Uses of GBIF in scientific research

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

List of publications

  • Liede-Schumann S, Khanum R, Mumtaz A, Gherghel I, Pahlevani A (2015)

    Going West - a subtropical lineage (Vincetoxicum, Apocynaceae: Asclepiadoideae) expanding into Europe.

    Molecular phylogenetics and evolution.

    Vincetoxicum sensu lato is a tropical lineage comprising two clades that have reached high northern latitudes. Of the temperate clades, one is restricted to the Far East, the other one (Vincetoxicum s. str. Clade) extends into Europe, but their ranges overlap in Central China and Japan. Three species invasive in North America, V. hirundinaria, V. nigrum and V. rossicum, are members of the Vincetoxicum s. str. Clade. We explore the prerequisites for the range expansion in the Vincetoxicum s. str. Clade performing Bayesian and Maximum Likelihood phylogenetic analyses on sequences of the nuclear internal transcribed spacer (ITS) region, the nuclear external transcribed spacer region (ETS), and five plastid markers. The resulting phylogeny is used to conduct biogeographic analysis using BioGeoBEARS to reconstruct ancestral species ranges. Moreover, we map the known occurrences of two rare characters in Asclepiadoideae, the possession of phenanthroindolizidine alkaloids and reported cases of autogamy onto our phylogeny. Finally, we have conducted ecological niche modelling using Maxent on a total of 220 spatially unique occurrences of nine Vincetoxicum s. str. species spanning more than 4,000 km along the east-west gradient to learn about the climatic conditions along the presumed migration route. Our results indicate a north-westward migration in Vincetoxicum s. str. along the Asian mountain chains to Europe. Climatic preferences of the nine species sampled are dissimilar, except for the common exposure to at least one month of subfreezing temperatures, indicating a rather wide climatic tolerance for the clade as a whole. The three species invasive in North America belong to the northern Eurasian subclade and show the rare combination of phenanthroindolizidine alkaloids and autogamy.

    Keywords: Ancestral area reconstruction, Biogeography, Climatic niches, Invasive species, Maxent, Molecular phylogeny

  • Shabani F, Kumar L, Nojoumian A, Esmaeili A, Toghyani M (2015)

    Projected future distribution of date palm and its potential use in alleviating micronutrient deficiency.

    Journal of the science of food and agriculture.

    BACKGROUND: Micronutrient deficiency develops when nutrient intake does not match nutritional requirements for maintaining healthy tissue and organ functions which may have long-ranging effects on health, learning ability and productivity. Inadequacy of iron, zinc and vitamin A are the most important micronutrient deficiencies. Consumption of a 100 g portion of date flesh from date palm (Phoenix dactylifera L.) has been reported to meet approximately half the daily dietary recommended intake of these micronutrients. This study investigated the potential distribution of P. dactylifera under future climates to address its potential long-term use as a food commodity to tackle micronutrient deficiencies in some developing countries. RESULTS: Modelling outputs indicated large shifts in areas conducive to date palm cultivation, based on global-scale alteration over the next 60 years. Most of the regions suffering from micronutrient deficiencies were projected to become highly conducive for date palm cultivation. CONCLUSIONS: These results could inform strategic planning by government and agricultural organizations by identifying areas to cultivate this nutritionally important crop in the future to support the alleviation of micronutrient deficiencies. © 2015 Society of Chemical Industry.

    Keywords: Phoenix dactylifera L, climate change, global climate models, micronutrient deficiency

  • Shabani F, Kumar L, Esmaeili A (2015)

    A modelling implementation of climate change on biodegradation of Low-Density Polyethylene (LDPE) by Aspergillus niger in soil

    Global Ecology and Conservation 4 388-398.

    Aim: To model the areas becoming and remaining highly suitable for Aspergillus niger growth over the next ninety years by future climate alteration, in relation to the species’ potential enhancement of Low Density Polyethylene (LDPE) biodegradation in soil. Location: Global scale Methods: Projections of A. niger growth suitability for 2030, 2050, 2070 and 2100 were made using the A2 emissions scenario together with two Global Climate Models (GCMs): the CSIRO-Mk3.0 (CS) model and the MIROC-H (MR) model through CLIMEX software. Subsequently the outputs of the two GCMs were overlaid to extract common areas in each period of time, providing higher certainty concerning areas which will become highly suitable to A. niger in the future. Afterwards, GIS software was employed to extract sustainable regions for this species growth from present time up to 2100. Results: Central and eastern Argentina, Uruguay, southern Brazil, eastern United States, southern France, northern Spain, central and southern Italy, southern Hungary, eastern Albania, south western Russia, central and eastern China, eastern Australia, south east of South Africa, central Zambia, Rwanda, Burundi, central Kenya, central Ethiopia and north eastern Oman will be highly suitable for A. niger growth from present time up to 2100. Main conclusions: Accurately evaluating the impact of landfilling on land use and predicting future climate are vital components for effective long-term planning of waste management. From a social and economic perspective, utilization of our mapped projections to detect suitable regions for establishing landfills in areas highly sustainable for microorganisms like A. niger growth will allow a significant cost reduction and improve the performance of biodegradation of LDPE over a long period of time, through making use of natural climatic and environmental factors.

    Keywords: Aspergillus niger, CLIMEX, Climate change, Microbial degradation, Polyethylene

  • Ihlow F, Ahmadzadeh F, Ghaffari H, Taşkavak E, Hartmann T, Etzbauer C et al. (2014)

    Assessment of genetic structure, habitat suitability and effectiveness of reserves for future conservation planning of the Euphrates soft-shelled turtle Rafetus euphraticus (Daudin, 1802)

    Aquatic Conservation: Marine and Freshwater Ecosystems Forthcoming.

    1. The endangered Euphrates soft-shelled turtle, Rafetus euphraticus, is endemic to the Mesopotamian River Basin in the Middle East. Within recent decades, populations of this aquatic species have been heavily depleted and severely fragmented owing to habitat alteration and destruction by drainage and hydroelectricity dam constructions. Continuing habitat loss and fragmentation are considered the main drivers for the population decline of R. euphraticus. 2. Intraspecific genetic variability was investigated using two mitochondrial gene fragments for 31 specimens covering most of the distributional range of the species. Habitat suitability models were computed using a combination of bioclimatic and remote sensing variables as environmental predictors to assess habitat suitability, habitat fragmentation and coverage by designated protected areas across the range of R. euphraticus. 3. Beyond single substitutions in two sequences, no significant genetic variation could be detected in R. euphraticus. Models show habitat suitability to be high throughout the range of the species, although only a fraction is currently covered by reserves. Habitat suitability and coverage of reserves is highly variable among countries. South-western Iran appears to be ofmajor importance for future conservation strategies. Suitabilitymodels are in concordance with the habitat selection patterns of R. euphraticus. 4. The existing reserve system is considered insufficient and has to be significantly improved in order to sustain viable populations of R. euphraticus. To counter continuing fragmentation and alteration by dam construction, future conservation measures should focus on highlighted priority areas.

    Keywords: conservation planning, genetic variation, habitat fragmentation, habitat suitability modelling, protected areas

  • Shabani F, Kumar L, Esmaeili A (2014)

    Future distributions of Fusarium oxysporum f. spp. in European, Middle Eastern and North African agricultural regions under climate change

    Agriculture, Ecosystems & Environment 197 96-105.

    The levels of inaccuracy in projections of global climate model outputs can be reduced by identification of the correlations between the output results of a number of models, which include common assumptions. Some of the invasive pathogen of Fusarium oxysporum f. spp. pose risks to a number of cash crops such as banana, tomato, palm and garlic while some have a symbiotic relation varying from pathogenic to commensal (null effect), up to beneficial effect. Limitation of occurrence records of many single species such as F. oxysporum f. sp. cubense, F. oxysporum f. sp. albedinis, F. oxysporum f. sp. lycopersici and F. oxysporum f. sp. vasinfectum necessitated this study to model the future distribution of F. oxysporum f. spp. rather than individual species. The future distribution of F. oxysporum f. spp. was modeled by CSIRO-Mk3.0 (CS) and MIROC-H (MR) GCMs, and the results were correlated to identify areas suitable for F. oxysporum f. spp. growth for North Africa, Middle Eastern and European countries for the years 2050 and 2100. The projections established that a number of countries will become highly conducive to this fungus, while others are projected to produce marginal levels of conduciveness by 2050 and 2100. We also demonstrate that refining CLIMEX outputs with a combination of a number of alternative GCMs results ensures that modeled projections become more robust, rather than producing purely hypothetical findings.

    Keywords: CLIMEX, Climate change, Fusarium oxysporum f. spp., GIS

  • Solhjouy-Fard S, Sarafrazi A (2014)

    Potential impacts of climate change on distribution range of Nabis pseudoferus and N. palifer (Hemiptera: Nabidae) in Iran

    Entomological Science 17(3) 283-292.

    Nabis pseudoferus Remane and N. palifer Seidenstucker are predators that feed on a wide range of insect pests. To reveal their current potential habitats, the effects of climate change and their future distribution in various areas of Iran we used maximum entropy modeling (Maxent). To produce the models, samples were collected from 218 areas of Iran resulting in discovering 271 points where the nabids were found. The accuracy and performance of distribution models were also evaluated by the area under receiver operating characteristic curve and jack-knife analysis. In the Maxent model, the climatic, elevation and land cover layers were the major bases for the current models. In modeling future distribution, the land cover layer was excluded. The distribution of N. pseudoferus was independent of the type of vegetation while the distribu- tion of N. palifer varied according to differences in type of vegetation. Using jack-knife analysis, the land cover and precipitation were the most effective predictors driving the two Nabis species range expansion. From 2013 to 2050 the impacts of climate change on N. pseudoferus distribution was predicted to have a negative impact but have a positive effect on N. palifer range expansion. Results could be used in prepa- ration of predators’ conservation, translocation and reintroduction programs and application in pest management strategies.

    Keywords: damsel bugs, habitats, maxent

  • Ahmadzadeh F, Flecks M, Carretero M, Böhme W, Ilgaz C, Engler J et al. (2013)

    Rapid lizard radiation lacking niche conservatism: ecological diversification within a complex landscape

    Journal of Biogeography 40(9) 1807-1818.

    Keywords: anatolia, ancestral niche reconstruction, eastern mediterranean, lacerta, lacerta pamphylica, lacerta trilineata, lacertid lizards, media, niche divergence, niche overlap, species distribution model

  • Ahmadzadeh F, Flecks M, Carretero M, Mozaffari O, Böhme W, Harris D et al. (2013)

    Cryptic speciation patterns in Iranian rock lizards uncovered by integrative taxonomy

    PLoS ONE 8(12) e80563.

    While traditionally species recognition has been based solely on morphological differences either typological or quantitative, several newly developed methods can be used for a more objective and integrative approach on species delimitation. This may be especially relevant when dealing with cryptic species or species complexes, where high overall resemblance between species is coupled with comparatively high morphological variation within populations. Rock lizards, genus Darevskia, are such an example, as many of its members offer few diagnostic morphological features. Herein, we use a combination of genetic, morphological and ecological criteria to delimit cryptic species within two species complexes, D. chlorogaster and D. defilippii, both distributed in northern Iran. Our analyses are based on molecular information from two nuclear and two mitochondrial genes, morphological data (15 morphometric, 16 meristic and four categorical characters) and eleven newly calculated spatial environmental predictors. The phylogeny inferred for Darevskia confirmed monophyly of each species complex, with each of them comprising several highly divergent clades, especially when compared to other congeners. We identified seven candidate species within each complex, of which three and four species were supported by Bayesian species delimitation within D. chlorogaster and D. defilippii, respectively. Trained with genetically determined clades, Ecological Niche Modeling provided additional support for these cryptic species. Especially those within the D. defilippii-complex exhibit well-differentiated niches. Due to overall morphological resemblance, in a first approach PCA with mixed variables only showed the separation between the two complexes. However, MANCOVA and subsequent Discriminant Analysis performed separately for both complexes allowed for distinction of the species when sample size was large enough, namely within the D. chlorogaster-complex. In conclusion, the results support four new species, which are described herein.

    Keywords: anatolia, ancestral niche reconstruction, eastern mediterranean, lacerta, lacerta pamphylica, lacerta trilineata, lacertid lizards, media, niche divergence, niche overlap, species distribution model

  • Leavitt S, Fernández-Mendoza F, Pérez-Ortega S, Sohrabi M, Divakar P, Vondrák J et al. (2013)

    Local representation of global diversity in a cosmopolitan lichen-forming fungal species complex (Rhizoplaca, Ascomycota)

    Journal of Biogeography 40(9) 1792-1806.

    Aim The relative importance of long-distance dispersal versus vicariance in determining the distribution of lichen-forming fungi remains unresolved. Here, we examined diversity and distributions in a cosmopolitan lichen-forming fungal species complex, Rhizoplaca melanophthalma sensu lato (Ascomycota), across a broad, intercontinental geographical distribution. We sought to determine the temporal context of diversification and the impacts of past climatic fluctuations on demographic dynamics within this group. Location Antarctica, Asia, Europe, North America and South America. Methods We obtained molecular sequence data from a total of 240 specimens of R. melanophthalma s.l. collected across five continents. We assessed the monophyly of candidate species using individual gene trees and a tree from a seven-locus concatenated data set. Divergence times and relationships among candidate species were evaluated using a multilocus coalescent-based species tree approach. Speciation probabilities were estimated using the coalescent-based species delimitation program bpp. We also calculated statistics on molecular diversity and population demographics for independent lineages. Main conclusions Our analyses of R. melanophthalma s.l. collected from five continents supported the presence of six species-level lineages within this complex. Based on current sampling, two of these lineages were found to have broad intercontinental distributions, while the other four were limited to western North America. Of the six lineages, five were found on a single mountain in the western USA and the sixth occurred no more than 200 km away from this mountain. Our estimates of divergence times suggest that Pleistocene glacial cycles played an important role in species diversification within this group. At least three lineages show evidence of recent or ongoing population expansion.

    Keywords: beast, biogeography, bpp, coalescent, correspondence, cryptic species, leavitt, long-distance dispersal, rhizoplaca melanophthalma, speciation

  • Shabani F, Kumar L, Esmaeil A (2013)

    Use of CLIMEX, Land use and Topography to Refine Areas Suitable for Date Palm Cultivation in Spain under Climate Change Scenarios

    Journal of Earth Science & Climatic Change 4(4).

    In this study, CLIMEX modeling software was used to develop a model of the potential distribution of P. dactylifera under current and various future climate scenarios for Spain. CLIMEX parameters were adjusted depending on satisfactory agreement between the potential and known distribution of P. dactylifera in northern African countries, Iraq, Saudi Arabia, Oman and Iran. The potential date palm distribution was modeled under current and future climate scenarios using one emission scenario (A2) with two different Global Climate Models (GCMs): CSIRO-Mk3.0 (CS) and MIROC-H (MR). The CLIMEX outputs were then refined by land use types and areas less than 10̊ slope, since sloping areas impose problems in hydraulic conductivity and root development. The refined results indicated that large areas in Spain are projected to become climatically more suitable for date palm growth by 2100. However, the results from the CS and MR GCMs show some disagreements. The refined MR GCM projected that approximately 22.86 million hectares in Spain may become suitable for date palm growth, while the CS GCM showed approximately 18.72 million hectares by 2100. The refined results showed that only about 65% of CLIMEX results are suitable for date palm cultivations while the rest of the areas are unsuitable due to the unsuitability of land uses and slope. Our results indicated that cold and wet stresses will play a significant role in date palm distribution in some central and northern regions of Spain by 2100.

    Keywords: CLIMEX, Climate change, Date palms, Phoenix dactylifera L