Uses of GBIF in scientific research

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

List of publications

  • García-Roselló, E., Guisande, C., González-Dacosta, J., Heine, J., Pelayo-Villamil, P., Manjarrás-Hernández, A., Vaamonde, A., Granado-Lorencio, C.

    ModestR: a software tool for managing and analyzing species distribution map databases

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

    The ModestR package consists of three applications: MapMaker, DataManager and MRFinder. MapMaker facilitates making range maps by drawing the areas, by importing existing data or using the Global Biodiversity Information Facility portal. It can discriminate between diff erent habitats, thereby making data cleaning tasks easier. DataManager allows the management of taxonomically structured databases for range maps. MRFinder supports querying ModestR databases to fi nd the species present in specifi c areas. Possible applications include the compilation and management of species distribu- tion databases, cleaning data and computing aggregated data to perform subsequent analyses in other packages thanks to emphasized interoperability.


  • Parra, J., Patiño, O., Prieto, J., Delgado, W., Cuca, L.

    A new benzoic acid derivative isolated from Piper cf. cumanense Kunth (Piperaceae)

    Phytochemistry Letters 1-3.

    New benzoic acid derivative (1), together with five known compounds has been isolated from the inflorescences of Piper cf. cumanense Kunth (Piperaceae). The structure was identified on basis of spectroscopic analysis and comparison with literature data. The compound (1) showed antifungal activity against Fusarium oxysporum f. sp. dianthi and Botrytis cinerea.

    Keywords: Antifungal activity, Benzoic acid, Botrytis cinerea, Fusarium oxysporum f. sp. dianthi, Piper cf. cumanense Kunth, Piperaceae


  • Vincent, H., Wiersema, J., Kell, S., Fielder, H., Dobbie, S., Castañeda-Álvarez, N., Guarino, L., Eastwood, R., Leόn, B., Maxted, N.

    A prioritized crop wild relative inventory to help underpin global food security

    Biological Conservation 167 265-275.

    The potentially devastating impacts of climate change on biodiversity and food security, together with the growing world population, means taking action to conserve crop wild relative (CWR) diversity is no longer an option—it is an urgent priority. CWR are species closely related to crops, including their progenitors, which have potential to contribute traits for crop improvement. However, their utilisation is hampered by a lack of systematic conservation which in turn is due to a lack of clarity over their identity. We used gene pool and taxon group concepts to estimate CWR relatedness for 173 priority crops to create the Harlan and de Wet inventory of globally important CWR taxa. Further taxa more remotely related to crops were added if they have historically been found to have useful traits for crop improvement. The inventory contains 1667 taxa, divided between 37 families, 108 genera, 1392 species and 299 sub-specific taxa. The region with the highest number of priority CWR is western Asia with 262 taxa, followed by China with 222 and southeastern Europe with 181. Within the primary gene pool, 242 taxa were found to be under-represented in ex situ collections and the countries identified as the highest priority for further germplasm collection are China, Mexico and Brazil. The inventory database is web-enabled (http://www.cwrdiversity.org/checklist/) and can be used to facilitate in situ and ex situ conservation planning at global, regional and national levels.

    Keywords: Antifungal activity, Benzoic acid, Botrytis cinerea, Fusarium oxysporum f. sp. dianthi, Piper cf. cumanense Kunth, Piperaceae


  • Vinceti, B., Loo, J., Gaisberger, H., van Zonneveld, M., Schueler, S., Konrad, H., Kadu, C., Geburek, T.

    Conservation Priorities for Prunus africana Defined with the Aid of Spatial Analysis of Genetic Data and Climatic Variables

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

    Conservation priorities for Prunus africana, a tree species found across Afromontane regions, which is of great commercial interest internationally and of local value for rural communities, were defined with the aid of spatial analyses applied to a set of georeferenced molecular marker data (chloroplast and nuclear microsatellites) from 32 populations in 9 African countries. Two approaches for the selection of priority populations for conservation were used, differing in the way they optimize representation of intra-specific diversity of P. africana across a minimum number of populations. The first method (S1) was aimed at maximizing genetic diversity of the conservation units and their distinctiveness with regard to climatic conditions, the second method (S2) at optimizing representativeness of the genetic diversity found throughout the species’ range. Populations in East African countries (especially Kenya and Tanzania) were found to be of great conservation value, as suggested by previous findings. These populations are complemented by those in Madagascar and Cameroon. The combination of the two methods for prioritization led to the identification of a set of 6 priority populations. The potential distribution of P. africana was then modeled based on a dataset of 1,500 georeferenced observations. This enabled an assessment of whether the priority populations identified are exposed to threats from agricultural expansion and climate change, and whether they are located within the boundaries of protected areas. The range of the species has been affected by past climate change and the modeled distribution of P. africana indicates that the species is likely to be negatively affected in future, with an expected decrease in distribution by 2050. Based on these insights, further research at the regional and national scale is recommended, in order to strengthen P. africana conservation efforts.

    Keywords: Antifungal activity, Benzoic acid, Botrytis cinerea, Fusarium oxysporum f. sp. dianthi, Piper cf. cumanense Kunth, Piperaceae


  • Warren, R., VanDerWal, J., Price, J., Welbergen, J., Atkinson, I., Ramirez-Villegas, J., Osborn, T., Jarvis, A., Shoo, L., Williams, S., Lowe, J.

    Quantifying the benefit of early climate change mitigation in avoiding biodiversity loss

    Nature Climate Change 3(5) 1-5.

    Climate change is expected to have significant influences on terrestrial biodiversity at all system levels, including species-level reductions in range size and abundance, especially amongst endemic species1–6. However, little is known about how mitigation of greenhouse gas emissions could re- duce biodiversity impacts, particularly amongst common and widespread species. Our global analysis of future climatic range change of common and widespread species shows that without mitigation, 57±6% of plants and 34±7%of animals are likely to lose ≥50% of their present climatic range by the 2080s.With mitigation, however, losses are reduced by 60% if emissions peak in 2016 or 40% if emissions peak in 2030. Thus, our analyses indicate that without mitigation, large range contractions can be expected even amongst common and widespread species, amounting to a substantial global reduction in biodiversity and ecosystem services by the end of this century. Prompt and stringent mitigation, on the other hand, could substantially reduce range losses and buy up to four decades for climate change adaptation.

    Keywords: Antifungal activity, Benzoic acid, Botrytis cinerea, Fusarium oxysporum f. sp. dianthi, Piper cf. cumanense Kunth, Piperaceae


  • 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


  • Cadena, C., Kozak, K., Gómez, J., Parra, J., McCain, C., Bowie, R., Carnaval, A., Moritz, C., Rahbek, C., Roberts, T., Sanders, N., Schneider, C., VanDerWal, J., Zamudio, K., Graham, C.

    Latitude, elevational climatic zonation and speciation in New World vertebrates.

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

    Many biodiversity hotspots are located in montane regions, especially in the tropics. A possible explanation for this pattern is that the narrow thermal tolerances of tropical species and greater climatic stratification of tropical mountains create more opportunities for climate-associated parapatric or allopatric speciation in the tropics relative to the temperate zone. However, it is unclear whether a general relationship exists among latitude, climatic zonation and the ecology of speciation. Recent taxon-specific studies obtained different results regarding the role of climate in speciation in tropical versus temperate areas. Here, we quantify overlap in the climatic distributions of 93 pairs of sister species of mammals, birds, amphibians and reptiles restricted to either the New World tropics or to the Northern temperate zone. We show that elevational ranges of tropical- and temperate-zone species do not differ from one another, yet the temperature range experienced by species in the temperate zone is greater than for those in the tropics. Moreover, tropical sister species tend to exhibit greater similarity in their climatic distributions than temperate sister species. This pattern suggests that evolutionary conservatism in the thermal niches of tropical taxa, coupled with the greater thermal zonation of tropical mountains, may result in increased opportunities for allopatric isolation, speciation and the accumulation of species in tropical montane regions. Our study exemplifies the power of combining phylogenetic and spatial datasets of global climatic variation to explore evolutionary (rather than purely ecological) explanations for the high biodiversity of tropical montane regions.

    Keywords: Altitude, Animals, Biodiversity, Biological Evolution, Climate, Genetic Speciation, Geography, Latin America, North America, Phylogeny, Vertebrates, Vertebrates: classification, Vertebrates: genetics


  • Fuller, D., Ahumada, M., Quiñones, M., Herrera, S., Beier, J.

    Near-present and future distribution of Anopheles albimanus in Mesoamerica and the Caribbean Basin modeled with climate and topographic data.

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

    Background: Anopheles albimanus is among the most important vectors of human malaria in Mesoamerica and the Caribbean Basin (M-C). Here, we use topographic data and 1950–2000 climate (near present), and future climate (2080) layers obtained from general circulation models (GCMs) to project the probability of the species’ presence, p(s), using the species distribution model MaxEnt. Results The projected near-present distribution parameterized with 314 presence points related well to the known geographic distribution in the study region. Different model experiments suggest that the range of An. albimanus based on near-present climate surfaces covered at least 1.27 million km2 in the M-C, although 2080 range was projected to decrease to 1.19 million km2. Modeled p(s) was generally highest in Mesoamerica where many of the original specimens were collected. MaxEnt projected near-present maximum elevation at 1,937 m whereas 2080 maximum elevation was projected at 2,118 m. 2080 climate scenarios generally showed increased p(s) in Mesoamerica, although results varied for northern South America and no major range expansion into the mid-latitudes was projected by 2080. Conclusions MaxEnt experiments with near present and future climate data suggest that An. albimanus is likely to invade high-altitude (>2,000 m) areas by 2080 and therefore place many more people at risk of malaria in the M-C region even though latitudinal range expansion may be limited.

    Keywords: Altitude, Animals, Biodiversity, Biological Evolution, Climate, Genetic Speciation, Geography, Latin America, North America, Phylogeny, Vertebrates, Vertebrates: classification, Vertebrates: genetics


  • Herrera, S., Shank, T., Sánchez, J.

    Spatial and temporal patterns of genetic variation in the widespread antitropical deep-sea coral Paragorgia arborea.

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

    Numerous deep-sea species have apparent widespread and discontinuous distributions. Many of these are important foundation species, structuring hard-bottom benthic ecosystems. Theoretically, differences in the genetic composition of their populations vary geographically and with depth. Previous studies have examined the genetic diversity of some of these taxa in a regional context, suggesting that genetic differentiation does not occur at scales of discrete features such as seamounts or canyons, but at larger scales (e.g. ocean basins). However, to date, few studies have evaluated such diversity throughout the known distribution of a putative deep-sea species. We utilized sequences from seven mitochondrial gene regions and nuclear genetic variants of the deep-sea coral Paragorgia arborea in a phylogeographic context to examine the global patterns of genetic variation and their possible correlation with the spatial variables of geographic position and depth. We also examined the compatibility of this morphospecies with the genealogical-phylospecies concept by examining specimens collected worldwide. We show that the morphospecies P. arborea can be defined as a genealogical-phylospecies, in contrast to the hypothesis that P. arborea represents a cryptic species complex. Genetic variation is correlated with geographic location at the basin-scale level, but not with depth. Additionally, we present a phylogeographic hypothesis in which P. arborea originates from the North Pacific, followed by colonization of the Southern Hemisphere prior to migration to the North Atlantic. This hypothesis is consistent with the latest ocean circulation model for the Miocene.

    Keywords: coral, deep sea, DNA barcoding, phylogeography, species, widespread


  • Jalonen, R., Zonneveld, M., Thomas, E., Gaisberger, H., Vinceti, B., Thong, H., Loo, J.

    Identifying Tree Populations for Conservation Action through Geospatial Analyses

    Asia and the Pacific Workshop - Multinational and Transboundary Conservation of Valuable and Endangered Forest Tree Species 98-101.

    Rapid development of information and communication technologies has made it possible to easily collect georeferenced information on species and their environment, and to use it for analyzing biological diversity, its distribution and threats to it. Such analyses can importantly inform development of conservation strategies and priorities, especially across countries or species distribution ranges (Guarino et al. 2002). Data for spatial analyses on species or genetic diversity and its distribution are collected in specifically designed studies, obtained from existing records of species occurrence, or both. Observations may be complemented by species distribution modelling, where the potential occurrence of a species is predicted based on its documented geographic distribution and climate in those areas. Results on the distribution of diversity, documented or modelled, can then be compared, for example, with existing protected areas, rates of forest degradation, threats of environmental changes, or socio-economic indicators, to identify priority tree populations and tailor strategies for their conservation and sustainable use (Pautasso 2009). In this paper recent case studies on spatial biodiversity analyses across the tropics are presented, demonstrating how such analyses can help to identify most unique or most threatened populations of a tree species for conservation actions. Insights on initiating collaborative research on diversity and distributions of important Asian tree species are also discussed.

    Keywords: coral, deep sea, DNA barcoding, phylogeography, species, widespread