cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.09008
title: Data from: Climate rather than geography separates two European honeybee subspecies

description: Both climatic and geographic factors play an important role for the
 biogeographic distribution of species. The Carpathian mountain ridge has
 been suggested as a natural geographic divide between the two honeybee
 subspecies Apis mellifera carnica and A. m. macedonica. We sampled one
 worker from one colony each at 138 traditional apiaries located across the
 Carpathians spanning from the Hungarian plains to the Danube delta. All
 samples were sequenced at the mitochondrial tRNALeu-cox2 intergenic region
 and genotyped at twelve microsatellite loci. The Carpathians had only
 limited impact on the biogeography because both subspecies were abundant
 on either side of the mountain ridge. In contrast, subspecies
 differentiation strongly correlated with the various temperature zones in
 Romania. A. m. carnica is more abundant in regions with the mean average
 temperature below 9 °C whereas A. m. macedonica honeybees is more frequent
 in regions with mean temperatures above 9 °C. This range selection may
 have impact on the future biogeography in the light of anticipated global
 climatic changes.
description: DRYAD_Coroian et
 al_2014_MEC_13_1413Raw data for analysis of
 the paper
DOI: 10.5061/dryad.s5s2n
title: Data from: Island-wide aridity did not trigger recent megafaunal extinctions in Madagascar

description: Researchers are divided about the relative importance of people versus
 climate in triggering the Late Holocene extinctions of the endemic
 large-bodied fauna on the island of Madagascar. Specifically, a dramatic
 and synchronous decline in arboreal pollen and increase in grass pollen
 ca. 1,000 years ago has been alternatively interpreted as evidence for
 aridification, increased human activity, or both. As aridification and
 anthropogenic deforestation can have similar effects on vegetation,
 resolving which of these factors (if either) led to the demise of the
 megafauna on Madagascar has remained a challenge. We use stable nitrogen
 isotope (δ15N) values from radiocarbon-dated subfossil vertebrates to
 disentangle the relative importance of natural and human-induced changes.
 If increasing aridity were responsible for megafaunal decline, then we
 would expect an island-wide increase in δ15N values culminating in the
 highest values at the time of proposed maximum drought at ca. 1,000 years
 ago. Alternatively, if climate were relatively stable and anthropogenic
 habitat alteration explains the palynological signal, then we would
 anticipate little or no change in habitat moisture, and no systematic,
 directional change in δ15N values over time. After accounting for the
 confounding influences of diet, geographic region, and coastal proximity,
 we find no change in δ15N values over the past 10,000 years, and no
 support for a period of marked, geographically widespread aridification
 culminating 900-950 years ago. Instead, increases in grasses at around
 that time may signal a transition in human land use to a more dedicated
 agro-pastoralist lifestyle, when megafaunal populations were already in
 decline. Land use changes ca. 1,000 years ago would have simply
 accelerated the inevitable loss of Madagascar's megafauna.
description: Data for all
 individuals.Isotope data,
 radiocarbon date, taxonomic, and locality information for all individuals
 included in our analyses.Individual Isotope
 Data.xlsx
DOI: 10.5061/dryad.f6q02
title: Data from: Using heterozygosity–fitness correlations to study inbreeding depression in an isolated population of white-tailed deer founded by few individuals

description: A heterozygosity–fitness correlations (HFCs) may reflect inbreeding
 depression, but the extent to which they do so is debated. HFCs are
 particularly likely to occur after demographic disturbances such as
 population bottleneck or admixture. We here study HFC in an introduced and
 isolated ungulate population of white-tailed deer Odocoileus virginianus
 in Finland founded in 1934 by four individuals. A total of 422 ≥
 1-year-old white-tailed deer were collected in the 2012 hunting season in
 southern Finland and genotyped for 14 microsatellite loci. We find
 significant identity disequilibrium as estimated by g2. Heterozygosity was
 positively associated with size- and age-corrected body mass, but not with
 jaw size or (in males) antler score. Because of the relatively high
 identity disequilibrium, heterozygosity of the marker panel explained 51%
 of variation in inbreeding. Inbreeding explained approximately 4% of the
 variation in body mass and is thus a minor, although significant source of
 variation in body mass in this population. The study of HFC is attractive
 for game- and conservation-oriented wildlife management because it
 presents an affordable and readily used approach for genetic monitoring
 that allowing identification of fitness costs associated with genetic
 substructuring in what may seem like a homogeneous population.
description: WTDdataascii data file with factors in quotes
DOI: 10.5061/dryad.770c174
title: Data from: Early Plasmodium-induced inflammation does not accelerate aging in mice

description: Aging is associated with a decline of performance leading to reduced
 reproductive output and survival. While the antagonistic pleiotropy theory
 of aging has attracted considerable attention, the molecular/physiological
 functions underlying the early-life benefits/late-life costs paradigm
 remain elusive. We tested the hypothesis that while early activation of
 the inflammatory response confers benefits in terms of protection against
 infection, it also incurs costs in terms of reduced reproductive output at
 old age, and shortened longevity. We infected mice with the malaria
 parasite Plasmodium yoelii and increased the inflammatory response using
 an anti-IL-10 receptor antibody treatment. We quantified the benefits and
 costs of the inflammatory response during the acute phase of the infection
 and at old age. In agreement with the antagonistic pleiotropy hypothesis,
 the inflammatory response provided an early-life benefit, since infected
 mice that were treated with anti-IL-10 receptor antibodies had reduced
 parasite density and anemia. However, at old age, mice in all treatment
 groups had similar levels of C-reactive protein, reproductive output,
 survival rate and lifespan. Overall, our results do not support the
 hypothesis that the benefits of a robust response to malaria infection in
 early life incurs longer term fitness costs.
description: data on cytokines,
 leukocytes, parasite density, red blood cells, CRP, reproduction and
 survivaldata.xlsx
DOI: 10.5061/dryad.41hg1
title: Data from: Thermal resilience may shape population abundance of two sympatric congeneric Cotesia species (Hymenoptera: Braconidae)

description: Basal and plasticity of thermal tolerance determine abundance,
 biogeographical patterns and activity of insects over spatial and temporal
 scales. For coexisting stemborer parasitoids, offering synergistic impact
 to the efficacy of biological control, mismatches in thermal tolerance may
 influence their ultimate impact in biocontrol programs under climate
 variability. Using laboratory-reared congeneric parasitoid species Cotesia
 sesamiae and Cotesia flavipes Cameron (Hymenoptera: Braconidae), we
 examined basal thermal tolerance to understand potential impact of climate
 variability on their survival and limits to activity. We measured upper-
 and lower -lethal temperatures (ULTs and LLTs), critical thermal limits
 [CTLs] (CTmin and CTmax), supercooling points (SCPs), chill-coma recovery
 time (CCRT) and heat knock-down time (HKDT) of adults. Results showed LLTs
 ranging -5 to 5°C and -15 to -1°C whilst ULTs ranged 35 to 42°C and 37 to
 44°C for C. sesamiae and C. flavipes respectively. Cotesia flavipes had
 significantly higher heat tolerance (measured as CTmax), as well as cold
 tolerance (measured as CTmin) relative to C. sesamiae (P˂0.0001). While
 SCPs did not vary significantly (P&gt;0.05), C. flavipes recovered
 significantly faster following chill-coma and had higher HKDT compared to
 C. sesamiae. The results suggest marked differential basal thermal
 tolerance responses between the two congeners, with C. flavipes having an
 advantage at both temperature extremes. Thus, under predicted climate
 change, the two species may differ in phenologies and biogeography with
 consequences on their efficacy as biological control agents. These results
 may assist in predicting spatio-temporal activity patterns which can be
 used in integrated pest management programs under climate variability.
description: Mutamiswa et
 al_2018_PONE-D-17-38466CTmin= Critical thermal
 minima, CTmax= Critical thermal maxima, CF LLT= Cotesia flavipes lower
 lethal temperatures, CF ULT= Cotesia flavipes upper lethal temperatures,
 CS LLT= Cotesia sesamiae lower lethal temperatures, CS ULT= Cotesia
 sesamiae upper lethal temperatures, HKDT= heat knowckdown time, CCRT=
 chill coma recovery time and SCP= supercooling point
DOI: 10.5061/dryad.7g2g68d
title: Data from: Two decades of non-invasive genetic monitoring of the grey wolves recolonizing the Alps support very limited dog introgression

description: Potential hybridization between wolves and dogs has fueled the sensitive
 conservation and political debate underlying the recovery of the grey wolf
 throughout Europe. Here we provide the first genetic analysis of wolf-dog
 admixture in an area entirely recolonized, the northwestern Alps. As part
 of a long-term monitoring program, we performed genetic screening of
 thousands of non-invasive samples collected in Switzerland and adjacent
 territories since the return of the wolf in the mid-1990s. We identified a
 total of 115 individuals, only 2 of them showing significant signs of
 admixture stemming from past interbreeding with dogs, followed by
 backcrossing. This low rate of introgression (&lt;2% accounting for
 all wolves ever detected over 1998–2017) parallels those from other
 European populations, especially in Western Europe (&lt;7%). Despite
 potential hybridization with stray dogs, few founders and strong
 anthropogenic pressures, the genetic integrity of the Alpine population
 has remained intact throughout the entire recolonization process. In a
 context of widespread misinformation, this finding should reduce conflicts
 among the different actors involved and facilitate wolf conservation.
 Real-time genetic monitoring will be necessary to identify potential
 hybrids and support an effective management of this emblematic population.
description: Dog_Wolves_GenotypesGenotypes of dogs (N=68) and wolves (N=115) for 11 microsatellite loci
DOI: 10.5061/dryad.6pt0m
title: Data from: Mechanisms of aggregation in an ant-tended treehopper: attraction to mutualists is balanced by conspecific competition

description: Understanding the spatial structure of populations and communities has
 been a dominant focus of ecological research, and spatial structure is
 increasingly seen as critical for understanding population dynamics.
 Habitat (or host) preference is a proximate mechanism that can generate
 aggregation or overdispersion, lending insight into the ultimate
 consequences of observed spatial distributions. Publilia concava is a
 univoltine phloem-feeding insect that forms mutualistic associations with
 ants, which consume honeydew and protect treehoppers from predation.
 Treehopper adults and nymphs are aggregated at the scale of goldenrod
 plant stems, and previous studies have suggested that this aggregation is
 an adaptive response that increases feeding performance or maximizes
 benefits of ant-tending. Previous studies have also shown experimentally
 that individual treehoppers preferentially oviposit on plants with ants
 present, but a complimentary hypothesis that treehoppers prefer to
 oviposit near conspecifics (e.g., to take advantage of density-dependent
 ant attraction) remains untested. We show that, as expected, the
 probability of treehopper oviposition increases with ant-presence and
 relative ant abundance. However, we also find that treehopper oviposition
 decreases with increasing treehopper density. Thus our results are
 inconsistent with the hypothesis that treehopper aggregation is a socially
 cooperative strategy to attract ants; we suggest that aggregation is a
 form of conflict and an unavoidable by-product of individual responses to
 ant-tending levels.
description: NY
 DataThese are the data
 collected from the New York site.NYdata.csvMA DataThese are the data collected form the Massachusetts site.MAData.csvNY AnalysisThis is the R script for the analysis of data from the New York sites.NYAnalysis.RMA AnalysisThis is the R script for the analysis of data from the Massachusetts site.MAAnalysis.R
DOI: 10.5061/dryad.s1636
title: Data from: Social cues trigger differential immune investment strategies in a non-social insect, Tenebrio molitor

description: Social immunisation is a horizontal transfer of immunity which protects
 naïve hosts against infection following exposure to infected nestmates.
 Whilst mainly documented in eusocial insects, non-social species also
 share similar ecological features which favour the development of
 group-level immunity. Here we investigate social immunisation in Tenebrio
 molitor, by pairing naïve females with a pathogen-challenged conspecific
 for 72 h before measuring a series of immune and fitness traits. We found
 no evidence for social immunisation, as beetles who cohabited with a
 live-bacteria-challenged conspecific were not better protected against
 bacterial-challenge. However, exposure to a
 heat-killed-bacteria-challenged conspecific appeared to increase pathogen
 tolerance, which manifested in differential fitness investment. Our
 results together suggest that T. molitor do respond to immune-related cues
 in the social environment, despite not showing a classic immunisation
 response as predicted.
description: Data and R
 scriptData and code for:
 "Social cues trigger differential immune investment strategies in a
 non-social insect, Tenebrio molitor" (Gallagher et al.
 2018)data_v2.tar.gz
DOI: 10.5061/dryad.20191
title: Data from: Convergently evolved toxic secondary metabolites in plants drive the parallel molecular evolution of insect resistance

description: Natural selection imposed by natural toxins has led to striking levels of
 convergent evolution at the molecular level. Cardiac glycosides represent
 a group of plant toxins that block the Na,K-ATPase, a vital membrane
 protein in animals. Several herbivorous insects have convergently evolved
 resistant Na,K-ATPases, and in some species, convergent gene duplications
 have also arisen, likely to cope with pleiotropic costs of resistance. To
 understand the genetic basis and predictability of these adaptations, we
 studied five independent lineages of leaf-mining flies (Diptera:
 Agromyzidae). These flies have colonized host plants in four botanical
 families that convergently evolved cardiac glycosides of two structural
 types: cardenolides and bufadienolides. We compared each of six fly
 species feeding on such plants to a phylogenetically related but
 nonadapted species. Irrespective of the type of cardiac glycoside in the
 host plant, five out of six exposed species displayed substitutions in the
 cardiac glycoside–binding site of the Na,K-ATPase that were previously
 described in other insect orders; in only one species was the gene
 duplicated. In vitro assays of nervous tissue extractions confirmed that
 the substitutions lead to increased resistance of the Na,K-ATPase. Our
 results demonstrate that target site insensitivity of Na,K-ATPase is a
 common response to dietary cardiac glycosides leading to highly
 predictable amino acid changes; nonetheless, convergent evolution of gene
 duplication for this multifunctional enzyme appears more constrained.
description: Photometric data ouabain
 sensitivity of fly Na+/K+-ATPaseDescriptions are
 included in the data file.NaKATPase_leaf miner
 flies_Petschenkaetal.pdf
DOI: 10.5061/dryad.83dm4
title: Data from: Climate, physiological tolerance, and sex-biased dispersal shape genetic structure of Neotropical orchid bees

description: Understanding the impact of past climatic events on the demographic
 history of extant species is critical for predicting species’ responses to
 future climate change. Paleoclimatic instability is a major mechanism of
 lineage diversification in taxa with low dispersal and small geographic
 ranges in tropical ecosystems. However, the impact of these climatic
 events remains questionable for the diversification of species with high
 levels of gene flow and large geographic distributions. In this study, we
 investigate the impact of Pleistocene climate change on three Neotropical
 orchid bee species (Eulaema bombiformis, E. meriana and E. cingulata) with
 transcontinental distributions and different physiological tolerances. We
 first generated ecological niche models to identify species-specific
 climatically stable areas during Pleistocene climatic oscillations. Using
 a combination of mitochondrial and nuclear markers, we inferred calibrated
 phylogenies and estimated historical demographic parameters to reconstruct
 the phylogeographic history of each species. Our results indicate species
 with narrower physiological tolerance experienced less suitable habitat
 during glaciations and currently exhibit strong population structure in
 the mitochondrial genome. However, nuclear markers with low and high
 mutation rates show lack of association with geography. These results
 combined with lower migration rate estimates from the mitochondrial than
 the nuclear genome suggest male-biased dispersal. We conclude that despite
 large effective population sizes and capacity for long-distance dispersal,
 climatic instability is an important mechanism of maternal lineage
 diversification in orchid bees. Thus, these Neotropical pollinators are
 susceptible to disruption of genetic connectivity in the event of
 large-scale climatic changes.
description: Eulaema bombiformis
 alignmentsNexus files with
 sequence alignments for the seven genes (COI, Cytb, CAD, EF1a, EM8, EM70,
 EM106) analyzed for Eulaema bombiformis.Eulaema meriana
 alignmentsNexus files with
 sequence alignments for the seven genes (COI, Cytb, CAD, EF1a, EM8, EM70,
 EM106) analyzed for Eulaema meriana.Eulaema cingulata
 alignmentsNexus files with
 sequence alignments for the seven genes (COI, Cytb, CAD, EF1a, EM8, EM70,
 EM106) analyzed for Eulaema cingulata.Eulaema_presence_pointsInput csv file for Maxent including all presence points (in latitude-longitude units) used for Niche Modeling Analysis. File includes presence points for 3 species: Eulaema bombiformis (Ebombiformis),Eulaema meriana (Emeriana), Euleama cingulata (Ecingulata).
DOI: 10.5061/dryad.s058r
title: Data from: Ecological dispersal barrier across the equatorial Atlantic in a migratory planktonic copepod

description: Resolving the large-scale genetic structure of plankton populations is
 important to understanding their responses to climate change. However, few
 studies have reported on the presence and geographic extent of genetically
 distinct populations of marine zooplankton at ocean-basin scales. Using
 mitochondrial sequence data (mtCOI, 718 animals) from 18 sites across a
 basin-scale Atlantic transect (39 N–40 S), we show that populations of the
 dominant migratory copepod, Pleuromamma xiphias, are genetically
 subdivided across subtropical and tropical waters (global FST = 0.15,
 global Phi-ST = 0.21, both P &lt; 0.00001), with a major genetic break
 observed in the equatorial Atlantic (between gyre FCT and Phi-CT = 0.23, P
 &lt; 0.005). This equatorial region of strong genetic transition
 coincides with an area of low abundance for the species. Transitional
 regions between the subtropical gyres and the equatorial province also
 harbor a distinct mitochondrial clade (clade 2), have higher haplotype and
 nucleotide diversities relative to the northern and/or southern
 subtropical gyres (e.g., mean h = 0.831 EQ, 0.742 North, 0.594 South,
 F2,11 = 20.53, P &lt; 0.001), and are genetically differentiated from
 the majority of sites in the central gyre and temperate zones of the same
 hemisphere (significant pairwise Phi-ST 0.038–0.267, 79% significant). Our
 observations support the hypothesis that regions of low abundance within
 species mark areas of suboptimal habitat that serve as dispersal barriers
 for marine plankton, and we suggest that this may be a dominant mechanism
 driving the large-scale genetic structure of zooplankton species. Our
 results also demonstrate the potential importance of the Atlantic
 equatorial province as a region of evolutionary novelty for the
 holoplankton.
description: Goetze_et_al_2016:
 Population genetic data for Atlantic planktonGoetze_et_al_2016.tar.gz
DOI: 10.5061/dryad.m8q8h
title: Data from: Levers and linkages: Mechanical trade-offs in a power-amplified system

description: Mechanical redundancy within a biomechanical system (e.g., many-to-one
 mapping) allows morphologically divergent organisms to maintain equivalent
 mechanical outputs. However, most organisms depend on the integration of
 more than one biomechanical system. Here we test whether coupled
 mechanical systems follow a pattern of amplification (mechanical changes
 are congruent and evolve towards the same functional extreme) or
 independence (mechanisms evolve independently). We examined the correlated
 evolution and evolutionary pathways of the coupled 4-bar linkage and lever
 systems in mantis shrimp (Stomatopoda) ultrafast raptorial appendages. We
 examined models of character evolution in the framework of two divergent
 groups of stomatopods – “smashers” (hammer-shaped appendages) and
 “spearers” (bladed appendages). Smashers tended to evolve towards force
 amplification, while spearers evolved towards displacement amplification.
 These findings show that coupled biomechanical systems can evolve
 synergistically, thereby resulting in functional amplification rather than
 mechanical redundancy.
description: Stomatopod biomechanical
 dataUsing 196 specimens from
 36 stomatopod species we measured 3 biomechanical metrics related to the
 raptorial strike. These include the minimum Kinematic Transmission (KT)
 during strikes, the Mechanical Advantage (MA) of the propodus lever system
 and the Reach of the appendage defined as the distance that the distal two
 segments of the appendage (propodus and dactyl oriented at 90° to each
 other) extend beyond the body during prey capture/acquisition. In
 addition, we measured the length of the carapace to act as a proxy for
 body size. The Reach measure was divided by this size measure to create a
 ‘size-corrected’ Reach metric to use in figures.Andersonetal2014_data.xlsx