapped in the Italian peninsula and, according to the pattern observed in other subterranean mammals, did not contribute to the recolonization of northern latitudes

    Keywords: Europe, Last Glacial Maximum, SDM, cytochrome b, glacial refugia, historical demography, paraphyly, phylogenetics, sPCA

  • Orlova-Bienkowskaja, M., Ukrainsky, A., Brown, P., 2015.

    Harmonia axyridis (Coleoptera: Coccinellidae) in Asia: a re-examination of the native range and invasion to southeastern Kazakhstan and Kyrgyzstan

    Biological Invasions.

    Harmonia axyridis (Pallas) is an invasive ladybird spreading in several continents. It is native to East Asia, but its range in Asia has until now been poorly understood. The most complete map of the range of Harmonia axyridis in Asia has been compiled (432 localities). Harmonia axyridis occurs in the south-east of West Siberia, the south of East Siberia, the south of Russian Far East, the east of Kazakhstan, the north of Kyrgyzstan, Mongolia, China, North Korea, South Korea, Japan, and the north of Vietnam. Southeastern Kazakhstan and the north of Kyrgyzstan are not a part of the native range: the large Balkhash Desert is situated between this mountainous region and the nearest part of the native range (Altai mountains). The analysis of dates and places of findings indicates that Harmonia axyridis appeared in southeastern Kazakhstan and Kyrgyzstan after the construction of the Turkestan-Siberian Railway. It is hypothesized that the beetles crossed the desert along this railway.

    Keywords: Coccinellidae, Harlequin ladybird, Harmonia axyridis, Invasive species, Multicolored Asian lady beetle, Native range

  • Artyukova, E., Kozyrenko, M., Boltenkov, E., Gorovoy, P., 2014.

    One or three species in Megadenia (Brassicaceae): insight from molecular studies

    Genetica 142(4) 337-50.

    Megadenia Maxim. is a small genus of the Brassicaceae endemic to East Asia with three disjunct areas of distribution: the eastern edge of the Qinghai-Tibetan Plateau, the Eastern Sayan Mountains in southern Siberia, and Chandalaz Ridge in the southern Sikhote-Alin Mountains. Although distinct species (M. pygmaea Maxim., M. bardunovii Popov, and M. speluncarum Vorob., Vorosch. and Gorovoj) have been described from each area, they have lately been reduced to synonymy with M. pygmaea due to high morphological similarity. Here, we present the first molecular study of Megadenia. Using the sequences of 11 noncoding regions from the cytoplasmic (chloroplast and mitochondrial) and nuclear genomes, we assessed divergence within the genus and explored the relationships between Megadenia and Biscutella L. Although M. bardunovii, M. speluncarum, and M. pygmaea were found to be indiscernible with regard to the nuclear and mitochondrial markers studied, our data on the plastid genome revealed their distinctness and a clear subdivision of the genus into three lineages matching the three described species. All of the phylogenetic analyses of the chloroplast DNA sequences provide strong support for the inclusion of Megadenia and Biscutella in the tribe Biscutelleae. A dating analysis shows that the genus Megadenia is of Miocene origin and diversification within the genus, which has led to the three extant lineages, most likely occurred during the Early-Middle Pleistocene, in agreement with the vicariance pattern. Given the present-day distribution, differences in habitat preferences and in some anatomical traits, and lack of a direct genealogical relationship, M. pygmaea, M. bardunovii, and M. speluncarum should be treated as distinct species or at least subspecies.

    Keywords: Coccinellidae, Harlequin ladybird, Harmonia axyridis, Invasive species, Multicolored Asian lady beetle, Native range

  • Borisanova, A., Chernyshev, A., Neretina, T., Stupnikova, A., 2014.

    Description and phylogenetic position of the first abyssal solitary kamptozoan species from the Kuril-Kamchatka trench area: Loxosomella profundorum sp. nov. (Kamptozoa: Loxosomatidae)

    Deep Sea Research Part II: Topical Studies in Oceanography Forthcoming.

    One of two orders of a small phylum Kamptozoa, Solitaria, consisting of one family Loxosomatidae of about 140 species, has never been recorded deeper than 700m. All known for the north-western Pacific loxosomatids (about 17 species) occur in shallow waters. The first abyssal solitary kamptozoan, Loxosomella profundorum sp. nov. is described herein. It was collected during the German–Russian deep-sea expedition KuramBio aboard RV Sonne in the summer of 2012 in the abyssal plain adjacent to the Kuril-Kamchatka Trench. It is the deepest finding of Kamptozoa to date. The new species was found living on the anthozoan polyp Corallimorpharia. L. profundorum sp. nov. is a largest solitary kamptozoan species, up to 4mm in length, with a stalk of up to 3.5 mm, with 10–12 tentacles, with two conspicuous lateral papillae, and a row of glandular cells in its stalk. A preliminary molecular phylogenetic analysis based on partial 18S rDNA indicated that L. profundorum sp. nov. is a sister clade to the clade, which includes other Loxosomella and two species of Loxomitra.

    Keywords: Abyssal, Biodiversity, Biogeography, Corallimorpharia, Entoprocta, Kuril-Kamchatka Trench, Loxosomella, New species

  • Creemers, R., Denoël, M., Campos, J., Vences, M., Crochet, P., Gonçalves, J., de Pous, P., Kuzmin, S., Speybroeck, J., Toxopeus, B., Corti, C., Vieites, D., Ficetola, G., Bonardi, A., Crnobrnja Isailović, J., Rodríguez, A., Lymberakis, P., Sindaco, R., Sillero, N., 2014.

    Updated distribution and biogeography of amphibians and reptiles of Europe

    Amphibia-Reptilia 35(1) 1-31.

    A precise knowledge of the spatial distribution of taxa is essential for decision-making processes in land management and biodiversity conservation, both for present and under future global change scenarios. This is a key base for several scientific disciplines (e.g. macro-ecology, biogeography, evolutionary biology, spatial planning, or environmental impact assessment) that rely on species distribution maps. An atlas summarizing the distribution of European amphibians and reptiles with 50 × 50 km resolution maps based on ca. 85 000 grid records was published by the Societas Europaea Herpetologica (SEH) in 1997. Since then, more detailed species distribution maps covering large parts of Europe became available, while taxonomic progress has led to a plethora of taxonomic changes including new species descriptions. To account for these progresses, we compiled information from different data sources: published in books and websites, ongoing national atlases, personal data kindly provided to the SEH, the 1997 European Atlas, and the Global Biodiversity Information Facility (GBIF). Databases were homogenised, deleting all information except species names and coordinates, projected to the same coordinate system (WGS84) and transformed into a 50 × 50 km grid. The newly compiled database comprises more than 384 000 grid and locality records distributed across 40 countries. We calculated species richness maps as well as maps of Corrected Weighted Endemism and defined species distribution types (i.e. groups of species with similar distribution patterns) by hierarchical cluster analysis using Jaccard’s index as association measure. Our analysis serves as a preliminary step towards an interactive, dynamic and online distributed database system (NA2RE system) of the current spatial distribution of European amphibians and reptiles. The NA2RE system will serve as well to monitor potential temporal changes in their distributions. Grid maps of all species are made available along with this paper as a tool for decision-making and conservation-related studies and actions. We also identify taxonomic and geographic gaps of knowledge that need to be filled, and we highlight the need to add temporal and altitudinal data for all records, to allow tracking potential species distribution changes as well as detailed modelling of the impacts of land use and climate change on European amphibians and reptiles.

    Keywords: European herpetofauna, IUCN red list, biogeography, conservation, distribution atlas, distribution types, endemism, species richness

  • German, D., 2014.

    Some new and revised typifications in North Eurasian Cruciferae

    Turczaninowia 17(4) 29-41.

    Nomenclature of some taxa of North Eur - asian Cruciferae is updated. Lectotypes are designated for Aethionema levandowskyi , Alyssum americanum , A. gymnopodum , A. inflatum , Arabis fruticulosa f. major , Arabis fruticulosa f. minor , Cheiranthus leucanthemus , Ch. nitrarius , Erysimum macilentum , Eutrema edward - sii , Lunaria suffruticosa , Sisymbrium album , Thlaspi praecox var. macranthum , and Vella tenuissima , in some cases refining or revising previous typifications. Place of validation and authorship of Lepidium coronopifolium is corrected and a neotype for this name is designated. Combinations Odontarrhena americana , O. borzaeana , O. gehamensis , O. gymnopoda , O. inflata , O. savranica , O. schirwanica , and O. subalpina are validated.

    Keywords: Brassicaceae, lectotype, lysseae, new combination

  • Linse, K., Jackson, J., Malyutina, M., Brandt, A., 2014.

    Shallow-Water Northern Hemisphere Jaera (Crustacea, Isopoda, Janiridae) Found on Whale Bones in the Southern Ocean Deep Sea: Ecology and Description of Jaera tyleri sp. nov.

    PloS one 9(3) e93018.

    The skeleton of a natural whale fall discovered in the Southern Ocean at 1,445 m was densely covered by one small, janirid isopod. Jaera tyleri sp. nov. is the first of its genus found in the southern hemisphere and in the deep sea and is described herein. Morphological and molecular investigations revealed the systematic position of this species new to science. Phylogenetic analysis of the 18S locus confirms that this species falls in a strongly supported monophyletic clade of Jaera species. The whale bone habitat of J. tyleri sp. nov. is quite different from those of other species of the genus Jaera. The analysis of bathymetric and distribution patterns of the Janiridae in general and Jaera specifically confirm the unusualness of the habitat for this isopod species. The abundance of J. tyleri sp. nov. on the whale bones and its absence from other nearby habitats suggests it to be a whale-fall specialist. The analysis of the size-frequency distributions of J. tyleri sp. nov. suggests multimodal population structure with continuous breeding activity throughout the year. The fecundity of the species is low but in line with reduced fecundity observed in polar and small-sized isopods.

    Keywords: Brassicaceae, lectotype, lysseae, new combination

  • Orlova-Bienkowskaja, M., Bieńkowski, A., Беньковский, ., 2014.

    Paridea angulicollis (Motschulsky, 1854) (Coleoptera: Chrysomelidae: Galerucinae) is a new genus and species for Russia Paridea angulicollis (Motschulsky, 1854) (Coleoptera: Chrysomelidae: Galerucinae)

    10(1) 85-87.

    The leaf-beetle Paridea angulicollis, a pest of medical plant Gynostemma pentaphyllum (Cucurbitaceae), has been found in Primorsky Province. It is the first record of the genus Paridea in Russia. Paridea angulicollis occurs in China, Japan, Taiwan and South Korea. The original map of the range is compiled (79 locations). The photo and diagnosis are given.

    Keywords: chrysomelidae, coleoptera, cucurbitaceae, diagnosis, far east, paridea angulicollis, pest, russia

  • Orlova-Bienkowskaja, M., Volkovitsh, M., 2014.

    Range expansion of Agrilus convexicollis in European Russia expedited by the invasion of the emerald ash borer, Agrilus planipennis (Coleoptera: Buprestidae)

    Biological Invasions Forthcoming.

    The jewel beetle Agrilus convexicollis Redtenbacher, 1849 (Buprestidae) occurs in many European and North Mediterranean countries and feeds mainly on dying shoots and branches of ash trees (Fraxinus excelsior, F. ornus and F. oxyphylla). A range map of A. convexicollis with 479 exact localities from the literature and museum collections is compiled. Historically, this species was not known to be present in the central region of European Russia. Since 2007, however, specimens of A. convexicollis have been collected in seven central European Russia localities, effectively expanding the northern border of the previously known range by approximately 665 km. All recently established localities of A. convexicollis are within the region invaded by emerald ash borer (A. planipennis Fairmaire), an East Asian pest of ashes that was first detected in European Russia in 2003. In addition, almost all A. convexicollis specimens from central European Russia (both adults and larvae) were collected from declining F. pennsylvanica (an introduced North American ash) infested with A. planipennis. This is a new host record for A. convexicollis. We suspect that the recent range expansion of A. convexicollis in central European Russia has been facilitated by the A. planipennis invasion, which has caused widespread decline and mortality of ash trees in the region. This work illustrates how the invasion of one species can facilitate the range expansion of another.

    Keywords: Agrilus convexicollis, Agrilus planipennis, Ash, Buprestidae, Emerald ash borer, Range expansion

  • Vences, M., Hauswaldt, J., Steinfartz, S., Rupp, O., Goesmann, A., Künzel, S., Orozco-terWengel, P., Vieites, D., Nieto-Román, S., Haas, S., Laugsch, C., Gehara, M., Bruchmann, S., Pabijan, M., Ludewig, A., Rudert, D., Angelini, C., Borkin, L., Crochet, P., Crottini, A., Dubois, A., Ficetola, G., Galán, P., Geniez, P., Hachtel, M., Jovanovic, O., Litvinchuk, S., Lymberakis, P., Ohler, A., Smirnov, N., 2013.

    Radically different phylogeographies and patterns of genetic variation in two European brown frogs, genus Rana

    Molecular Phylogenetics and Evolution 68(3) 657-70.

    We reconstruct range-wide phylogeographies of two widespread and largely co-occurring Western Palearctic frogs, Rana temporaria and R. dalmatina. Based on tissue or saliva samples of over 1000 individuals, we compare a variety of genetic marker systems, including mitochondrial DNA, single-copy protein-coding nuclear genes, microsatellite loci, and single nucleotide polymorphisms (SNPs) of transcriptomes of both species. The two focal species differ radically in their phylogeographic structure, with R. temporaria being strongly variable among and within populations, and R. dalmatina homogeneous across Europe with a single strongly differentiated population in southern Italy. These differences were observed across the various markers studied, including microsatellites and SNP density, but especially in protein-coding nuclear genes where R. dalmatina had extremely low heterozygosity values across its range, including potential refugial areas. On the contrary, R. temporaria had comparably high range-wide values, including many areas of probable postglacial colonization. A phylogeny of R. temporaria based on various concatenated mtDNA genes revealed that two haplotype clades endemic to Iberia form a paraphyletic group at the base of the cladogram, and all other haplotypes form a monophyletic group, in agreement with an Iberian origin of the species. Demographic analysis suggests that R. temporaria and R. dalmatina have genealogies of roughly the same time to coalescence (TMRCA ~3.5 mya for both species), but R. temporaria might have been characterized by larger ancestral and current effective population sizes than R. dalmatina. The high genetic variation in R. temporaria can therefore be explained by its early range expansion out of Iberia, with subsequent cycles of differentiation in cryptic glacial refugial areas followed by admixture, while the range expansion of R. dalmatina into central Europe is a probably more recent event.

    Keywords: Agrilus convexicollis, Agrilus planipennis, Ash, Buprestidae, Emerald ash borer, Range expansion