Uses of GBIF in scientific research

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

List of publications

  • Barbosa N, Fernandes G, Sanchez-Azofeifa A (2015)

    A relict species restricted to a quartzitic mountain in tropical America: an example of microrefugium?

    Acta Botanica Brasilica 29(3) 299-309.

    We examined the distribution of Coccoloba cereifera, a tropical endemic species that occurs in a small area in the Espinhaço mountain range, southeastern Brazil. It is hypothesized that its narrow distribution is strongly related to the spatially scattered distribution of sandfields. However, this soil type extends far beyond the small region where C. cereifera is currently found, indicating that other factors might be involved in the distribution of this species. Coccoloba cereifera also displays all traits of a relict population in a microrefugium. As a result, we were encouraged to explore other factors potentially related to the distribution of the species. In an attempt to aid in the understanding of the processes and mechanisms that lead C. cereiferato present the narrow actual distribution, we applied two distribution modelling approaches to investigate the potential distribution of the species beyond the small known distribution area. The distribution seems to be strongly associated with sandy patches/grasslands formed among rocky outcrops and is limited by some topoclimatic and/or topographic features. Some of them related to the existence of a microrefugium, a fact also suggested by the pattern of distribution of the species in the past. From the management point of view, the existence of a microrefugium in this area calls for changes in conservation efforts and priorities.

    Keywords: Coccoloba cereifera, Espinhaço Mountains, Serra do Cipó, maximum entropy, rupestrian grasslands

  • Breusing C, Johnson S, Tunnicliffe V, Vrijenhoek R (2015)

    Population structure and connectivity in Indo-Pacific deep-sea mussels of the Bathymodiolus septemdierum complex

    Conservation Genetics 750.

    Current pressures to mine polymetallic sulfide deposits pose threats to the animal communities found at deep-sea hydrothermal vents. Management plans aimed at preserving these unusual communities require knowledge of historical and contemporary forces that shaped the distri- butions and connectivity of associated species. As most vent research has focused on the eastern Pacific and mid-Atlantic ridge systems less is known about Indo-Pacific vents, where mineral extraction activities are imminent. Deep-sea mus- sels (Bivalvia: Mytilidae) of the genus Bathymodiolus include the morphotypic species B. septemdierum , B. brev- ior , B. marisindicus , and B. elongatus which are among the dominant vent taxa in western Pacific back-arc basins and the Central Indian Ridge. To assess their interpopulational relationships, we examined multilocus genotypes based on DNA sequences from four nuclear and four mitochondrial genes, and allozyme variation encoded by eleven genes. Bayesian assignment methods grouped mussels from seven widespread western Pacific localities into a single cluster, whereas the Indian Ocean mussels were clearly divergent. Thus, we designate two regional metapopulations. Notably, contemporary migration rates among all sites appeared to be low despite limited population differentiation, which high- lights the necessity of obtaining realistic data on recovery times and fine-scale population structure to develop and manage conservation units effectively. Future studies using population genomic methods to address these issues in a range of species will help to inform management plans aimed at mitigating potential impacts of deep-sea mining in the Indo-Pacific region

    Keywords: Allozymes, Bathymodiolus, Gene flow, Nuclear markers, mtDNA

  • Brown K, Parks K, Bethell C, Johnson S, Mulligan M (2015)

    Predicting plant diversity patterns in Madagascar: understanding the effects of climate and land cover change in a biodiversity hotspot.

    PloS one 10(4) e0122721.

    Climate and land cover change are driving a major reorganization of terrestrial biotic communities in tropical ecosystems. In an effort to understand how biodiversity patterns in the tropics will respond to individual and combined effects of these two drivers of environmental change, we use species distribution models (SDMs) calibrated for recent climate and land cover variables and projected to future scenarios to predict changes in diversity patterns in Madagascar. We collected occurrence records for 828 plant genera and 2186 plant species. We developed three scenarios, (i.e., climate only, land cover only and combined climate-land cover) based on recent and future climate and land cover variables. We used this modelling framework to investigate how the impacts of changes to climate and land cover influenced biodiversity across ecoregions and elevation bands. There were large-scale climate- and land cover-driven changes in plant biodiversity across Madagascar, including both losses and gains in diversity. The sharpest declines in biodiversity were projected for the eastern escarpment and high elevation ecosystems. Sharp declines in diversity were driven by the combined climate-land cover scenarios; however, there were subtle, region-specific differences in model outputs for each scenario, where certain regions experienced relatively higher species loss under climate or land cover only models. We strongly caution that predicted future gains in plant diversity will depend on the development and maintenance of dispersal pathways that connect current and future suitable habitats. The forecast for Madagascar's plant diversity in the face of future environmental change is worrying: regional diversity will continue to decrease in response to the combined effects of climate and land cover change, with habitats such as ericoid thickets and eastern lowland and sub-humid forests particularly vulnerable into the future.

    Keywords: Allozymes, Bathymodiolus, Gene flow, Nuclear markers, mtDNA

  • Costea, M., García, M. A., Stefanovic S (2015)

    A Phylogenetically Based Infrageneric Classification of the Parasitic Plant Genus Cuscuta (Dodders, Convolvulaceae)

    Systematic Botany 40(1) 269-285.

    Cuscuta (dodders, Convolvulaceae) is one of the largest and most economically important lineages of parasitic plants. The genus has a sub-cosmopolitan distribution with more than 75% of the species diversifying in the New World. The last monograph, published by Truman George Yuncker in 1932, provided a solid species-level taxonomic foundation. However, as revealed by recent phylogenetic studies, its infrageneric classification has been in great need of a taxonomic reappraisal, mainly because the morphological characters used in the previous classifications have been greatly affected by convergent evolution. Several recent phylogenetic and character evolution studies with broad sampling, as well as species-level revisions, have illustrated the deficiencies of previous classifications and provided an explicit and robust phylogenetic framework. Here we propose a new phylogenetic classification that places all 194 currently accepted species of Cuscuta into four subgenera and 18 sections. Sections have a strong morphological and biogeographical predictive value and include from one to 31 species. Thirteen section names are new or applied for the first time at the sectional rank: Babylonicae (Yunck.) M. A. Garcı ́ a, Subulatae (Engelm.) Costea & Stefanovic ́ , Obtusilobae (Engelm.) Costea & Stefanovic ́ , Prismaticae (Yunck.) Costea & Stefanovic ́ , Ceratophorae (Yunck.) Costea & Stefanovic ́ , Umbellatae (Yunck.) Costea & Stefanovic ́ , Gracillimae Costea & Stefanovic ́ , Californicae (Yunck.) Costea & Stefanovic ́ , Indecorae (Yunck.) Costea & Stefanovic ́ , Oxycarpae (Engelm. ex Yunck.) Costea & Stefanovic ́ , Racemosae (Yunck.) Costea & Stefanovic ́ , Partitae Costea & Stefanovic ́ ,and Denticulatae (Yunck.) Costea & Stefanovic ́ . An identification key to sections is included together with an overview of morphology, geographical distribution, taxonomic notes, and lists of included species.

    Keywords: Molecular phylogeny, morphology, systematics, taxo

  • Deck J, Guralnick R, Walls R, Blum S, Haendel M, Matsunaga A et al. (2015)

    Meeting report: Identifying practical applications of ontologies for biodiversity informatics

    Standards in Genomic Sciences 10(1) 25.

    This report describes the outcomes of a recent workshop, building on a series of workshops from the last three years with the goal if integrating genomics and biodiversity research, with a more specific goal here to express terms in Darwin Core and Audubon Core, where class constructs have been historically underspecified, into a Biological Collections Ontology (BCO) framework. For the purposes of this workshop, the BCO provided the context for fully defining classes as well as object and data properties, including domain and range information, for both the Darwin Core and Audubon Core. In addition, the workshop participants reviewed technical specifications and approaches for annotating instance data with BCO terms. Finally, we laid out proposed activities for the next 3 to 18 months to continue this work.

    Keywords: Biodiversity, Community, Darwin core, Microbial ecology, OWL, Ontology, Population, RDF, Sequencing

  • Dlugosch K, Alice Cang F, Barker B, Andonian K, Swope S, Rieseberg L (2015)

    Evolution of invasiveness through increased resource use in a vacant niche

    Nature Plants 1(6) 15066.

    Non-native plants are now a pervasive feature of ecosystems across the globe1. One hypothesis for this pattern is that introduced species occupy open niches in recipient communities2,3. If true, then non-native plants should often benefit from low competition for limiting resources that define niches. Many plants have evolved larger size after introduction, consistent with increased access to limiting resources4,​5,​6,​7,​8,​9. It has been difficult to test whether larger size reflects adaptation to exploit open resources, however, because vacant niches are generally challenging to identify in plants. Here we take advantage of a situation in which a highly invasive non-native plant, Centaurea solstitialis L. (yellow starthistle, hereafter YST), occupies a well-described environmental niche, wherein water is a known limiting resource10,11. We use a glasshouse common environment and climatic niche modelling to reveal that invading YST has evolved a higher-fitness life history at the expense of increased dependence on water. Critically, historical declines in resident competitors have made water more available for introduced plants11,12, demonstrating how native biodiversity declines can open niches and create opportunities for introduced species to evolve increased resource use, a potentially widespread basis for introduction success and the evolution of invasive life histories.

    Keywords: Biodiversity, Community, Darwin core, Microbial ecology, OWL, Ontology, Population, RDF, Sequencing

  • Iacarella J, Mankiewicz P, Ricciardi A (2015)

    Negative competitive effects of invasive plants change with time since invasion

    Ecosphere 6(7) art123.

    Competitive impacts of invasive species may vary across invaded ranges, owing to spatio-temporal gradients in adapted traits and abundance levels. Higher levels of interspecific competition in recently invaded areas may lead invaders to be more competitive. Here, using meta-analysis and home range estimation techniques, we examine how negative competitive effects of invasive species vary across different spatio-temporal invasion contexts. We conducted a meta-analysis of 26 studies that used greenhouse microcosm and common garden pairwise experiments to measure the growth response of native plants in the presence of terrestrial plant invaders (totaling 36 species), and compared this to the time since invasion at the collection site (number of years between the estimated year of initial invasion, by spread of the invader, and the time of collection for the study). We show that negative competitive effects decline across sites that had been invaded for longer periods of time, with effects of invasive grasses...

    Keywords: competition, home range estimation, impact, invasive species, meta-analysis, plant, spatio-temporal gradient, time since invasion, trait variation

  • Kerr J, Pindar A, Galpern P, Packer L, Potts S, Roberts S et al. (2015)

    Climate change impacts on bumblebees converge across continents

    Science 349(6244) 177-180.

    For many species, geographical ranges are expanding toward the poles in response to climate change, while remaining stable along range edges nearest the equator. Using long-term observations across Europe and North America over 110 years, we tested for climate change-related range shifts in bumblebee species across the full extents of their latitudinal and thermal limits and movements along elevation gradients. We found cross-continentally consistent trends in failures to track warming through time at species' northern range limits, range losses from southern range limits, and shifts to higher elevations among southern species. These effects are independent of changing land uses or pesticide applications and underscore the need to test for climate impacts at both leading and trailing latitudinal and thermal limits for species.

    Keywords: Animals, Bees, Bees: drug effects, Bees: physiology, Biological, Climate Change, Europe, Extinction, North America, Pesticides, Pesticides: adverse effects, Population Dynamics

  • Murray R, Popescu V, Palen W, Govindarajulu P (2015)

    Relative performance of ecological niche and occupancy models for predicting invasions by patchily-distributed species

    Biological Invasions 17(9) 2691-2706.

    Ecological niche models (ENM) have been used with mixed success for predicting the geographic extent of non-native species to aid management and conservation. This approach is problematic for predicting invasions of patchily-distributed species (e.g., pond-breeding amphibians), whose occurrence is often determined by local habitat conditions. Here, we tested the performance of bioclimatic ENM for predicting occurrence (from repeated surveys) of two non-native pond-breeding anurans at 71 wetlands in British Columbia, Canada: permanent pond specialist American bullfrog (Lithobates catesbeianus), and generalist green frog (Lithobates clamitans). For L. catesbeianus, we assessed the risk of invasion beyond the invasion front. We found higher correlation between ENM and occupancy predictions for L. clamitans (r s = 0.58), than for L. catesbeianus (r s = −0.26). L. clamitans occurrence was highest at low elevations and high annual precipitation; in contrast, L. catesbeianus occupancy was predicted by wetland connectivity and distance from a historic introduction site [low at isolated ponds >50 km from the introduction site, and high (>0.8) at all ponds with >10 % water within 500 m]. Conditional on successful dispersal, four sites beyond the L. catesbeianus invasion front surveyed in this study were at high risk of invasion due to high habitat suitability (proportion of area occupied = 0.33; 0.04–0.83, 95 % CI). In conclusion, ENMs may be useful for informing invasion management for climate driven wetland species, but repeated sampling is necessary to predict invasions for habitat-driven wetland species.

    Keywords: Anuran, British Columbia, Freshwater habitat gradient, Invasive species, Lithobates catesbeianus, Lithobates clamitans, Occupancy models, Species distribution models, Wetlands

  • Sangermano F, Bol L, Galvis P, Gullison R, Hardner J, Ross G (2015)

    Habitat suitability and protection status of four species of amphibians in the Dominican Republic

    Applied Geography 63 55-65.

    Hispaniola Island has both a high level of amphibian endemism, and a high level of habitat degradation due to agriculture, infrastructure development, and extractive industries. The objective of this work was to evaluate the capacity of Dominican Republic's current network of protection to maintain the habitat of four species of amphibians endemic to Hispaniola (Osteopilus pulchrilineatus, Osteopilus vastus, Hypsiboas heilprini, and Eleutherodactylus flavescens). Spatial analysis was performed to relate observations of the target species to environmental factors using a maximum entropy algorithm (Maxent). Results of this analysis produced maps of probability of occurrence for each species. Analysis of habitat degradation was based on a change analysis of vegetation, by evaluating trends in the normalized difference vegetation index (NDVI) between 2000 and 2011. Results show that forest loss and species habitat loss within protected areas are smaller but similar to those extracted for the country as a whole, suggesting that the current protected area network is not effective for the maintenance of the habitat of the amphibians analyzed. Enforcement of established protection and restoration within current protected areas could facilitate the protection of up to 25.7% of target amphibian habitat. The methodologies presented here can be applied to measure biodiversity offset effectiveness.

    Keywords: Amphibians, Dominican Republic, Maxent, NDVI, Protected areas, Species distribution modeling