Uses of GBIF in scientific research

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

List of publications

  • Schulp, C., Lautenbach, S., Verburg, P.

    Quantifying and mapping ecosystem services: Demand and supply of pollination in the European Union

    Ecological Indicators 36 131-141.

    Biotic pollination is an important ecosystem service for the production of many food crops. The supply of pollination is mostly studied at the landscape scale while recent studies on the demand for pollination services provide a global-scale picture based on aggregate national-level data. This paper quantifies both demand and supply of pollination in the European Union (EU) at a relatively high spatial resolution, allowing an analysis of the match between demand and supply. Finally, we evaluate how policies interact with the spatial differences between demand and supply of this ecosystem service. We mapped the crop area requiring pollination for optimal production (demand) and both bee habitat and related visitation probability (supply) using detailed agricultural and landscape data. We compared the maps of demand and supply by visual comparison, descriptive statics and a trend surface generalized additive model to analyze the relation between visitation probability and the presence or absence of pollinator dependent crops. A sensitivity analysis was done to test the robustness of the pollination supply model. Finally, the impact of EU Biodiversity Strategy and Biofuel Directive were evaluated by identifying areas where these policies would influence the demand or supply of pollination. In the EU, 12% of the total cropland area was dependent on pollinators for optimal agricultural produc- tion. Pollinator habitat is especially abundant in mosaic landscapes as found in hilly and mountainous areas. Although covering less than 0.5% of the agricultural area, the presence of green linear elements increased the visitation probability by 5–20% while being the sole providers of pollinators in 12% of the croplands. In half of the area with a high pollination demand, the supply of pollination is also high. Irre- spective of the different parameterizations, total habitat areas and visitation probability were highest in croplands without pollinator dependent crops and lowest in hotspots of pollination demand. The analysis of the match between pollination supply and demand for this service indicates that for improving or ensuring pollination one must consider both the demand and supply of the process of crop pollination for optimal results.

    Keywords: Agriculture, Ecosystem function, Green linear elements, Land use, Landscape structure, Pollination

  • Bellard, C., Thuiller, W., Leroy, B., Genovesi, P., Bakkenes, M., Courchamp, F.

    Will climate change promote future invasions?

    (Journal name unavailable from Mendeley API. To be updated soon...)

    Biological invasion is increasingly recognized as one of the greatest threats to biodiversity. Using ensemble forecasts from species distribution models to project future suitable areas of the 100 of the world's worst invasive species defined by the International Union for the Conservation of Nature, we show that both climate and land use changes will likely cause drastic species range shifts. Looking at potential spatial aggregation of invasive species, we identify three future hotspots of invasion in Europe, northeastern North America, and Oceania. We also emphasize that some regions could lose a significant number of invasive alien species, creating opportunities for ecosystem restoration. From the list of 100, scenarios of potential range distributions show a consistent shrinking for invasive amphibians and birds, while for aquatic and terrestrial invertebrates distributions are projected to substantially increase in most cases. Given the harmful impacts these invasive species currently have on ecosystems, these species will likely dramatically influence the future of biodiversity.

    Keywords: climate change, invasive species, land use change, species distribution models

  • Foote, A., Kaschner, K., Schultze, S., Garilao, C., Ho, S., Post, K., Higham, T., Stokowska, C., van der Es, H., Embling, C., Gregersen, K., Johansson, F., Willerslev, E., Gilbert, M.

    Ancient DNA reveals that bowhead whale lineages survived Late Pleistocene climate change and habitat shifts

    Nature communications 4 1677.

    The climatic changes of the glacial cycles are thought to have been a major driver of population declines and species extinctions. However, studies to date have focused on terrestrial fauna and there is little understanding of how marine species responded to past climate change. Here we show that a true Arctic species, the bowhead whale (Balaena mysticetus), shifted its range and tracked its core suitable habitat northwards during the rapid climate change of the Pleistocene–Holocene transition. Late Pleistocene lineages survived into the Holocene and effective female population size increased rapidly, concurrent with a threefold increase in core suitable habitat. This study highlights that responses to climate change are likely to be species specific and difficult to predict. We estimate that the core suitable habitat of bowhead whales will be almost halved by the end of this century, potentially influencing future population dynamics.

    Keywords: climate change, invasive species, land use change, species distribution models

  • Jueterbock, A., Tyberghein, L., Verbruggen, H., Coyer, J., Olsen, J., Hoarau, G.

    Climate change impact on seaweed meadow distribution in the North Atlantic rocky intertidal

    (Journal name unavailable from Mendeley API. To be updated soon...)

    The North-Atlantic has warmed faster than all other ocean basins and climate change scenarios predict sea surface temperature isotherms to shift up to 600 km northwards by the end of the 21st century. The pole-ward shift has already begun for many temperate seaweed species that are important intertidal foundation species. We asked the question: Where will climate change have the greatest impact on three foundational, macroalgal species that occur along North-Atlantic shores: Fucus serratus, Fucus vesiculosus, and Ascophyllum nodo- sum? To predict distributional changes of these key species under three IPCC (Intergovernmental Panel on Climate Change) climate change scenarios (A2, A1B, and B1) over the coming two centuries, we generated Ecological Niche Models with the program MAXENT. Model predictions suggest that these three species will shift northwards as an assemblage or “unit” and that phytogeo- graphic changes will be most pronounced in the southern Arctic and the south- ern temperate provinces. Our models predict that Arctic shores in Canada, Greenland, and Spitsbergen will become suitable for all three species by 2100. Shores south of 45° North will become unsuitable for at least two of the three focal species on both the Northwest- and Northeast-Atlantic coasts by 2200. If these foundational species are unable to adapt to the rising temperatures, they will lose their centers of genetic diversity and their loss will trigger an unpredictable shift in the North-Atlantic intertidal ecosystem.

    Keywords: ascophyllum, ecological niche models, fucus, geographic distribution, global warming, intertidal, macroalgae, species distribution

  • Andel, T., Mitchell, S., Volpato, G., Vandebroek, I., Swier, J., Ruysschaert, S., Rentería Jiménez, C., Raes, N.

    In search of the perfect aphrodisiac: parallel use of bitter tonics in West Africa and the Caribbean.

    Journal of Ethnopharmacology 143(3) 840-50.

    Enslaved Africans in the Americas had to reinvent their medicinal flora in an unknown environment by adhering to plants that came with them, learning from Amerindians and Europeans, using their Old World knowledge and trial and error to find substitutes for their homeland herbs. This process has left few written records, and little research has been done on transatlantic plant use. We used the composition of aphrodisiac mixtures across the black Atlantic to discuss the adaptation of herbal medicine by African diaspora in the New World. Since Africans are considered relatively recent migrants in America, their healing flora is often said to consist largely of pantropical and cultivated species, with few native trees. Therefore, we expected Caribbean recipes to be dominated by taxa that occur in both continents, poor in forest species and rich in weeds and domesticated exotics.

    Keywords: Erectile dysfunction, Ethnobotany, Plant mixtures, Slave trade, Traditional medicine Africa

  • Bystriakova, N., Peregrym, M., Erkens, R., Bezsmertna, O., Schneider, H.

    Sampling bias in geographic and environmental space and its effect on the predictive power of species distribution models

    Systematics and Biodiversity(3) 305-315.

    Despite ever-growing popularity of species distribution models (SDM), their performance under conditions of spatially biased data has rarely been studied in detail. Here we explore the effect of a known spatial bias on the predictive ability of Maxent models, using five species of the genus Asplenium with variable reproductive modes. The models were trained and tested on western and central European presence-only distributional data, first with random background and then with target-group background. Then we tested the models on an independent Ukrainian dataset of the same species, using the area under the curve (AUC) value as test statistic.We carried out a principal components analysis (PCA) on the collection localities of the individual species to explore the properties of their ecological niches. In all but one species, spatial bias in the distributional data resulted in poor performance of theMaxent models (trained on the European dataset and tested on the Ukrainian dataset). In all species correction for sampling bias resulted in significantly wider predicted climatic niches. Based on the results of the PCA, spatial bias resulted in environmental bias of variable degree.We argue that species reproductive biology should be taken into account when distributional data are analysed in terms of their suitability for species distribution modelling. The reported results will inform biodiversity conservation assessments, particularly those using data from natural history collections.

    Keywords: Asplenium, climate, environmental bias, Europe, Maxent, model performance, multivariate analysis, spatial bias, Ukraine

  • Carstens, K., Anderson, J., Bachman, P., De Schrijver, A., Dively, G., Federici, B., Hamer, M., Gielkens, M., Jensen, P., Lamp, W., Rauschen, S., Ridley, G., Romeis, J., Waggoner, A.

    Genetically modified crops and aquatic ecosystems: considerations for environmental risk assessment and non-target organism testing.

    Transgenic Research 21(4) 813-42.

    Environmental risk assessments (ERA) support regulatory decisions for the commercial cultivation of genetically modified (GM) crops. The ERA for terrestrial agroecosystems is well-developed, whereas guidance for ERA of GM crops in aquatic ecosystems is not as well-defined. The purpose of this document is to demonstrate how comprehensive problem formulation can be used to develop a conceptual model and to identify potential exposure pathways, using Bacillus thuringiensis (Bt) maize as a case study. Within problem formulation, the insecticidal trait, the crop, the receiving environment, and protection goals were characterized, and a conceptual model was developed to identify routes through which aquatic organisms may be exposed to insecticidal proteins in maize tissue. Following a tiered approach for exposure assessment, worst-case exposures were estimated using standardized models, and factors mitigating exposure were described. Based on exposure estimates, shredders were identified as the functional group most likely to be exposed to insecticidal proteins. However, even using worst-case assumptions, the exposure of shredders to Bt maize was low and studies supporting the current risk assessments were deemed adequate. Determining if early tier toxicity studies are necessary to inform the risk assessment for a specific GM crop should be done on a case by case basis, and should be guided by thorough problem formulation and exposure assessment. The processes used to develop the Bt maize case study are intended to serve as a model for performing risk assessments on future traits and crops.

    Keywords: Aquatic ecosystem, Environmental risk assessment, Genetically modified crops, Non-target organism

  • Greve, M., Lykke, A., Fagg, C., Bogaert, J., Friis, I., Marchant, R., Marshall, A., Sandel, B., Sandom, C., Schmidt, M., Timberlake, J., Wieringa, J.

    Continental-scale variability in browser diversity is a major driver of diversity patterns in acacias across Africa

    (Journal name unavailable from Mendeley API. To be updated soon...)

    1. It has been proposed that, across broad spatial scales, climatic factors are the main drivers of ecological patterns, while biotic factors are mainly important at local spatial scales. However, few tests of the effect of biotic interactions on broad-scale patterns have been conducted; conclusions about the scale-dependence of the importance of biotic interactions thus seem premature. 2. We developed an extensive database of locality records of one of Africa’s most conspicuous groups, the acacias (the genera Senegalia and Vachellia), and used species distribution models (SDMs) to estimate the distribution of all African acacias. 3. African acacias are particularly well adapted against mammalian herbivory; therefore, we hypothesized that browser diversity could be an important driver of acacia richness. Species richness maps for the two genera were created from SDM-generated maps. Ordinary least square (OLS) regressions and, to consider spatial autocorrelation, simultaneous autoregressive (SAR) analyses were used to model richness of the two genera in relation to mammalian browser richness, current environment (including climate), and climate history since the Last Glacial Maximum (LGM). We used variation partitioning to determine what percentage of variation could be explained by these three groups of factors. 4. Both genera showed centres of richness in East Africa and the Limpopo Basin of southern Africa. Browser richness was the best explanatory variable for richness of both genera. Environmental factors explained negligible variation in the richness of Senegalia, but some variation in Vachellia. For both genera, the residuals of the species richness model of one genus also explained much variation in the richness of the other genus, indicating that common factors not considered in the richness analyses here may additionally be driving the richness of both genera. 5. Mechanisms that could generate a correlation between browser and acacia richness are proposed, and differences in the determinants of richness patterns of Senegalia and Vachellia discussed in the light of the two genera’s history of colonization of Africa. 6. Synthesis. This is the first study that demonstrates that consumer diversity can influence richness patterns at continental scales and demonstrates that biotic factors can drive richness even at broad spatial scales.

    Keywords: diversity patterns, herbivory, plant–herbivore interactions, Quaternary climate change, resource–consumer relationships, savanna species, speciation

  • Nieukerken, E., Doorenweerd, C., Stokvis, F., Groenenberg, D.

    DNA barcoding of the leaf-mining moth subgenus Ectoedemia s. str. (Lepidoptera : Nepticulidae) with COI and EF1-α: two are better than one in recognising cryptic species

    (Journal name unavailable from Mendeley API. To be updated soon...)

    We sequenced 665bp of the Cytochrome C Oxidase I (COI) barcoding marker for 257 specimens and 482bp of Elongation Factor 1-α (EF1-α) for 237 specimens belonging to the leaf- mining subgenus Ectoedemia (Ectoedemia) in the basal Lepi- dopteran family Nepticulidae. The dataset includes 45 out of 48 West Palearctic Ectoedemia s. str. species and several species from Africa, North America and Asia. Both COI and EF1-α proved reliable as an alternative to conventional species identi- fication for the majority of species and the combination of both markers can aid in species validation. A clear barcode gap is not present, and in some species large K2P intraspecific pairwise differences are found, up to 6.85% in COI and 2.9% in EF1-α. In the Ectoedemia rubivora species complex, the species E. ru- bivora, E. arcuatella and E. atricollis share COI barcodes and could only be distinguished by EF1-α. Diagnostic base posi- tions, usually third codon positions, are in this and other cases a useful addition to species delimitation, in addition to distance methods. Ectoedemia albifasciella COI barcodes fall into two distinct clusters not related to other characters, whereas these clusters are absent in EF1-α, possibly caused by mtDNA anom- alies or hybridisation. In the Ectoedemia subbimaculella com- plex, both sequences fail to unequivocally distinguish the spe- cies E. heringi, E. liechtensteini, E. phyllotomella and one population of E. subbimaculella. DNA barcodes confirm that North American Ectoedemia argyropeza are derived from a European introduction. We strongly advocate the use of a nu- clear marker in addition to the universal COI barcode marker for better identifying species, including cryptic ones

    Keywords: pairwise difference, palearctic

  • Pomati, F., Matthews, B., Jokela, J., Schildknecht, A., Ibelings, B.

    Effects of re-oligotrophication and climate warming on plankton richness and community stability in a deep mesotrophic lake

    (Journal name unavailable from Mendeley API. To be updated soon...)

    We studied the effects of re-oligotrophication and climate warming on plankton richness and community stability over a period of 30 years in the deep mesotrophic Lake Zurich (Switzerland). We assembled monthly time-series of phytoplankton and zooplankton taxonomic richness, phytoplankton functional groups (species with similar functional traits) and physico-chemical environmental descriptors (temperature, conductivity, pH, P-PO43−, N-NO3−, light absorption). We used multiple linear regression to test: 1) the effect of environmental variability over time and depth on the accrual of plankton richness; and 2) the relative effect of richness and environmental variability on the stability of plankton. Environmental change was characterised by increase in temperature, decrease in phosphorus levels, reduced temporal variability of both, and higher heterogeneity of phosphorus over depth (spatial heterogeneity). These conditions occurred concurrently with accrual in plankton taxonomic and functional richness. Increase in temperature and spatial heterogeneity were the best predictors of phytoplankton richness, while phytoplankton richness and spatial heterogeneity had the strongest effects on zooplankton richness. Temporal stability in phytoplankton biovolume was mainly affected by variability in phosphorus and temperature, while zooplankton abundance levels were more strongly linked to fluctuations in nitrogen, temperature and phytoplankton biovolumes. Our analysis highlights that climate warming and re-oligotrophication may favour an increase in spatial (depth) heterogeneity in the water column of deep lakes, enhancing the potential for phytoplankton species co-existence and an increase in plankton richness. Our analysis also suggests that the intensity of fluctuations in key environmental variables can be a better predictor of plankton community stability then average richness.

    Keywords: pairwise difference, palearctic