Uses of GBIF in scientific research

Peer-reviewed research citing GBIF as a data source, with at least one author from United States.
For all researches, please visit our "Peer-reviewed publications" page.

List of publications

  • Abdel-Dayem M, Fad H, El-Torkey A, Elgharbawy A, Aldryhim Y, Kondratieff B et al. (2017)

    The beetle fauna (Insecta, Coleoptera) of the Rawdhat Khorim National Park, Central Saudi Arabia

    ZooKeys 653 1-78.

    This study was conducted as a part of a comprehensive baseline survey of insect biodiversity of Rawdhat Khorim National Park (RKNP), Central Kingdom of Saudi Arabia (KSA). During this study a total of 262 Coleoptera species belong to 182 genera in 35 families were identified, of which 247 are named at a species level. Fifteen species (6.0%) are apparently endemic to KSA. Thirty-eight species are new to the known beetle fauna of KSA, including 25 species reported from the Arabian Peninsula for the first time. The families Tenebrionidae (45 species), Scarabaeidae (34 species), and Carabidae (27 species) were the most species rich families. About 37% of the beetle abundance was represented by species of Scarabaeidae, especially Aphodius ictericus ghardimaouensis Balthasar. Karumia inaequalis Pic (Dascillidae) was also an abundant species. Approximately 43.5% of beetle species collected during this study are considered very rare taxa in RKNP. The RKNP beetle fauna shows more affinity to Sahro-Arabian (36.4%), Afrotropical-Sahro-Arabian (17.4%) and Palaearctic-Sahro-Arabian (10.5%). Twenty-three species (9.3%) are considered cosmopolitan or subcosmopolitan. The data on month of collection, method of collection, and abundance status within RKNP, together with the distribution within KSA and the general distribution (zoogeography) of each species are presented.

    Keywords: Arabian fauna, distribution, endemic species, new records, zoogeography

  • Almeida D, Gusmão L, Miller A (2017)

    A new species of Bertiella (Melanommataceae) from Brazil and a key to accepted species

    Mycosphere 8(4) 392-396.

    During an inventory of ascomycetes in the semi-arid region of Brazil, an undescribed specimen of Bertiella was found. It is described and illustrated as B. gelatinosa sp. nov., based on morphological data. The new fungus is distinguished by the size of the ascospores, which are surrounded by a gelatinous sheath. A synoptic table and a key to all known species of Bertiella are presented.

    Keywords: Ascomycota, Dothideomycetes, Pleosporales, Taxonomy

  • Ariel L. Salas E, A. Seamster V, G. Boykin K, M. Harings N, W. Dixon K (2017)

    Modeling the impacts of climate change on Species of Concern (birds) in South Central U.S. based on bioclimatic variables

    AIMS Environmental Science 4(2) 358-385.

    We used 19 bioclimatic variables, five species distribution modeling (SDM) algorithms, four general circulation models, and two climate scenarios (2050 and 2070) to model nine bird species. Identified as Species of Concern (SOC), we highlighted these birds: Northern/Masked Bobwhite Quail (Colinus virginianus), Scaled Quail (Callipepla squamata), Pinyon Jay (Gymnorhinus cyanocephalus), Juniper Titmouse (Baeolophus ridgwayi), Mexican Spotted Owl (Strix occidentalis lucida), Cassin’s Sparrow (Peucaea cassinii), Lesser Prairie-Chicken (Tympanuchus pallidicinctus), Montezuma Quail (Cyrtonyx montezumae), and White-tailed Ptarmigan (Lagopus leucurus). The Generalized Linear Model, Random Forest, Boosted Regression Tree, Maxent, Multivariate Adaptive Regression Splines, and an ensemble model were used to identify present day core bioclimatic-envelopes for the species. We then projected future distributions of suitable climatic conditions for the species using data derived from four climate models run according to two greenhouse gas Representative Concentration Pathways (RCPs 2.6 and 8.5). Our models predicted changes in suitable bioclimatic-envelopes for all species for the years 2050 and 2070. Among the nine species of birds, the quails were found to be highly susceptible to climate change and appeared to be of most future conservation concern. The White-tailed Ptarmigan would lose about 62% of its suitable climatic habitat by 2050 and 67% by 2070. Among the species distribution models (SDMs), the Boosted Regression Tree model consistently performed fairly well based on Area Under the Curve (AUC range: 0.89 to 0.97) values. The ensemble models showed improved True Skill Statistics (all TSS values > 0.85) and Kappa Statistics (all K values > 0.80) for all species relative to the individual SDMs.

    Keywords: bioclimatic-envelope, birds, climate change, habitat suitability modeling

  • Brandt L, Benscoter A, Harvey R, Speroterra C, Bucklin D, Romañach S et al. (2017)

    Comparison of climate envelope models developed using expert-selected variables versus statistical selection

    Ecological Modelling 345 10-20.

    Climate envelope models are widely used to describe potential future distribution of species under different climate change scenarios. It is broadly recognized that there are both strengths and limitations to using climate envelope models and that outcomes are sensitive to initial assumptions, inputs, and modeling methods Selection of predictor variables, a central step in modeling, is one of the areas where different techniques can yield varying results. Selection of climate variables to use as predictors is often done using statistical approaches that develop correlations between occurrences and climate data. These approaches have received criticism in that they rely on the statistical properties of the data rather than directly incorporating biological information about species responses to temperature and precipitation. We evaluated and compared models and prediction maps for 15 threatened or endangered species in Florida based on two variable selection techniques: expert opinion and a statistical method. We compared model performance between these two approaches for contemporary predictions, and the spatial correlation, spatial overlap and area predicted for contemporary and future climate predictions. In general, experts identified more variables as being important than the statistical method and there was low overlap in the variable sets (<40%) between the two methods Despite these differences in variable sets (expert versus statistical), models had high performance metrics (>0.9 for area under the curve (AUC) and >0.7 for true skill statistic (TSS). Spatial overlap, which compares the spatial configuration between maps constructed using the different variable selection techniques, was only moderate overall (about 60%), with a great deal of variability across species. Difference in spatial overlap was even greater under future climate projections, indicating additional divergence of model outputs from different variable selection techniques. Our work is in agreement with other studies which have found that for broad-scale species distribution modeling, using statistical methods of variable selection is a useful first step, especially when there is a need to model a large number of species or expert knowledge of the species is limited. Expert input can then be used to refine models that seem unrealistic or for species that experts believe are particularly sensitive to change. It also emphasizes the importance of using multiple models to reduce uncertainty and improve map outputs for conservation planning. Where outputs overlap or show the same direction of change there is greater certainty in the predictions. Areas of disagreement can be used for learning by asking why the models do not agree, and may highlight areas where additional on-the-ground data collection could improve the models.

    Keywords: Climate adaptation, Conservation planning, Expert opinion, Florida, Threatened and endangered species

  • Cabİ e, soreng rj G (2017)

    Taxonomy of Poa jubata and a new section of the genus (Poaceae)


    Poa jubata A. Kern. is an ephemeral, southeastern European species of which little is known. A molecular phylogenetic analysis of Poa L. including all previously identified major lineages, shows this species to be isolated, with a genotype here designated as J (plastid) J (nrDNA). It is assigned to the monotypic P. sect. Jubatae sect. nov. The section is differentiated from other Poa sections in having 5-nerved upper glumes, very narrow palea flanges, an annual habit, and erect solitary culms. Poa jubata occurs along coastal regions of the Balkans and is rather rare. Two new collections were made in 2015 in Thrace, Turkey, in vernal pool habitats with clay soils, thus expanding its known habitat. The species is described in detail, illustrated, and its relationships are discussed.

    Keywords: Balkans region, DNA, Europe, Morphology, annual habit, genotype, phylogeny, taxonomy

  • Carvajal-Endara S, Hendry A, Emery N, Davies T (2017)

    Habitat filtering not dispersal limitation shapes oceanic island floras: species assembly of the Galápagos archipelago

    Ecology Letters.

    Remote locations, such as oceanic islands, typically harbour relatively few species, some of which go on to generate endemic radiations. Species colonising these locations tend to be a non-random subset from source communities, which is thought to reflect dispersal limitation. However, non-random colonisation could also result from habitat filtering, whereby only a few continental species can become established. We evaluate the imprints of these processes on the Galápagos flora by analysing a comprehensive regional phylogeny for ~ 39 000 species alongside information on dispersal strategies and climatic suitability. We found that habitat filtering was more important than dispersal limitation in determining species composition. This finding may help explain why adaptive radiation is common on oceanic archipelagoes – because colonising species can be relatively poor dispersers with specific niche requirements. We suggest that the standard assumption that plant communities in remote locations are primarily shaped by dispersal limitation deserves reconsideration.

    Keywords: Balkans region, DNA, Europe, Morphology, annual habit, genotype, phylogeny, taxonomy

  • De Pooter D, Appeltans W, Bailly N, Bristol S, Deneudt K, Eliezer M et al. (2017)

    Toward a new data standard for combined marine biological and environmental datasets - expanding OBIS beyond species occurrences

    Biodiversity Data Journal 5 e10989.

    The Ocean Biogeographic Information System (OBIS) is the world’s most comprehensive online, open-access database of marine species distributions. OBIS grows with millions of new species observations every year. Contributions come from a network of hundreds of institutions, projects and individuals with common goals: to build a scientific knowledge base that is open to the public for scientific discovery and exploration and to detect trends and changes that inform society as essential elements in conservation management and sustainable development. Until now, OBIS has focused solely on the collection of biogeographic data (the presence of marine species in space and time) and operated with optimized data flows, quality control procedures and data standards specifically targeted to these data. Based on requirements from the growing OBIS community to manage datasets that combine biological, physical and chemical measurements, the OBIS-ENV-DATA pilot project was launched to develop a proposed standard and guidelines to make sure these combined datasets can stay together and are not, as is often the case, split and sent to different repositories. The proposal in this paper allows for the management of sampling methodology, animal tracking and telemetry data, biological measurements (e.g., body length, percent live cover, ...) as well as environmental measurements such as nutrient concentrations, sediment characteristics or other abiotic parameters measured during sampling to characterize the environment from which biogeographic data was collected. The recommended practice builds on the Darwin Core Archive (DwC-A) standard and on practices adopted by the Global Biodiversity Information Facility (GBIF). It consists of a DwC Event Core in combination with a DwC Occurrence Extension and a proposed enhancement to the DwC MeasurementOrFact Extension. This new structure enables the linkage of measurements or facts - quantitative and qualitative properties - to both sampling events and species occurrences, and includes additional fields for property standardization. We also embrace the use of the new parentEventID DwC term, which enables the creation of a sampling event hierarchy. We believe that the adoption of this recommended practice as a new data standard for managing and sharing biological and associated environmental datasets by IODE and the wider international scientific community would be key to improving the effectiveness of the knowledge base, and will enhance integration and management of critical data needed to understand ecological and biological processes in the ocean, and on land.

    Keywords: Darwin Core Archive, data standardisation, ecosystem data, environmental data, oceanographic data, sample event, species occurrence, telemetry data

  • Doherty K, Butterfield B, Wood T (2017)

    Matching seed to site by climate similarity: Techniques to prioritize plant materials development and use in restoration

    Ecological Applications.

    Land management agencies are increasing the use of native plant materials for vegetation treatments to restore ecosystem function and maintain natural ecological integrity. This shift toward the use of natives has highlighted a need to increase the diversity of materials available. A key problem is agreeing on how many, and which, new accessions should be developed. Here we describe new methods that address this problem. Our methods use climate data to calculate a climate similarity index between two points in a defined extent. This index can be used to predict relative performance of available accessions at a target site. In addition, the index can be used in combination with standard cluster analysis algorithms to quantify and maximize climate coverage (mean climate similarity), given a modeled range extent and a specified number of accessions. We demonstrate the utility of this latter feature by applying it to the extents of 11 western North American species with proven or potential use in restoration. First, a species-specific seed transfer map can be readily generated for a species by predicting performance for accessions currently available; this map can be readily updated to accommodate new accessions. Next, the increase in climate coverage achieved by adding successive accessions can be explored, yielding information that managers can use to balance ecological and economic considerations in determining how many accessions to develop. This approach identifies sampling sites, referred to as climate centers, which contribute unique, complementary, climate coverage to accessions on hand, thus providing explicit sampling guidance for both germplasm preservation and research. We examine how these and other features of our approach add to existing methods used to guide plant materials development and use. Finally, we discuss how these new methods provide a framework that could be used to coordinate native plant materials development, evaluation, and use across agencies, regions, and research groups.

    Keywords: Darwin Core Archive, data standardisation, ecosystem data, environmental data, oceanographic data, sample event, species occurrence, telemetry data

  • Feldman R, Peers M, Pickles R, Thornton D, Murray D (2017)

    Climate driven range divergence among host species affects range-wide patterns of parasitism

    Global Ecology and Conservation 9 1-10.

    Species interactions like parasitism influence the outcome of climate-driven shifts in species ranges. For some host species, parasitism can only occur in that part of its range that overlaps with a second host species. Thus, predicting future parasitism may depend on how the ranges of the two hosts change in relation to each other. In this study, we tested whether the climate driven species range shift of Odocoileus virginianus (white-tailed deer) accounts for predicted changes in parasitism of two other species from the family Cervidae, Alces alces (moose) and Rangifer tarandus (caribou), in North America. We used MaxEnt models to predict the recent (2000) and future (2050) ranges (probabilities of occurrence) of the cervids and a parasite Parelaphostrongylus tenuis (brainworm) taking into account range shifts of the parasite’s intermediate gastropod hosts. Our models predicted that range overlap between A. alces/R. tarandus and P. tenuis will decrease between 2000 and 2050, an outcome that reflects decreased overlap between A. alces/R. tarandus and O. virginianus and not the parasites, themselves. Geographically, our models predicted increasing potential occurrence of P. tenuis where A. alces/R. tarandus are likely to decline, but minimal spatial overlap where A. alces/R. tarandus are likely to increase. Thus, parasitism may exacerbate climate-mediated southern contraction of A. alces and R. tarandus ranges but will have limited influence on northward range expansion. Our results suggest that the spatial dynamics of one host species may be the driving force behind future rates of parasitism for another host species.

    Keywords: Boreal, Cervidae, Climate change, Evolution, Parasitism, Synergistic effects

  • Ferreira Júnior J, Blume G, Sousa S, Carvalho C, Gardiner C, Ferreira Júnior J et al. (2017)

    Anatomo-pathological aspects of parasitism by nematodes of the superfamily Metastrongyloidea in wild crab-eating fox (Cerdocyon thous) in Midwestern Brazil

    Ciência Rural 47(2).

    Nematodes of the superfamily Metastrongyloidea affect the respiratory, cardiovascular, and nervous systems of domestic carnivores and are uncommonly detected in wild animals. This report describes the lesions associated with pulmonary parasitism by nematodes of the superfamily Metastrongyloidea in a wild crab-eating fox ( Cerdocyon thous ) in the Federal District, Brazil. Grossly, there was pulmonary hyperemia, edema, and emphysema. Microscopically, there was granulomatous arteritis associated with intravascular metastrongylid. The anatomical location, characteristic lesion, and histological features of the parasite suggested that the nematode involved in this case is Angiostrongylus vasorum . This worm is frequently reported parasitizing pulmonary arteries of domestic canids but is uncommonly described in wild canids in Midwestern Brazil.

    Keywords: Angiostrongylus, nematode, pathology, wild canids