cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.3v4hn
title: Data from: Investigating yellow dung fly body size evolution in the field: response to climate change?

description: Uncovering genetic responses to selection in wild populations typically
 requires tracking individuals over generations and use of animal models.
 Our group monitored the body size of one Swiss Yellow Dung Fly
 (Scathophaga stercoraria; Diptera: Scathophagidae) field population over
 15 years, including intermittent common garden rearing in the laboratory
 to assess body size with minimized environmental and maximized genetic
 variation. Contrary to expectations based on repeated heritability and
 phenotypic selection assessments over the years (reported elsewhere),
 field body sizes declined by &gt;10% and common-garden laboratory
 sizes by &gt;5% from 1993 – 2009. Our results confirm the
 temperature-size rule (smaller when warmer) and, albeit entirely
 correlational, could be mediated by climate change, as over this period
 mean temperature at the site increased by 0.5°C, although alternative
 systematic environmental changes cannot be entirely excluded. Monitoring
 genetic responses to selection in wild invertebrate populations is thus
 possible, though indirect, and wild populations may evolve in directions
 not consistent with strongly positive directional selection favoring large
 body size.
description: FehraltorfStercorariaFieldSizesAll1993-2009-DRYADThese are the raw (individual) hind tibia lengths for females and males in Fehraltorf, Switzerland, over ca. 20 years.FehraltorfFieldSterSizesAll-DRYAD.xlsxFehraltorfFieldMeanSizesAppendixTableS1-DRYADThese are the analyzed field size MEANS stemming from Fehraltorf, Switzerland, 1993-2009FehratorfLabCGMeanSizesAppendixTableS2-DRYADThese are the MEAN laboratory sizes analyzed for the Fehraltorf population between 1993 and 2009. Some of these means were taken from the papers, for others the raw data are available from the author.
DOI: 10.5281/zenodo.18331053
title: Attenuation rate products supporting Dawson et al. 2026 Journal of Glaciology

description: This archive contains data products supporting the manuscript:

Dawson, E. J., W. Chu, M. Christoffersen, D. Yang, S. Farris, and J. MacGregor (2026). *Ice sheet attenuation from radar sounding in the frequency domain*. Journal of Glaciology.

The dataset includes attenuation rate estimates derived from airborne radar sounding data and borehole data used to generate manuscript figures.

See README.md in the file list for details on file contents and usage.

If you use these data products, please cite both the manuscript and this Zenodo archive using its DOI.
DOI: 10.5281/zenodo.18331054
title: Attenuation rate products supporting Dawson et al. 2026 Journal of Glaciology

description: This archive contains data products supporting the manuscript:

Dawson, E. J., W. Chu, M. Christoffersen, D. Yang, S. Farris, and J. MacGregor (2026). *Ice sheet attenuation from radar sounding in the frequency domain*. Journal of Glaciology.

The dataset includes attenuation rate estimates derived from airborne radar sounding data and borehole data used to generate manuscript figures.

See README.md in the file list for details on file contents and usage.

If you use these data products, please cite both the manuscript and this Zenodo archive using its DOI.
DOI: 10.5061/dryad.v7g08
title: Data from: Convergent shifts in host-associated microbial communities across environmentally elicited phenotypes

description: Morphological plasticity is a genotype-by-environment interaction that
 enables organisms to increase fitness across varying environments.
 Symbioses with diverse microbiota may aid in acclimating to this
 variation, but whether the associated bacteria community is
 phenotype-specific remains unstudied. Here we induce morphological
 plasticity in three species of sea urchins and measure changes in the
 associated bacterial community. While each host species had unique
 microbial communities, the expression of morphological plasticity resulted
 in the convergence for a phenotype-specific microbiome that was, in part,
 driven by differentially associating with α- and γ-proteobacteria.
 Furthermore, these results suggest that phenotype-specific signatures were
 the product of the environment, and are correlated with ingestive and
 digestive structures. By manipulating diet quantity over time, we also
 support that differentially associating with microbiota along a phenotypic
 continuum is bidirectional. Taken together, our data support the idea of a
 phenotype-specific microbial community and that phenotypic plasticity
 extends beyond a genotype-by-environment interaction.
description: CarrierReitzel_RawData_DryadAll samples associated with the study
DOI: 10.17026/ar/trjuxi
title: Medel Afronding - De Roeskamp Vpl 5 Doorbraken aan de Rijn_Medel_Roeskamp_Band1

description: &lt;p&gt;Doorbraken aan de Rijn. Een Swifterbant-gehucht, een Hazendonk-nederzetting en erven en graven uit de bronstijd in Medel-De Roeskamp&lt;/p&gt;
DOI: 10.5061/dryad.9d84j
title: Data from: Do microplastic particles affect Daphnia magna at the morphological, life history and molecular level?

description: Microplastic particles are ubiquitous not only in marine but also in
 freshwater ecosystems. However, the impacts of microplastics, consisting
 of a large variety of synthetic polymers, on freshwater organisms remains
 poorly understood. We examined the effects of two polymer mixtures on the
 morphology, life history and on the molecular level of the waterflea
 Daphnia magna (three different clones). Microplastic particles of ~40 µm
 were supplied at a low concentration (1% of the food particles) leading to
 an average of ~30 particles in the digestive tract which reflects a high
 microplastic contamination but still resembles a natural situation.
 Neither increased mortality nor changes on the morphological (body length,
 width and tail spine length) or reproductive parameters were observed for
 adult Daphnia. The analyses of juvenile Daphnia revealed a variety of
 small and rather subtle responses of morphological traits (body length,
 width and tail spine length). For adult Daphnia, alterations in expression
 of genes related to stress responses (i.e. HSP60, HSP70 & GST) as
 well as of other genes involved in body function and body composition
 (i.e. SERCA) were observed already 48h after exposure. We anticipate that
 the adverse effects of microplastic might be influenced by many additional
 factors like size, shape, type and even age of the particles and that the
 rather weak effects, as detected in a laboratory, may lead to reduced
 fitness in a natural multi-stressor environment.
description: Morphological parameters
 of adult daphnia magnaThis Excel sheet
 contains the morphological parameters of the adult Daphnids (Daphnia
 magna) examined during the experiment until primiparity to the 5th
 clutch.Morphological parameters
 of juvenile daphnia magnaThis Excel sheet
 contains the morphological parameters of the juvenile Daphnids (Daphnia
 magna) examined during the experiment. These were the offspring of the
 adult Daphnids as described in the publication. From the 1st, 3rd and 5th
 clutch we measured the morphological parameters of animals from each
 replicate.Complete qPCR run data
 (BL22, K34J, Max4)This Zip Archive
 contains all qPCR runs analyzed in the above mentioned publication for the
 three Daphnia magna clones BL22, K34J and Max4. Explanations are available
 in the notes.docx.qPCR.zipNumber of OffspringThis Excel Sheet contains the absolute number of neonates produced by the adult daphnids (Daphnia magna) from the 1st to the 5th clutch.
DOI: 10.5061/dryad.8071s
title: Data from: Soil organic matter quantity and quality shape microbial community compositions of subtropical broadleaved forests

description: As two major forest types in the subtropics, broadleaved evergreen and
 broadleaved deciduous forests have long interested ecologists. However,
 little is known about their belowground ecosystems despite their
 ecological importance in driving biogeochemical cycling. Here, we used
 Illumina MiSeq sequencing targeting 16S rRNA gene and a microarray named
 GeoChip targeting functional genes to analyse microbial communities in
 broadleaved evergreen and deciduous forest soils of Shennongjia Mountain
 of Central China, a region known as ‘The Oriental Botanic Garden’ for its
 extraordinarily rich biodiversity. We observed higher plant diversity and
 relatively richer nutrients in the broadleaved evergreen forest than the
 deciduous forest. In odds to our expectation that plant communities shaped
 soil microbial communities, we found that soil organic matter quantity and
 quality, but not plant community parameters, were the best predictors of
 microbial communities. Actinobacteria, a copiotrophic phylum, was more
 abundant in the broadleaved evergreen forest, while Verrucomicrobia, an
 oligotrophic phylum, was more abundant in the broadleaved deciduous
 forest. The density of the correlation network of microbial OTUs was
 higher in the broadleaved deciduous forest but its modularity was smaller,
 reflecting lower resistance to environment changes. In addition, keystone
 OTUs of the broadleaved deciduous forest were mainly oligotrophic.
 Microbial functional genes associated with recalcitrant carbon degradation
 were also more abundant in the broadleaved deciduous forests, resulting in
 low accumulation of organic matters. Collectively, these findings revealed
 the important role of soil organic matter in shaping microbial taxonomic
 and functional traits.
description: Microbial community of
 broadleaved forests characterized by Illumina MiSeq
 sequencingAs two major forest
 types in the subtropics, broadleaved evergreen and broadleaved deciduous
 forests have long interested ecologists. Here, we used Illumina MiSeq
 sequencing targeting 16S rRNA gene to analyze microbial communities in
 broadleaved evergreen and deciduous forest soils of Shennongjia Mountain
 of Central China, a region known as “The Oriental Botanic Garden” for its
 extraordinarily rich biodiversity. The archived files included one OTU
 table generated from the 16S rRNA gene sequencing data, as well as the
 input and output files for the network analyses.Data_Microbial community of
 broadleaved forests.zip
DOI: 10.5061/dryad.32n76
title: Data from: Comparative and population mitogenomic analyses of Madagascar’s extinct, giant ‘subfossil’ lemurs

description: Humans first arrived on Madagascar only a few thousand years ago.
 Subsequent habitat destruction and hunting activities have had significant
 impacts on the island's biodiversity, including the extinction of
 megafauna. For example, we know of 17 recently extinct ‘subfossil’ lemur
 species, all of which were substantially larger (body mass ∼11–160 kg)
 than any living population of the ∼100 extant lemur species (largest body
 mass ∼6.8 kg). We used ancient DNA and genomic methods to study subfossil
 lemur extinction biology and update our understanding of extant lemur
 conservation risk factors by i) reconstructing a comprehensive phylogeny
 of extinct and extant lemurs, and ii) testing whether low genetic
 diversity is associated with body size and extinction risk. We recovered
 complete or near-complete mitochondrial genomes from five subfossil lemur
 taxa, and generated sequence data from population samples of two extinct
 and eight extant lemur species. Phylogenetic comparisons resolved prior
 taxonomic uncertainties and confirmed that the extinct subfossil species
 did not comprise a single clade. Genetic diversity estimates for the two
 sampled extinct species were relatively low, suggesting small historical
 population sizes. Low genetic diversity and small population sizes are
 both risk factors that would have rendered giant lemurs especially
 susceptible to extinction. Surprisingly, among the extant lemurs, we did
 not observe a relationship between body size and genetic diversity. The
 decoupling of these variables suggests that risk factors other than body
 size may have as much or more meaning for establishing future lemur
 conservation priorities.
description: Lemur aDNA sequence data
 and bait capture informationDRYAD JHE lemur
 aDNA.zip
DOI: 10.5061/dryad.g6g2r
title: Data from: Limited genomic consequences of hybridization between two African clawed frogs, Xenopus gilli and X. laevis (Anura: Pipidae)

description: The Cape platanna, Xenopus gilli, an endangered frog, hybridizes with the
 African clawed frog, X. laevis, in South Africa. Estimates of the extent
 of gene flow between these species range from pervasive to rare. Efforts
 have been made in the last 30 years to minimize hybridization between
 these two species in the west population of X. gilli, but not the east
 populations. To further explore the impact of hybridization and the
 efforts to minimize it, we examined molecular variation in one
 mitochondrial and 13 nuclear genes in genetic samples collected recently
 (2013) and also over two decades ago (1994). Despite the presence of F1
 hybrids, none of the genomic regions we surveyed had evidence of gene flow
 between these species, indicating a lack of extensive introgression.
 Additionally we found no significant effect of sampling time on genetic
 diversity of populations of each species. Thus, we speculate that F1
 hybrids have low fitness and are not backcrossing with the parental
 species to an appreciable degree. Within X. gilli, evidence for gene flow
 was recovered between eastern and western populations, a finding that has
 implications for conservation management of this species and its
 threatened habitat.
description: Dryad_SubmissionThese files include alignments for each gene, xml files used in BEAST and *BEAST analyses, resulting consensus tree files, and the data file used in the Structure analysis.
DOI: 10.5061/dryad.8531
title: Data from: Population structure of mycobionts and photobionts of the widespread lichen Cetraria aculeata

description: Lichens are symbioses between fungi (mycobionts) and photoautotrophic
 green algae or cyanobacteria (photobionts). Many lichens occupy large
 distributional ranges covering several climatic zones. So far, little is
 known about the large scale phylogeography of lichen photobionts and their
 role in shaping the distributional ranges of lichens. We studied south
 polar, temperate and north polar populations of the widely distributed
 fruticose lichen Cetraria aculeata. Based on DNA sequences from three loci
 for each symbiont we compared the genetic structure of mycobionts and
 photobionts. Phylogenetic reconstructions and Bayesian clustering methods
 divided the mycobiont and photobiont datasets into three groups. An AMOVA
 shows that the genetic variance of the photobiont is best explained by
 differentiation between temperate and polar regions and that of the
 mycobiont by an interaction of climatic and geographical factors. By
 partialling out the relative contribution of climate, geography and
 co-dispersal we found that the most relevant factors shaping the genetic
 structure of the photobiont are climate and a history of co-dispersal.
 Mycobionts in the temperate region are consistently associated with a
 specific photobiont lineage. We therefore conclude that a photobiont
 switch in the past enabled Cetraria aculeata to colonize temperate as well
 as polar habitats. Rare photobiont switches may increase the geographic
 range and ecological niche of lichen mycobionts by associating them with
 locally adapted photobionts in climatically different regions and,
 together with isolation by distance, may lead to genetic isolation between
 populations and thus drive the evolution of lichens.
description: ITS_fungusITS dataset of the mycobiont (dataset A in the publication)1_its.fasGPD_fungusGPD dataset for the mycobiont (dataset B in the publication)2_GPD.fasmtLSU_fungusmtLSU dataset for the fungus (dataset C in the publication)3_mtLSU.fasITS_algaITS dataset for the photobiont (dataset D in the publication)4_itsT.fasActin_algaActin dataset of the photobiont (dataset E in the publication)5_Act.fasCox2_algaCOX2 dataset of the photobiont (dataset F in the publication)6_Cox.fas
DOI: 10.5061/dryad.8ts3p
title: Data from: Sampling bias and the fossil record of planktonic foraminifera on land and in the deep sea

description: Large-scale trends in planktonic foraminiferal diversity have so far been
 based on utilization of synoptic biostratigraphic range charts. Although
 this approach ensures the taxonomic consistency and quality of the data
 being used, it takes no formal account of any sampling biases that might
 exist in the fossil record. We demonstrate that the occurrence data of
 planktonic foraminifera, as recorded in the primary literature, are
 strongly biased by sampling. We do this by demonstrating that raw
 diversity curves derived from the land-based and deep-sea records are
 strikingly different, but that they each correlate with the intensity of
 sampling in their respective environments, and thus are ultimately
 controlled by the structure of the geological record in each setting.
 Because sampling of the Mesozoic record is best in our land record whereas
 sampling of the Cenozoic is best in our deep-sea record, we combine the
 two to generate the best-supported estimates of species and genus
 diversity over time from these data. We correct for sampling bias using
 shareholder quorum subsampling and a modeling approach. The data are then
 transformed to generate a range-through plot of species richness that is
 compared with two earlier estimates of the diversity history where
 comparable species-in-bin data can be recovered. No robust statistical
 correlation is found among the three estimates. Although differences in
 amplitude are to be expected, differences in the actual shape of the curve
 are surprising. We conclude that these differences stem from the nature of
 the data themselves, namely the taxonomic scheme adopted and the taxonomic
 coverage used.
description: Supplementary
 Table1List of planktonic
 foraminifera species recorded from Atlantic deep‐sea cores included in
 this study for each time bin. Note that only those species that can be
 unambiguously dated to within a time bin are included. Columns give the
 time interval covered in millions of years.Supplementary
 Table2List of planktonic
 foraminifera species recorded from land‐based sections included in this
 study for each time bin. Note that only those species that can be
 unambiguously dated to within a time bin are included.Supplementary
 Table3List of planktonic
 foraminifera species recorded from Atlantic deep‐sea cores and land based
 sections included in this study for each time bin. Note that only those
 species that can be unambiguously dated to within a time
 bin.rev lloyd 11041
 supplCorrelations between
 different species richness estimates for planktonic foraminfera (see Fig.
 5 of main paper). Values in bold are statistically significant
 correlations.
DOI: 10.5061/dryad.525c1
title: Data from: Estimating the effect of plantations on pine invasions in protected areas: a case study from South Africa

description: 1. Protected areas (PAs) are a key intervention for conserving
 biodiversity and ecosystem services. A major challenge for PAs is the
 control of invasive non-native plants that spread into PAs from
 surrounding sources such as forestry plantations. The links between
 invasions and different source populations are poorly understood, making
 it difficult to apportion responsibilities for control costs. 2. We
 estimated the effect of plantations of invasive pines (Pinus species) on
 the spread of these trees into PAs in South Africa's Cape Floristic
 Region (CFR). We assessed the effect of (1) distance from plantation; (2)
 plantation and PA orientation in relation to the prevailing wind; and (3)
 the proportionate size of the surrounding plantation on the abundance of
 invasions in PAs. We also estimated the historic and potential future
 costs of controlling invasions in the PAs. 3. PA management units within 3
 km of a plantation had over double the pine cover of control units
 &gt;6 km from plantations (6.12% vs. 2.39%). We attributed 51%, of the
 pine invasions in PAs to plantations. 4. Neither the proportional size of
 the plantations, nor their orientation relative to prevailing winds had a
 detectable effect on the cover of invasive pines. 5. Costs of controlling
 invasive pines in the study area totalled 98 million Rand (10 Rand ~ 1 US$
 in 2013) between 2001 and 2012. It could cost between 273 and 916 million
 Rand (all future costs expressed in 2013 Rand), and take between 34 and
 113 years, to clear the remaining invasive pines in the study area,
 depending on rates of spread and the cost-effectiveness of control. 6.
 Policy implications. Estimating the contribution of an invasion source, in
 this case forestry plantations, requires estimating an unobservable
 counterfactual outcome: the invasions that would have occurred in the
 absence of the plantations. We have made a first step toward doing this by
 using empirical approaches that vary in the strictness of their
 assumptions, along with robustness tests to that assess the plausibility
 of these assumptions. Our study provides the starting-point for estimating
 the contribution of plantation forestry to protected area invasions in the
 Cape Floristic Region of South Africa.
description: Data and
 r-codeVariable names are
 explained in the data file folder.data&code.zip
DOI: 10.5061/dryad.1454
title: Data from: Isolation by distance among California sea lion populations in Mexico: redefining management stocks

description: Understanding the spatial structure of a population is critical for
 effective assessment and management. However, direct observation of
 spatial dynamics is generally difficult, particularly for marine mammals.
 California sea lions (Zalophus californianus) are polygynous pinnipeds
 distributed along the Pacific coast of North America. The species'
 range has been subdivided into 3 management stocks based on differences in
 mitochondrial DNA, but to date no studies have considered nuclear genetic
 variation, and thus we lack a comprehensive understanding of gene flow
 patterns among sea lion colonies. In light of recent population declines
 in the Gulf of California, Mexico, it is important to understand spatial
 structure to determine if declining sea lion colonies are genetically
 isolated from others. To define population subdivision and identify sex
 biases in gene flow we analyzed a 355bp sequence of the mitochondrial DNA
 control region and 10 polymorphic microsatellite loci from 355 tissue
 samples collected from 6 colonies distributed along Mexican waters. Using
 a novel approach to estimate sex biases in gene flow we found that male
 sea lions disperse on average 6.75 times more frequently than females.
 Analyses of population subdivision strongly suggest a pattern of isolation
 by distance among colonies and challenge current stock definitions. Based
 on these results, we propose an alternative classification that identifies
 3 Mexican management units: Upper Gulf of California, Southern Baja
 Peninsula, and Upper Pacific Coast of Baja. This revised classification
 should be considered in future assessment and management of California sea
 lion populations in Mexican waters.
description: Mitochondrial DNA
 sequences for California sea lions in MexicoMitochondrialDNAsequences.txtMicrosatellite allele data of California sea lions in MexicoMicrosatellitealleledata.txt
DOI: 10.5281/zenodo.18380166
title: Geometrical attributes and shape characterization of pits and pit chains in Noctis Labyrinthus (Mars)