cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.gd48h
title: Data from: Stimulation of boreal tree seedling growth by wood-derived charcoal: effects of charcoal properties, seedling species and soil fertility

description: 1. Fire is a major disturbance in many ecosystems worldwide including the
 boreal forest, and significant quantities of charcoal can be input to the
 soil from fire. Some recent studies have provided evidence that
 wood-derived charcoal produced by fire can significantly stimulate plant
 growth. However, the mechanisms by which charcoal affects plant growth are
 poorly understood, and little is known about how charcoal effects on plant
 growth are influenced by charcoal type, soil type and plant species. 2.
 Seedlings from four common boreal tree species, two evergreen gymnosperms
 and two deciduous angiosperms, were grown in each of two soils of
 contrasting nutrient availability amended with charcoal with each of nine
 charcoal types (each produced from wood from a different plant species) in
 a greenhouse experiment. We also measured several functional traits for
 each of the charcoal types, as well as of the wood used to prepare the
 charcoal. 3. Charcoal addition had either positive or neutral effects on
 seedling growth, with great variability among charcoal types. The charcoal
 types that had the strongest positive effect were those that had the
 greatest concentrations of phosphate and total phosphorus, and in some
 cases were derived from woods that had the highest total phosphorus
 concentration. Addition of charcoal on average had a stronger positive
 effect on plant growth on soil with the lowest levels of phosphate and
 total phosphorus. 4. Generally, charcoal derived from angiosperms
 stimulated seedling growth more than charcoal from gymnosperms. Further,
 angiosperm seedlings were on average stimulated more by charcoal addition
 than were gymnosperm seedlings. These results indicate that charcoal
 produced by fire could contribute to the initial dominance of angiosperm
 trees in post-fire succession, and suggests a possible feedback whereby
 charcoal from angiosperm tree species favors growth of angiosperm
 seedlings. 5. This study highlights a new means by which functional trait
 variation among tree species could potentially exert “after-life” effects
 in forested ecosystems through influencing traits (and notably phosphate
 concentrations) of the charcoal that they produce following wildfire, with
 potentially important consequences for plant growth and community and
 ecosystem properties during post-fire succession.
description: FEpluchon_etal.Raw data of results and analyses for the biomass (DW=dry weight (g)), the charcoal (=ch) and wood traits, the correlations and the calcul of porosity.
DOI: 10.5061/dryad.4db01
title: Data from: Invest more and die faster: the life history of a parasite on intensive farms

description: Organisms are expected to respond to alterations in their survival by
 evolutionary changes in their life history traits. As agriculture and
 aquaculture have become increasingly intensive in the past decades, there
 has been growing interest in their evolutionary effects on the life
 histories of agri- and aquacultural pests, parasites and pathogens. In
 this study we used salmon lice (Lepeophtheirus salmonis) to explore how
 modern farming might have affected life history evolution in parasites. We
 infected salmon hosts with lice from either farmed or unfarmed locations,
 and monitored life history traits of those parasites in laboratory
 conditions. Our results show that compared to salmon lice from areas
 unaffected by salmon farming, those from farmed areas produced more eggs
 in their first clutch, and less eggs later on; they achieved higher
 infestation intensities in early adulthood, but suffered higher adult
 mortality. These results suggest that salmon lice on farms may have been
 selected for increased investment in early reproduction, at the expense of
 later fecundity and survival. This calls for further empirical studies of
 the extent to which farming practices may alter the virulence of
 agricultural parasites.
description: Data used for
 fecundityES1to5_noempty.txtData for parasite loadaverage_density_ES1to5.txtData for infection successinfection_success.txtdata for timing of reproductiontiming_ES1to5.txt
DOI: 10.5061/dryad.q7c00
title: Data from: Thermal tolerance in the keystone species Daphnia magna –a candidate gene and an outlier analysis approach

description: Changes in temperature have occurred throughout Earth’s history. However,
 current warming trends exacerbated by human activities impose severe and
 rapid loss of biodiversity. Although understanding the mechanisms
 orchestrating organismal response to climate change is important,
 remarkably few studies document their role in nature. This is because only
 few systems enable the combined analysis of genetic and plastic responses
 to environmental change over long time-spans. Here, we characterize
 genetic and plastic responses to temperature increase in the aquatic
 keystone grazer Daphnia magna combining a candidate gene and an outlier
 analysis approach. We capitalize on the short generation time of our
 species, facilitating experimental evolution, and the production of
 dormant eggs enabling the analysis of long term response to environmental
 change through a resurrection ecology approach. We quantify plasticity in
 the expression of 35 candidate genes in D. magna populations resurrected
 from a lake that experienced changes in average temperature over the past
 century and from experimental populations differing in thermal tolerance
 isolated from a selection experiment. By measuring expression in multiple
 genotypes from each of these populations in control and heat treatments we
 assess plastic responses to extreme temperature events. By measuring
 evolutionary changes in gene expression between warm and cold adapted
 populations we assess evolutionary response to temperature changes.
 Evolutionary response to temperature increase is also assessed via an
 outlier analysis using EST-linked microsatellite loci. This study provides
 the first insights into the role of plasticity and genetic adaptation in
 orchestrating adaptive responses to environmental change in D. magna.
description: Jansen_etal_micros_genotyping_mesocosmMicrosatellite genotyping results of the samples from the mesocosm populations exposed for two-years to ambient or ambient +4C. Individual ID, location and coordinates are shown. The experimental treatment to which the mesocosms were exposed (ambient and ambient+4C) is also shown. -9 indicates missing dataJansen_etal_genotyping_mesocosm_dryad.xlsxJansen_etal_genotyping_core_dryadMicrosatellite genotyping results of the samples from the sediment core populations. Individual ID, location and coordinates are shown. The age of the population as identified by dating the sediment (1955-1965; 1999-2005) are also shown. The time period 1955-1965 corresponds to the ‘old’ population and the time period 1999-2005 corresponds to ‘young’ population in the main text of the manuscript. -9 indicates missing data
DOI: 10.5061/dryad.p4q26
title: Data from: The influence of herbivory and weather on the vital rates of two closely related cactus species

description: Herbivory has long been recognized as a significant driver of plant
 population dynamics, yet its effects along environmental gradients are
 unclear. Understanding how weather modulates plant–insect interactions can
 be particularly important for predicting the consequences of exotic insect
 invasions, and an explicit consideration of weather may help explain why
 the impact can vary greatly across space and time. We surveyed two native
 prickly pear cactus species (genus Opuntia) in the Florida panhandle, USA,
 and their specialist insect herbivores (the invasive South American cactus
 moth, Cactoblastis cactorum, and three native insect species) for five
 years across six sites. We used generalized linear mixed models to assess
 the impact of herbivory and weather on plant relative growth rate (RGR)
 and sexual reproduction, and we used Fisher's exact test to estimate
 the impact of herbivory on survival. Weather variables (precipitation and
 temperature) were consistently significant predictors of vital rate
 variation for both cactus species, in contrast to the limited and varied
 impacts of insect herbivory. Weather only significantly influenced the
 impact of herbivory on Opuntia humifusa fruit production. The
 relationships of RGR and fruit production with precipitation suggest that
 precipitation serves as a cue in determining the trade-off in the
 allocation of resources to growth or fruit production. The presence of the
 native bug explained vital rate variation for both cactus species, whereas
 the invasive moth explained variation only for O. stricta. Despite the
 inconsistent effect of herbivory across vital rates and cactus species,
 almost half of O. stricta plants declined in size, and the invasive insect
 negatively affected RGR and fruit production. Given that fruit production
 was strongly size-dependent, this suggests that O. stricta populations at
 the locations surveyed are transitioning to a size distribution of
 predominantly smaller sizes and with reduced sexual reproduction
 potential.
description: Florida Panhandle Cactus
 Survey DataSurvey data of cactus
 plants located in the Florida Panhandle. Each row describes a unique
 survey of a plant, and provides the date and location of the survey,
 information about the plant's size, number of fruit observed, the
 presence/absence of insects, and whether the plant was observed to be
 alive or dead.Sauby_et_al_Ecol_Evol_Florida_Panhandle_Surveys.csvFlorida Panhandle Location DataInformation about the six locations in the Florida Panhandle at which cactus plants were surveyed. Information provided include the abbreviations of the locations (which corresponds to the "Location" column in the Florida Panhandle Cactus Survey Data) as well as each location's latitude and longitude.Sauby_et_al_Ecol_Evol_Florida_Panhandle_Locations.csvMetadata for the Florida Panhandle Cactus Survey DataMetadata defining column names in the Florida Panhandle Cactus Survey Data.Sauby_et_al_Ecol_Evol_Florida_Panhandle_Metadata.csv
DOI: 10.5061/dryad.72vq2
title: Data from: Cladistic analysis of the Paleozoic bryozoan family Monticuliporidae and Mesotrypidae

description: A set of 127 binary and multistate characters, weighted by the number of
 derived character states, degree of covariation, and level of homoplasy,
 was used in a cladistic analysis of type species representing12 genera
 previously assigned to families Monticuliporidae and Mesotrypidae. The
 most parsimonious tree consisted of a 10-genus monophyletic crown group
 with the remaining two genera forming a basal paraphyletic stem group. The
 composition of the monticuliporid crown group is broadly similar to two
 earlier classifications (Astrova 1978; Marintsch 1998) while stem group
 membership matches that of Astrova's (1965, 1978) family
 Mesotrypidae. Phenetic groupings, based on overall morphological
 similarity, have memberships that are similar to those of clades but
 provide no means of determining the polarity of evolutionary relationships
 either within or between them. Finally, only the observed stratigraphic
 ranges of the type species of genera provide a statistically significant
 match with cladistic branching sequence, perhaps because current composite
 generic ranges reflect the mixing of species belonging to different
 genera. Based on cladogram topology, we propose the placement of all 12
 genera into a single family Monticuliporidae.
description: APPENDIX
 1The
 127 coded characters used in cladistic analyses of genera assigned to
 families Monticuliporidae and Mesotrypidae. These characters were
 cladistically informative (i.e., were synapomorphic) having states shared
 by in-group genera. This is a partial listing of 267 characters developed
 from the following sources (R. L. Anstey, personal communication): Anstey
 (1978), Anstey (1990), Anstey and Pachut 1995 (Appendices A and B), Anstey
 and Perry (1970, 1973), Blake and Snyder (1987), Corneliussen and Perry
 (1973), Cuffey and Blake (1991), Hageman (1991), Hickey (1988), Key
 (1990), McKinney (1977, 2000), Pachut and Anstey (1984), Pachut, Anstey,
 and Horowitz (1994), Prezbindowski and Anstey (1978), Spearing (1998),
 Tang and Cuffey (1998), and Taylor and Weedon (2000). Characters that
 could not be evaluated within a genus were coded using a question
 mark.APPENDIX
 2Character states for 127
 morphologic characters used in cladistics analysis. Characters, and
 character states, are defined in Appendix 1. Question marks reflect
 uncertain character state codes. The genus Goryunovia was utilized as an
 outgroup.APPENDIX
 3Apomorphy listing, by
 cladogram node, for the heuristic analysis that was reweighted by maximum
 value of the rescaled consistency index (RC). RC ranges between 0.0 and
 1.0 and is a (directly) proportional measure of a character’s fit to a
 tree. Triangles (►) indicate changes occurring in every possible tree
 reconstruction, whereas arrows (→) indicate changes in this reweighted
 analysis, and possibly in others, but not in all
 analyses.
DOI: 10.5061/dryad.7n89v8r
title: Data from: Legacy effects of herbivory enhance performance and resistance of progeny plants

description: 1. Herbivory-induced changes in plant resistance and tolerance traits can
 mediate the interaction between spatially and temporally separated above-
 and belowground herbivores. However, it is unknown how long the impact of
 transient herbivory events last or if legacy effects can be detected
 systemically in the plant and across plant generations. 2. Here, we
 studied the impact of transient aboveground herbivory by the specialist
 caterpillar Manduca sexta on the plant traits of wild tobacco Nicotiana
 attenuata and the consequences for belowground root-knot nematodes
 Meloidogyne incognita in short-term, long-term, and transgenerational
 experiments. 3. In the short- and long-term experiments, above- and
 belowground herbivory had significant, albeit independent, impacts on key
 plant traits such as plant biomass, nutrient content, and secondary
 metabolites. In addition, herbivory influenced fitness parameters such as
 seed yield and quality. In the long-term and transgenerational
 experiments, transient aboveground herbivory had facilitating effects on
 nematodes, irrespective of any treatments of the parental plants. We found
 evidence for transgenerational legacy effects of both above- and
 belowground herbivory on the resistance of progeny plants against
 aboveground herbivores. Additionally, belowground herbivory in the
 parental generation increased the root biomass of progeny plants. 4.
 Synthesis. Our results suggest that herbivory may have a long-term impact
 on plant fitness by improving the performance of progeny plants challenged
 by above- and belowground herbivory.
description: Caterpillar_PerformancePerformance of the Manduca sexta larvae (in terms of mass gain) in the transgenerational experiment.CN_Plant_TissueLeaf and root carbon (C) and nitrogen (N) concentration (percentage) in short- and long-term experiment.Nematode_GallsThe number of nematode galls and egg masses in the root tissue of the plant.NicotineNicotine content in the leaf and root tissue of the plant.Plant_BiomassShoot and root biomass of the plant.Seed quality and quantitySeed quality and quantity (Number of capsules, number of seeds per capsule, total seed yield, individual seed mass, seed C/N ratio).Seed_Characterstics.xlsx
DOI: 10.5061/dryad.j079s
title: Data from: Cast adrift on an island: introduced populations experience an altered balance between selection and drift

description: A long-standing question in evolutionary biology is what becomes of
 adaptive traits when a species expands its range into novel environments.
 Here we report the results of a study on an adaptive colour pattern
 polymorphism (stripes) of the coqui frog following its introduction to
 Hawaii from Puerto Rico. We compared population differentiation (φ'ST
 and FST) for the stripes locus —which underlies this colour pattern
 polymorphism— with neutral microsatellite loci to test for a signature of
 selection among native and introduced populations. Among native
 populations, φ'ST and FST for stripes were lower than expected under
 the neutral model, suggesting uniform balancing selection. Alternatively,
 among introduced populations, φ'ST and FST for stripes did not differ
 from the neutral model. These results suggest that the evolutionary
 dynamics of this previously adaptive trait have become dominated by random
 genetic drift following the range expansion.
description: Hawaii stripes and
 microsatellitesFile formatted for
 Genodive including the genotypic data for all samples from
 Hawaii.HI
 CP+MsatsPuerto Rico stripes and
 microsatellitesFile formatted for
 Genodive including the genotypic data for all samples from Puerto
 Rico.PR
 CP+Msats.txt
DOI: 10.57760/sciencedb.35943
title: The diffuse attenuation coefficient in the southeastern coast of Vietnam
title: The diffuse attenuation coefficient in the southeastern coast of Vietnam

description: The datasets includes the diffuse attenuation coefficient and in the southeastern Vietnamese coast spanning 2000-2024.
description: The datasets includes the diffuse attenuation coefficient and in the southeastern Vietnamese coast spanning 2000-2024.
DOI: 10.15468/dl.tk2zjn
title: Occurrence Download

description: A dataset containing 218 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Globodera rostochiensis"
 ]
}

 The dataset includes 218 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000851-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.81840
title: Data from: Can facilitation influence the spatial genetics of the beneficiary plant population?

description: Plant facilitation is a positive interaction where a nurse or nurse plant
 community alters the local conditions, improving the life-time fitness of
 other beneficiary plants. In stressful environments, a common consequence
 is the formation of discrete vegetation patches under nurse plants,
 surrounded by open space. The consequences of such spatial patterns have
 been studied mostly at the community level. At the population level,
 facilitation causes a distribution of beneficiary individuals that could
 have intra-specific genetic consequences. The spatial patchiness and the
 increase in local aggregation can potentially affect the population
 fine-scale genetic structure. In addition, marked microenvironmental
 differences under nurses versus outside could lead to plastic phenotypic
 variation between facilitated and non-facilitated individuals, as for
 example reproductive asynchrony, potentially producing assortative mating.
 This study tests the hypothesis that plant facilitation can have genetic
 consequences for the population of a beneficiary plant (Euphorbia
 nicaeensis) by affecting its spatial genetic structure and mating patterns
 between subpopulations of facilitated and non-facilitated individuals.
 Facilitation in this system creates an aggregated distribution of
 beneficiary individuals compared to a minority of non-facilitated
 individuals that grow on the open ground. Facilitation also leads to
 slight phenological differences mediated by strong microenvironmental
 differences created by nurses compared to the open ground. Yet a molecular
 analysis showed that, although there is fine scale spatial genetic
 structure in this system, there is no evidence that it is caused by
 facilitation. Numerical simulations further showed that spatial genetic
 patterns in the population are little influenced by the phenological
 mismatch observed in the field. Synthesis. Facilitation leads to the
 strong spatial aggregation of beneficiary plants and desynchronizes their
 flowering phenology, but the magnitude of these effects is not enough to
 have local genetic consequences in our study system. Facilitation seems
 thus to have a homogenizing role by allowing the persistence of a diverse
 gene pool in populations in harsh environments, rather than fomenting
 genetic differentiation. Further information on other systems where
 facilitation produces stronger spatial or phenological effects on
 facilitated plants is needed to fill the large knowledge gap we have on
 the genetic effects of facilitation.
description: Euphorbia nicaeensis
 AFLP data matrixAFLP genotypes for E.
 nicaeensis individuals in 40 plots. "Open" refers to plots of
 non-facilitated individuals, while "Facilit" refers to plots of
 individuals growing under Juniperus sabina shrubs. Rows correspond to
 individual plants, while columns are the 112 loci genotyped. This is a
 tab-delimited text file.Euphorbia.nicaeensis.AFLP.data.txt
DOI: 10.5061/dryad.42413173
title: Data from: Comparative population genetic analysis of bocaccio rockfish Sebastes paucispinis using anonymous and gene-associated simple sequence repeat loci

description: Comparative population genetic analyses of traditional and emergent
 molecular markers aid in determining appropriate use of new technologies.
 The bocaccio rockfish Sebastes paucispinis is a high-gene-flow marine
 species off the west coast of North America that experienced strong
 population decline over the past three decades. We used 18 anonymous and
 13 gene associated simple sequence repeat loci (EST-SSRs) to characterize
 range-wide population structure with temporal replicates. No FST-outliers
 were detected using the LOSITAN program, suggesting that neither balancing
 nor divergent selection affected the loci surveyed. Consistent
 hierarchical structuring of populations by geography or year class was not
 detected regardless of marker class. The EST-SSRs were less variable than
 the anonymous SSRs, but no correlation between FST and variation or marker
 class was observed. General Linear Model analysis showed that low EST-SSR
 variation was attributable to low mean repeat number. Comparative genomic
 analysis with Gasterosteus aculeatus, Takifugu rubripes, and Oryzias
 latipes showed consistently lower repeat number in EST-SSRs than SSR loci
 that were not in ESTs. Purifying selection likely imposed functional
 constraints on EST-SSRs resulting in low repeat numbers that affected
 diversity estimates, but did not affect the observed pattern of population
 structure.
description: all052411Main GENEPOP data file with all 31 loci included. Population and locus names follow the manuscript.allinRptsGENEPOP data file for 27 loci with alleles recoded into repeat units. Population and locus names follow the manuscript.