cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.v977b
title: Data from: Estimating abundance of the federally endangered Mitchell’s satyr butterfly using hierarchical distance sampling

description: 1. Estimates of animal abundance are essential to conservation biology and
 are sorely lacking for many endangered species in the United States of
 America. This lack of knowledge may disproportionately affect butterflies
 in the USA, which form the largest group of federally protected insects
 (20 of 62 species). 2. The Mitchell’s satyr butterfly, Neonympha
 mitchellii mitchellii, is a federally endangered species found at 18
 highly isolated sites in the Eastern USA. Currently, surveys are conducted
 by meandering through habitat and recording the number of butterflies
 observed. These surveys are efficient in terms of staffing and time, but
 the data from these surveys cannot be used to estimate abundance. Mark
 release recapture surveys generate estimates of demographic parameters and
 have been conducted, albeit infrequently, and require high staffing levels
 and weeks of fieldwork to generate estimates with reasonable error. 3. I
 employed hierarchical distance sampling along line transects to estimate
 N. m. mitchellii abundance at one site in lower Michigan, USA. This method
 requires one observer to traverse a series of transects at a walking pace
 and record the number of butterflies observed and their perpendicular
 distance to the transect line. My results suggest that this method is as
 cost efficient as meander surveys but generates reasonable estimates of
 butterfly abundance.
description: Hamm_JICD_201XThe R code required to load, format and analyze the data presented in the paper. The code used to generate figures 1, 3, 4, and 5 is also included (figure 2 was made in Photoshop).ds_Lib_4_JulData file for transects conducted 4 July 2011ds_Lib_6_JulData file for transects conducted 6 July 2011ds_Lib_7_JulData file for transects conducted 7 July 2011ds_Lib_8_JulData file for transects conducted 8 July 2011ds_Lib_12_JulData file for transects conducted 12 July 2011
DOI: 10.5061/dryad.tk751
title: Data from: Population genetic and field ecological analyses return similar estimates of dispersal over space and time in an endangered amphibian

description: The explosive growth of empirical population genetics has seen a
 proliferation of analytical methods leading to a steady increase in our
 ability to accurately measure key population parameters, including genetic
 isolation, effective population size, and gene flow in natural systems.
 Assuming they yield similar results, population genetic methods offer an
 attractive complement to, or replacement of, traditional field ecological
 studies. However, empirical assessments of the concordance between direct
 field ecological and indirect population genetic studies of the same
 populations are uncommon in the literature. In this study, we investigate
 genetic isolation, rates of dispersal, and population sizes for the
 endangered California tiger salamander, Ambystoma californiense, across
 multiple breeding seasons in an intact vernal pool network. We then
 compare our molecular results to a previously published study based on
 multi-year, mark-recapture data from the same breeding sites. We found
 that field and genetic estimates of population size were only weakly
 correlated, but dispersal rates were remarkably congruent across studies
 and methods. In fact, dispersal probability functions derived from genetic
 data and traditional field ecological data were a significant match,
 suggesting that either method can be used effectively to assess population
 connectivity. These results provide one of the first explicit tests of the
 correspondence between landscape genetic and field ecological approaches
 to measuring functional population connectivity and suggest that even
 single-year genetic samples can return biologically meaningful estimates
 of natural dispersal and gene flow.
description: Vegetation Type
 RasterRaster of
 vegetation/landcover type for study area. Spatial reference coordinate
 system: NAD_1983_UTM_Zone_10N. Datum: NAD1983.Vegtype601701.tifAlleles TableTable of alleles (length in bp) at each microsatellite locus (15 loci).AllelesTAB011.txtGenotype TableTable of genotypes (lengths in bp) for microsatellite loci (15 loci).DataTAB116.txt
DOI: 10.5061/dryad.g1d56
title: Data from: Reticulate evolution in Elatine L. (Elatinaceae), a predominantly autogamous genus of aquatic plants

description: The study of hybridization in aquatic plants is complicated by rarity of
 flower production, absence of roots, and asexuality. Elatine is a
 cosmopolitan genus of aquatic flowering plants with about 25 species
 worldwide. Historically, there has been little concern regarding
 hybridization in the genus due to the prevalence of autogamy (i.e.
 self-pollination), which potentially limits xenogamous pollen transfer
 among the species. Two morphologically complex species (Elatine hexandra
 and E. americana) are the only known polyploids in the genus. In previous
 phylogenetic analyses, both species resolved incongruently in gene trees
 obtained from nuclear (ITS) versus plastid (matK/trnK and rbcL) regions.
 Suspecting that the phylogenetic incongruence might be a consequence of
 past hybridization events, we tested that hypothesis by conducting an
 additional phylogenetic analysis of Elatine, which incorporated sequences
 from a low copy nuclear gene (phyC). Elatine hexandra and E. americana
 were the only Elatine species exhibiting intraspecific polymorphic sites,
 i.e. heterozygosity, in phyC. Allele specific amplification enabled us to
 resolve these polymorphisms for inclusion in a phylogenetic analysis along
 with the monomorphic phyC sequences within species obtained for the
 remaining Elatine species. The phyC tree confirmed that both polyploids
 probably are allopolyploids, in a pattern consistent with the placement of
 the putative parental taxa in previous phylogenetic analyses of ITS,
 matK/trnK, and rbcL sequence data. The distributions of E. americana and
 E. hexandra, along with their potential parental species, are consistent
 with the proposed hybrid origins for the polyploids and provide additional
 clues on their geographic regions of origin.
description: HRazifard_cpDNA_11APR16Chloroplast DNA (cpDNA) sequence alignment including matK/trnK and rbcLHRazifard_ITS_11APR16Internal Transcribed Spacer (ITS) sequence alignmentHRazifard_phyC_11APR16Phytochrome C (phyC) sequence alignment
DOI: 10.5061/dryad.jm838
title: Data from: Life on the edge: a comparative study of eco-physiological adaptations of frogs to tropical semiarid environments

description: A key goal of ecology and evolution is to understand the relative
 contributions of environment and history in determining the geographic
 distribution of organisms. For the Neotropical lowlands, where
 temperatures are similar across landscapes, we hypothesize that water
 balance may be a critical but understudied factor in determining the
 distribution of species. Amphibians are especially sensitive to variation
 in precipitation due to their permeable skin. Here we focused on lowland
 frogs of north-western South America and investigated variation among 17
 species in potentially important ecologically relevant performance
 variables related to water balance, and tested for possible adaptations to
 semiarid conditions within species. We studied frogs from coastal xeric,
 savannah and wet forest biomes under common laboratory conditions and
 quantified rates of evaporative water loss, rates of water uptake, and
 variation in water-searching behavior and performance. We found
 significant differences in all three performance variables among species,
 even after accounting for shared evolutionary history. A phylogenetic
 ANCOVA showed that categorizing species by ecological habits (terrestrial
 vs. arboreal) explained much of the eco-performance trait variation among
 species. Secondarily, environment explained additional variation, e.g.,
 coastal xeric species showed reduced rates of water loss and terrestrial
 savannah amphibians showed lower rates of water uptake. Conspecific frog
 populations from different biomes exhibited similar performance. We
 compare our results with previous studies and conclude that ecological
 habit is the principle factor that predicts eco-physiological trait
 variation and the possible geographic distribution of lowland Neotropical
 frogs.
description: Eco-performance and
 natural history data for lowland frogs in Colombia.Specimen data were
 collected in the field and eco-performance data were collected under
 controlled laboratory conditions by the lead author. Environmental
 variables were taken from WorldClim.Cruz&l_H2Obalance_frogs_CO_DataDryad.xlsx
DOI: 10.5061/dryad.8n3q3
title: Data from: Cophylogenetic signal is detectable in pollination interactions across ecological scales

description: That evolutionary history can influence the way that species interact is a
 basic tenet of evolutionary ecology. However, when the role of evolution
 in determining ecological interactions is investigated, focus typically
 centers on just one side of the interaction. A cophylogenetic signal, the
 congruence of evolutionary history across both sides of an ecological
 interaction, extends these previous explorations and provides a more
 complete picture of how evolutionary patterns influence the way species
 interact. To date, cophylogenetic signal has most typically been studied
 in interactions that occur between fine taxonomic clades that show high
 intimacy. In this study, we took an alternative approach and made an
 exhaustive assessment of cophylogeny in pollination interactions. To do
 so, we assessed the strength of cophylogenetic signal at four distinct
 scales of pollination interaction: (1) across plant–pollinator
 associations globally, (2) in local pollination communities, (3) within
 the modular structure of those communities, and (4) in individual modules.
 We did so using a globally distributed dataset comprised of 54 pollination
 networks, over 4000 species, and over 12,000 interactions. Within these
 data, we detected cophylogenetic signal at all four scales. Cophylogenetic
 signal was found at the level of plant–pollinator interactions on a global
 scale and in the majority of pollination communities. At the scale defined
 by the modular structure within those communities, however, we observed a
 much weaker cophylogenetic signal. Cophylogenetic signal was detectable in
 a significant proportion of individual modules and most typically when
 within-module phylogenetic diversity was low. In sum, the detection of
 cophylogenetic signal in pollination interactions across scales provides a
 new dimension to the story of how past evolution shapes extant
 pollinator–angiosperm interactions.
description: Plant
 phylogeniesNetwork-level
 phylogenies for the plants in the 54 pollination networks
 analyzed.plant_phylogenies.zipPollinator phylogeniesNetwork-level phylogenies for pollinators in the 54 interaction networks analyzed.pollinator_phylogenies.zipPollination networks54 plant-pollinator networks analyzed in the study. These networks are versions of those available on the Web of Life database. They differ in that unidentified species have been removed and species' names have been updated.interaction_matrices.zip
DOI: 10.5061/dryad.f45f410
title: Data from: Environmental drivers of soil phosphorus composition in natural ecosystems

description: Abstract. Soil organic and inorganic phosphorus (P) compounds can be
 influenced by distinctive environmental properties. This study aims to
 analyze soil P composition in natural ecosystems, relating organic
 (inositol hexakisphosphate, DNA and phosphonates) and inorganic
 (orthophosphate, polyphosphate and pyrophosphate) compounds with major
 temporal (weathering), edaphic and climatic characteristics. A dataset
 including 88 sites was assembled from published papers that determined
 soil P composition using one-dimensional liquid state 31P nuclear magnetic
 resonance spectroscopy of NaOH-EDTA extracts of soils. Bivariate and
 multivariate regression models were used to better understand the
 environmental properties influencing soil P. In bivariate relationships,
 trends for soil P compounds were similar for mineral and organic layers
 but with different slopes. Independent and combined effects of weathering,
 edaphic and climatic properties of ecosystems explained up to 78%
 (inositol hexakisphosphates) and 89% (orthophosphate) of variations in
 organic and inorganic P compounds across the ecosystems, likely deriving
 from parent material differences. Soil properties, particularly pH, total
 carbon, and carbon-to-phosphorus ratios, over climate and weathering
 mainly explained the P variation. We conclude that edaphic and climatic
 drivers regulate key ecological processes that determine the soil P
 composition in natural ecosystems. These processes are related to the
 source of P inputs, primarily determined by the parent material and soil
 forming factors, plant and microbe P cycling, the bio-physico-chemical
 properties governing soil phosphatase activity, soil solid surface
 specific reactivity, and P losses through leaching, and finally the P
 persistence induced by the increasing complexity of organic and inorganic
 P compounds as the pedogenesis evolves. Soil organic and inorganic P
 compounds respond differently to combinations of environmental drivers,
 which likely indicates that each P compound has specific factors governing
 its presence in natural ecosystems.
description: Deiss_etal_Biogeosciences_DATASET_bg-2017-307This dataset is associated with the following article: Deiss, L., Moraes, A., and Maire, V. Environmental drivers of soil phosphorus composition in natural ecosystems. Biogeosciences. bg-2017-307.Deiss_etal_Biogeosciences_DATASET.xlsx
DOI: 10.5061/dryad.7j270
title: Data from: Experimental priming of independent and interdependent activity does not affect culturally-variable psychological processes

description: Cultural psychologists have shown that people from Western countries
 exhibit more independent self-construal and analytic (rule-based)
 cognition than people from East Asia, who exhibit more interdependent
 self-construal and holistic (relationship-based) cognition. One
 explanation for this cross-cultural variation is the ecocultural
 hypothesis, which links contemporary psychological differences to
 ancestral differences in subsistence and societal cohesion: Western
 thinking formed in response to solitary herding, which fostered
 independence, while East Asian thinking emerged in response to communal
 rice farming, which fostered interdependence. Here, we report two
 experiments that tested the ecocultural hypothesis in the laboratory. In
 both, participants played one of two tasks designed to recreate the key
 factors of working alone and working together. Before and after each task,
 participants completed psychological measures of
 independent–interdependent self-construal and analytic–holistic cognition.
 We found no convincing evidence that either solitary or collective tasks
 affected any of the measures in the predicted directions. This fails to
 support the ecocultural hypothesis. However, it may also be that our
 priming tasks are inappropriate or inadequate for simulating
 subsistence-related behavioural practices, or that these measures are
 fixed early in development and therefore not experimentally primable,
 despite many previous studies that have purported to find such priming
 effects.
description: Data for Experiment 1 of
 Magid, Sarkol and Mesoudi (2017)Data for Experiment 1 of
 Magid, Sarkol and Mesoudi (2017) Experimental priming of independent and
 interdependent activity does not affect culturally-variable psychological
 processes. Royal Society Open Science. See README file for variable
 descriptions.MagidSarkolMesoudi_ESM_FileS1_exp1data.csvData for Experiment 2 of Magid, Sarkol and Mesoudi (2017)Data for Experiment 2 of Magid, Sarkol and Mesoudi (2017) Experimental priming of independent and interdependent activity does not affect culturally-variable psychological processes. Royal Society Open Science. See README file for variable descriptions.MagidSarkolMesoudi_ESM_FileS2_exp2data.csv
DOI: 10.5061/dryad.524t4v16
title: Data from: A phylogeographic investigation of the hybrid origin of a species of swordtail fish from Mexico

description: Hybrid speciation may contribute significantly to generating biodiversity,
 but only a few well-documented examples for it exist so far that do not
 involve polyploidization as a mechanism. The swordtail fish, Xiphophorus
 clemenciae, shows common hall-marks of a hybrid origin and still overlaps
 in its current geographic distribution with its putative ancestral species
 (X. helleri and X. maculatus). Xiphophorus clemenciae provides an ideal
 system for investigating the possible continued genetic interactions
 between a hybrid and its parental species. Here we use microsatellite and
 mitochondrial markers to investigate the population structure of these
 species of swordtails and search for signs of recent hybridization.
 Individuals were sampled from 21 localities across the known range of X.
 clemenciae – the Isthmus of Tehuantepec (IT) Mexico, and several
 environmental parameters that might represent barriers to dispersal were
 recorded. The hybridization event that gave rise to X. clemenciae appears
 to be rather ancient and a single origin is likely. We find negligible
 evidence for ongoing hybridization and introgression between the putative
 ancestral species, since they now occupy distinct ecological niches, and a
 common haplotype is shared by most populations of X. clemenciae. The
 population structure within these species shows an isolation-by-distance
 (IBD) pattern and genetic differentiation between most populations is
 significant and high. We infer that tectonic evolution in the Isthmus has
 greatly restricted gene flow between the southern and central IT
 populations of X. clemenciae and X. helleri and provide preliminary
 information to aid in conservation management of this geographically
 restricted hybrid species, X. clemenciae.
description: 20120202_microsatellite_Structure_XiphophorusData summary spreadsheet_Jones et al. 2012MtDNA seqs_alignment_Jones et al.Sequence alignment of the main mtDNA haplotypes found in this study.
DOI: 10.5061/dryad.vf46853
title: Data from: Rapid evolution in native plants cultivated for ecological restoration: not a general pattern

description: The growing number of restoration projects worldwide increases the demand
 for seed material of native species. To meet this demand, seeds are often
 produced through large‐scale cultivation on specialized farms, using
 wild‐collected seeds as the original sources. However, during cultivation
 plants experience novel environmental conditions compared to those in
 natural populations, and there is a danger that the plants in cultivation
 are subject to unintended selection and lose their adaptation to natural
 habitats. Although the propagation methods are usually designed to
 maintain as much natural genetic diversity as possible, the effectiveness
 of these measures have never been tested. We obtained seeds of five common
 grassland species from one of the largest native seed producers in
 Germany. For each species, the seeds were from multiple generations of
 seed production. We used AFLP markers and a common garden experiment to
 test for genetic and phenotypic changes during cultivation of these
 plants. The molecular markers detected significant evolutionary changes in
 three out of the five species, and we found significant phenotypic changes
 in two species. The only species that showed substantial genetic and
 phenotypic changes was the short‐lived and predominantly selfing Medicago
 lupulina, where in the other, mostly perennial and outcrossing species,
 the observed changes were mostly minor. Agricultural propagation of native
 seed materials for restoration can cause evolutionary changes, at least in
 some species. We recommend caution particularly in selfing and short‐lived
 species, where evolution may happen faster and effects may thus be more
 severe.
description: Data_Nagel_etal2018PlaBioFile contains data both on molecular markers (AFLP) and phenotypic data. All information is in README file.
DOI: 10.5061/dryad.8076h3r
title: Data from: Relative effects of LDL-C on ischaemic stroke & coronary disease: a Mendelian randomization study

description: Objective: To examine the causal relevance of lifelong differences in
 LDL-C for ischaemic stroke (IS) relative to that for coronary heart
 disease (CHD) using a Mendelian randomization approach. Methods: We
 undertook a two-sample Mendelian randomization, based on summary data, to
 estimate the causal relevance of LDL-C for risk of IS and CHD. Information
 from 62 independent genetic variants with genome-wide significant effects
 on LDL-C levels was used to estimate the causal effects of LDL-C for IS
 and IS subtypes (based on 12,389 IS cases from METASTROKE) and for CHD
 (based on 60,801 cases from CARDIoGRAMplusC4D). We then assessed the
 effects of LDL-C on IS and CHD for heterogeneity. Results: A 1 mmol/L
 higher genetically-determined LDL-C was associated with a 50% higher risk
 of CHD (OR: 1.49, 95%CI: 1.32-1.68, p=1.1x10-8). By contrast, the causal
 effect of LDL-C was much weaker for IS (OR: 1.12, 95%CI: 0.96-1.30,
 p=0.14; p for heterogeneity=2.6x10-3) and, in particular, for
 cardioembolic stroke (OR: 1.06, 95%CI: 0.84-1.33, p=0.64; p for
 heterogeneity=8.6x10-3) when compared with that for CHD. Conclusions: In
 contrast with the consistent effects of LDL-C lowering therapies on IS and
 CHD, genetic variants that confer lifelong LDL-C differences show a weaker
 effect on IS than on CHD. The relevance of aetiologically distinct IS
 subtypes may contribute to the differences observed.
description: Data
 SupplementSupplementary Tables
 (e-1, e-2, e-3), Supplementary Figures (e-1, e-2, e-3), METASTROKE
 AcknowledgmentsValdes et
 al_Supplementary_Material_01Aug18.pdf