cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.3s96n
title: Data from: Multi-scale drivers of community diversity and composition across tidal heights: an example on temperate seaweed communities

description: 1. Despite recent advances in understanding community assembly processes,
 appreciating how these processes vary across multiple spatial scales and
 environmental gradients remains a crucial issue in ecology. 2. This study
 aimed to disentangle the drivers of diversity and composition of seaweed
 communities through a gradient of spatial scales based on a hierarchical
 sampling design consisting of 19 sites distributed in four sectors along
 the Brittany coastline. Using randomised community matrices and Moran’s
 eigenvector maps (MEMs), we compared i) the relative importance of
 deterministic and stochastic processes, ii) the environmental correlates
 of community composition and iii) the scale of variation in community
 composition for seaweed communities located at two different tidal
 heights. 3. Processes shaping community patterns are expected to vary
 along a gradient of tidal heights. Therefore, we specifically examined the
 following hypotheses: the contribution of deterministic over stochastic
 processes as well as the relative importance of environmental filtering
 over biotic interactions should be enhanced for seaweed communities of the
 infralittoral fringe compared to subtidal ones, whereas dispersal of
 propagules in the water column should be more restricted resulting in
 finer-scale variation in community composition for seaweed communities of
 the infralittoral fringe compared to subtidal communities. 4. Seaweed
 communities were largely shaped by deterministic processes, although the
 relative importance of deterministic processes was greater for communities
 of the infralittoral fringe than for subtidal communities. Sea surface
 temperature and geophysical variables were correlates of community
 composition at the two tidal heights; additionally, waves and current were
 correlated with the composition of the communities of the infralittoral
 fringe while kelp density was correlated with the composition of subtidal
 communities. Variation in community composition was observed at a finer
 scale for infralittoral fringe than for subtidal communities. Synthesis.
 Our results suggest that the relative importance of deterministic and
 stochastic processes in structuring seaweed communities varies across
 tidal heights. Furthermore, the MEMs framework highlights that the nature
 of environmental correlates and the spatial scale at which they were good
 correlates of community composition also vary across tidal heights and may
 therefore be useful to broaden our understanding of community assembly
 across vertical gradients.
description: dryad-Robuchon-et-al-JEcolTaxonomic and geographic information on seaweed specimens collected for the study
DOI: 10.5061/dryad.5ps117g
title: Data from: The potential role of temperate Japanese regions as refugia for the coral Acropora hyacinthus in the face of climate change

description: As corals in tropical regions are threatened by increasing water
 temperatures, poleward range expansion of reef-building corals has been
 observed, and temperate regions are expected to serve as refugia in the
 face of climate change. To elucidate the important indicators of the
 sustainability of coral populations, we examined the genetic diversity and
 connectivity of the common reef-building coral Acropora hyacinthus along
 the Kuroshio Current, including recently expanded (&lt;50 years)
 populations. Among the three cryptic lineages found, only one was
 distributed in temperate regions, which could indicate the presence of
 Kuroshio-associated larval dispersal barriers between temperate and
 subtropical regions, as shown by oceanographic simulations as well as
 differences in environmental factors. The level of genetic diversity
 gradually decreased towards the edge of the species distribution. This
 study provides an example of the reduced genetic diversity in recently
 expanded marginal populations, thus indicating the possible vulnerability
 of these populations to environmental changes. This finding underpins the
 importance of assessing the genetic diversity of newly colonized
 populations associated with climate change for conservation purposes. In
 addition, this study highlights the importance of pre-existing temperate
 regions as coral refugia, which has been rather underappreciated in local
 coastal management.
description: AHyaFinalDataAHyaFinalData includes four datasets used in Nakabayashi et al in the different tabs.
DOI: 10.5061/dryad.h10jd
title: Data from: Better-surviving barn swallow mothers produce more and better-surviving sons

description: Sex allocation theory predicts that parents are selected to bias their
 progeny sex ratio (SR) towards the sex that will benefit the most from
 parental quality. Because parental quality may differentially affect
 survival of sons and daughters, a pivotal test of the adaptive value of SR
 adjustment is whether parents overproduce offspring of the sex that accrue
 larger fitness advantages from high parental quality. However, this
 crucial test of the long-term fitness consequences of sex allocation
 decisions has seldom been performed. In this study of the barn swallow
 (Hirundo rustica), we showed a positive correlation between the proportion
 of sons and maternal annual survival. We then experimentally demonstrated
 that this association did not depend on the differential costs of rearing
 offspring of either sex. Finally, we showed that maternal lifespan
 positively predicted lifespan of sons but not of daughters. Because in
 barn swallows lifespan is a strong determinant of lifetime reproductive
 success, the results suggest that mothers overproduce offspring of the sex
 that benefits the most from maternal quality. Hence, irrespective of
 mechanisms causing the SR bias and mother-son covariation in lifespan, we
 provide strong evidence that sex allocation decisions of mothers can
 highly impact on their lifetime fitness.
description: Sex allocation and
 maternal survivalRomano et al. 2016 Evolution -
 better surviving females produce more and better surviving
 sons.xls
DOI: 10.5061/dryad.p3720
title: Data from: Direct transfer of learned behaviour via cell fusion in non-neural organisms

description: Cell fusion is a fundamental phenomenon observed in all eukaryotes. Cells
 can exchange resources such as molecules or organelles during fusion. In
 this paper, we ask whether a cell can also transfer an adaptive response
 to a fusion partner. We addressed this question in the unicellular slime
 mould Physarum polycephalum, in which cell–cell fusion is extremely
 common. Slime moulds are capable of habituation, a simple form of
 learning, when repeatedly exposed to an innocuous repellent, despite
 lacking neurons and comprising only a single cell. In this paper, we
 present a set of experiments demonstrating that slime moulds habituated to
 a repellent can transfer this adaptive response by cell fusion to
 individuals that have never encountered the repellent. In addition, we
 show that a slime mould resulting from the fusion of a minority of
 habituated slime moulds and a majority of unhabituated ones still shows an
 adaptive response to the repellent. Finally, we further reveal that fusion
 must last a certain time to ensure an effective transfer of the
 behavioural adaptation between slime moulds. Our results provide strong
 experimental evidence that slime moulds exhibit transfer of learned
 behaviour during cell fusion and raise the possibility that similar
 phenomena may occur in other cell–cell fusion systems.
description: HabituationHabituation experiment dataTransferTransfer of learned behaviour dataFusionFusion experiment data
DOI: 10.15468/dl.hvdhwg
title: Occurrence Download

description: A dataset containing 126103364 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "DatasetKey is EOD – eBird Observation Dataset",
 "OccurrenceStatus is Present",
 "PublishingOrg is e2e717bf-551a-4917-bdc9-4fa0f342c530",
 "Year is 2023"
 ]
}

 The dataset includes 126103364 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000769-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.8942f
title: Data from: Population structure and dispersal of the coral excavating sponge Cliona delitrix

description: Some excavating sponges of the genus Cliona compete with live reef corals,
 often killing and bioeroding entire colonies. Important aspects affecting
 distribution of these species, such as dispersal capability and population
 structure, remain largely unknown. Thus, the aim of this study was to
 determine levels of genetic connectivity and dispersal of Cliona delitrix
 across the Greater Caribbean (Caribbean Sea, Bahamas and Florida), to
 understand current patterns and possible future trends in their
 distribution and effects on coral reefs. Using ten species-specific
 microsatellite markers, we found high levels of genetic differentiation
 between six genetically distinct populations: one in the Atlantic
 (Florida-Bahamas), one specific to Florida and four in the South Caribbean
 Sea. In Florida, two independent breeding populations are likely separated
 by depth. Gene flow and ecological dispersal occur among other populations
 in the Florida reef tract, and between some Florida locations and the
 Bahamas. Similarly, gene flow occurs between populations in the South
 Caribbean Sea, but appears restricted between the Caribbean Sea and the
 Atlantic (Florida-Bahamas). Dispersal of C. delitrix was farther than
 expected for a marine sponge and favoured in areas where currents are
 strong enough to transport sponge eggs or larvae over longer distances.
 Our results support the influence of ocean current patterns on genetic
 connectivity, and constitute a baseline to monitor future C. delitrix
 trends under climate change.
description: Cliona microsatellite
 file435 individual Cliona
 are genotyped at 10 species-specific microsatellite loci. Location site of
 each individual is also included in the file.Information Cliona for
 DRYADb.xlsx
DOI: 10.5061/dryad.8b5g6
title: Data from: Maternal effects and Symbiodinium community composition drive differential patterns in juvenile survival in the coral Acropora tenuis

description: Coral endosymbionts in the dinoflagellate genus Symbiodinium are known to
 impact host physiology and have led to the evolution of reef-building, but
 less is known about how symbiotic communities in early life-history stages
 and their interactions with host parental identity shape the structure of
 coral communities on reefs. Differentiating the roles of environmental and
 biological factors driving variation in population demographic processes,
 particularly larval settlement, early juvenile survival and the onset of
 symbiosis is key to understanding how coral communities are structured and
 to predicting how they are likely to respond to climate change. We show
 that maternal effects (that here include genetic and/or effects related to
 the maternal environment) can explain nearly 24% of variation in larval
 settlement success and 5–17% of variation in juvenile survival in an
 experimental study of the reef-building scleractinian coral, Acropora
 tenuis. After 25 days on the reef, Symbiodinium communities associated
 with juvenile corals differed significantly between high mortality and low
 mortality families based on estimates of taxonomic richness, composition
 and relative abundance of taxa. Our results highlight that maternal and
 familial effects significantly explain variation in juvenile survival and
 symbiont communities in a broadcast-spawning coral, with Symbiodinium type
 A3 possibly a critical symbiotic partner during this early life stage.
description: Competency_RscriptStatistical analysisBestworst_rawreadsbestwortstsurv_metadata_Competencybestwortstsurv_norm_geom1_shiftlog_Competencybestwortstsurv_taxonomy_Competencyfoldchanges_Competencylarvalweight_CompetencyMortality_CompetencySettlement_CompetencyWeight_surv_corr_Competency
DOI: 10.5061/dryad.dn175
title: Data from: Genetic differentiation in spite of high gene flow in the dominant rainforest tree of southeastern Australia, Nothofagus cunninghamii

description: Nothofagus cunninghamii is a long-lived, wind-pollinated tree species that
 dominates the cool temperate rainforests of southeastern Australia. The
 species’ distribution is more or less continuous in western Tasmania but
 is fragmented elsewhere. However, it is unknown whether this fragmentation
 has affected the species’ genetic architecture. Thus, we examined N.
 cunninghamii using 12 nuclear microsatellites and 633 individuals from 18
 populations spanning the species’ natural range. Typical of
 wind-pollinated trees, there was low range-wide genetic structure
 (FST=0.04) consistent with significant gene flow across most of the
 species’ range. However, gene flow was not high enough to overcome the
 effects of drift across some disjunctions. Victorian populations
 (separated from Tasmania by the 240 km wide Bass Strait) formed a genetic
 group distinct from Tasmanian populations, had lower diversity (mean
 allelic richness (Ar)=5.4 in Victoria versus 6.9 in Tasmania) and were
 significantly more differentiated from one another than those in Tasmania
 (FST=0.045 in Victoria versus 0.012 in Tasmania). Evidence for
 bottlenecking was found in small populations that were at least 20 km from
 other populations. Interestingly, we found little divergence in
 microsatellite markers between the extremes of genetically based
 morphological and physiological altitudinal clines suggesting adaptive
 differentiation is strongly driven by selection because it is likely to be
 occurring in the presence of gene flow. Even though the cool temperate
 rainforests of Australia are highly relictual, the species is relatively
 robust to population fragmentation due to high levels of genetic diversity
 and gene flow, especially in Tasmania.
description: Genepop file for
 microsat data populations of Nothofagus cunninghamiiThis is a genepop data
 input file for microsatellite data for populations of Nothofagus
 cunninghamii. Details of locations of the populations are given in Table 2
 of the paper, and also in the attached csv file called "subpopulation
 locations.csv".NothoPops.genGenepop file for microsat data for Nothofagus cunninghamii subpopulationsThis is a genepop data input file for microsatellite data for subpopulations of Nothofagus cunninghamii. Details of locations of the subpopulations are given in the attached csv file called "subpopulation locations.csv".NothoSubPops.gensubpopulation locationslist of locations of subpopulations and populations
DOI: 10.5061/dryad.55p11md
title: Data from: How does avian seed dispersal shape the structure of early successional tropical forests?

description: 1. Frugivores shape plant communities via seed dispersal of fleshy-fruited
 plant species. However, the structural characteristics that frugivores
 impart to plant communities are little understood. Evaluating how
 frugivores structure plant communities via the non-proportional use of
 available fruit resources is critical to understand the functioning of
 ecosystems where fleshy-fruited plant species are dominant, such as
 tropical forests. 2. We performed a seed-addition field experiment to
 investigate how frugivorous birds shape the composition and richness of
 forests during early stages of secondary succession in cleared areas in
 Puerto Rico. The experiment tested whether the bird-generated seed rain
 and the subsequent early successional plant communities were proportional
 representations of the fleshy-fruited species that dominated the
 surrounding community. Experimental treatments consisted of patches with
 1) seed-additions by wild birds attracted to experimental patches with
 pole perches, 2) manual seed-additions proportional to fruit abundance at
 the local scale (≤ 50 m from experimental plots), and 3) manual
 seed-additions proportional to fruit abundance at the landscape scale
 (entire study site). 3. Birds’ seed-additions differed in composition and
 abundance to expectations based on fruit availability at local and
 landscape scales. Treatments with seeds added by birds had the highest
 species richness in both the seed rain and the emergence stages despite
 how, on average, the monthly richness in the landscape-scale treatment was
 double that of birds and the local-scale treatment. This phenomenon was
 explained by the highest heterogeneity from the bird seed-addition
 treatment across months, and the lowest seed per-capita emergence rates in
 landscape treatments. Rather than reflecting relative fruit abundance,
 birds biased seed rain and per-capita emergence towards a non-random
 mixture of both small- and large-seeded species, resulting in richer and
 distinct plant communities. 4. Because frugivory and seed dispersal
 patterns depart from random encounters between frugivores and plants in
 communities, successional forests are characterized by an
 over-representation of proportionally rare plant species, and decreases in
 the dominance of many common species. Thus, for regenerating tropical
 forests, frugivory can function as mechanism that promotes persistence of
 rare plant species and their coexistence with more abundant plants.
description: Data set for Figure
 2BData set for Figure
 3Data set for Figure 4
 (ordination NMDS)Data set for Figure
 5Data set for Figure S3
 (number of seeds added at each treatment)Data set for GLM shown
 in Table 1Data_Figure_S2_Rarefaction_curve_globalData_Figure_S2_Rarefaction_curve_local
DOI: 10.5061/dryad.pv6jf
title: Data from: Beauty is more than skin deep: a non-invasive protocol for in vivo anatomical study using micro-CT

description: Microcomputed tomography (μCT) is a widely used tool in biomedical
 research, employed to investigate tissues and bone structures of small
 mammals in vivo. The application of in vivo μCT scanning in non-medical
 studies greatly lags behind the rapid advancements made in the biomedical
 field wherein the methodology has evolved to allow for longitudinal
 studies and eliminate the need to sacrifice the animal. Ecological and
 evolutionary studies often involve morphological measurements of a large
 sample of live animals; however, the potential of in vivo μCT imaging as a
 method for data acquisition has yet to be delineated. Here, we describe a
 protocol for in vivo μCT imaging of the internal anatomy of reptiles and
 amphibians, commonly used study organisms in ecological and evolutionary
 research. We consider the skeletal and extraskeletal (i.e. osteoderms)
 bones of a lizard as a case study to elucidate the potential of in vivo
 μCT imaging. First, we explore the effects of various parameter settings
 on radiation dose, scan time and image quality. Secondly, we develop a
 protocol to immobilize and restrain study organisms during scanning
 without need for the administration of anaesthetics and compare the
 results of the in vivo protocol to images obtained post-mortem. To
 immobilize animals, we replace the use of anaesthetics by cooling, thereby
 allowing the use of previously unsuitable rotating gantry μCT scanners
 that are readily available in scientific institutions. The resultant image
 quality of in vivo μCT scans is similar to that of post-mortem μCT scans,
 especially in the abdominal region. We discuss the effect of tube voltage,
 distance to X-ray source and metal filtration on radiation dose, and how
 these parameters could be altered to reduce the cumulative radiation dose
 while maintaining optimal image quality. The proposed in vivo μCT protocol
 offers a new approach to acquire anatomical information for non-biomedical
 studies. We offer specific suggestions as to how the protocol can be
 employed to suit a variety of model organisms.
description: Data used for
 signal-to-noise calculations.Mean pixel intensity and
 standard deviations of ROIs used for signal-to-noise
 calculations.MEE_Data for
 Dryad.xlsx
DOI: 10.5061/dryad.hn02g
title: Data from: New pantolestids (Mammalia; Eutheria) from the late Paleocene (late middle Tiffanian) Roche Percée local fauna, southeastern Saskatchewan, Canada

description: The Pantolestidae are an extinct family of mammals known principally from
 the early Paleocene to late Oligocene (from approximately 64 to 30 million
 years ago) of North America and Europe. Although never particularly
 abundant, pantolestids are relatively well represented in the Eocene and
 Oligocene, with several taxa known from exceptionally well-preserved
 skulls and postcranial material. The early evolutionary history of the
 group, however, similar to that of many contemporaneous mammals, remains
 comparatively poorly known. The current study reports on several
 previously undescribed pantolestids from the early late Paleocene (late
 middle Tiffanian, Ti4) Roche Percée local fauna, Ravenscrag Formation, of
 southeastern Saskatchewan, Canada. Aatotomus placochton n. gen. n. sp.
 resembles the enigmatic pantolestid Paleotomus in having sectorial
 premolars with well-developed crests and tall, sharp molar trigonids, but
 differs principally in possessing narrow molar talonids. Besseocetor
 krausei n. sp. shares numerous similarities with B. thomsoni and B.
 septentrionalis but differs in being considerably smaller and less robust.
 Palaeosinopa reclusum n. sp., the oldest species of Palaeosinopa yet
 discovered, reveals a unique combination of primitive and derived
 pantolestid features, and supports previous suggestions of a close
 evolutionary relationship between Palaeosinopa and Bessoecetor. The new
 taxa document an unusually high diversity of pantolestids in the Tiffanian
 of western Canada and provide important new knowledge to the evolutionary
 history of this group during the Paleocene.
description: Supplemental Data Table
 1Detailed locality
 information of the pantolestid (Eutheria; Mammalia) specimens from the
 late middle Tiffanian (Ti4) Roche Percée local fauna, Ravenscrag
 Formation, Saskatchewan.Rankin_Tiffanian
 Pantolestids_Suppl Table 1.xlsxSupplemental Data Table
 2Detailed locality
 information of the pantolestid (Eutheria; Mammalia) specimens from the
 late middle Tiffanian (Ti4) Roche Percée local fauna, Ravenscrag
 Formation, Saskatchewan.Rankin_Tiffanian
 Pantolestids_Suppl Table 2.xlsxSupplemental Data Table
 3Measurements of the
 upper dentition of newly described pantolestids (Eutheria; Mammalia) from
 the late middle Tiffanian (Ti4) Roche Percée local fauna, Ravenscrag
 Formation, Saskatchewan. A solid line indicates that the measurement could
 not be determined.Rankin_Tiffanian
 Pantolestids_Suppl Table 3.xlsx