Uses of GBIF in scientific research

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

List of publications

  • Hrivnák R, Kochjarová J, Šumberová K, Schmotzer A (2016)

    Alien wetland annual Lindernia dubia (Scrophulariaceae): the first recently mentioned localities in Slovakia and their central European context

    Biologia 71(3) 281-286.

    Lindernia dubia (L.) Pennell, a Northern-American species, was recently found in two localities in central Slovakia (near Trenč and Štiavnické Bane villages) as a new species for the flora of Slovakia. Individuals of the species grew in wetland vegetation of the class Isoëto-Nano-Juncetea in both cases. The second mentioned locality probably belongs to the altitudinal maxima of L. dubia in Europe. Although the origin of L. dubia in the Slovak localities remains unknown, we suppose that zoochory or anthropochory are the most probable modes of its introduction into the territory of Slovakia.


  • Mandakova T, Gloss A, Whiteman N, Lysak M (2016)

    How diploidization turned a tetraploid into a pseudotriploid

    American Journal of Botany ajb.1500452-.

    PREMISE OF THE STUDYDespite being highly fertile and occupying a large geographic region, the North American heartleaf bittercress (Cardamine cordifolia; Brassicaceae) has a puzzling triploid-like chromosome number (2n = 3x = 24). As most triploids are sterile, we embarked on a detailed analysis of the C. cordifolia genome to elucidate its origin and structure. METHODSMitotic and meiotic chromosome complement of C. cordifolia was analyzed by comparative chromosome painting using chromosome-specific BAC contigs of Arabidopsis thaliana. Resulting chromosome patterns were documented by multicolor fluorescence microscopy and compared with known ancestral and extant Brassicaceae genomes. KEY RESULTSWe discovered that C. cordifolia is not a triploid hybrid but a diploidized tetraploid with the prevalence of regular, diploid-like meiotic pairing. The ancestral tetraploid chromosome number (2n = 32) was reduced to a triploid-like number (2n = 24) through four terminal chromosome translocations. CONCLUSIONSThe structure of the pseudotriploid C. cordifolia genome results from a stepwise diploidization process after whole-genome duplication. We showed that translocation-based descending dysploidy (from n = 16 to n = 12) was mediated by the formation of five new chromosomes. The genome of C. cordifolia represents the diploidization process in statu nascendi and provides valuable insights into mechanisms of postpolyploidy rediploidization in land plants. Our data further suggest that chromosome number alone does not need to be a reliable proxy of species evolutionary past and that the same chromosome number may originate either by polyploidization (hybridization) or due to descending dysploidy.

    Keywords: Brassicaceae, centromere loss, chromosome fusion, chromosome translocation, diploidization, dysploidy, karyotype evolution, polyploidy, whole-genome duplication


  • Mikula O, Šumbera R, Aghová T, Mbau J, Katakweba A, Sabuni C et al. (2016)

    Evolutionary history and species diversity of African pouched mice (Rodentia: Nesomyidae: Saccostomus )

    Zoologica Scripta.

    We explore diversity of African pouched mice, genus Saccostomus (Rodentia, Nesomyidae), by sampling molecular and morphological variation across their continental-scale distribution in southern and eastern African savannahs and woodlands. Both mitochondrial (cytochrome b) and nuclear DNA (IRBP, RAG1) as well as skull morphology confirm the distinction between two recognized species, S. campestris and S. mearnsi, with disjunct distribution in the Zambezian and Somali–Maasai bioregions, respectively. Molecular dating suggests the divergence of these taxa occurred in the Early Pliocene, 3.9 Ma before present, whereas the deepest divergences within each of them are only as old as 2.0 Ma for S. mearnsi and 1.4 Ma for S. campestris. Based on cytochrome b phylogeny, we defined five clades (three within S. campestris, two in S. mearnsi) whose species status was considered in the light of nuclear DNA markers and morphology. We conclude that S. campestris group consists of two subspecies S. campestris campestris (Peters, 1846; comprising two cytochrome b clades) and S. campestris mashonae (de Winton, 1897) that are moderately differentiated, albeit distinct in IRBP and skull form. They likely hybridize to a limited extent along the Kafue–Zambezi Rivers. Saccostomus mearnsi group consists of two species, S. mearnsi (Heller, 1910) and S. umbriventer (Miller, 1910), that are markedly differentiated in both nuclear markers and skull form and may possibly co-occur in south-western Kenya and north-eastern Tanzania. Analysis of historical demography suggests both subspecies of S. campestris experienced population expansion dated to the Last Glacial. In the present range of S. campestris group, the distribution modelling suggests a moderate fragmentation of suitable habitats during the last glacial cycle, whereas in the range of S. mearnsi group it predicts substantial shifts of its occurrence in the same period.

    Keywords: Brassicaceae, centromere loss, chromosome fusion, chromosome translocation, diploidization, dysploidy, karyotype evolution, polyploidy, whole-genome duplication


  • Čuda J, Skálová H, Janovský Z, Pyšek P (2016)

    Juvenile biological traits of Impatiens species are more strongly associated with naturalization in temperate climate than their adult traits

    Perspectives in Plant Ecology, Evolution and Systematics 20 1-10.

    Potentially invasive species can be identified before they start to spread by comparing their traits with those of successful invaders. A powerful tool for delimiting the traits associated with invasiveness are analyses of a number of species of the same genus, where it is more likely to detect relevant differences because of elimination of biases that constrain the search for such traits in whole floras. Since the influence of traits on invasion success may differ with respect to the stage of the plant's life cycle, comparative studies should address the whole life cycle, including early stages. Here we studied which biological traits are associated with the ability to naturalize within the genus Impatiens, how frequency of planting affects naturalization success, and whether naturalized species with biological traits similar to the native representative of this genus are more successful. The genus Impatiens includes a number of cultivated species popular in horticulture, among them several widespread invaders. We used one native and 10 alien annual taxa. This data set involved all commonly cultivated species, and representatives of different invasion status in Europe. In garden experiments and climatic chambers we measured seed mass, time to germination, percentage of seeds germinated, seedling growth rate, total seedling biomass, seedling root/total biomass ratio, adult biomass and fecundity. These traits and planting frequency were used to explain the invasion success of the species, expressed as (i) invasion status in Europe and (ii) the number of global temperate regions in which the species has been reported as naturalized. The frequency of planting was used as a proxy of propagule pressure to separate this potentially biasing factor known to affect plant invasiveness from the effect of plant traits. We found that both species traits and frequency of planting were correlated with naturalization. Species naturalized in many temperate regions of the world had heavier seeds, high seedling growth rate and allocated low proportion of seedling biomass to roots. Importantly, common planting was more strongly correlated with naturalization success than with biological traits. Impatiens species naturalized in Europe exhibited better seed germination in the common garden, and it took a longer time for the seeds to germinate. Species escaped from cultivation but occurring only as casuals in Europe had heavy seeds and invested more resources into shoots than roots, whereas species not escaping from cultivation were characterized by fast seed germination and light seed. In general, traits linked to early stages of the life cycle were more strongly associated with invasion success than those of the adults. Frequently planted species tend to naturalize more easily than those planted scarcely. The successful invaders share traits similar to the one native Impatiens species in Europe and those with traits distinct from it do not invade. Our results indicate that many Impatiens species represent potential invaders should their planting become more widespread; this prediction is supported by the fact that Impatiens species included in the experiment completed their life cycles in an experimental garden in central Europe.

    Keywords: Alien species, Balsam, Congener, Limiting similarity, Naturalization, Plant invasion, Seedling traits


  • Dellinger A, Essl F, Hojsgaard D, Kirchheimer B, Klatt S, Dawson W et al. (2015)

    Niche dynamics of alien species do not differ among sexual and apomictic flowering plants.

    The New phytologist.

    Biological invasions can be associated with shifts of the species' climatic niches but the incidence of such shifts is under debate. The reproductive system might be a key factor controlling such shifts because it influences a species' evolutionary flexibility. However, the link between reproductive systems and niche dynamics in plant invasions has been little studied so far. We compiled global occurrence data sets of 13 congeneric sexual and apomictic species pairs, and used principal components analysis (PCA) and kernel smoothers to compare changes in climatic niche optima, breadths and unfilling/expansion between native and alien ranges. Niche change metrics were compared between sexual and apomictic species. All 26 species showed changes in niche optima and/or breadth and 14 species significantly expanded their climatic niches. However, we found no effect of the reproductive system on niche dynamics. Instead, species with narrower native niches showed higher rates of niche expansion in the alien ranges. Our results suggest that niche shifts are frequent in plant invasions but evolutionary potential may not be of major importance for such shifts. Niche dynamics rather appear to be driven by changes of the realized niche without adaptive change of the fundamental climatic niche.

    Keywords: adaptation, asexual reproduction, niche shifts, plant invasion, reproductive system, species distribution modelling


  • Kleckova I, Cesanek M, Fric Z, Pellissier L (2015)

    Diversification of the cold-adapted butterfly genus Oeneis related to Holarctic biogeography and climatic niche shifts.

    Molecular phylogenetics and evolution 92 255-265.

    Both geographical and ecological speciation interact during the evolution of a clade, but the relative contribution of these processes is rarely assessed for cold-dwelling biota. Here, we investigate the role of biogeography and the evolution of ecological traits on the diversification of the Holarctic arcto-alpine butterfly genus Oeneis (Lepidoptera: Satyrinae). We reconstructed the molecular phylogeny of the genus based on one mitochondrial (COI) and three nuclear (GAPDH, RpS5, wingless) genes. We inferred the biogeographical scenario and the ancestral state reconstructions of climatic and habitat requirements. Within the genus, we detected five main species groups corresponding to the taxonomic division and further paraphyletic position of Neominois (syn. n.). Next, we transferred O. aktashi from the hora to the polixenes species group on the bases of molecular relationships. We found that the genus originated in the dry grasslands of the mountains of Central Asia and dispersed over the Beringian Land Bridges to North America several times independently. Holarctic mountains, in particular the Asian Altai Mts. and Sayan Mts., host the oldest lineages and most of the species diversity. Arctic species are more recent, with Pliocene or Pleistocene origin. We detected a strong phylogenetic signal for the climatic niche, where one lineage diversified towards colder conditions. Altogether, our results indicate that both dispersal across geographical areas and occupation of distinct climatic niches promoted the diversification of the Oeneis genus.

    Keywords: Lepidoptera, Molecular systematics, Niche evolution, Quaternary, Satyrinae, Temperate


  • Rijal D, Alm T, Jahodová , Stenøien H, Alsos I (2015)

    Reconstructing the invasion history of Heracleum persicum (Apiaceae) into Europe.

    Molecular ecology.

    Sparse, incomplete and inappropriate historical records of invasive species often hamper invasive species management interventions. Population genetic analyses of invaders might provide a suitable context for the identification of their source populations and possible introduction routes. Here, we describe the population genetics of Heracleum persicum Desf. ex Fisch and trace its route of introduction into Europe. Microsatellite markers revealed a significantly higher genetic diversity of H. persicum in its native range, and the loss of diversity in the introduced range may be attributed to a recent genetic bottleneck. Bayesian cluster analysis on regional levels identified three and two genetic clusters in the native and the introduced ranges, respectively. A global structure analysis revealed two worldwide distinct genetic groups: one primarily in Iran and Denmark, the other primarily in Norway. There were also varying degrees of admixture in England, Sweden, Finland and Latvia. Approximate Bayesian computation indicated two independent introductions of H. persicum from Iran to Europe: the first one in Denmark and the second one in England. Finland was subsequently colonized by English populations. In contrast to the contemporary hypothesis of English origin of Norwegian populations, we found Finland to be a more likely source for Norwegian populations, a scenario supported by higher estimated historical migration from Finland to Norway. Genetic diversity per se is not a primary determinant of invasiveness in H. persicum. Our results indicate that, due to either pre-adaptations or rapid local adaptations, introduced populations may have acquired invasiveness after subsequent introductions, once a suitable environment was encountered. This article is protected by copyright. All rights reserved.

    Keywords: Approximate Bayesian Computation, biodiversity, genetic variation, giant hogweeds, invasive alien species, population genetics


  • van Kleunen M, Dawson W, Essl F, Pergl J, Winter M, Weber E et al. (2015)

    Global exchange and accumulation of non-native plants

    Nature 525(7567) 100-103.

    All around the globe, humans have greatly altered the abiotic and biotic environment with ever-increasing speed. One defining feature of the Anthropocene epoch1, 2 is the erosion of biogeographical barriers by human-mediated dispersal of species into new regions, where they can naturalize and cause ecological, economic and social damage3. So far, no comprehensive analysis of the global accumulation and exchange of alien plant species between continents has been performed, primarily because of a lack of data. Here we bridge this knowledge gap by using a unique global database on the occurrences of naturalized alien plant species in 481 mainland and 362 island regions. In total, 13,168 plant species, corresponding to 3.9% of the extant global vascular flora, or approximately the size of the native European flora, have become naturalized somewhere on the globe as a result of human activity. North America has accumulated the largest number of naturalized species, whereas the Pacific Islands show the fastest increase in species numbers with respect to their land area. Continents in the Northern Hemisphere have been the major donors of naturalized alien species to all other continents. Our results quantify for the first time the extent of plant naturalizations worldwide, and illustrate the urgent need for globally integrated efforts to control, manage and understand the spread of alien species.

    Keywords: Biodiversity, Biogeography, Invasive species, Macroecology


  • Cadima X, van Zonneveld M, Scheldeman X, Castañeda N, Patiño F, Beltran M et al. (2014)

    Endemic wild potato (Solanum spp.) biodiversity status in Bolivia: Reasons for conservation concerns

    Journal for Nature Conservation 22(2) 113-131.

    Crop wild relatives possess important traits, therefore ex situ and in situ conservation efforts are essential to maintain sufficient options for crop improvement. Bolivia is a centre of wild relative diversity for several crops, among them potato, which is an important staple worldwide and the principal food crop in this country. Despite their relevance for plant breeding, limited knowledge exists about their in situ conservation status. We used Geographic Information Systems (GIS) and distribution modelling with the software Maxent to better understand geographic patterns of endemic wild potato diversity in Bolivia. In combination with threat layers, we assessed the conservation status of all endemic species, 21 in total. We prioritised areas for in situ conservation by using complementary reserve selection and excluded 25% of the most-threatened collection sites because costs to implement conservation measures at those locations may be too high compared to other areas. Some 70% (15 of 21 species) has a preliminary vulnerable status or worse according to IUCN red list distribution criteria. Our results show that four of these species would require special conservation attention because they were only observed in <15 locations and are highly threatened by human accessibility, fires and livestock pressure. Although highest species richness occurs in south-central Bolivia, in the departments Santa Cruz and Chuquisaca, the first priority area for in situ conservation according to our reserve selection exercise is central Bolivia, Cochabamba; this area is less threatened than the potato wild relatives’ hotspot in south-central Bolivia. Only seven of the 21 species were observed in protected areas. To improve coverage of potato wild relatives’ distribution by protected areas, we recommend starting inventories in parks and reserves with high modelled diversity. Finally, to improve ex situ conservation, we targeted areas for germplasm collection of species with <5 accessions conserved in genebanks.

    Keywords: Crop wild relatives, Ex situ conservation, IUCN red listing, In situ conservation, Potato breeding material, Reserve selection, Species distribution modelling, Threat assessment


  • Hustad V, Kučera V, Rybáriková N, Lizoň P, Gaisler J, Baroni T et al. (2014)

    Geoglossum simile of North America and Europe: distribution of a widespread earth tongue species and designation of an epitype

    Mycological Progress.

    Geoglossum simile is a distinctive species of the earth tongue class Geoglossomycetes, first described in 1873. The taxonomic standing of this species has long been disputed, resulting in nearly 70 years of potential misdiagnoses. Although G. simile was originally described from North America, it has subsequently been reported from several European countries as well as Asia, Australasia, and India. In this study, we report the first records of G. simile from Slovakia and the Czech Republic, examine the morphological and molecular diversity of Northern Hemisphere collections, discuss the taxonomic history and current status of the species, and designate a recent North American collection as the epitype of this widely distributed and conservationally significant species.

    Keywords: ascomycota, conservation, fungal, geoglossomycetes, phylogenetics, systematics