cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.3kk70
title: Data from: Scaling up flammability from individual leaves to fuel beds

description: Wildfires play an important role in vegetation composition and structure,
 nutrient fluxes, human health and wealth, and are interlinked with climate
 change. Plants have an influence on wildfire behaviour and predicting this
 feedback is a high research priority. For upscaling from leaf traits to
 wildfire behaviour we need to know if the same leaf traits are important
 for the flammability of (i) individual leaves, and (ii) multiple leaves
 packed in fuel beds. Based on a conceptual framework, we hypothesised that
 fuel packing properties, through airflow limitation, would overrule the
 effects of individual leaf morphology and chemistry. To test this
 hypothesis we compared the results of two experiments, respectively
 addressing individual leaf flammability and monospecific fuel bed
 flammability of 25 perennial species from eastern Australia. Across
 species, fuel bed packing ratio and bulk density scaled negatively with
 fire spread and positively with maximum temperature and burning time.
 Species with “curlier” leaves, higher specific leaf area, lower tannin
 concentrations and lower tissue density promoted faster fire spread
 through fuel beds. We found that species with shorter individual leaf
 ignition times had a faster fire spread, shorter burning times and lower
 temperatures in fuel beds. Leaf traits that affect the flammability of
 individual leaves (e.g. specific leaf area), continue to do so even when
 packed in fuel beds. While previous studies have focused on either
 flammability of individual plant particles or fire behaviour in fuel beds,
 this is the first time that an overarching combination of the two
 approaches was made for a wide range of species. Our findings provide a
 better understanding of fuel bed flammability based on interspecific
 variation in morphological and some chemical leaf traits. This can be a
 first step in linking leaf traits to fire behaviour in the field.
description: Grootemaat2017_Oikos_DryadDataThis spreadsheet contains data on: (1) species name + growth form, (2) flammability parameters as measured in fuel beds (Maximum Temperature, Burning Time, Rate of Spread, Fuel Consumption), (3) trait measurements on fuel beds and individual leaves, and (4) flammability parameters on individual leaves from a previous study (Grootemaat et al. 2015, DOI: 10.1111/1365-2435.12449).
DOI: 10.15468/dl.5p52ut
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "TaxonKey is Polyporus umbellatus"
 ]
}

 The dataset includes 15 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001276-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.3qr6j
title: Data from: Insights into the human mesenchymal stromal/stem cell identity through integrative transcriptomic profiling

description: Background: Mesenchymal Stromal/Stem Cells (MSCs), isolated under the
 criteria established by the ISCT, still have a poorly characterized
 phenotype that is difficult to distinguish from similar cell populations.
 Although the field of transcriptomics and functional genomics has quickly
 grown in the last decade, a deep comparative analysis of human MSCs
 expression profiles in a meaningful cellular context has not been yet
 performed. There is also a need to find a well-defined MSCs gene-signature
 because many recent biomedical studies show that key cellular interaction
 processes (i.e. inmuno-modulation, cellular cross-talk, cellular
 maintenance, differentiation, epithelial-mesenchymal transition) are
 dependent on the mesenchymal stem cells within the stromal niche. Results:
 In this work we define a core mesenchymal lineage signature of 489 genes
 based on a deep comparative analysis of multiple transcriptomic expression
 data series that comprise: (i) MSCs of different tissue origins; (ii) MSCs
 in different states of commitment; (iii) other related non-mesenchymal
 human cell types. The work integrates several public datasets, as well as
 de-novo produced microarray and RNA-Seq datasets. The results present
 tissue-specific signatures for adipose tissue, chorionic placenta, and
 bone marrow MSCs, as well as for dermal fibroblasts; providing a better
 definition of the relationship between fibroblasts and MSCs. Finally,
 novel CD marker patterns and cytokine-receptor profiles are unravelled,
 especially for BM-MSCs; with MCAM (CD146) revealed as a prevalent marker
 in this subtype of MSCs. Conclusions: The improved biomolecular
 characterization and the released genome-wide expression signatures of
 human MSCs provide a comprehensive new resource that can drive further
 functional studies and redesigned cell therapy applications.
description: GeneConservationText file of sequences aligned for gene conservation calculations. Conservation scores from alignments of 100 vertebrate species (known as UCSC hg19phastCons) were annotated with the phastCons100way.UCSC.hg19 package (R/Bioconductor).
DOI: 10.5061/dryad.4gb17
title: Data from: Surviving in a marine desert: the sponge loop retains resources within coral reefs

description: Ever since Darwin’s early descriptions of coral reefs, scientists have
 debated how one of the world’s most productive and diverse ecosystems can
 thrive in the marine equivalent of a desert. It is an enigma how the flux
 of dissolved organic matter (DOM), the largest resource produced on reefs,
 is transferred to higher trophic levels. Here we show that sponges make
 DOM available to fauna by rapidly expelling filter cells as detritus that
 is subsequently consumed by reef fauna. This “sponge loop” was confirmed
 in aquarium and in situ food web experiments, using 13C- and 15N-enriched
 DOM. The DOM-sponge-fauna pathway explains why biological hot spots such
 as coral reefs persist in oligotrophic seas—the reef’s paradox—and has
 implications for reef ecosystem functioning and conservation strategies.
description: Data Sponge Loop
 DRYADAll data of Figures 1
 and 2 of the Sponge Loop publication. For a more detailed description of
 the data, see also supplementary information belonging to the
 publication.
DOI: 10.5061/dryad.8642
title: Data from: Predicting predation through prey ontogeny using size-dependent functional response models

description: The functional response is a critical link between consumer and resource
 dynamics, describing how a consumer's feeding rate varies with prey
 density. Functional response models often assume homogenous prey size and
 size-independent feeding rates. However, variation in prey size due to
 ontogeny and competition is ubiquitous, and predation rates are often size
 dependent. Thus, functional responses that ignore prey size may not
 effectively predict predation rates through ontogeny or in heterogeneous
 populations. Here, we use short-term response surface experiments and
 statistical modeling to develop and test prey size-dependent functional
 responses for water bugs and dragonfly larvae feeding on red-eyed treefrog
 tadpoles. We then extend these models through simulations to predict
 mortality through time for growing prey. Predation rates of both predators
 were more sensitive to changes in prey size than density. Both
 conventional and size-dependent functional response models predicted
 average overall mortality in short-term mixed cohort experiments, but only
 the size-dependent models accurately captured how mortality was spread
 across sizes. As a result, simulations that extrapolated these results
 through prey ontogeny, showed that differences in size-specific mortality
 are compounded as prey grow, causing predictions from conventional and
 size-dependent functional response models to diverge dramatically through
 time. Our results highlight the importance of incorporating prey size when
 modeling consumer-prey dynamics in size-structured, growing prey
 populations.
description: McCoy et al
 data
DOI: 10.5061/dryad.q1431
title: Data from: Prevalence and beta diversity in avian malaria communities: host species is a better predictor than geography

description: 1. Patterns of diversity and turnover in macroorganism communities can
 often be predicted from differences in habitat, phylogenetic relationships
 among species, and the geographic scale of comparisons. In this study, we
 asked if these factors also predict diversity and turnover in parasite
 communities. 2. We studied communities of avian malaria in two sympatric,
 ecologically similar, congeneric host species at three different sites. We
 asked if parasite prevalence and community structure varied with host
 population, host phylogeography, or geographic distance. 3. We used PCR to
 screen birds for infections, and then used Bayesian methods to determine
 phylogenetic relationships among malaria strains. Metrics of both
 community and phylogenetic beta diversity were used to examine patterns of
 malaria strain turnover between host populations, and partial Mantel tests
 were used determine the correlation between malaria beta diversity and
 geographic distance. Finally, we developed microsatellite markers to
 describe the genetic structure of host populations and assess the
 relationship between host phylogeography and parasite beta diversity. 4.
 We found that although some malaria lineages occur in both host species,
 different genera of malaria parasites infect the two hosts at different
 rates. Additionally, host species was a better predictor of parasite
 community similarity than study site. Within hosts, parasite communities
 in one population were phylogenetically clustered, but there was otherwise
 no correlation between metrics of parasite beta diversity and geographic
 or genetic distance between host populations. Patterns of parasite
 turnover among host populations are consistent with malaria transmission
 occurring in the winter rather than on the breeding grounds 5. Our results
 indicate greater turnover in parasite communities between different hosts
 than between different sites. Differences in host species, as well as
 transmission location and vector ecology, seem to be more important in
 structuring malaria communities than the distance-decay relationships
 frequently found in macroorganisms. Determining the factors affecting
 parasite community diversity and turnover has wide-ranging implications
 for understanding the selective pressures shaping host ecology and
 ecosystem structure. This study shows that metrics of community and
 phylogenetic beta diversity can be useful tools for disentangling the
 ecological and evolutionary processes that underlie geographical variation
 in parasite communities.
description: Parasite data with all
 individualsFile includes ID number
 for each bird screened for malaria infection, year of capture, location of
 capture, sex, whether bird was infected (1) or not (0), the malaria strain
 with which is was infected, and the type of malaria infection (H=
 Haemoproteus, P= Plasmodium). The column strain2 has strains collapsed
 into groups with &lt;0.5% sequence divergence.
DOI: 10.5061/dryad.mc763v6
title: Data from: Reduced telomere length in offspring of old fathers in a long-lived seabird

description: Evidence for transgenerational effects of senescence, whereby offspring
 from older parents have a reduced lifetime reproductive success, is
 increasing. Such effects could arise from compromised germline maintenance
 in old parents, potentially reflected in reduced telomere length in their
 offspring. We test the relationship between parental age and offspring
 early-life telomere length in a natural population of common terns and
 find a significant negative correlation between paternal age and offspring
 telomere length. Offspring telomere length is reduced by 35 base pairs for
 each additional year of paternal age. We find no correlation with maternal
 age. These results fit with the idea of compromised germline maintenance
 in males, whose germline stem cells require continued division.
description: RSBL-2018-0213 data for
 DryadData used for models
 presented in "Reduced telomere length in offspring of old fathers in
 a long-lived seabird", by Sandra Bouwhuis, Simon Verhulst, Christina
 Bauch & Oscar Vedder
DOI: 10.5061/dryad.8654h
title: Data from: Thermal and moisture habitat preferences do not maximize jumping performance in frogs

description: Amphibians are suffering population declines globally, and understanding
 how environmental parameters influence their thermal and moisture
 preferences and performance at various tasks is crucial to understanding
 how these animals will be influenced by climate change. Body temperature
 and hydration affect organismal performance at many fitness-related tasks.
 Since amphibians are ectotherms with highly water-permeable skin,
 environmental temperature and moisture directly affect their body
 temperature and hydration. Therefore, amphibians should select habitats
 with the optimal combination of temperature and moisture to perform tasks
 necessary for survival. However, interactions between environmental
 temperature and moisture can influence habitat selection and task
 performance in different and often unpredictable ways, and this has only
 infrequently been considered. We tested for interactions between
 environmental temperature, moisture, and organismal hydration on
 temperature and moisture preferences and jumping performance in Green
 Frogs (Lithobates clamitans) in the laboratory, using thermal and moisture
 gradients, and high-speed video and force plate data. We then integrated
 the lab experiments with field data. In the thermal and moisture
 gradients, frogs selected environmental conditions that minimized
 cutaneous evaporative water loss, hydroregulating more stringently than
 thermoregulating. These results are consistent with frogs in the field,
 which had highly variable body temperatures, but were always hydrated
 above 95% of their standard mass. However, conditions that minimized
 evaporative water loss frequently did not maximize jumping performance
 because warmer temperatures conferred greater performance. The ecology of
 L. clamitans may explain the discrepancy between their preferences and
 jumping performance optima because the frogs remain in wet environments
 that serve as refuges from dehydration. In parts of their range where
 frogs are subjected to warmer and drier conditions, they are likely to
 select microhabitats that minimize the risk of dehydration, possibly at
 the expense of their ability to forage and escape from predators.
description: Mitchell and Bergmann
 Field DataMitchell and Bergmann
 Jump DataMitchell and Bergmann
 Moisture Posture DataMitchell and Bergmann
 Moisture Pref DataMitchell and Bergmann
 Thermal Posture DataMitchell and Bergmann
 Thermal Pref Data
DOI: 10.5061/dryad.qj8713jm
title: Data from: Paternal effects on the expression of a male polyphenism

description: Polyphenic traits are widespread, but compared to other traits, relatively
 few studies have explored the mechanisms that influence their inheritance.
 Here we investigated the relative importance of additive, nonadditive
 genetic, and parental sources of variation in the expression of polyphenic
 male dimorphism in the mite Rhizoglyphus echinopus, a species in which
 males are either fighters or scramblers. We established eight inbred lines
 through eight generations of full-sibling matings, and then crossed the
 inbred lines in a partial diallel design. Nymphs were isolated and raised
 to adulthood with ad libitum food. At adulthood, male morph was recorded
 for all male offspring. Using a Cockerham-Weir model we found strong
 paternal effects for this polyphenic trait that could be either linked to
 the Y chromosome of males or an indirect genetic effect that is
 environmentally transmitted. In additional analyses we were able to
 corroborate the paternal effects but also detected significant additive
 effects questioning the Cockerham-Weir analysis. This study reveals the
 potential importance of paternal effects on the expression of polyphenic
 traits and sheds light on the complex genetic architecture of these
 traits.
description: Buzatto et al 2012
 inbred lines dataThis file contains basic
 information about the inbred lines used in the partial diallel breeding
 design used in the article. It contains the average body weight (measured
 at the quiescent tritonymph stage, in mg), and the average morph ratio of
 each of the eight inbred lines.Buzatto et al 2012
 Partial Diallel dataThis file contains the
 results of the partial diallel analysis reported in the article. Crosses
 are between eight inbred lines of the bulb mite Rhizoglyphus echinopus
 (see design in the article). Each line in the file represents an
 individual offspring. Variables are the number of the inbred line of the
 dam and sire of each cross; a letter indicating from which replicate of
 that specific cross that offspring came from; the offspring morph
 (response variable in the analysis); the morph of the
 sire.
DOI: 10.5061/dryad.7449j
title: Data from: A new theory of plant-microbe nutrient competition resolves inconsistencies between observations and model predictions

description: Terrestrial plants assimilate anthropogenic CO2 through photosynthesis and
 synthesizing new tissues. However, sustaining these processes requires
 plants to compete with microbes for soil nutrients, which therefore calls
 for an appropriate understanding and modeling of nutrient competition
 mechanisms in Earth System Models (ESMs). Here, we survey existing
 plant-microbe competition theories and their implementations in Earth
 System Models (ESMs). We found no consensus regarding the representation
 of nutrient competition and that observational and theoretical support for
 current implementations are weak. To reconcile this situation, we applied
 the Equilibrium Chemistry Approximation (ECA) theory to plant-microbe
 nitrogen competition in a detailed grassland 15N tracer study and found
 that competition theories in current ESMs fail to capture observed
 patterns and the ECA prediction simplifies the complex nature of nutrient
 competition and quantitatively matches the 15N observations. Since plant
 carbon dynamics are strongly modulated by soil nutrient acquisition, we
 conclude that (1) predicted nutrient limitation effects on terrestrial
 carbon accumulation by existing ESMs may be biased and (2) our ECA-based
 approach may improve predictions by mechanistically representing
 plant-microbe nutrient competition.
description: datareal data + multiple
 models generated data
DOI: 10.5061/dryad.11ss226
title: Data from: Complex problems need detailed solutions: harnessing multiple data types to inform genetic management in the wild

description: For bottlenecked populations of threatened species, supplementation often
 leads to improved population metrics (genetic rescue), provided that
 guidelines can be followed to avoid negative outcomes. In cases where no
 “ideal” source populations exist, or there are other complicating factors
 such as prevailing disease, the benefit of supplementation becomes
 uncertain. Bringing multiple data and analysis types together to plan
 genetic management activities can help. Here, we consider three
 populations of Tasmanian devil Sarcophilus harrisii as candidates for
 genetic rescue. Since 1996, devil populations have been severely impacted
 by devil facial tumour disease (DFTD), causing significant population
 decline and fragmentation. Like many threatened species, the key
 threatening process for devils cannot currently be fully mitigated, so
 species management requires a multifaceted approach. We examined diversity
 of 31 putatively neutral and 11 MHC-linked microsatellite loci of three
 remnant wild devil populations (one sampled at two time-points), alongside
 computational diversity projections, parameterised by field data from
 DFTD-present and DFTD-absent sites. Results showed that populations had
 low diversity, connectivity was poor, and diversity has likely decreased
 over the last decade. Stochastic simulations projected further diversity
 losses. For a given population size, the effects of DFTD on population
 demography (including earlier age at death and increased female
 productivity) did not impact diversity retention, which was largely driven
 by final population size. Population sizes ≥ 500 (depending on the number
 of founders) were necessary for maintaining diversity in otherwise
 unmanaged populations, even if DFTD is present. Models indicated that
 smaller populations could maintain diversity with ongoing immigration.
 Taken together, our results illustrate how multiple analysis types can be
 combined to address complex population genetic challenges.
description: GenotypesMicrosatellite genotypes, as used in the analysis. Columns are population (NNP = Narawntapu National Park), sample ID, followed by locus IDs. Full references are provided in Table S4 of the associated paper. Genotypes are in 3-digit format, with "0" indicating missing data.Grueber et al Evol App Genotypes.csv
DOI: 10.5281/zenodo.18384463
title: NOVAC_BRAND6_3.3F_2_23C_0k_EDLC_single

description: MetSuperCap Project Dataset 3.3F SC sample 2 Novac - EDLC Single - Brand6Part of the Constant Temperature DataBase
DOI: 10.5281/zenodo.18384464
title: NOVAC_BRAND6_3.3F_2_23C_0k_EDLC_single

description: MetSuperCap Project Dataset 3.3F SC sample 2 Novac - EDLC Single - Brand6Part of the Constant Temperature DataBase
DOI: 10.15468/dl.hbrfez
title: Occurrence Download

description: A dataset containing 159 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Dracophyllum sayeri",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 159 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001277-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.574r7
title: Data from: Fitness consequences of larval traits persist across the metamorphic boundary

description: Metamorphosis is thought to provide an adaptive decoupling between traits
 specialised for each life-history stage in species with complex life
 cycles. However, an increasing number of studies are finding that larval
 traits can carry-over to influence post-metamorphic performance,
 suggesting that these life-history stages may not be free to evolve
 independently of each other. We used a phenotypic selection framework to
 compare the relative and interactive effects of larval size, time to
 hatching, and time to settlement on post-metamorphic survival and growth
 in a marine invertebrate, Styela plicata. Time to hatching was the only
 larval trait found to be under directional selection, individuals that
 took more time to hatch into larvae survived better after metamorphosis
 but grew more slowly. Non-linear selection was found to act on
 multivariate trait combinations, once again acting in opposite directions
 for selection acting via survival and growth. Individuals with above
 average values of larval traits were the most likely to survive, but
 surviving individuals with intermediate larval traits grew to the largest
 size. These results demonstrate that larval traits can have multiple,
 complex fitness consequences that persist across the metamorphic boundary;
 and thus post-metamorphic selection pressures may constrain the evolution
 of larval traits.
description: Crean et al_Evolution
 Manuscript 10-0819_data for archiving