cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.61ts3bv
title: Data from: Multiple choice: hemiparasite performance in multi-species mixtures

description: Hemiparasitic plants have green leaves, but extract water and solutes from
 neighbouring plants. It is still poorly understood how different host
 plants in communities contribute to parasite performance, as species that
 are good hosts in single-host experiments may not necessarily be preferred
 hosts in mixtures. We grew the root hemiparasite Rhinanthus alectorolophus
 (Orobanchaceae) together with each of 13 host species (experiment 1) and
 with 15 different four-species mixtures of these hosts (exp. 2) that
 differed in the number of legumes and of host functional groups. Parasites
 profited from mixtures including more legumes and from mixtures including
 different host functional groups. Some host species and mixtures were very
 tolerant of parasitism and supported large parasites without being
 strongly suppressed in their own growth, but the suppression of a species
 in the single-host experiment did not explain the suppression of a species
 in a host mixture. We thus calculated for each host species an index of
 the difference in suppression between the two experiments which may be
 related to host use in a mixture. Host quality (mean parasite biomass with
 a host species) in the single-host experiment could explain 64% of the
 variation in parasite biomass with a host mixture when it was weighted by
 the proportion of the host species in the mixture without the parasite and
 by the suppression difference index. Our results suggest that plant
 species which are the best hosts in single-host experiments are not always
 those used most strongly by a parasite growing with a mixture. Together
 with the finding that hemiparasites benefit from a mixed diet based on
 hosts from different functional groups this suggests that parasites prefer
 certain host species to obtain a mixed diet.
description: Data on hemiparasite and
 host performanceThis document contains
 data on the biomass of hemiparasitic Rhinanthus alectorolophus and its
 host plants when grown with a single host species and in mixtures of four
 host species. In addition, species traits of the included host species are
 provided.Sandner&Matthies2018_data.xlsx
DOI: 10.5061/dryad.8h685j0
title: Data from: Temporal plasticity in habitat selection criteria explains patterns of animal dispersal

description: Patterns of dispersal behavior are often driven by the composition and
 configuration of suitable habitat in a matrix of unsuitable habitat.
 Interactions between behavior and landscapes can therefore influence
 population dynamics, population and species distributions, population
 genetic structure, and the evolution of behavior. Spatially-explicit
 individual-based models are ideal tools for exploring the effects of
 landscape structure on dispersal. We developed an
 empirically-parameterized IBM in the modeling framework SEARCH to simulate
 dispersal of translocated American martens in Wisconsin, USA. We tested
 the hypothesis that a time-limited disperser should be willing to settle
 in lower quality habitat over time. To evaluate model performance, we used
 a pattern-oriented modeling approach. Our best model matched all empirical
 dispersal patterns (e.g., dispersal distance) except time to settlement.
 This model incorporated the mechanism for declining habitat selectivity
 over time, which represents the first demonstration of this hypothesis for
 a vertebrate species. We suggest that temporal plasticity in habitat
 selectivity allows individuals to maximize fitness by making a tradeoff
 between habitat quality and risk of mortality. Our IBM is pragmatic in
 that it addresses a management need for a species of conservation concern.
 However our model is also paradigmatic in that we explicitly tested a
 theory of dispersal behavior. Linking these two approaches to ecological
 modeling can further the utility of individual-based modeling and provide
 direction for future theoretical and empirical work on animal behavior.
description: Summary of simulation
 outputThis file contains
 summary output for each replicate of each model scenario, as well as
 pattern-matching statistics for each pattern-matching approach used
 (pass/fail, rank sum, Total Indicator, Mahalanobis).Data_Marten_IBM.xlsxExample_xml_inputsThis zip file contains a set of xml input files needed to run SEARCH. This set includes 5 replicates for 3 different bound rate scenarios for the model that allows for declining habitat selectivity over time.
DOI: 10.5061/dryad.21jt3
title: Data from: Using geography to infer the importance of dispersal for the synchrony of freshwater plankton

description: Spatial synchrony in population dynamics is a ubiquitous ecological
 phenomenon that can result from predator-prey interactions, synchronized
 environmental variation (Moran effects), or dispersal. Of these, dispersal
 historically has been the least well studied in natural systems, partly
 because of the difficulty in quantifying dispersal in situ. We
 hypothesized that dispersal routes of plankton were based on the major and
 consistent water current movements in Kentucky Lake, a large reservoir in
 western Kentucky, USA. Then, using 26-year time series collected at 16
 locations, we used matrix regression techniques to test whether spatial
 heterogeneity in strengths of hypothesized dispersal predicted spatial
 patterns of synchrony of phytoplankton and zooplankton, thereby testing
 for evidence of dispersal as a possible mechanism of synchrony in this
 system. Nearly all taxa showed significant spatial synchrony that did not
 decline with increasing linear distance between locations. All taxa also
 showed substantial geographic structure in synchrony that was not
 explained by linear distance. Matrix regression revealed that our
 hypothesized matrix of dispersal pathways, which differed substantially
 from linear distance, was a significant predictor of spatial variability
 in synchrony in phytoplankton biomass, and Bosmina longirostris and
 Daphnia lumholtzi densities. Thus dispersal was a likely mechanism of
 synchrony for these taxa. Our hypothesized dispersal matrix was a
 significant predictor of spatial patterns of synchrony for these taxa even
 after accounting for numerous alternative possible mechanisms, including
 possible Moran effects through any of ten physical/abiotic constraints.
 Our findings indicate that statistically comparing hypothesized or
 measured dispersal pathway information to synchrony data via matrix
 regressions can provide valuable evidence for the importance of dispersal
 as a mechanism of spatial synchrony.
description: Annualized Data for
 Kentucky Lake ParametersThe .csv file contains
 all the annualized data used in the analysis. See the URL link inside the
 document to request the original data used to construct the annualized
 data, the Euclidean distance matrix, the Group matrix, density distance
 matrices for each taxon, and the synchrony (i.e. correlation) matrices
 among locations for all variables.summary_data.csv
DOI: 10.5061/dryad.79d91
title: Data from: A worldwide phylogeography of the whiteworm lichen Thamnolia vermicularis reveals three lineages with distinct habitats and evolutionary histories

description: Thamnolia is a lichenized fungus with an extremely wide distribution,
 being encountered in arctic and alpine environments in most continents. In
 this study, we used molecular markers to investigate the population
 structure of the fungal symbiont and the associated photosynthetic partner
 of Thamnolia. By analyzing molecular, morphological, and chemical
 variation among 253 specimens covering the species distribution range, we
 revealed the existence of three mycobiont lineages. One lineage (Lineage
 A) is confined to the tundra region of Siberia and the Aleutian Islands, a
 second (Lineage B) is found in the high alpine region of the Alps and the
 Carpathians Mountains, and a third (Lineage C) has a worldwide
 distribution and covers both the aforementioned ecosystems. Molecular
 dating analysis indicated that the split of the three lineages is older
 than the last glacial maximum, but the distribution ranges and the
 population genetic analyses suggest an influence of last glacial period on
 the present-day population structure of each lineage. We found a very low
 diversity of Lineage B, but a higher and similar one in Lineages A and C.
 Demographic analyses suggested that Lineage C has its origin in the
 Northern Hemisphere, possibly Scandinavia, and that it has passed through
 a bottleneck followed by a recent population expansion. While all three
 lineages reproduce clonally, recombination tests suggest rare or past
 recombination in both Lineages A and C. Moreover, our data showed that
 Lineage C has a comparatively low photobiont specificity, being found
 associated with four widespread Trebouxia lineages (three of them also
 shared with other lichens), while Lineages A and B exclusively harbor T.
 simplex s. lat. Finally, we did not find support for the recognition of
 taxa in Thamnolia based on either morphological or chemical characters.
description: Fasta and tree files
 used for the analysesThe folder contains the
 fasta files used to generate the ML phylogenies, the tree files generated,
 the scaffolds of the four fungal genomes and the fasta files used for
 recombination analyses. For further information see the "read
 me" text with explanations for each file.Fasta_and_tree_files.zip
DOI: 10.15468/dl.gye374
title: Occurrence Download

description: A dataset containing 1119 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Brugmansia suaveolens",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 1119 records from 182 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000838-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.20350/digitalcsic/17903
title: García-del Río et al. 2026_incubation behaviour BehEco

description: Dataset of the scientific article "Impact of increased nest temperature on incubation behaviour and female health in Eurasian Blue Tit".
DOI: 10.5061/dryad.74699
title: Data from: Ecology and genomics of an important crop wild relative as a prelude to agricultural innovation

description: Domesticated species are impacted in unintended ways during domestication
 and breeding. Changes in the nature and intensity of selection impart
 genetic drift, reduce diversity, and increase the frequency of deleterious
 alleles. Such outcomes constrain our ability to expand the cultivation of
 crops into environments that differ from those under which domestication
 occurred. We address this need in chickpea, an important pulse legume, by
 harnessing the diversity of wild crop relatives. We document an extreme
 domestication-related genetic bottleneck and decipher the genetic history
 of wild populations. We provide evidence of ancestral adaptations for seed
 coat color crypsis, estimate the impact of environment on genetic
 structure and trait values, and demonstrate variation between wild and
 cultivated accessions for agronomic properties. A resource of genotyped,
 association mapping progeny functionally links the wild and cultivated
 gene pools and is an essential resource chickpea for improvement, while
 our methods inform collection of other wild crop progenitor species.
description: Data from: Ecology and
 genomics of an important crop wild relative as a prelude to agricultural
 innovationSite locality
 information, soil chemistry, seed characteristics, and other information
 associated with the paperdraft_dryad_upload_dec2017.xls
DOI: 10.5061/dryad.58g2t4k
title: Data from: Interactive effects of climate change and biodiversity loss on ecosystem functioning

description: Climate change and biodiversity loss are expected to simultaneously affect
 ecosystems, however research on how each driver mediates the effect of the
 other has been limited in scope. The multiple stressor framework
 emphasizes non-additive effects, but biodiversity may also buffer the
 effects of climate change, and climate change may alter which mechanisms
 underlie biodiversity-function relationships. Here, we performed an
 experiment using tank bromeliad ecosystems to test the various ways that
 rainfall changes and litter diversity may jointly determine ecological
 processes. Litter diversity and rainfall changes interactively affected
 multiple functions, but how depended on the process measured. High litter
 diversity buffered the effects of altered rainfall on detritivore
 communities, evidence of insurance against impacts of climate change.
 Altered rainfall affected the mechanisms by which litter diversity
 influenced decomposition, reducing the importance of complementary
 attributes of species (“complementarity effects”), and resulting in an
 increasing dependence on the maintenance of specific species (“dominance
 effects”). Finally, altered rainfall conditions prevented litter diversity
 from fuelling methanogenesis, because such changes in rainfall reduced
 microbial activity by 58%. Together, these results demonstrate that the
 effects of climate change and biodiversity loss on ecosystems cannot be
 understood in isolation and interactions between these stressors can be
 multifaceted.
description: tank bromeliad
 experiment (Pires et al)This file contains the
 data used to produce the manuscript "Interactive effects of climate
 change and biodiversity loss on ecosystem functioning" by Pires et al
 in Ecology. The first sheet contains data of decomposition (dry weight
 loss in mg after 180 days), bacterial production (µmol C L-1 h-1),
 detritivore abundance (number of detritivore individuals in each tank
 bromeliad), detritivore richness (number of detritivore species in each
 tank bromeliad), bromeliad maximum volume (ml) and the mechanisms by which
 litter diversity affected decomposition (TICE: trait-independent
 complementarity effect; DE: dominance effect and TDCE: trait-dependent
 complementarity effect). The second sheet contains data of methane
 concentration (ppm) in three different sampling times (30, 60 and 90 days
 after rainfall manipulation). The first three columns in each sheet
 describe the treatments used in the experiment. For more details about the
 experimental design, sampling and methods used to produce these data, see
 the manuscript in the journal.
DOI: 10.5061/dryad.5s74n2j0
title: Data from: The genetics of cuticular hydrocarbon profiles in the fruit fly Drosophila simulans

description: Female mate choice is one mechanism of sexual selection and, provided
 there is adequate genetic variation in the male traits that are the target
 of this selection, they will evolve via female choice. Cuticular
 hydrocarbons (CHCs) are important in Drosophila mate choice, but
 relatively little is known about the underlying genetic architecture of
 CHC profiles in Drosophila simulans. Here we used gas chromatography-mass
 spectrometry to investigate patterns of genetic variation in the CHC
 profiles of male and female D. simulans using iso-female lines. We found
 substantial genetic variation for CHC profiles and individual CHC
 components, and individual CHCs were frequently strongly genetically
 correlated, with a tendency for negative covariance between long and short
 chain CHCs in males. Intersexual genetic covariances were often weak and
 frequently differed in sign. These findings are novel and significant,
 highlighting the previously unexplored genetic architecture of CHCs in D.
 simulans and suggest that this architecture may facilitate sex-specific
 CHC evolution.
description: JOH-2011-107.R2-Dryad_UploadThis is a Microsoft Excel (c) spreadsheet containing the raw data for JoH ID JOH-2011-107.R2. Column headings are self explanatory and have comments attached to the header cells. Data contained in columns I to AA represents area for CHC peaks 1-19 as quantified from chromatograms and data in columns AC to AU is the area expressed in proportional values after dividing by the pentadecane standard (peak 1).
DOI: 10.5061/dryad.2121b
title: Data from: MicroRNAs 9 and 370 association with biochemical markers in T2D and CAD complication of T2D

description: Background: MicroRNAs (miRNAs) are small non coding RNAs with essential
 roles, of which any alteration leads to several conditions. Their roles in
 diabetes (DM) and its vascular complications have not been completely
 assessed. Aim: to study the association of two miRNAs; 9 and 370, with
 biochemical parameters of type 2 diabetic (T2D), dyslipidemia and coronary
 artery disease (CAD). Subjects and Methods: Blood samples were taken from
 200 subjects of both genders, in the Outpatient clinic of Al Qasr El-Einy
 teaching hospitals, in which levels of both miRNAs (using real time PCR)
 and routine parameters were measured. Subjects were divided over four
 groups, 50 in each group as follows; patients with T2D, patients with CAD,
 patients with T2D and CAD, and healthy control subjects. Main Outcome:
 miRNA 9 levels were expected to be over expressed in diabetic patients,
 while miRNA 370 levels were expected to be over expressed in those
 suffering from CAD and their association with CAD complication of T2D.
 Results: miRNA 9 levels were significantly higher in T2D patients and T2D
 patients with CAD, (1.18±0.07, and 1.31±0.08 respectively), while miRNA
 370 levels were significantly higher in T2D patients, CAD patients, and
 T2D patients with CAD (0.59±0.05, 1.00±0.05, and 1.20±0.06 respectively),
 compared to control group at p = 0.000. In addition both miRNAs were still
 significantly associated with each other even after conducting multiple
 regression analysis. Conclusion: This study associates the possible role
 of miRNAs in the diagnosis/prognosis of CAD complication of T2D.
description: raw
 dataPHD
 FINAL rep - Copy.xlsx
DOI: 10.5061/dryad.18bv9
title: Data from: Seminal fluid of honeybees contains multiple mechanisms to combat infections of the sexually transmitted pathogen Nosema apis

description: The societies of ants, bees and wasps are genetically closed systems where
 queens only mate during a brief mating episode prior to their eusocial
 life and males therefore provide queens with a lifetime supply of
 high-quality sperm. These ejaculates also contain a number of defence
 proteins that have been detected in the seminal fluid but their function
 and efficiency have never been investigated in great detail. Here, we used
 the honeybee Apis mellifera and quantified whether seminal fluid is able
 to combat infections of the fungal pathogen Nosema apis, a widespread
 honeybee parasite that is also sexually transmitted. We provide the first
 empirical evidence that seminal fluid has a remarkable antimicrobial
 activity against N. apis spores and that antimicrobial seminal fluid
 components kill spores in multiple ways. The protein fraction of seminal
 fluid induces extracellular spore germination, which disrupts the life
 cycle of N. apis, whereas the non-protein fraction of seminal fluid
 induces a direct viability loss of intact spores. We conclude that males
 provide their ejaculates with efficient antimicrobial molecules that are
 able to kill N. apis spores and thereby reduce the risk of disease
 transmission during mating. Our findings could be of broader significance
 to master honeybee diseases in managed honeybee stock in the future.
description: Figure 1a
 JGData for Figure
 1Figure 2a
 JGRaw
 data for Figure 2aFigure 2b germination
 02Nov 2015Raw data for Figure
 2bFigure 3
 JGRaw
 data for Figure 3Figure 4
 JGRaw
 data for Figure 4
DOI: 10.5061/dryad.t83n1
title: Data from: Temporal variation in the abundance and richness of foliage-dwelling ants mediated by extrafloral nectar

description: Plants bearing extrafloral nectaries (EFNs) are common in the Brazilian
 cerrado savanna, where climatic conditions having marked seasonality
 influence arboreal ant fauna organization. These ant-plant interactions
 have rarely been studied at community level. Here, we tested whether: 1)
 EFN-bearing plants are more visited by ants than EFN-lacking plants; 2)
 ant visitation is higher in the rainy season than in dry season; 3) plants
 producing young leaves are more visited than those lacking young leaves in
 the rainy season; 4) during the dry season, plants with old leaves and
 flowers are more visited than plants with young leaves and bare of leaves
 or flowers; 5) the composition of visiting ant fauna differs between
 plants with and without EFNs. Field work was done in a cerrado reserve
 near Uberlândia, MG State, Brazil, along ten transects (total area 3,000
 m2), in the rainy (October-January) and dry seasons (April-July) of
 2010-2011. Plants (72 species; 762 individuals) were checked three times
 per season for ant presence. Results showed that 21 species (29%) and 266
 individuals (35%) possessed EFNs. These plants attracted 38 ant species
 (36 in rainy, 26 in dry season). In the rainy season, plants with EFNs had
 higher ant abundance/richness than plants without EFNs, but in the dry
 season, EFN presence did not influence ant visitation. Plant phenology
 affected ant richness and abundance in different ways: plants with young
 leaves possessed higher ant richness in the rainy season, but in the dry
 season ant abundance was higher on plants possessing old leaves or
 flowers. The species composition of plant-associated ant communities,
 however, did not differ between plants with and without EFNs in either
 season. These findings suggest that the effect of EFN presence on a
 community of plant-visiting ants is context dependent, being conditioned
 to seasonal variation.
description: Ant visitation on
 cerrado plants in Uberlândia, Minas Gerais, Southeastern
 BrazilSamplings were performed
 in field during the rainy (October 4, 2010 – January 27, 2011) and dry
 season (April 25 – July 26, 2011)Belchior et al
 2016.xlsx
DOI: 10.5061/dryad.4b18b
title: Data from: Small but not isolated: a population genetic survey of the tropical tree Cariniana estrellensis (Lecythidaceae) in a highly fragmented habitat

description: Here, we explore the mating pattern and genetic structure of a tropical
 tree species, Cariniana estrellensis, in a small population in which
 progeny arrays (n=399), all adults (n=28) and all seedlings (n=39) were
 genotyped at nine highly informative microsatellite loci. From progeny
 arrays we were able to identify the source tree for at least 78% of
 pollination events. The gene immigration rates, mainly attributable to
 pollen, were high, varying from 23.5 to 53%. Although gene dispersal over
 long distance was observed, the effective gene dispersal distances within
 the small population were relatively short, with mean pollination
 distances varying from 69.9 to 146.9 m, and seed dispersal distances
 occurring up to a mean of 119.6 m. Mating system analyses showed that C.
 estrellensis is an allogamous species (tm=0.999), with both biparental
 inbreeding (tm−ts=−0.016) and selfing rates (s=0.001) that are not
 significantly different from zero. Even though the population is small,
 the presence of private alleles in both seedlings and progeny arrays and
 the elevated rates of gene immigration indicate that the C. estrellensis
 population is not genetically isolated. However, genetic diversity
 expressed by allelic richness was significantly lower in postfragmentation
 life stages. Although there was a loss of genetic diversity, indicating
 susceptibility of C. estrellensis to habitat fragmentation, no evidence of
 inbreeding or spatial genetic structure was observed across generations.
 Overall, C. estrellensis showed some resilience to negative genetic
 effects of habitat fragmentation, but conservation strategies are needed
 to preserve the remaining genetic diversity of this population.
description: SSR genotypes for
 adults, seedlings and progeny arrays of Cariniana
 estrellensisGenotypes of Cariniana
 estrellensis (Lecythidaceae) individuals (adults, seedlings and progeny
 arrays) based on nine microsatellite loci.SSR_genotypes.xlsx