cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.q83bk3jdc
title: Oxygen supply limits the heat tolerance of avian embryos

description: Physiologists have primarily focused on two potential explanations for
 heat stress in animals—the classic model of molecular stability and a more
 recent model of oxygen limitation. Although the classic model has
 widespread support, the oxygen-supply model applies to many aquatic
 animals and some terrestrial ones. In particular, the embryonic stage of
 terrestrial animals seems most susceptible to oxygen limitation because
 embryos acquire oxygen from the atmosphere by diffusion rather than
 ventilation. We report experiments confirming the two conditions of the
 oxygen-supply model in Japanese quail embryos, Coturnix coturnix. Hypoxia
 (12% O2) greatly reduced the chance of survival at 47.5°C, and hyperoxia
 greatly improved the chance of survival at 48.5°C. This finding expands
 the scope of the oxygen-supply model to a terrestrial, endothermic
 species, suggesting that oxygen supply generally limits the heat tolerance
 of embryos.
DOI: 10.5061/dryad.63xsj3tz5
title: Supplementary data for: Mosquito phytophagy – sources exploited, ecological function, and evolutionary transition to haematophagy

description: This dataset consists of two files: Floral visitation records of
 mosquitoes Plant sugar, primarily in the form of floral nectar, is the
 ubiquitous basic food of adult mosquitoes. However, records of mosquito
 floral visitation are not usually the focus of  research
 publications and, as such, are often reported as secondary parts of larger
 studies and are scattered throughout more than a century of scientific
 literature. Here we provide a summary of more than 500 recorded literature
 and field instances of floral and extra-floral nectary visitation by
 mosquitoes, including the plant and mosquito species involved as well as
 known pollination records. file name:
 Summary_of_Field_Mosquito_Floral_Visitation_Instances.xlsx Summary of
 floral semiochemical blends that are attractive to mosquitoes Floral
 nectar is the primary food source of adult mosquitoes and mosquitoes,
 along with many other pollinators, use floral semiochemicals to locate
 this resource. Here we provide a summary of floral semiochemical blends
 attractive to mosquitoes that have been reported in the literature. The
 mosquito species involved have also been listed. file name:
 Summary_of_Floral_Semiochemical_Blends_Attractive_to_Mosquitoes.xlsx
DOI: 10.5061/dryad.m63xsj3x7
title: Habitat instability and oxidative stress

description: In many animal societies, dominant individuals have priority access to
 resources. However, defending high rank can be costly too, especially in
 unstable social hierarchies where there is more intense competition.
 Oxidative stress has been proposed as a potential cost of social dominance
 but few studies have examined this cost in relation to social stability.
 We studied the cost of social dominance in the cichlid fish Astatotilapia
 burtoni by manipulating social stability among males in replicate
 naturalistic communities. We found that dominant males experienced
 increased plasma oxidative damage compared to subordinate males in stable
 hierarchies only. Subordinate males in unstable hierarchies had higher
 plasma oxidative damage than their stable community counterparts, but we
 found no effect of stability treatment for dominant males. However,
 dominant males tended to have lower liver total antioxidant capacity (TAC)
 than subordinate males in unstable hierarchies, suggesting that the cost
 of social dominance is higher in unstable hierarchies. There was no other
 effect of status in tissue (liver, gonad, muscle) and various redox
 markers including TAC, NADPH-oxidase activity, and DNA damage. We conclude
 that the stability of the social environment influences the relative cost
 of social dominance in a tissue and marker specific
 manner.  
description: The data was collected in the laboratory using cichlid fish.
 Cichlid groups were housed in replicate tanks for 22 weeks before tissue
 collection. We measured various markers of oxidative stress in different
 tissue types, including TAC, NADPH-oxidase activity, and DNA
 damage.
description: The readme file contains an explanation of each of the variables
 in the dataset, its measurement units, and -if it concerns a derived
 variable (displayed in grey) - the way it was calculated from the primary
 data (displayed in black). #NA =  values not available. Information on how
 the measurements were done can be found in the associated manuscript
 referenced above.
DOI: 10.5061/dryad.qnk98sfbb
title: Data from: Spatiotemporal patterns of neocortical activity around hippocampal sharp-wave ripples

description: A prevalent model is that sharp-wave ripples (SWR) arise ‘spontaneously’
 in CA3 and propagate recent memory traces outward to the neocortex to
 facilitate memory consolidation there. Using voltage and extracellular
 glutamate transient recording over widespread regions of mice dorsal
 neocortex in relation to CA1 multiunit activity (MUA) and SWR, we find
 that the largest SWR-related modulation occurs in retrosplenial cortex;
 however, contrary to the unidirectional hypothesis, neocortical activation
 exhibited a continuum of activation timings relative to SWRs, varying from
 leading to lagging. Thus, contrary to the model in which SWRs arise
 ‘spontaneously’ in the hippocampus, neocortical activation often precedes
 SWRs and may thus constitute a trigger event in which neocortical
 information seeds associative reactivation of hippocampal ‘indices’. This
 timing continuum is consistent with a dynamics in which older, more
 consolidated memories may in fact initiate the hippocampal-neocortical
 dialog, whereas reactivation of newer memories may be initiated
 predominantly in the hippocampus.
DOI: 10.5281/zenodo.18393830
title: Preliminary Data for "Why do Ecosystems Have Optimum Temperatures?"
DOI: 10.5061/dryad.cjsxksn1p
title: Data from: Can avian functional traits predict cultural ecosystem services?

description: The functional trait diversity of species assemblages can predict the
 provision of ecosystem services such as pollination and carbon
 sequestration, but it is unclear whether the same trait-based framework
 can be applied to identify the factors that underpin cultural ecosystem
 services and disservices.  To explore the relationship between
 traits and the contribution of species to cultural ecosystem services and
 disservices, we conducted 404 questionnaire surveys with birdwatchers and
 local residents in Guanacaste, Costa Rica. We used an
 information-theoretic approach to identify which of 20 functional traits
 for 199 Costa Rican bird species best predicted their cultural ecosystem
 service scores related to birdwatching, acoustic aesthetics, education and
 local identity, as well as disservices (e.g., harm to crops).  We
 found that diet was the most important variable explaining perceptions of
 cultural ecosystem service and disservice providers. Aesthetic traits such
 as plumage colour and pattern were important in explaining birdwatching
 scores. We also found people have a high affinity for forest-affiliated
 birds.  The insight that functional traits can explain variation
 among cultural perspectives on values derived from birds offers a first
 step towards a trait-based system for understanding the species attributes
 that underpin cultural ecosystem services and disservices.
description: These data were collected trait by trait from different sources
 including EltonTrait database, information from the Stiles &
 Skutch (1989) book, and also morphological traits were collected by
 visiting museum collections across the world. Plumage color/pattern traits
 were collected from the Garrigues & Dean book, and acoustic traits
 were collected from Xeno-canto recordings and by processing them in the
 raven pro software. For full details on trait data collection, please read
 the Echeverri, et al. (2019) People and Nature manuscript.
description: The description of each variable is in the table of the
 Echeverri, et al. (2019) People and Nature manuscript.
DOI: 10.5281/zenodo.18393829
title: Preliminary Data for "Why do Ecosystems Have Optimum Temperatures?"
DOI: 10.5061/dryad.j3tx95x8c
title: Data from: Genomic regions underlying metabolic and neuronal signaling pathways are temporally consistent outliers in a moving avian hybrid zone

description: The study of hybrid zones can provide insight into the genetic basis of
 species differences that are relevant for the maintenance of reproductive
 isolation. Hybrid zones can also provide insight into climate change,
 species distributions, and evolution. The hybrid zone between black-capped
 chickadees (Poecile atricapillus) and Carolina chickadees (P.
 carolinensis) is shifting northward in response to increasing winter
 temperatures but is not increasing in width. This pattern indicates strong
 selection against chickadees with admixed genomes. Using high-resolution
 genomic data, we identified regions of the genomes that are outliers in
 both time points and do not introgress between the species; these regions
 may be involved in the maintenance of reproductive isolation. Genes
 involved in metabolic regulation processes were overrepresented in this
 dataset. Several gene ontology categories were also temporally
 consistent—including glutamate signaling, synaptic transmission, and
 catabolic processes—but the nucleotide variants leading to this pattern
 were not. Our results support recent findings that hybrids between
 black-capped and Carolina chickadees have higher basal metabolic rates
 than either parental species and suffer spatial memory and problem-solving
 deficits. Metabolic breakdown, as well as spatial memory and
 problem-solving, in hybrid chickadees may act as strong postzygotic
 isolation mechanisms in this moving hybrid zone.
DOI: 10.13012/b2idb-5031633_v1
title: Data and Code for Tracking the Hidden Trade of Non-native Pet Amphibians in the United States

description: This dataset contains data and R scripts used to analyze the trade of non-native pet amphibians in the United States by integrating online classified advertisements with U.S. Fish and Wildlife Service import records. The data include records of amphibian advertisements, U.S. imports, taxonomic reference lists, and conservation status information. The dataset supports analyses identifying domestically produced species, species entering U.S. markets through unrecorded or unofficial trade pathways, and price differences associated with documented and undocumented trade. The dataset supports the analyses presented in an associated peer-reviewed publication in Biological Conservation.
DOI: 10.5061/dryad.np5hqbzp0
title: Data from: Variation in developmental temperature alters adulthood plasticity of thermal tolerance in Tigriopus californicus

description: In response to environmental change, organisms rely on both genetic
 adaptation and phenotypic plasticity to adjust key traits that are
 necessary for survival and reproduction. Given the accelerating rate of
 climate change, plasticity may be particularly important. For organisms in
 warming aquatic habitats, upper thermal tolerance is likely to be a key
 trait, and many organisms express plasticity in this trait in response to
 developmental or adulthood temperatures. Although plasticity at one life
 stage may influence plasticity at another life stage, relatively little is
 known about this possibility for thermal tolerance. Here we used locally
 adapted populations of the copepod Tigriopus californicus to investigate
 these potential effects in an intertidal ectotherm. We found that low
 latitude populations had greater critical thermal maxima (CTmax) than high
 latitude populations, and variation in developmental temperature altered
 CTmax plasticity in adults. After development at 25°C, CTmax was plastic
 in adults, whereas no adulthood plasticity in this trait was observed
 after development at 20°C. This pattern was identical across four
 populations, suggesting that local thermal adaptation has not shaped this
 effect among these populations. Differences in the capacities to maintain
 ATP synthesis rates and to induce heat shock proteins at high
 temperatures, two likely mechanisms of local adaptation in this species,
 were consistent with changes in CTmax due to phenotypic plasticity, which
 suggests that there is likely mechanistic overlap between the effects of
 plasticity and adaptation. Together, these results indicate that
 developmental effects may have substantial impacts on upper thermal
 tolerance plasticity in adult ectotherms.
DOI: 10.5061/dryad.05qfttdz4
title: Data from: Senescence in the city: exploring ageing patterns of a long‐lived raptor across an urban gradient

description: In many vertebrates, productivity and survival usually increase with age
 and then start to decline above a certain age; processes known as
 reproductive and actuarial senescence. Senescence is widely believed to be
 driven by the accumulation of somatic damage or mutations. Thus, levels of
 such cellular damage, and therefore senescence could, in theory, differ
 between different habitats if they experience different stressors. Urban
 environments expose animals to a wide range of stressors that pose a
 challenge to physiological systems and might accelerate the ageing
 process. We studied productivity and survival of Black Sparrowhawks across
 an urban gradient in Cape Town, South Africa. We hypothesise that
 productivity and survival will first increase with age, but that
 productivity and survival will then decline above a certain age, due to
 senescence. Furthermore, we hypothesise that rates of senescence will be
 accelerated in more urban areas. We used 17 years of data from
 colour-ringed individuals. We found no indication of any improvement in
 productivity with age in early-life, but we did detect reproductive
 senescence, with productivity declining above 6 years of age. However,
 contrary to our predictions, there were no differences in reproductive
 senescence along the urban gradient. Similarly, we found that survival
 rates of adults did not show any strong improvement with age in early
 life, but decreased with age amongst older birds, providing support for
 actuarial senescence. However, once again no differences in this pattern
 were apparent along the urban gradient. This study represents one of the
 first to examine differences in senescence rates in different habitats.
 Our results suggest that for this urban adapted species, senescence
 patterns do not vary according to levels of urbanisation. Whether this
 pattern holds for species more sensitive to urbanisation remains worthy of
 exploration.
description: Data from: Sumasgutner, P. , Koeslag, A. and Amar, A. (2019),
 Senescence in the city: exploring ageing patterns of a long‐lived raptor
 across an urban gradient. J Avian Biol. Accepted Author Manuscript.
 doi:10.1111/jav.02247
description: Excel table with 4 sheets: i) first sheet contains all raw data
 needed to model age dependent productivity; ii) second sheet contains the
 according legend/data description; iii) third sheet contains all raw data
 needed to model apparent survival and encounter probability; and, iv)
 fourth sheet contains according legend/data description.
DOI: 10.5061/dryad.kprr4xh0n
title: Data from: Comparative modelling of crack propagation in elastic-plastic materials using meshfree LRPIM and XFEM

description: The modelling of crack propagation for elastic-plastic materials is
 critical in various engineering applications, such as safety analysis of
 concrete structures and stability analysis of rock slopes. Combined with
 elastic-plastic theory and fracture mechanics, the local radial basis
 point Interpolation method (LRPIM)has the ability to analyse crack
 propagation in elastic-plastic materials. Crack propagation in
 elastic-plastic materials is compared using the LRPIM and Extended Finite
 Element method (XFEM). The comparative investigation indicates that: (1)
 The LRPIM results are close to the model test results, which indicates
 that it is feasible for analysing crack growth of elastic-plastic
 materials. (2) Compared with the LRPIM, the XFEM results are closer to the
 experimental results, showing that the XFEM has higher accuracy and
 computational efficiency. (3) Compared with the XFEM, when the LRPIM
 method is used to analyse crack propagation, the propagation path is not
 smooth enough, which can be explained that the crack tip stress and strain
 not being accurate enough.
description: The submitted folder includes six data files, the files numbered
 1 and 2 are the data files of figs. 6, 7 and 8, the files numbered 3 and 4
 are the data files of figs. 9, 10 and 11, and the files numbered 5 and 6
 are the data files of figs. 12, 13 and 14. The data files numbered 1, 3
 and 5 are displacement and stress information of model field nodes. Data
 files numbered 2, 4 and 6 include information about fracture
 surfaces.
DOI: 10.5061/dryad.34tmpg4fq
title: Global warming and artificial shorelines reshape seashore biogeography

description: Aim: Rapid anthropogenic warming coupled with changes in land use is
 altering the distributions of species, with consequences for ecosystem
 functioning and services. It is crucial to evaluate species range shifts
 based on understanding of the interaction of temperature with non-climatic
 factors such as habitat availability and dispersal potential. Here, we aim
 to investigate roles of environment temperature, habitat availability and
 population connectivity on the distributions of hard-shore intertidal
 animals. We further examine potential roles of extensive artificial
 seawall construction in enabling poleward expansion of species in China,
 thus reshaping coastal biogeography. Location: Chinese coast. Time period:
 2013-2017. Major taxa studied: Intertidal invertebrates. Methods: We took
 an integrative approach encompassing distributional ecology, thermal
 physiology, molecular genetics, heat budget modeling and larval dispersal,
 to elucidate how interacting multiple drivers, including temperature,
 habitat availability and larval dispersal, determine distributions of
 hard-shore invertebrates, focusing on what sets their range edges at a
 boundary between biogeographic provinces. Results: Our results untangle
 the complex interactions of global climate change with the impacts of
 regional scale coastal development. Temperature, larval transport and
 habitat availability are the major proximate factors controlling the range
 limits of coastal marine species. The artificial shorelines provide
 suitable habitats for hard-shore species on the Yangtze River Delta, and
 minimum temperature at winter is an important factor setting the new
 northern range limit of these hard-shore species along the Chinese coast.
 Main conclusions: In the face of global warming and global sprawl of
 marine hard infrastructure, species distributions, community structures
 and biogeographic patterns are experiencing dramatic changes. The combined
 influence of multiple human stressors including climate change and
 artificial shoreline can be evaluated by using a multidisciplinary
 framework, including ecological distribution, physiological sensitivity of
 species to these stressors, and the role of dispersal in maintaining
 population connectivity.
DOI: 10.5061/dryad.7sqv9s4p0
title: Innate anti-predator behavior can promote infection in fish even in the absence of predators

description: Natural enemies - predators and parasites - largely shape the dynamics of
 ecosystems. It is known that anti-predator and anti-parasite defense can
 be mutually conflicting, however consequences of this trade-off for the
 regulation of infection burden in animals are still poorly understood. We
 hypothesize that even in the absence of cues from predators, innate
 anti-predator behavior (“ghost of predation past”) interferes with defense
 against parasites and can enhance the infection risk. As a case study, we
 explore interactions between a commercial species, the rainbow trout
 Oncorhynchus mykiss, and its parasite, the trematode eye-fluke Diplostomum
 pseudospathaceum. Fish-parasite interactions were tested in
 compartmentalized tanks where shelters and parasites were presented in
 different combinations providing various conditions for microhabitat
 choice and territorial behavior. Shelters were attractive and contestable
 despite the absence of predators and presence of parasites. The
 individuals fighting for shelters acquired more than twice the number of
 cercariae as compared to those in infected shelter-free compartments. Most
 infected were subordinate fish with a higher ventilation rate. Fish
 possessing shelters were less vulnerable to parasites than fighting fish.
 Grouping reduced the infection load, although less efficiently than
 sheltering. Our data demonstrate that the innate anti-predator behavior
 can undermine anti-parasite tactics of the fish and result in higher
 infection rates. Using our empirical results, we construct a mathematical
 model which predicts that enriching the environment in fish farming will
 be beneficial only when a large number of shelters is provided. Using
 insufficient number of shelters will increase the parasite burden in the
 fish.
DOI: 10.5061/dryad.08kprr4xn
title: Data from: Comparison of fish detections, community diversity, and relative abundance using environmental DNA metabarcoding and traditional gears

description: Background Detecting species at low abundance, including aquatic invasive
 species (AIS), is critical for making informed management decisions.
 Environmental DNA (eDNA) methods have become a powerful tool for rare or
 cryptic species detection; however, many eDNA assays offer limited utility
 for community‐level analyses due to their use of species‐specific
 (presence/absence) ‘barcodes’. Metabarcoding methods provide information
 on entire communities based on sequencing of all taxon‐specific barcodes
 within an eDNA sample. Aims Evaluate measures of fish species detections,
 community diversity, and estimates of relative abundance based on eDNA
 metabarcoding and traditional fisheries sampling approaches in the context
 of fish community characterization and AIS survellience. Materials and
 Methods In 2016, eight limnologically diverse lakes (surface area range:
 13 – 1,728 ha) in Michigan, USA were sampled using a variety of
 traditional fisheries gears to characterize fish community composition.
 Environmental DNAs from surface (33 ± 6, mean ± 1 SD) and benthic (14 ± 2)
 water samples from each lake were isolated and amplified for two
 metabarcoding markers (mitochondrial 12S and 16S rDNA loci) using
 fish‐specific primers. Fish species detected within each lake were
 determined by comparing the sequencing data to a database of sequences
 from native Michigan fish species and 19 AIS on the Michigan's Watch
 List. Results Analysis of species accumulation curves indicated
 multi‐locus eDNA metabarcoding assays can enhance species detection
 capacities and characterize 95% of a fish community in fewer sampling
 efforts than traditional gear (range: 2 – 62, median: 14). In addition,
 all AIS detected in traditional gear samples were also detected by eDNA,
 while some AIS detected by eDNA assays were absent from traditional gear
 samples. Discussion Results reported here are, in part, driven by the lack
 of species‐selectivity during eDNA sampling events. Given the efficacy of
 eDNA assays, we suggest multi‐locus eDNA metabarcoding assays be
 implemented in early detection efforts.
description: We compared measures of fish species detections, community
 diversity, and estimates of relative abundance based on eDNA metabarcoding
 and traditional fisheries sampling approaches.
DOI: 10.6084/m9.figshare.19565929
title: The influence of planting periods on herbivore and natural enemy abundance on yellow sticky traps in Bt maize fields

description: Data set of insect abundance in Bt Maize fields in Ebro valey