cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.4jr70mj
title: Data from: Gene flow in the European coal tit, Periparus ater (Aves: Passeriformes): low among Mediterranean populations but high in a continental contact zone

description: Extant phylogeographic patterns of Palearctic terrestrial vertebrates are
 generally believed to have originated from glacial range fragmentation.
 Post-Pleistocene range expansions have led to the formation of secondary
 contact zones among genetically distinct taxa. For coal tits (Periparus
 ater), such a contact zone has been localized in Germany. In this study,
 we quantified gene flow between Fennoscandian and southern European coal
 tits using a set of 13 microsatellite loci. STRUCTURE analysis revealed
 four genetic clusters two of these on Mediterranean islands. German
 populations were genetically admixed but introgression of southern alleles
 was evident for Fennoscandian populations. In the South, we found
 negligible introgression of northern alleles (and haplotypes) but slight
 admixture of two southern genetic clusters in the Pyrenees and on the
 Balkan Peninsulae and near complete sorting of these two allelic lineages
 on the islands of Corsica and Sardinia. Genetic distinctiveness of the
 Mediterranean island populations reflects general patterns of endemism in
 the Corso-Sardinian fauna and the Cypriot fauna. Wide-range gene flow in
 Central Europe suggests a broad zone of intergradation between subspecies
 of the coal tit rather than a narrow contact zone. This is in accordance
 with low morphological and bioacoustic differentiation of European coal
 tit populations.
description: Microsatellite
 dataMicrosatellite data used
 for inference of spatial patterns of diversification in Eurasian coal tits
 with STRUCTURE, GENELAND and TESS; population data set: 145 individuals
 (ind) from 14 populations (pop) with local samplings of n&gt;5, allele
 lengths for thirteen microsatellite loci (columns E-AD); including further
 data from individuals discarded from the population genetic analysis,
 small local samplings of n&lt; 5; total number of individuals n=
 177.BJLS5388R1_TableS3.xlsxMetadata of samplesMetadata of samples used for population genetic analysis of Eurasian coal tits, 14 study populations (pop, n&gt;5) and discarded samples (local samplings with n&lt;5)BJLS5388R1_TableS4.xlsxControl region sequencesAlignment of control region sequences (438 bp) used for phylogeographic analysisBLJS5388R1_CR_sequence_alignment.fas
DOI: 10.5061/dryad.28mb1
title: Data from: Aquatic community structure across an Andes-to-Amazon fluvial gradient

description: Aim: Little is known about factors affecting the elevational and
 longitudinal zonation of tropical Andean stream communities. We
 investigated epilithon, macroinvertebrate and fish assemblages along a
 4100-m elevational–longitudinal gradient in an Andean headwater of the
 Amazon Basin. We interpret our results within the context of environmental
 factors, emphasizing temperature, as well as ecological theory relating
 shifts in metazoan functional feeding groups to shifts in basal resources
 along the fluvial continuum. Location: Arazá-Inambari-Madre de Dios
 watershed, south-eastern Peru. Methods: We sampled water physicochemistry,
 epilithon and macroinvertebrate diversity and abundance, and fish
 diversity at 18 main-stem and 14 tributary sites from high puna grasslands
 (4300 m a.s.l.) to Amazon Basin lowlands (200 m a.s.l.). Results: Water
 physicochemical parameters and the taxonomic and ecological structure of
 invertebrate and fish assemblages displayed mostly nonlinear responses to
 elevation: water temperature and percentage of macroinvertebrate taxa
 identified as leaf shredders had U-shaped responses; dissolved oxygen and
 percentage of macroinvertebrate taxa identified as grazers had hump-shaped
 responses. Epilithon richness increased slightly with elevation whereas
 macroinvertebrate and fish richness decreased. Main conclusions:
 Elevational gradients in physicochemical parameters are insufficient to
 explain abrupt and nonlinear shifts in community taxonomic and functional
 structure. Rather, trophic interactions, including predation and
 longitudinal turnover in basal food resources, seem to exert a stronger
 influence on the distributions of Andean aquatic organisms. A steep
 elevational decline in relative taxonomic diversity of leaf-shredding
 (versus algae-grazing) insects supports the hypothesis that temperature
 affects the functional composition of insect assemblages via its influence
 on microbial decomposition rates. This relationship, and the distributions
 of several insect and fish species across narrow elevational bands,
 suggests that Andean stream communities may be sensitive to global
 warming. Placer mining and road building impacts have already altered
 stream community structure, including the absence of many benthic species
 from low-elevation habitats.
description: 4-Table S4
 GOODAlgae,
 macroinvertebrate, and fish taxa and numbers of individuals identified at
 each of 41 sites along a 4100 m elevational–logitudinal gradient in an
 Andean headwater of the Amazon Basin.
DOI: 10.5061/dryad.t979dp85
title: Data from: Poison frog colors are honest signals of toxicity, particularly for bird predators

description: Antipredator defenses and warning signals typically evolve in concert.
 However, the extensive variation across taxa in both these components of
 predator deterrence, and the relationship between them, are poorly
 understood. Here we test whether there is a predictive relationship
 between visual conspicuousness and toxicity levels across 10 populations
 of the color polymorphic strawberry poison frog, Dendrobates pumilio.
 Using a mouse-based toxicity assay, we find extreme variation in toxicity
 between frog populations. This variation is significantly positively
 correlated with frog coloration brightness, a viewer-independent measure
 of visual conspicuousness (i.e. total reflectance flux). We also examine
 conspicuousness from the view of three potential predator taxa, as well as
 conspecific frogs, using taxon-specific visual detection models and three
 natural background substrates. We find very strong positive relationships
 between frog toxicity and conspicuousness for bird-specific perceptual
 models. Weaker but still positive correlations are found for crab and D.
 pumilio conspecific visual perception, while frog coloration as viewed by
 snakes is not related to toxicity. These results suggest that poison frog
 colors can be honest signals of prey unpalatability to predators, and that
 birds in particular may exert selection on aposematic signal design.
description: Data_MaanCummings_2011_
 AmNat52931_ByIndData_MaanCummings_2011_
 AmNat52931_ByPop
DOI: 10.5061/dryad.6pr02
title: Data from: Nest-box temperature affects clutch size, incubation initiation, and nestling health in great tits

description: Prenatal maternal effects can be a source of phenotypic plasticity and may
 play a role in adaptation to climate change. However, we do not know how
 far temperature could influence such effects, if at all. We studied the
 influence of temperature during egg laying on maternal reproductive
 investment and on the phenotype of adult females, adult males, and
 nestlings. We expected temperature to have an effect, as it influences
 maintenance costs for females, who can also use it as a cue of the
 advancement of the breeding season. We experimentally increased night-time
 nest-box temperatures by approximately 1 °C throughout the entire laying
 period in great tits (Parus major). Clutch size was negatively correlated
 with laying date in heated females. Heated females did not delay
 incubation after clutch completion as frequently as control females did.
 Finally, blood sedimentation rate, which is an indicator of acute
 infections and inflammatory diseases, was positively correlated with
 hatching date in control broods. This suggests that nestlings were of
 lower quality in late-hatched broods than in early-hatched broods. This
 seasonal effect was not detected in heated nests. Our results show that a
 small increase in temperature during laying can influence breeding
 strategy and nestling characteristics. These results suggest that birds
 used temperature as a cue of seasonal advancement to adjust breeding
 phenology, with beneficial effects on nestling health. To better
 understand the consequences of maternal adjustments during egg laying, it
 would be interesting to combine studies with heating treatment during
 different periods of the breeding cycle.
description: General dataset :
 phenology and reproductive successThis file contain all
 the information at the nest box level. More precisely there are the
 treatment of the nest box, the data on the phenology of reproduction and
 the data on reproductive success.data-nestbox.csvCharacteristics of females at capturedata-female.csvCharacteristics of males at capturedata-male.csvCharacteristics of chicks at capturedata-chick.csvBody mass growth of chicks from site 1data-chick-growth.csv
DOI: 10.5061/dryad.nt2211q
title: Data from: Pyric herbivory, scales of heterogeneity, and drought

description: 1. Understanding how extreme drought alters spatial patterns and temporal
 stability in grassland biomass will become increasingly important by the
 end of the century when climate model forecasts suggest drought events
 will occur more frequently. In grassland landscapes where grazing is
 driven by fire (termed pyric herbivory), temporal stability in aboveground
 plant biomass at landscape scales typically coincides with greater spatial
 variability across local communities (time-since fire patches), whereas
 variability within local communities is associated with lower temporal
 stability. 2. We assess the robustness of this relationship during one of
 the most severe droughts on modern record in the southern Great Plains. We
 use a long-term pyric herbivory experiment to test whether extreme
 drought: 1) changes patterns of spatial variability in aboveground plant
 biomass among or within local communities, 2) changes the temporal
 stability in aboveground plant biomass and the relationship between
 spatial variability and temporal variability, and 3) changes the
 underlying feedback mechanisms associated with pyric herbivory. Ordination
 revealed a shift from spatially distinct patches before drought to a
 convergence of patches during drought in terms of aboveground plant
 biomass and crude protein. 3. Permutation tests revealed that within-patch
 variability in aboveground plant biomass significantly increased during
 drought compared to pre-drought levels. Temporal stability in aboveground
 plant biomass decreased during drought and indeed corresponded with
 reduced variability in biomass among local communities and increased
 variability within local communities compared to pre-drought levels. 4.
 The results from this study strongly suggest that both positive and
 negative feedback loops responsible for pyric herbivory were maintained by
 scale-switching during periods of extreme drought and further reinforce
 the importance of scale in the study of pattern-process relationships.
description: Aboveground Herbaceous
 Biomass DataFile containing
 aboveground herbaceous biomass measurements for all
 samples.Time since fire-biomass_Pre and
 post drought.csvForage Quality
 DataFile containing forage
 quality measurements for all samples.Time since fire-forage
 quality_Pre and post drought.csv
DOI: 10.5061/dryad.gp557
title: Data from: Primates adjust movement strategies due to changing food availability

description: Animals are hypothesized to search their environments in predictable ways
 depending on the distribution of resources. Evenly distributed foods are
 thought to be best exploited with random Brownian movements; while foods
 that are patchy or unevenly distributed require non-Brownian strategies,
 such as Lévy walks. Thus, when food distribution changes due to seasonal
 variation, animals should show concomitant changes in their search
 strategies. We examined this issue in six monkey species from Africa and
 Mexico: three frugivores and three folivores. We hypothesized that the
 more patchily distributed fruit would result in frugivores showing more
 levy-like patterns of motion, while folivores, with their more homogenous
 food supply, would show Brownian patterns of motion. At least three and up
 to five of six species conformed to the overall movement pattern predicted
 by their primary dietary item. For folivorous black howler monkeys
 (Alouatta pigra), ursine colobus (Colobus vellerosus), and red colobus
 (Procolobus rufomitratus), Brownian movement was supported or could not be
 ruled-out. Two frugivores (spider monkeys, Ateles geoffroyi yucatanensis,
 and grey-cheeked mangabeys, Lophocebus albigena) showed Lévy walks, as
 predicted, but frugivorous vervet monkeys (Chlorocebus pygerythrus) showed
 a Brownian walk. Additionally, we test whether seasonal variation in the
 spatial availability of food support environmentally driven changes in
 movement patterns. Four of five species tested for seasonal variation
 showed adjustments in their search strategies between the rainy and dry
 seasons. This study provides support for the notion that food distribution
 determines search strategies and that animal movement patterns are
 flexible, mirroring changes in the environment.
description: step_lengths_primatesThis file contains the R code and the step length data from the six species of primates. With this file anyone can run the analyses contrasting Brownian versus long-tailed distribution movementsstepLengthsThis file contains all data for the six species in cvs format
DOI: 10.5061/dryad.5k1f6
title: Data from: Climate and rapid local adaptation as drivers of germination and seed bank dynamics of Alliaria petiolata (garlic mustard) in North America

description: Local differences in climate conditions may facilitate rapid evolutionary
 changes in introduced plants to optimize timing of germination or ability
 to survive in seed banks, which may constitute beneficial demographic
 adaptations during range expansions. Understanding differences in
 germination requirements and emergence patterns across a species’ range is
 critical for demographic modelling and potential invasive species control
 efforts. We assessed germination responses of Alliaria petiolata using
 seeds collected from 10 populations spanning much of the North American
 distribution of the species. We compared germination responses under
 different stratification regimes in a growth chamber over 2·5 years, and
 evaluated seedling emergence in a common garden in Ithaca, New York over
 13 years. We further evaluated how climate overlap between Ithaca and
 original collection sites influenced emergence patterns. In the
 laboratory, germination of all populations was similar and highest at 4 °C
 stratification. Seeds exposed to sub-zero temperatures delayed germination
 and population responses were variable. In the common garden, seedlings
 from most populations emerged over 13 years, and emergence patterns were
 strongly influenced by population. Annual emergence was positively
 correlated with spring temperature and inversely correlated with number of
 spring days with minimum temperature below freezing. Climate overlap
 between the common garden and original collection location enhanced
 germination, but common garden climate conditions over the course of the
 13-year experiment and population identity had greater explanatory power.
 Synthesis. Laboratory germination tests did not reflect seedling emergence
 under field conditions. After 150 years of residence time in North
 America, Alliaria petiolata populations have developed striking
 differences in their responses to local climates and stratification
 requirements suggesting that a complex interplay of pre-adaptation, rapid
 evolutionary changes, and phenotypic plasticity result in locally adapted
 populations.
description: Blossey et al - Common
 garden emergenceBlossey et al -
 Laboratory germination
DOI: 10.15468/dl.kz78as
title: Occurrence Download

description: A dataset containing 628 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Mexico",
 "TaxonKey is Thamnophis eques",
 "Year 1960-2026"
 ]
}

 The dataset includes 628 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000724-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.74f47
title: Data from: Enhanced store-operated Ca2+ influx and ORAI1 expression in ventricular fibroblasts from human failing heart

description: Excessive cardiac fibrosis, characterized by increased collagen-rich
 extracellular matrix (ECM) deposition, is a major predisposing factor for
 mechanical and electrical dysfunction in heart failure (HF). The human
 ventricular fibroblast (hVF) remodeling mechanisms that cause excessive
 collagen deposition in HF are unclear, although reports suggest a role for
 [Ca2+]i in fibrosis. Therefore, we determined the association of
 differences in cellular Ca2+ dynamics and collagen secretion/deposition
 between hVFs from failing and normal (control) hearts. Histology of left
 ventricle sections (Masson trichrome) confirmed excessive fibrosis in HF
 vs normal. In vitro, hVFs from HF showed increased secretion/deposition of
 soluble collagen in 48 hours of culture compared with control [85.9±7.4
 μg/106 vs 58.5±8.8 μg/106 cells, P&lt;0.05; (Sircol™ assay)]. However,
 collagen gene expressions (COL1A1 and COL1A2; rt-PCR) were not different.
 Ca2+ imaging (fluo-3) of isolated hVFs showed no difference in the
 thapsigargin-induced intracellular Ca2+ release capacity (control 16±1.4%
 vs HF 17±1.1%); however, Ca2+ influx via store-operated Ca2+ entry [SOCE
 /CRAC (Ca2+ release-activated)] channels was significantly (P≤0.05)
 greater in HF-hVFs (47±3%) compared with non-failing (35±5%).
 Immunoblotting for ICRAC channel components showed increased ORAI1
 expression in HF-hVFs compared with normal without any difference in STIM1
 expression. The Pearson's correlation coefficient for co-localization
 of STIM1/ORAI1 was significantly (P&lt;0.01) greater in HF (0.5±0.01)
 than control (0.4±0.01) hVFs. The increase in collagen secretion of HF vs
 control hVFs was eliminated by incubation of hVFs with YM58483 (10 μM), a
 selective ICRAC inhibitor for 48 hours (66.78±5.87μg/106 cells vs
 55.81±7.09 μg/106 cells, P=0.27). In conclusion, hVFs from HF have
 increased collagen secretion capacity vs non-failing hearts and this is
 related to increase in Ca2+ entry via SOCE and enhanced expression of
 ORAI, the pore-forming subunit. Therapeutic inhibition of SOCE may reduce
 the progression of cardiac fibrosis/HF.
description: Ca2+ influx in cardiac
 fibroblastsData_Repository.xls
DOI: 10.5061/dryad.6s021
title: Data from: Premating isolation is determined by larval rearing substrates in cactophilic Drosophila mojavensis. X. Age-specific dynamics of adult epicuticular hyrdocarbon expression in response to different host plants

description: Analysis of sexual selection and sexual isolation in Drosophila mojavensis
 and its relatives has revealed a pervasive role of rearing substrates on
 adult courtship behavior when flies were reared on fermenting cactus in
 preadult stages. Here, we assessed expression of contact pheromones
 comprised of epicuticular hydrocarbons (CHCs) from eclosion to 28 days of
 age in adults from two populations reared on fermenting tissues of two
 host cacti over the entire life cycle. Flies were never exposed to
 laboratory food and showed significant reductions in average CHC amounts
 consistent with CHCs of wild-caught flies. Overall, total hydrocarbon
 amounts increased from eclosion to 14–18 days, well past age at sexual
 maturity, and then declined in older flies. Most flies did not survive
 past 4 weeks. Baja California and mainland populations showed
 significantly different age-specific CHC profiles where Baja adults showed
 far less age-specific changes in CHC expression. Adults from populations
 reared on the host cactus typically used in nature expressed more CHCs
 than on the alternate host. MANCOVA with age as the covariate for the
 first six CHC principal components showed extensive differences in CHC
 composition due to age, population, cactus, sex, and age × population, age
 × sex, and age × cactus interactions. Thus, understanding variation in CHC
 composition as adult D. mojavensis age requires information about
 population and host plant differences, with potential influences on
 patterns of mate choice, sexual selection, and sexual isolation, and
 ultimately how these pheromones are expressed in natural populations.
 Studies of drosophilid aging in the wild are badly needed.
description: Age_CHCs_Etges&Oliveiracuticular hydrocarbon amounts for adult D. mojavensis males and females sampled at different agesMicroarray#7_HCs.xls
DOI: 10.5061/dryad.tm38j84
title: Data from: Environmental temperature alters the overall digestive energetics and differentially affects dietary protein and lipid use in a lizard

description: Processing food (e.g. ingestion, digestion, assimilation) requires energy
 referred to as specific dynamic action (SDA) and is at least partially
 fuelled by oxidation of the nutrients (e.g. proteins and lipids) within
 the recently ingested meal. In ectotherms, environmental temperature can
 affect the magnitude and/or duration of SDA, but likely also alters the
 mixture of nutrients that are oxidized to cover these costs. Here, we
 examined metabolic rate, gut passage time, assimilation efficiency, and
 fuel use in the lizard Agama atra digesting cricket meals at three
 ecologically relevant temperatures (20, 25, and 32&[deg]C).
 Crickets were isotopically enriched with 13C-leucine or 13C-palmitic acid
 tracers to distinguish between protein and lipid oxidation, respectively.
 Our results show that higher temperatures increased the magnitude of the
 peak SDA (by 318% between 32 and 20&[deg]C) and gut passage rate
 (63%), and decreased the duration of the SDA response (20% for males and
 48% for females). Peak rate of dietary protein oxidation occurred sooner
 than peak lipid oxidation at all temperatures (70, 60 and 31 hours earlier
 for 20, 25 and 32&[deg]C, respectively). Assimilation efficiency
 of proteins, but not lipids, was positively related to temperature.
 Interestingly, the SDA response exhibited a notable circadian rhythm.
 These results show that temperature has a pronounced effect on digestive
 energetics in Agama atra, and that this effect differs between nutrient
 classes. Variation in environmental temperatures may thus alter the energy
 budget and nutrient reserves of these animals.
description: Digestive energetics of
 the lizard Agama atraData on specific dynamic
 action, and nutrient oxidation and assimilation of lizards, Agama atra.
 Data includes measures of respirometry and 13C-tracers in the breath and
 faeces, obtained during laboratory tests, in which digestive energetics of
 the lizards were evaluated at three temperatures.Digestive energetics Agama
 atra.xlsx