cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.4tg8530
title: Data from: Larval pheromones act as colony-wide regulators of collective foraging behavior in honeybees

description: When animals move or forage in groups, collective behaviors arise from
 independent decisions that individuals make based on limited information
 about the environment. In decentralized systems in which individuals use
 local cues to decide how to allocate their time amongst multiple tasks, a
 “global” signal detectable over large distances by all members of the
 group could have a profound effect on task allocation and coordination.
 Honey bees provide a unique opportunity to study how information transfer
 modulates behavior because they produce pheromones that can regulate the
 actions of thousands of individuals in a colony. We used
 electrophysiological and behavioral assays to compare the transmission
 modes of two larval pheromones to test the hypothesis that larval
 pheromones can act as “global” signals by rapidly regulating behavior
 throughout a colony without direct physical interactions between
 individuals. By studying mechanisms of pheromone transmission at the
 individual and colony level, we provide evidence that larval pheromones
 act as direct rapid and powerful regulators of behavior, even among
 individuals too far away from each other to use visual or tactile cues.
 Therefore, our results suggest that in some cases, global signals can be
 important regulators of collective behavior.
description: Brood Pheromone
 ForagingForaging experiments
 conducted as described in Ma et al 2018 during Summer 2015. Camera
 indicates the recording equipment used to record foraging. Colony ID
 identifies each unique colony, that were randomly assigned Screen
 treatments. Repeated measures were conducted for 3 different pheromone
 treatments on 3 different Days. Foraging was recorded at 3 time points
 following pheromone treatment. The number of foaragers carrying pollen or
 not carrying pollen were recorded.BPO Forage
 May2018R code in Rmarkdown
 format used to analyze foraging data.EAG_2016Electroantennography (EAG) data associated with Ma et al 2018. Colony represents the source colony from which individual nurses and foragers were taken. Behavior categorizes individual bees as nurses or foragers. Four concentrations for each of two pheromones were used for the analysis. Raw values were divided by eag response to average of hexane controls to produce standardized responses. Hexane responses were taken before and after pheromone exposuresEAG May 2018R code in Rmarkdown format used to anlayze EAG data.
DOI: 10.5061/dryad.256qh
title: Data from: Acoustic analysis reveals a new cryptic bush–cricket in the Carpathian Mountains (Orthoptera, Phaneropteridae)

description: A new morphologically cryptic species of phaneropterid bush–cricket from
 the genus Isophya is described from the Eastern Carpathian Mountains:
 Isophya dochia sp. n. Sound analysis and morphological details are
 discussed in the paper, comparing the new species with
 bush–cricketssimilar morphology and acoustic behavior: Isophya harzi,
 Isophya camptoxypha, Isophya ciucasi, Isophya sicula and Isophya nagyi.
description: isophya_dochia_morphological_charactersStudied morphological characters: body length (BL), head width (HW), head length (HL), pronotum maximum width (PW), pronotum length (PL), left tegmen maximum width (TW), tegmina length (TL), cercus length (CL), femur length (FL), ovipositor (O).Table 1.xlsisophya_dochia_song_charactersTable 2.xls
DOI: 10.5061/dryad.64m57
title: Data from: Intraspecific phenotypic variation and morphological divergence of strains of Folsomia candida (Willem) (Collembola: Isotomidae), the "standard" test springtail

description: We describe and compare the external morphology of eleven clonal strains
 and one sexual lineage of the globally distributed Folsomia candida, known
 as “standard” test Collembola. Of the 18 morphological characters studied,
 we measured 14 to have significant between-strains genetic variations, 9
 of these had high heritabilities (&gt;78%). The quantified
 morphological polymorphism was used to analyse the within-species
 relationships between strains by using both a parsimony analysis and a
 distance tree. These two detailed morphological phylogenies have revealed
 that the parthenogenetic strains grouped themselves into two major clades.
 However the exact position of the sexual strain remains unclear and
 further analysis is needed to confirm its exact relationship with the
 parthenogenetic ones. The two morphologically based clades were found to
 be the same as the ones previously described using molecular analysis.
 This shows that despite large within-strain variations, morphological
 characters can be used to differentiate some strains that have diverged
 within a single morphospecies. We discuss the potential evolutionary
 interpretations and consequences of these different levels of phenotypic
 variability.
description: Folsomia candida
 morphologyTable with data on the
 external morphology of 18 characters studied on 12 differents lineages of
 the Collembola Folsomia candida.
DOI: 10.5061/dryad.pk27cd0
title: Data from: Development and usability testing of an audit and feedback tool for anesthesiologists

description: Background: We describe the creation and evaluation of a personal audit
 & feedback (A&F) tool for anesthesiologists. Methods: A
 survey aimed at capturing barriers for personal improvement efforts and
 feedback preferences was administered to attending anesthesiologists. The
 results informed the design and implementation of 4 dashboards that
 display information on individual practice characteristics as well as
 comparative performance on several quality metrics. The dashboards’
 usability was then tested using the human-centered design framework.
 Results: Anesthesiologists listed lack of information on current practice
 as the main barrier for improvement. Regarding usability, participants
 gave the dashboards an average score of 3.8 (scale 1-5) on consistency,
 learnability, and information organization, and performed the assigned
 tasks well, with an average score of 89% (range, 79-100%). Conclusions: We
 describe the design, implementation and usability testing of an innovative
 tool that utilizes data derived from the EHR system to provide A&F
 to anesthesiology providers.
description: Survey
 DataResponses to the
 SurveyUsability Evaluation
 DataDashboard usability
 evaluation data
DOI: 10.5061/dryad.5b6t7
title: Data from: Native plant diversity increases herbivory to non-natives

description: There is often an inverse relationship between the diversity of a plant
 community and the invasibility of that community by non-native plants.
 Native herbivores that colonize novel plants may contribute to
 diversity–invasibility relationships by limiting the relative success of
 non-native plants. Here, we show that, in large collections of non-native
 oak trees at sites across the USA, non-native oaks introduced to regions
 with greater oak species richness accumulated greater leaf damage than in
 regions with low oak richness. Underlying this trend was the ability of
 herbivores to exploit non-native plants that were close relatives to their
 native host. In diverse oak communities, non-native trees were on average
 more closely related to native trees and received greater leaf damage than
 those in depauperate oak communities. Because insect herbivores colonize
 non-native plants that are similar to their native hosts, in communities
 with greater native plant diversity, non-natives experience greater
 herbivory.
description: Rcode_Pearse_Hipp_2014code (R programming language) for analyses in Pearse & Hipp 2014. Some data on site-level characteristics within code.damage_by_oak_speciesDamage to oak species at all arboretum surveyed. Each tree species was represented by 1-6 individuals at a given site. Damage was estimated from 20 leaves per individual. Some hybrid trees were surveyed but removed from further analysis. chew = proportion (leaf area) chewing damagesite_level_dataData on climate and location of arboretum sites. Other site level information in included directly in the programming code.best_quercus_phylogenyA supertree of oaks (Quercus and Notholithocarpus). The backbone of the phylogeny was a published AFLP phylogeny (Pearse & Hipp 2009). Oak species were placed on the phylogeny based on various evidence (listed in Table S1).alternate_quercus_phylogeniesAlternate Quercus phylogenies that either collapse species relationships to polytomies within established clades, force even branching times, or move the placement of the old world white oaks, based on recent phylogenetic treatments (Hipp et al 2014). Multiple Newick tree files. Descriptions of which file is which phylogeny can be found in the R code.
DOI: 10.5061/dryad.63bh4
title: Data from: Maternal stress-associated cortisol stimulation may protect embryos from cortisol excess in zebrafish

description: Abnormal embryo cortisol level causes developmental defects and poor
 survival in zebrafish (Danio rerio). However, no study has demonstrated
 that maternal stress leads to higher embryo cortisol content in zebrafish.
 We tested the hypothesis that maternal stress-associated elevation in
 cortisol levels increases embryo cortisol content in this asynchronous
 breeder. Zebrafish mothers were fed cortisol-spiked food for 5 days, to
 mimic maternal stress, followed by daily breeding for 10 days to monitor
 temporal embryo cortisol content. Cortisol treatment increased mean embryo
 yield, but the daily fecundity was variable among the groups. Embryo
 cortisol content was variable in both groups over a 10-day period. A
 transient elevation in cortisol levels was observed in the embryos from
 cortisol-fed mothers only on day 3, but not on subsequent days. We tested
 whether excess cortisol stimulates 11βHSD2 expression in ovarian follicles
 as a means to regulate embryo cortisol deposition. Cortisol treatment in
 vitro increased 11β HSD2 levels sevenfold, and this expression was
 regulated by actinomycin D and cycloheximide suggesting tight regulation
 of cortisol levels in the ovarian follicles. We hypothesize that
 cortisol-induced upregulation of 11βHSD2 activity in the ovarian follicles
 is a mechanism restricting excess cortisol incorporation into the eggs
 during maternal stress.
description: RSOS-160032 RAW
 DATARaw Data of the figures
 shown in the manuscript on Excel file.
DOI: 10.5061/dryad.5rf92
title: Data from: Residual eDNA detection sensitivity assessed by quantitative real-time PCR in a river ecosystem

description: Several studies have demonstrated that environmental DNA (eDNA) can be
 used to detect the presence of aquatic species, days to weeks after the
 target species has been removed. However, most studies used eDNA analysis
 in lentic systems (ponds or lakes), or in controlled laboratory
 experiments. While eDNA degrades rapidly in all aquatic systems, it also
 undergoes dilution effects and physical destruction in flowing systems,
 complicating detection in rivers. However, some eDNA (i.e. residual eDNA)
 can be retained in aquatic systems, even those subject to high flow
 regimes. Our goal was to determine residual eDNA detection sensitivity
 using quantitative real-time polymerase chain reaction (qRT-PCR), in a
 flowing, uncontrolled river after the eDNA source was removed from the
 system; we repeated the experiment over two years. Residual eDNA had the
 strongest signal strength at the original source site and was detectable
 there up to 11.5 hours after eDNA source removal. Residual eDNA signal
 strength decreased as sampling distance downstream from the eDNA source
 site increased, and was no longer detectable at the source site 48 hours
 after the eDNA source water was exhausted in both experiments. This
 experiment shows that residual eDNA sampled in surface water can be mapped
 quantitatively using qRT-PCR, which allows a more accurate spatial
 identification of the target species location in lotic systems, and
 relative residual eDNA signal strength may allow the determination of the
 timing of the presence of target species.
description: Appendix S1. Ct values
 for qRT-PCR efficiency for Salmo salar.Ct values for Figure 2.
 10-fold Salmo salar dilution series with Salmo_Mito-951 (d-loop; Karlsson
 et al. 2012) primer set.Suppl Info - Appendix S1. Ct
 values for qRT-PCR
 efficiency.xlsxAppendix S2. Little
 River 2014 qRT-PCR Ct values.Ct values for Figure 3A.
 Little River 2014 river samples. Primer set Salmo_Mito-951 (Karlsson et
 al. 2012).Suppl Info - Appendix S2.
 Little River 2014 qRT-PCR Ct
 values.xlsxAppendix S3. Little
 River 2015 qRT-PCR Ct values.Ct values for Figure 3B.
 Little River 2015 samples. Primer set Salmo_Mito-951 (Karlsson et al.
 2012).Suppl
 Info - Appendix S3. Little River 2015 qRT-PCR Ct
 values.xlsx
DOI: 10.6084/m9.figshare.31154272
title: <i>Acropora spathulata</i> WGS pictures 2/4

description: Pictures from <i>Acropora spathulata</i> colonies collected on the Great Barrier Reef within the Reef Restoration and Adaptation Project (RRAP)Samples metadata can be accessed through GEOME portal: https://n2t.net/ark:/21547/R2658
DOI: 10.6084/m9.figshare.31154272.v1
title: <i>Acropora spathulata</i> WGS pictures 2/4

description: Pictures from <i>Acropora spathulata</i> colonies collected on the Great Barrier Reef within the Reef Restoration and Adaptation Project (RRAP)Samples metadata can be accessed through GEOME portal: https://n2t.net/ark:/21547/R2658
DOI: 10.5061/dryad.k1mc5
title: Data from: Evidence for rapid evolutionary change in an invasive plant in response to biological control

description: We present evidence that populations of an invasive plant species that
 have become re-associated with a specialist herbivore in the exotic range
 through biological control have rapidly evolved increased anti-herbivore
 defences compared to populations not exposed to biocontrol. We grew
 half-sib families of the invasive plant Lythrum salicaria sourced from 17
 populations near Ottawa, Canada, that differed in their history of
 exposure to a biocontrol agent, the specialist beetle Neogalerucella
 calmariensis. In a greenhouse experiment, we manipulated larval and adult
 herbivory to examine whether a population's history of biocontrol
 influenced plant defence and growth. Plants sourced from populations with
 a history of biocontrol suffered lower defoliation than naïve, previously
 unexposed populations, strongly suggesting they had evolved higher
 resistance. Plants from biocontrol-exposed populations were also larger
 and produced more branches in response to herbivory, regrew faster even in
 the absence of herbivory, and were better at compensating for the impacts
 of herbivory on growth (i.e., they exhibited increased tolerance).
 Furthermore, resistance and tolerance were positively correlated among
 genotypes with a history of biocontrol but not among naïve genotypes. Our
 findings suggest that biocontrol can rapidly select for increased defences
 in an invasive plant, and may favour a mixed defence strategy of
 resistance and tolerance without an obvious cost to plant vigour. While
 rarely studied, such evolutionary responses in the target species have
 important implications for the long-term efficacy of biocontrol
 programmes.
description: Herbivory and plant
 growth of exotic Lythrum salicaria with differing history of biocontrol
 exposureData from greenhouse
 experiment with exotic populations (18) of Lythrum salicaria (8 genotypes
 per population), differing in their history of exposure to biocontrol
 (naïve, recent, release), and subjected to feeding damage(control,
 herbivory) by specialist biocontrol beetle, Neogalerucella calmariensis.
 Measured variables: plant height prior to experimental treatment
 (initialsize); % larval defoliation (larvaldefol); % combined larval and
 adult defoliation (finaldefol); above-ground biomass at harvest (biomass);
 number of lateral shoots (latshoots); sum of lengths of shoots regrowing
 after harvest (regrowshoots). Rack refers to physical units holding
 randomized groups of replicates ("conetainers" with individual
 plants).StastnySargent_GhExpt_data_dryad.txt
DOI: 10.5061/dryad.fs401
title: Data from: Does sex matter? Gender-specific responses to forest fragmentation in Neotropical bats

description: Understanding the consequences of habitat modification on wildlife
 communities is central to the development of conservation strategies.
 However, albeit male and female individuals of numerous species are known
 to exhibit differences in habitat use, sex-specific responses to habitat
 modification remain little explored. Here, we used a landscape-scale
 fragmentation experiment to assess, separately for males and females, the
 effects of fragmentation on the abundance of Carollia perspicillata and
 Rhinophylla pumilio, two widespread Neotropical frugivorous bats. We
 predicted that sex-specific responses would arise from higher energetic
 requirements from pregnancy and lactation in females. Analyses were
 conducted independently for each season, and we further investigated the
 joint responses to local and landscape-scale metrics of habitat quality,
 composition, and configuration. Although males and females responded
 similarly to a fragmentation gradient composed by continuous forest,
 fragment interiors, edges, and matrix habitats, we found marked
 differences between sexes in habitat use for at least one of the seasons.
 Whereas the sex ratio varied little in continuous forest and fragment
 interiors, females were found to be more abundant than males in edge and
 matrix habitats. This difference was more prominent in the dry season, the
 reproductive season of both species. For both species, abundance responses
 to local- and landscape-scale predictors differed between sexes and again,
 differences were more pronounced in the dry season. The results suggest
 considerable sex-mediated responses to forest disruption and degradation
 in tropical bats and complement our understanding of the impacts of
 fragmentation on tropical forest vertebrate communities.
description: Rocha et al, 2017 -
 Sex-specific responses to fragmentationNumber of captures for
 males and females of Carollia perspicillata and Rhinophylla pumilio using
 ground-level mist nets in 39 sampling sites at the Biological Dynamics of
 Forest Fragments Project (BDFFP), Brazilian Amazon. Sampling was conducted
 during the dry and wet season between 2011 and 2013. For each site, nine
 variables describing vegetation structure is provided. Moreover, four
 metrics each for landscape composition (primary forest cover, secondary
 forest cover – initial, intermediate and advanced stage) and landscape
 configuration (edge density, patch density, mean nearest neighbour
 distance and mean shape index) are also given for landscape buffers with
 radii of 250, 500, 750, 1,000 and 1,500 m surrounding each of the 39
 sampling sites.Rocha et al - Sex-specific
 responses to fragmentation_data.xlsx
DOI: 10.5061/dryad.4875k
title: Data from: A comparison of methods to measure fitness in Escherichia coli

description: In order to characterize the dynamics of adaptation, it is important to be
 able to quantify how a population’s mean fitness changes over time. Such
 measurements are especially important in experimental studies of evolution
 using microbes. The Long-Term Evolution Experiment (LTEE) with Escherichia
 coli provides one such system in which mean fitness has been measured by
 competing derived and ancestral populations. The traditional method used
 to measure fitness in the LTEE and many similar experiments, though, is
 subject to a potential limitation. As the relative fitness of the two
 competitors diverges, the measurement error increases because the less-fit
 population becomes increasingly small and cannot be enumerated as
 precisely. Here, we present and employ two alternatives to the traditional
 method. One is based on reducing the fitness differential between the
 competitors by using a common reference competitor from an intermediate
 generation that has intermediate fitness; the other alternative increases
 the initial population size of the less-fit, ancestral competitor. We
 performed a total of 480 competitions to compare the statistical
 properties of estimates obtained using these alternative methods with
 those obtained using the traditional method for samples taken over 50,000
 generations from one of the LTEE populations. On balance, neither
 alternative method yielded measurements that were more precise than the
 traditional method.
description: Methods.3.FormsThis file contains all the raw data for this manuscriptMethods.MeansThis file has the precalculated means for each method at each time point. All of this can be calculated from the raw data file, but this makes things more convenient.Methods Executed ScriptThis is the analysis script for this manuscript. Please note that it is saved as a .txt file, though it is designed for use in R. Anyone wishing to repeat the analysis will need to either copy and paste this into an R window, or else save the file as an appropriate R script extension.
DOI: 10.5061/dryad.fc517819
title: Data from: Age, experience and sex – do female bulb mites prefer young mating partners?

description: In species where advancing sire age is associated with decreased progeny
 fitness, female resistance to mating with old partners can be expected to
 evolve. In polyandrous species, such resistance may be contingent on
 female mating experience: virgins should be relatively indiscriminate to
 ensure egg fertility, whereas non-virgins can be expected to base their
 re-mating decisions on the age of their previous versus potential new
 partners, and ‘trade up’ if previously mated with old males. Here, we
 tested these predictions using a promiscuous and relatively long-living
 bulb mite (Rhizoglyphus robini), in which old sire age is associated with
 decreased fecundity of daughters. In a fully factorial design, we applied
 two male treatments: young and old, and three female treatments: virgin,
 previously mated to an old male and previously mated to a young male.
 Consistent with earlier studies, we observed a reduced mating success of
 old males. However, we found no support for attributing this result to
 female discrimination, as female behaviour in response to male mounting
 attempts was not affected by the age of the suitor, or by its interaction
 with the age of the female’s previous mate. Interestingly, females were
 passive during 93% of male mounting attempts observed, suggesting that
 once they are located by a male, they exert little control over
 copulation. Old males had lower mate searching activity and were less
 efficient in obtaining matings (lower success rate per mounting attempt),
 suggesting a decreased mate securing ability due to aging. Overall, our
 results suggest that in bulb mites, male ability to secure mates declines
 with age, whereas they do not support the prediction that females actively
 discriminate against old partners.
description: Male age and female
 preferences in bulb miteSupplement_data.xlsx