cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.1kh2n
title: Data from: A single migrant enhances the genetic diversity of an inbred puma population

description: Migration is essential for maintaining genetic diversity among
 populations, and pumas (Puma concolor) provide an excellent model for
 studying the genetic impacts of migrants on populations isolated by
 increasing human development. In densely populated southern California,
 USA, puma populations on the east and west side of interstate highway 15
 (I-15) have become fragmented into a small inbred population on the west
 side (Santa Ana Mountains) and a relatively larger, more diverse
 population on the east side (Eastern Peninsular Range). From 146 sampled
 pumas, genetic analyses indicate seven pumas crossed I-15 over the last 15
 years, including four males from west to east, and three males from east
 to west. However, only a single migrant (named M86) was detected to have
 produced offspring and contribute to gene flow across the I-15 barrier.
 Prior to the M86 migration, the Santa Ana population exhibited inbreeding
 and had significantly lower genetic diversity than the Eastern Peninsular
 Range population. After M86 emigrated, he sired 11 offspring with Santa
 Ana females, decreasing inbreeding measures and raising heterozygosity to
 levels similar to pumas in the Eastern Peninsular Range. The emigration of
 M86 also introduced new alleles into the Santa Ana population, although
 allelic richness still remained significantly lower than the Eastern
 Peninsular population. Our results clearly show the benefit of a single
 migrant to the genetics of a small, isolated population. However, ongoing
 development and habitat loss on both sides of I-15 will increasingly
 strengthen the barrier to successful migration. Further monitoring, and
 potential human intervention, including minimizing development effects on
 connectivity, adding or improving freeway crossing structures, or animal
 translocation, may be needed to ensure adequate gene flow and long-term
 persistence of the Santa Ana puma population.
description: TemporalAnalysesR code for analysesTemporalGeneticDataData for analysesInternalRelatednessR code for inbreeding analysesInternalRelatednessData for inbreeding analysesGustafsonEtAl_GenotypesGenotypes for pumas used in this study with location of capture.
DOI: 10.5061/dryad.gd2jc7f
title: Data from: Forest composition modifies litter dynamics and decomposition in regenerating tropical dry forest

description: We investigated how forest composition, litter quality, and rainfall
 interact to affect leaf litter decomposition across three successional
 tropical dry forests in Costa Rica. We monitored litter stocks and bulk
 litter turnover in 18 plots that exhibit substantial variation in soil
 characteristics, tree community structure, fungal communities (including
 forests dominated by ecto- or arbuscular mycorrhizal host trees), and
 forest age. Simultaneously, we decomposed three standard litter substrates
 over a 6-month period spanning an unusually intense drought. Decay rates
 of standard substrates depended on the interaction between litter identity
 and forest type. Decomposition rates were correlated with tree and soil
 fungal community composition as well as soil fertility, but these
 relationships differed among litter types. In low fertility soils
 dominated by ectomycorrhizal oak trees, bulk litter turnover rates were
 low, regardless of soil moisture. By contrast, in higher fertility soils
 that supported mostly arbuscular mycorrhizal trees, bulk litter decay
 rates were strongly dependent on seasonal water availability. Both
 measures of decomposition increased with forest age, as did the frequency
 of termite-mediated wood decay. Taken together, our results demonstrate
 that soils and forest age exert strong control over decomposition dynamics
 in these tropical dry forests, either directly through effects on
 microclimate and nutrients, or indirectly by affecting tree and microbial
 community composition and traits, such as litter quality.
description: Schilling et
 al_data_for_Dryad
DOI: 10.5061/dryad.34kh1
title: Data from: Wood ants produce a potent antimicrobial agent by applying formic acid on tree-collected resin

description: Wood ants fight pathogens by incorporating tree resin with antimicrobial
 properties into their nests. They also produce large quantities of formic
 acid in their venom gland, which they readily spray to defend or disinfect
 their nest. Mixing chemicals to produce powerful antibiotics is common
 practice in human medicine, yet evidence for the use of such “defensive
 cocktails” by animals remains scant. Here, we test the hypothesis that
 wood ants enhance the antifungal activity of tree resin by treating it
 with formic acid. In a series of experiments, we document that (i) tree
 resin had much higher inhibitory activity against the common
 entomopathogenic fungus Metarhizium brunneum after having been in contact
 with ants, while no such effect was detected for other nest materials;
 (ii) wood ants applied significant amounts of endogenous formic and
 succinic acid on resin and other nest materials; and (iii) the application
 of synthetic formic acid greatly increased the antifungal activity of
 resin, but had no such effect when applied to inert glass material.
 Together, these results demonstrate that wood ants obtain an effective
 protection against a detrimental microorganism by mixing endogenous and
 plant-acquired chemical defenses. In conclusion, the ability to
 synergistically combine antimicrobial substances of diverse origins is not
 restricted to humans and may play an important role in insect societies.
description: all raw data from
 paperraw data used for all
 results in the paperraw.data.resin.acids.xlsx
DOI: 10.3535/xl7-144-rl3
title: ?Proetus sp.

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.5061/dryad.v31rb
title: Data from: Living apart together—bacterial volatiles influence methanotrophic growth and activity

description: Volatile organic compounds play an important role in microbial
 interactions. However, little is known about how volatile-mediated
 interactions modulate biogeochemical processes. In this study, we show the
 effect of volatile-mediated interaction on growth and functioning of
 aerobic methane-oxidizing bacteria, grown in co-culture with five
 different heterotrophs. Both growth and methane oxidation of Methylobacter
 luteus were stimulated by interaction with specific heterotrophs. In
 Methylocystis parvus, we observed significant growth promotion, while
 methane oxidation was inhibited. Volatolomics of the interaction of each
 of the methanotrophs with Pseudomonas mandelii, revealed presence of a
 complex blend of volatiles, including dimethylsulfide, dimethyldisulfide,
 and bicyclic sesquiterpenes. Although the ecological role of the detected
 compounds remains to be elucidated, our results provide unprecedented
 insights into interspecific relations and associated volatiles for
 stimulating methanotroph functioning, which is of substantial
 environmental and biotechnological significance.
description: Veraart_2018_DATAContains data on growth, C/N composition and methane oxidation rates of the methanotrophs Methylobacter luteus and Methylocystis parvus growing alone or in the presence of different heterotrophic bacteria.
DOI: 10.3535/l8g-kgp-b1z
title: Priapulida Théel, 1906

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.5061/dryad.sh511
title: Data from: Combination of shear-wave elastography and color Doppler: feasible method to avoid unnecessary breast excision of fibroepithelial lesions diagnosed by core needle biopsy

description: Background: We evaluated shear-wave elastography (SWE) and color Doppler
 ultrasonography (US) features for fibroepithelial lesions (FELs), and to
 evaluate their utility to differentiate fibroadenomas (FAs) and phyllodes
 tumors (PTs). Methods: This retrospective study included 67 FELs
 pathologically confirmed (49 FAs, 18 PTs). B-mode US, SWE and color
 Doppler US were performed for each lesion. Mean elasticity (Emean),
 maximum elasticity (Emax), and vascularity were determined by SWE and
 Doppler US. Diagnostic performances were calculated to differentiate FAs
 and PTs. Equivocal FELs diagnosed by core needle biopsy (CNB) were further
 analyzed. Results: Median Emean and Emax were significantly lower for FAs
 than PTs (Emean, 15.7 vs. 66.7 kPa; Emax, 21.0 vs. 76.7 kPa,
 P&lt;0.01). Low vascularity (0-1 vessel flow) on color Doppler US were
 more frequent in FAs than in PTs (P&lt;0.01). SWE showed significantly
 higher specificities (Emean &gt;43.9 kPa, 89.8%; Emax &gt;46.1
 kPa, 79.6%) than B-mode US (42.9%) (P&lt;0.01) for differentiating PTs
 from FAs. Other diagnostic values of SWE and overall diagnostic values of
 Doppler US were not significantly different from B-mode US
 (P&gt;0.05). The combination of SWE and Doppler US with
 ‘Emean&gt;43.9 kPa or high vascularity (≥2 vessel flows)’ showed a
 higher area under the curve (0.786 vs. 0.687) and higher diagnostic values
 than B-mode US (sensitivity, 100 vs. 94.4 %; specificity, 57.1 vs. 42.9 %;
 positive predictive value, 46.2 vs. 37.8 %; negative predictive value, 100
 vs. 95.5 %), without statistical significance (P&gt;0.05). Of the 30
 equivocal FELs, all lesions with ‘Emean≤43.9 kPa and low vascularity (0-1
 vessel flow)’ (23.3%, 7/30) were finally confirmed as FAs by excision.
 Conclusion: FAs have a tendency to have less stiffness and lower
 vascularity than PTs. Combined SWE and color Doppler US may help patients
 with equivocal FELs diagnosed by CNB avoid unnecessary excision.
description: Raw
 dataRaw data (FA,
 fibaodenoma; PT, phyllodes tumor; FEL, fibroepithelial
 lesion)1.xml
DOI: 10.5061/dryad.t3d52
title: Data from: Functional traits in red flour beetles: the dispersal phenotype is associated with leg length but not body size nor metabolic rate

description: Individuals vary in their ability to disperse. Much of this variation can
 be described by covarying phenotypic traits that are related to dispersal
 (constituting the ‘dispersal phenotype’ or ‘dispersal syndrome’), but the
 nature of the associations among these traits is not well understood.
 Unravelling the associations among traits that potentially constitute the
 dispersal phenotype provides a foundation for understanding evolutionary
 trade-offs due to variation in dispersal. Here, we tested five predictions
 pertaining to the relationships among physiological, morphological and
 movement traits that are associated with dispersal, using a species with a
 long history as a laboratory model for studying ecological phenomena, red
 flour beetles (Tribolium castaneum). We identified a dominant axis of
 movement ability that describes variation in dispersal-related movement
 traits. Individuals that scored positively on this axis moved at higher
 speed, travelled longer distances, had lower movement intermittency and
 dispersed quicker to a specified area. Relative leg length, but not body
 size nor routine metabolic rate related positively with movement ability,
 indicating a likely mechanistic relationship between increased stride
 length and movement ability. Our data suggest that the dispersal phenotype
 may be more strongly linked to morphological traits than physiological
 ones. We demonstrate that associations among many functional traits do not
 necessarily conform to a priori expectations, and predict that the
 substantial intraspecific variation in trait values may be important for
 selection. Movement is a complex behavioural trait, but it has a
 mechanistic basis in locomotor morphology that warrants further
 exploration.
description: Arnold_etal_2016_functecol_datasetData from laboratory experiments on that measured many physiological, morphological, and movement behaviour traits in Tribolium castaneum. The morphological traits were measured using ImageJ software from microscope images. Movement behaviour traits were from video recordings that were digitised in MATLAB and then calculated in Microsoft Excel. Other calculations or unit conversions were made either in Microsoft Excel or R 3.2.3. A key with descriptions and units of the measured traits is provided within the data file.
DOI: 10.5061/dryad.sj6n2
title: Data from: Migrating songbirds on stopover prepare for, and recover from, oxidative challenges posed by long-distance flight

description: Managing oxidative stress is an important physiological function for all
 aerobic organisms, particularly during periods of prolonged high metabolic
 activity, such as long-distance migration across ecological barriers.
 However, no previous study has investigated the oxidative status of birds
 at different stages of migration and whether that oxidative status depends
 on the condition of the birds. In this study, we compared (1) energy
 stores and circulating oxidative status measures in (a) two species of
 Neotropical migrants with differing migration strategies that were sampled
 at an autumn stopover site before an ecological barrier; and (b) a species
 of trans-Saharan migrant sampled at a spring stopover site after crossing
 an ecological barrier; and (2) circulating oxidative measures and
 indicators of fat metabolism in a trans-Saharan migrant after stopovers of
 varying duration (0–8 nights), based on recapture records. We found fat
 stores to be positively correlated with circulating antioxidant capacity
 in Blackpoll Warblers and Red-eyed Vireos preparing for fall migration on
 Block Island, USA, but uncorrelated in Garden Warblers on the island of
 Ponza, Italy, after a spring crossing of the Sahara Desert and
 Mediterranean Sea. In all circumstances, fat stores were positively
 correlated with circulating lipid oxidation levels. Among Garden Warblers
 on the island of Ponza, fat anabolism increased with stopover duration
 while oxidative damage levels decreased. Our study provides evidence that
 birds build antioxidant capacity as they build fat stores at stopover
 sites before long flights, but does not support the idea that antioxidant
 stores remain elevated in birds with high fuel levels after an ecological
 barrier. Our results further suggest that lipid oxidation may be an
 inescapable hazard of using fats as the primary fuel for flight. Yet, we
 also show that birds on stopover are capable of recovering from the
 oxidative damage they have accrued during migration, as lipid oxidation
 levels decrease with time on stopover. Thus, the physiological strategy of
 migrating songbirds may be to build prophylactic antioxidant capacity in
 concert with fuel stores at stopover sites before a long-distance flight,
 and then repair oxidative damage while refueling at stopover sites after
 long-distance flight.
description: Skrip_et_al-data_REPOSITORYThis file contains data used to perform all statistical analyses; the last sheet of the workbook contains metadata describing the data in all other sheets.
DOI: 10.34740/kaggle/dsv/14633991
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.5061/dryad.cr890
title: Data from: Hybridization relics complicate barcode-based identification of species in earthworms

description: Introgressive hybridization results in mito-nuclear discordance which
 could obscure the delimitation of closely related taxa. Although such
 events are increasingly reported, they have been poorly studied in
 earthworms. Here, we propose a method for investigating the degree of
 introgressive hybridization between three taxa of the Allolobophora
 chlorotica aggregate within two field populations (N = 67 and N = 105)
 using a reference dataset including published DNA barcoding and
 microsatellite data of all known A. chlorotica lineages (N = 85). For
 this, we used both molecular phylogenetic and population genetic
 approaches. The test of correspondence between mitochondrial cytochrome c
 oxidase I (COI) lineages and clusters of nuclear microsatellite genotypes
 allowed individuals to be sorted in three categories (matching, admixed
 and non-matching) and additional markers (mitochondrial NADH dehydrogenase
 subunit 1, nuclear Histone 3 and Internal transcribed Spacer Region 2)
 were used for phylogenetic reconstructions in order to check assignments.
 Although 15 admixed individuals were observed, no early-generation hybrids
 were detected within the two populations. Interestingly, 14 non-matching
 individuals (i.e. with a mtDNA haplotype that did not correspond to their
 nuclear cluster) were detected, a pattern that would result after multiple
 generations of unidirectional hybridization of female from one taxon to
 male of the other taxon. Because earthworms are simultaneous
 hermaphrodites, these events of unidirectional hybridization suggest
 sterility of the male function in several crosses and highlight that some
 individuals can be misidentified if reliance is placed on COI barcodes
 alone. These findings could improve the use of these barcodes in
 earthworms for species delineation.
description: Allolobophora chlorotica
 microsatellite genotypesFor each dataset
 (reference dataset, MSA and YVE populations ) are given the individual
 genotypes obtained using five microsatellite markers (Ac 127, Ac 170, Ac
 418, Ac 476 and Ac 528). The assignment to known mitochondrial lineage
 using COI sequences is also indicated.Achlorotica Genotype
 dataset.xls
DOI: 10.5061/dryad.g48pb
title: Data from: Senegal flapshell turtle (Cyclanorbis senegalensis) in Ethiopia (Testudines: Trionychidae)

description: Based on DNA sequences derived from two hatchlings from the Alwero river,
 Gambela Region, Cyclanorbis senegalensis is recorded for the first time
 for western Ethiopia. Previously published DNA sequences of C.
 senegalensis from Benin and Togo are slightly different, suggesting
 phylogeographic structure.
description: First record of
 Cyclanorbis senegalensis for
 Ethiopia_Supporting_InformationMaterials and Methods
 (Sampling and laboratory procedures, Phylogenetic analyses), including
 Tables S1-S3Mazuch_2016_Cyclanorbis_eSuppl.doc
DOI: 10.5061/dryad.pc8d30j2
title: Data from: Multiplexed microsatellite markers for genetic studies of beech

description: European beech (Fagus sylvatica L.) is one of the economically most
 important broadleaved tree species in Europe and has become a model for
 studying climate change effects. Multiplex PCR of microsatellites is a
 fast and cost-effective technique allowing high throughput genotyping.
 Here we present the procedure used to develop two multiplex kits
 (8-plexes) for European beech. We paid particular attention to quality
 control throughout all steps of the multiplex kits development (null
 allele detection, error rate measurements, linkage disequilibrium).
 Preliminary assays suggest that the multiplex kits amplify 16 loci largely
 devoid of null alleles and allow rapid and cost-effective genotyping of
 beech with low error rates. The two kits, which differ in their levels of
 polymorphism, most likely due to marker origin, were also informative in
 seven other beech species tested.
description: Genotypes Multiplex
 Kit-1Genotypes Kit-1 (Genalex
 format) Locus 4:csolfagus_31; Locus 6:sfc_1143; Locus 8:csolfagus_05;
 Locus 9: FS1_15; Locus 10:sfc_0036; Locus 11: csolfagus_06; Locus
 12:csolfagus_19; Locus 13:csolfagus_29Genotypes Multiplex
 Kit-2Genotypes Kit-2 (Genalex
 format) Locus 18: EEU75_A_0; Locus 20: DUKCT_A_0; Locus 25: EJV8T_A_0;
 Locus 28: EMILY_A_O; Locus 32: ERHBI_A_0; Locus 39: DZ447_A_0; Locus 42:
 concat14_A_0; Locus 45: DE576_A_0
DOI: 10.5061/dryad.vs23b
title: Data from: Thermal conductance and basal metabolic rate are part of a coordinated system for heat transfer regulation

description: Thermal conductance measures the ease with which heat leaves or enters an
 organism's body. Although the analysis of this physiological variable
 in relation to climatic and ecological factors can be traced to studies by
 Scholander and colleagues, only small advances have occurred ever since.
 Here, we analyse the relationship between minimal thermal conductance
 estimated during summer (Cmin) and several ecological, climatic and
 geographical factors for 127 rodent species, in order to identify the
 exogenous factors that have potentially affected the evolution of thermal
 conductance. In addition, we evaluate whether there is compensation
 between Cmin and basal metabolic rate (BMR)—in such a way that a
 scale-invariant ratio between both variables is equal to one—as could be
 expected from the Scholander–Irving model of heat transfer. Our major
 findings are (i) annual mean temperature is the best single predictor of
 mass-independent Cmin. (ii) After controlling for the effect of body mass,
 there is a strong positive correlation between log10 (Cmin) and log10
 (BMR). Further, the slope of this correlation is close to one, indicating
 an almost perfect compensation between both physiological variables. (iii)
 Structural equation modelling indicated that Cmin values are adjusted to
 BMR values and not the other way around. Thus, our results strongly
 suggest that BMR and thermal conductance integrate a coordinated system
 for heat regulation in endothermic animals and that summer conductance
 values are adjusted (in an evolutionary sense) to track changes in BMRs.
description: Data on thermal
 conductance for 127 rodent speciesData on minimal thermal
 conductance for 127 rodent species, together with data on body mass, basal
 metabolic rate, and several geographic, climatic and ecological
 variables.TableS1.xls
DOI: 10.5061/dryad.5q4sq
title: Data from: Wind- and rain-induced vibrations impose different selection pressures on multimodal signaling

description: The world is a noisy place, and animals have evolved a myriad of
 strategies to communicate in it. Animal communication signals are,
 however, often multimodal; their components can be processed by multiple
 sensory systems, and noise can thus affect signal components across
 different modalities. We studied the effect of environmental noise on
 multimodal communication in the túngara frog (Physalaemus pustulosus).
 Males communicate with rivals using airborne sounds combined with
 call-induced water ripples. We tested males under control as well as noisy
 conditions in which we mimicked rain- and wind-induced vibrations on the
 water surface. Males responded more strongly to a multimodal playback in
 which sound and ripples were combined, compared to a unimodal sound-only
 playback, but only in the absence of rain and wind. Under windy
 conditions, males decreased their response to the multimodal playback,
 suggesting that wind noise interferes with the detection of rival ripples.
 Under rainy conditions, males increased their response, irrespective of
 signal playback, suggesting that different noise sources can have
 different impacts on communication. Our findings show that noise in an
 additional sensory channel can affect multimodal signal perception and
 thereby drive signal evolution, but not always in the expected direction.
description: call
 measurementsThis file contains vocal
 responses of male frogs to playback of rival calls under different
 environmental conditionsData_16-4-16.xlsx