cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.h33db
title: Data from: Are trait-growth models transferable? Predicting multi-species growth trajectories between ecosystems using plant functional traits

description: Plant functional traits are increasingly used to generalize across
 species, however few examples exist of predictions from trait-based models
 being evaluated in new species or new places. Can we use functional traits
 to predict growth of unknown species in different areas? We used three
 independently collected datasets, each containing data on heights of
 individuals from non-resprouting species over a chronosquence of
 time-since-fire sites from three ecosystems in south-eastern Australia. We
 examined the influence of specific leaf area, woody density, seed size and
 leaf nitrogen content on three aspects of plant growth; maximum relative
 growth rate, age at maximum growth and asymptotic height. We tested our
 capacity to perform out-of-sample prediction of growth trajectories
 between ecosystems using species functional traits. We found strong
 trait-growth relationships in one of the datasets; whereby species with
 low SLA achieved the greatest asymptotic heights, species with high
 leaf-nitrogen content achieved relatively fast growth rates, and species
 with low seed mass reached their time of maximum growth early. However
 these same growth-trait relationships did not hold across the two other
 datasets, making accurate prediction from one dataset to another
 unachievable. We believe there is evidence to suggest that growth
 trajectories themselves may be fundamentally different between ecosystems
 and that trait-height-growth relationships may change over environmental
 gradients.
description: Species height and trait
 dataThis dataset contents
 information about species heights recorded at different time since fire
 sites in Myall Lakes National Park, New South Wales, Australia; Murray
 Sunset National Park, Victoria, Australia; and The Foothill Forests in
 Victoria Australia. It contains species names (Sp) which are abbreviated
 to the first three letters of Genus and species, Height in cm (Ht), age of
 time-since-fire site (Yrs), seed mass (SDMASS), specific leaf area (SLA)
 and nitrogen (N); and the Site ID (Site).EnsembleData_SpeciesHeights_Traits.csv
DOI: 10.15468/dl.4v6adr
title: Occurrence Download

description: A dataset containing 199 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Geometry POLYGON((-180 -60,-70 -60,-70 70,-180 70,-180 -60))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "PublishingOrg is one of (e9f60bdb-217d-4b4e-a22a-2781321220a1, 28eb1a3f-1c15-4a95-931a-4af90ecb574d, c8d737e0-2ff8-42e8-b8fc-6b805d26fc5f, 9c2fe801-eae7-4325-9181-e363345ff1a1)",
 "TaxonKey is Balaenoptera borealis",
 "Year 2000-2026"
 ]
}

 The dataset includes 199 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000757-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.22mb72d
title: Data from: Optimization and kinetic study of methyl laurate synthesis using ionic liquid [Hnmp]HSO4 as a catalyst

description: Methyl laurate was synthesized from lauric acid (LA) and methanol via an
 esterification reaction using ionic liquids (ILs) as catalysts. The
 efficiencies of three different catalysts, 1-methylimidazole hydrogen
 sulfate ([Hmim]HSO4), 1-methyl-2-pyrrolidonium hydrogen sulfate
 ([Hnmp]HSO4) and H2SO4, were compared. The effect of the methanol/LA molar
 ratio, reaction temperature, reaction time and catalyst dosage on the
 esterification rate of LA was investigated by single-factor experiments.
 Based on the single-factor experiments, the esterification of LA and
 methanol was optimized using response surface methodology. The results
 showed that the most effective catalyst was the IL [Hnmp]HSO4. The optimal
 conditions were as follows: [Hnmp]HSO4 dosage of 5.23%, methanol/LA molar
 ratio of 7.68 : 1, reaction time of 2.27 h and reaction temperature of
 70°C. Under these conditions, the LA conversion of the esterification
 reached 98.58%. A kinetic study indicated that the esterification was a
 second-order reaction with an activation energy and a frequency factor of
 68.45 kJ mol−1 and 1.9189 × 109 min−1, respectively. The catalytic
 activity of [Hnmp]HSO4 remained high after five cycles.
description: The data of Figure
 1The data of Figure
 2Effect of number of
 cycles of the catalyst on the lauric acid conversionRecycle use of
 [Hnmp]HSO4.opj
DOI: 10.5061/dryad.bp7s3
title: Data from: Spatio-temporal variation in parasite communities maintains diversity at the major histocompatibility complex class IIβ in the endangered Rio Grande Silvery Minnow

description: Climate change will strongly impact aquatic ecosystems particularly in
 arid and semi-arid regions. Fish-parasite interactions will also be
 affected by predicted altered flow and temperature regimes, and other
 environmental stressors. Hence, identifying environmental and genetic
 factors associated with maintaining diversity at immune genes is critical
 for understanding species’ adaptive capacity. Here we combine genetic (MHC
 Class IIβ and microsatellites), parasitological and ecological data to
 explore the relationship between these factors in the remnant wild Rio
 Grande silvery minnow (Hybognathus amarus) population, an endangered
 species found in the southwestern United States. Infections with multiple
 parasites on the gills were observed and there was spatio-temporal
 variation in parasite communities and patterns of infection among
 individuals. Despite its highly endangered status and chronically low
 genetic effective size, Rio Grande silvery minnow had high allelic
 diversity at MHC Class IIβ with more alleles recognised at the presumptive
 DAB1 locus compared to the DAB3 locus. We identified significant
 associations between specific parasites and MHC alleles against a backdrop
 of generalist parasite prevalence. We also found that individuals with
 higher individual neutral heterozygosity and higher amino acid divergence
 between MHC alleles, had lower parasite abundance and diversity. Taken
 together, these results suggest a role for fluctuating selection imposed
 by spatio-temporal variation in pathogen communities and divergent allele
 advantage in maintenance of high MHC polymorphism. Understanding the
 complex interaction of habitat, pathogens and immunity in protected
 species will require integrated experimental, genetic and field studies.
description: Rio Grande silvery
 minnow MHC_Microsatellites_ParasitesRio Grande silvery
 minnow microsatellite, MHC and parasite data. Sample site collection
 information is also included.MEC_DRYAD.xlsx
DOI: 10.5061/dryad.kq72j
title: Data from: The search for Pleiades in trait constellations: functional integration and phenotypic selection in the complex flowers of Morrenia brachystephana (Apocynaceae)

description: Pollinator-mediated natural selection on single traits, such as corolla
 tube or spur length, has been well documented. However, flower phenotypes
 are usually complex, and selection is expected to act on several traits
 that functionally interact rather than on a single isolated trait. Despite
 the fact that selection on complex phenotypes is expectedly widespread,
 multivariate selection modelling on such phenotypes still remains
 under-explored in plants. Species of the subfamily Asclepiadoideae
 (Apocynaceae) provide an opportunity to study such complex flower
 contrivances integrated by fine-scaled organs from disparate developmental
 origin. We studied the correlation structure among linear floral traits
 (i) by testing a priori morphological, functional or developmental
 hypotheses among traits and (ii) by exploring the organization of flower
 covariation, considering alternative expectations of modular organization
 or whole flower integration through conditional dependence analysis (CDA)
 and integration matrices. The phenotypic selection approach was applied to
 determine whether floral traits involved in the functioning of the
 pollination mechanism were affected by natural selection. Floral
 integration was low, suggesting that flowers are organized in more than
 just one correlation pleiad; our hypothetical functional correlation
 matrix was significantly correlated with the empirical matrix, and the CDA
 revealed three putative modules. Analyses of phenotypic selection showed
 significant linear and correlational gradients, lending support to
 expectations of functional interactions between floral traits. Significant
 correlational selection gradients found involved traits of different
 floral whorls, providing evidence for the existence of functional
 integration across developmental domains.
description: Linear floral
 traitsInclude data from 17
 floral traits measured in 125 plants of Morrenia
 brachystephanaempirical and
 hypothetical correlation matricesinclude the Pearson’s
 correlation coefficients for 17 Morrenia brachystephana floral traits and
 the three hypothetical matrices used to explore patterns of
 modularity.variation on floral
 traitsinclude a subsample of
 10 individuals of Morrenia brachystephana for which traits in three
 pollinaria and three guide rails per flower in three flowers per
 individual were measured to explore the variation how much of the total
 variation is attributed to variation within flowers, among flowers in an
 individual, and among individuals in the populationFitnnes
 measuredinclude measure
 reproductive success in 125 plants of Morrenia
 brachystephanaPhenotipic selection
 analysisInclude morphological
 and reproductive success data from 125 Morrenia brachystephana plants used
 to estimate phenotypic selectionPhenotipic
 selection.xls
DOI: 10.5061/dryad.62nk0
title: Data from: Early and late response of Nematostella vectensis transcriptome to heavy metals

description: Environmental contamination from heavy metals poses a global concern for
 the marine environment, as heavy metals are passed up the food chain and
 persist in the environment long after the pollution source is contained.
 Cnidarians play an important role in shaping marine ecosystems, but
 environmental pollution profoundly affects their vitality. Among the
 cnidarians, the sea anemone Nematostella vectensis is an advantageous
 model for addressing questions in molecular ecology and toxicology as it
 tolerates extreme environments and its genome has been published. Here we
 employed a transcriptome-wide RNA-Seq approach to analyze N.vectensis
 molecular defense mechanisms against four heavy metals: Hg, Cu, Cd and Zn.
 Altogether, more than 4800 transcripts showed significant changes in gene
 expression. Hg had the greatest impact on up-regulating transcripts,
 followed by Cu, Zn and Cd. We identified, for the first time in Cnidaria,
 co-up-regulation of immediate-early transcription factors such as Egr1,
 AP1 and NF-κB. Time-course analysis of these genes revealed their early
 expression as rapidly as one hour after exposure to heavy metals,
 suggesting that they may complement or substitute for the roles of the
 metal mediating Mtf1 transcription factor. We further characterized the
 regulation of a large array of stress-response gene families including
 Hsp, ABC, CYP members and phytochelatin synthase that may regulate
 synthesis of the metal-binding phytochelatins instead of the
 methallothioneins that are absent from Cnidaria genome. This study
 provides mechanistic insight into heavy-metal toxicity in N.vectensis and
 sheds light on ancestral stress adaptations.
description: qPCR Raw Data Fig
 5
DOI: 10.5061/dryad.j2p2h3s
title: Data from: Model selection with overdispersed distance sampling data

description: 1. Distance sampling (DS) is a widely-used framework for estimating animal
 abundance. DS models assume that observations of distances to animals are
 independent. Non-independent observations introduce overdispersion,
 causing model selection criteria such as AIC or AICc to favour overly
 complex models, with adverse effects on accuracy and precision. 2. We
 describe, and evaluate via simulation and with real data, estimators of an
 overdispersion factor (c ̂), and associated adjusted model selection
 criteria (QAIC) for use with overdispersed DS data. In other contexts, a
 single value of c ̂ is calculated from the “global” model, i.e., the most
 highly-parameterized model in the candidate set, and used to calculate
 QAIC for all models in the set; the resulting QAIC values, and associated
 ΔQAIC values and QAIC weights, are comparable across the entire set.
 Candidate models of the DS detection function include models with
 different general forms (e.g., half-normal, hazard rate, uniform), so it
 may not be possible to identify a single global model. We therefore
 propose a two-step model selection procedure by which QAIC is used to
 select among models with the same general form, and then a goodness-of-fit
 statistic is used to select among models with different forms. A drawback
 of this approach is that QAIC values are not comparable across all models
 in the candidate set. 3. Relative to AIC, QAIC and the two-step model
 selection procedure avoided overfitting and improved the accuracy and
 precision of densities estimated from simulated data. When applied to six
 real data sets, adjusted criteria and procedures selected either the same
 model as AIC or a model that yielded a more accurate density estimate in 5
 cases, and a model that yielded a less accurate estimate in 1 case. 4.
 Many DS surveys yield overdispersed data, including cue counting surveys
 of songbirds and cetaceans, surveys of social species including primates,
 and camera-trapping surveys. Methods that adjust for overdispersion during
 the model selection stage of DS analyses therefore address a conspicuous
 gap in the DS analytical framework as applied to species of conservation
 concern.
description: Montrave_cuecountRaw cue count data from songbirds at Montrave Estate, Scotland, originally presented in Buckland ST (2006). Point transect surveys for songbirds: robust methodologies. The Auk 123:345–357, and reanalyzed by Howe, Buckland, Despres-Einspenner, and Kuehl (2018). Model selection with overdispersed distance sampling data. Data were copied from program Distance and uploaded as a .csv file. A Distance project file is available at distancesampling.org.
DOI: 10.15468/dl.4y5a4n
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Specimen, Human Observation)",
 "Geometry POLYGON((105 20,170 20,170 70,105 70,105 20))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Luzula nipponica"
 ]
}

 The dataset includes 27 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000758-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.pk24v
title: Data from: Phylogenetic reconsideration of Myrmekiaphila systematics with a description of the new trapdoor spider species Myrmekiaphila tigris (Araneae, Mygalomorphae, Cyrtaucheniidae, Euctenizinae)

description: The trapdoor spider genus Myrmekiaphila currently comprises 11 nominal
 species. A recent molecular phylogenetic evaluation of the group
 identified a number of problems with respect to how species and species
 groups were delineated by Bond and Platnick in their 2007 taxonomic
 revision of the genus. We report herein the discovery of a new species,
 Myrmekiaphila tigris sp. n. The phylogenetic position of the species is
 evaluated using a molecular phylogenetic approach based on a set of mtDNA
 markers. Our preferred phylogenetic hypothesis supports the recognition of
 a new species and further highlights the need to more carefully
 investigate species boundaries within the genus. These results further
 indicate that palpal bulb morphology is rapidly evolving and has likely
 been a contributing factor in rendering a number of species paraphyletic
 with respect to the molecular data.
description: 12S-16S Data
 flie12-16S data file used
 for Myrmekiaphila species delimitation. Nexus file includes Bayes block
 with models and run parameters.Myr12S16S_3.nexConsensus tree file from Bayesian analysisMyr12S16S_3.nex.con12S-16S Phylip filePhylip formatted file for RAxML runMyr12S16S_new3.phyRAxML_bestTree
DOI: 10.5061/dryad.p1442
title: Data from: Spatial extinction or persistence: landscape-temperature interactions perturb predator-prey dynamics

description: Recognising that species interact across a range of spatial scales, we
 explore how landscape structure interacts with temperature to influence
 persistence. Specifically, we recognise that few studies indicate thermal
 shifts as the proximal cause of species extinctions; rather, species
 interactions exacerbated by temperature result in extinctions. Using
 microcosm-based experiments, as models of larger landscape processes, we
 test hypotheses that would be problematic to address through field work. A
 text-book predator-prey system (the ciliates Didinium and Paramecium) was
 used to compare three landscapes: an unfragmented landscape subjected to
 uniform temperatures (10, 20, 30 °C); a fragmented landscape (potentially
 hosting metapopulations) subjected to these three temperatures; and a
 fragmented landscape subjected to a spatial temperature gradient (~10 to
 30 °C) - despite the prevalence of natural temperature ecoclines this is
 the first time such an analysis has been conducted. Initial thermal
 response-analysis (growth, mortality, and movement measured between 10 and
 30 °C) suggested that as temperature increased, the predator might drive
 the prey to extinction. Thermal preferences (measured at 5 temperatures
 between 10 and 30 °C), indicated that both predator and prey preferred
 warmer temperatures, with the predator exhibiting the stronger preference,
 suggesting that cooler regions might act as a prey-refuge. The landscape
 level observations, however, did not entirely support the predictions.
 First, in the unfragmented landscape, increased temperature led to
 extinctions, but at the highest temperature (where the predator growth can
 be reduced) the prey survived. Second, at high temperatures the fragmented
 landscape failed to host metapopulations that would allow predator-prey
 persistence. Third, the thermal ecocline did not provide heterogeneity
 that improved stability; rather it forced both species to occupy a smaller
 realized space, leading toward extinctions. These findings reveal that
 temperature-impacted rates and temperature preferences combine to drive
 predator-prey dynamics and persistence across landscapes.
description: Figure 1 Thermal
 sensitivity dataRaw data for figure
 1Figure 3 Isolated
 temperature dataRaw data for analysis
 displayed in figure 3Figure 4 Fragmented
 temperature dataRaw data displayed in
 figure 4
DOI: 10.5281/zenodo.16892159
title: Cell-cell communication as underlying principle governing color pattern formation in fishes - supporting data
DOI: 10.5061/dryad.55c2f
title: Data from: Thank you for not flowering: conservation genetics and gene flow analysis of native and non-native populations of Fraxinus (Oleaceae) in Ireland

description: The risks of gene flow between interfertile native and introduced plant
 populations are greatest when there is no spatial isolation of pollen
 clouds and phenological patterns overlap completely. Moreover, invasion
 probabilities are further increased if introduced populations are capable
 of producing seeds by selfing. Here we investigated the mating system and
 patterns of pollen-mediated gene flow among populations of native ash
 (Fraxinus excelsior) and mixed plantations of non-native ash (F.
 angustifolia and F. excelsior) as well as hybrid ash (F. excelsior × F.
 angustifolia) in Ireland. We analysed the flowering phenology of the
 mother trees and genotyped with six microsatellite loci in progeny arrays
 from 132 native and plantation trees (1493 seeds) and 444 potential
 parents. Paternity analyses suggested that plantation and native trees
 were pollinated by both native and introduced trees. No signs of
 significant selfing in the introduced trees were observed and no evidence
 of higher male reproductive success was found for introduced trees
 compared with native ones either. A small but significant genetic
 structure was found (φft=0.05) and did not correspond to an
 isolation-by-distance pattern. However, we observed a significant temporal
 genetic structure related to the different phenological groups, especially
 with early and late flowering native trees; each phenological group was
 pollinated with distinctive pollen sources. Implications of these results
 are discussed in relation to the conservation and invasiveness of ash and
 the spread of resistance genes against pathogens such as the fungus
 Chalara fraxinea that is destroying common ash forests in Europe.
description: GenotypesSSR genotypes from 6 loci for progeny arrays (sheet1) and for adult trees (shhet 2) from CL (Clonee) and K (Kildalkey) sites. The location of the mother trees are also indicated: Native or Plantation. Numbers are allele size. 0 = missing valueGenotype_data.xlsx
DOI: 10.5281/zenodo.16892158
title: Cell-cell communication as underlying principle governing color pattern formation in fishes - supporting data
DOI: 10.5061/dryad.tm706
title: Data from: Terminal investment in the gustatory appeal of nuptial food gifts in crickets

description: Investment in current versus future reproduction represents a prominent
 trade-off in life-history theory, and is likely dependent on an
 individual's life expectancy. The terminal investment hypothesis
 posits that a reduction in residual reproductive value (i.e., potential
 for future offspring) will result in increased investment in current
 reproduction. We tested the hypothesis that male decorated crickets
 (Gryllodes sigillatus), when cued to their impending mortality, should
 increase their reproductive effort by altering the composition of their
 nuptial food gifts (i.e., spermatophylaxes) to increase their gustatory
 appeal to females. Using a repeated-measures design, we analysed the amino
 acid composition of spermatophylaxes derived from males both before and
 after injection of either a saline control or a solution of heat-killed
 bacteria. The latter, although non-pathogenic, represents an immune
 challenge that may signal an impending survival threat. One principal
 component explaining amino acid variation in spermatophylaxes,
 characterized by a high loading to histidine, was significantly lower in
 immune challenged versus control males. The relevance of this difference
 for the gustatory appeal of gifts to females was assessed by mapping
 spermatophylax composition onto a fitness surface derived in an earlier
 study identifying the amino acid composition of spermatophylaxes preferred
 by females. We found that immune challenged males maintained the level of
 attractiveness of their gifts post-treatment, while control males produced
 significantly less attractive gifts post-injection. These results are
 consistent with the hypothesis that cues of a survival-threatening
 infection stimulate terminal investment in male decorated crickets with
 respect to the gustatory appeal of their nuptial food gifts.
description: Duffield_terminalinvestment_nuptialfoodgiftsData for the tests of how injection with a non-pathogenic mortality cue mediates the gustatory appeal