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

  • Hattab T, Leprieur F, Lasram F, Gravel D, Loc'h F, Albouy C (2016)

    Forecasting fine-scale changes in the food-web structure of coastal marine communities under climate change


    Climate change is inducing deep modifications in local communities worldwide as a consequence of individualistic species range shifts. Understanding how complex interaction networks will be reorganized under climate change represents a major challenge in the fields of ecology and biogeography. However, forecasting the potential effects of climate change on local communities, and more particularly on food-web structure, requires the consideration of highly structuring processes, such as trophic interactions. A major breakthrough is therefore expected by combining predictive models integrating habitat selection processes, the physiological limits of marine species and their trophic interactions. In this study, we forecasted the potential impacts of climate change on the local food-web structure of the highly threatened Gulf of Gabes ecosystem located in the south of the Mediterranean Sea. We coupled the climatic envelope and habitat models to an allometric niche food web model, hence taking into account the different processes acting at regional (climate) and local scales (habitat selection and trophic interactions). Our projections under the A2 climate change scenario showed that future food webs would be composed of smaller species with fewer links, resulting in a decrease of connectance, generality, vulnerability and mean trophic level of communities and an increase of the average path length, which may have large consequences on ecosystem functioning. The unified framework presented here, by connecting food-web ecology, biogeography and seascape ecology, allows the exploration of spatial aspects of interspecific interactions under climate change and improves our current understanding of climate change impacts on local marine food webs.

  • 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

  • Díaz S, Kattge J, Cornelissen J, Wright I, Lavorel S, Dray S et al. (2015)

    The global spectrum of plant form and function


    Earth is home to a remarkable diversity of plant forms and life histories, yet comparatively few essential trait combinations have proved evolutionarily viable in today’s terrestrial biosphere. By analysing worldwide variation in six major traits critical to growth, survival and reproduction within the largest sample of vascular plant species ever compiled, we found that occupancy of six-dimensional trait space is strongly concentrated, indicating coordination and trade-offs. Three-quarters of trait variation is captured in a two-dimensional global spectrum of plant form and function. One major dimension within this plane reflects the size of whole plants and their parts; the other represents the leaf economics spectrum, which balances leaf construction costs against growth potential. The global plant trait spectrum provides a backdrop for elucidating constraints on evolution, for functionally qualifying species and ecosystems, and for improving models that predict future vegetation based on continuous variation in plant form and function.

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

  • Fisher A, McDade L, Kiel C, Khoshravesh R, Johnson M, Stata M et al. (2015)

    Evolutionary History of Blepharis (Acanthaceae) and the Origin of C 4 Photosynthesis in Section Acanthodium

    International Journal of Plant Sciences 176(8) 770-790.

    Premise of research. Plants with C4 photosynthesis are able to produce carbohydrates more efficiently than plants with C3 photosynthesis in warm climates when levels of atmospheric CO2 are reduced. The C4 pathway has evolved multiple times in distantly related lineages, but it is not known whether the same physiological transitions occurred in all lineages. Species with intermediate C3-C4 physiology and anatomy offer the opportunity to study how plants transition from C3 to C4. It is thus vital to characterize phylogenetic relationships and photosynthetic pathways in groups with C3-C4 intermediate species, as well as C3 and C4 species.Methodology. We assessed photosynthetic pathway evolution in the Afro-Asian genus Blepharis (Acanthaceae) by sampling 99 species for carbon isotope ratios, 18 species for leaf anatomy, and 36 species for phylogenetic analysis. We estimated when Blepharis clades diverged using a BEAST molecular dating analysis, and we estimated ancestral distributions using BioGeoBEARS. We al...

    Keywords: Acanthaceae, Blepharis, C3-C4 intermediates, C4 evolution, C4 photosynthesis, Lamiales

  • 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