cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.0zpc8670p
title: Data from: Global plant ecology of tropical ultramafic ecosystems

description: This is a compiled geospatial dataset in ESRI polygon shapefile format of
 ultramafic soils of the neotropics showing the location of ultramafic
 soils in Guatemala, Cuba, Dominican Republic, Puerto Rico, Costa Rica,
 Colombia, Argentina, Chile, Venezuela, Ecuador, Brazil, Suriname, French
 Guiana, and Bolivia. The data are derived from seven geospatial datasets.
 Original datasets were subset to include only ultramafic areas, datasets
 were assigned a common projection (WGS84), attribute tables were
 reconciled to a common set of fields, and the datasets were combined. The
 dataset includes three components: 1) a geospatial dataset in ESRI polygon
 shapefile format of ultramafic soils of the neotropics showing the
 location of ultramafic soils in Guatemala, Cuba, Dominican Republic,
 Puerto Rico, Costa Rica, Colombia, Argentina, Chile, Venezuela, Ecuador,
 Brazil, Suriname, French Guiana, and Bolivia. 2) A regional-specific
 bibliography for all tropical ultramafic regions discussed in the original
 manuscript (Garnica-Diaz et al. 2022), and 3) an updated list in .csv
 format of major ultramafic outcrops worldwide including their latitude and
 longitude coordinates. 
description: The geospatial data are derived from seven geospatial datasets.
 Original datasets were subset to include only ultramafic areas, datasets
 were assigned a common projection (WGS84), attribute tables were
 reconciled to a common set of fields, and the datasets were
 combined.  The region-specific bibliography was
 compiled by regional experts and identified as key references for each
 region included in the original manuscript. The list of
 major ultramafic outcrops worldwide was compiled through an extensive
 literature search including Brooks (1987); Roberts & Proctor
 (1992), and other published studies. For some locations, the landmark
 represents the closest named geographical location (e.g., province,
 municipality, etc.). 
description: The contents of the compiled geospatial dataset are in ESRI
 shapefile format and thus have four components with extensions .shp, .shx,
 .prj, and .dbf. The .shp file contains the feature geometries, the .prj
 file contains the geographic coordinate system information (WGS 1984), and
 the .dbf file contains the attribute table. The README.txt file includes
 additional information for the geospatial database including data fields,
 and sources for each of the seven individual geospatial
 datasets.
DOI: 10.15468/dl.k8wt72
title: Occurrence Download

description: A dataset listing the 4140376 species recorded in GBIF matching the query:
{ }

 The dataset's 4140376 records were derived from 88435 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003105-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.m63xsj447
title: Data from: Effect of altitude on volatile organic and phenolic compounds of artemisia brevifolia wall ex Dc. from the Western Himalayas

description: Adaptation to changing environmental conditions is a driver of plant
 diversification. Elevational gradients offer a unique opportunity for
 investigating adaptation to a range of climatic conditions. The use of
 specialized metabolites as volatile and phenolic compounds is a major
 adaptation in plants, affecting their reproductive success and survival by
 attracting pollinators and protecting themselves from herbivores and other
 stressors. The wormseed Artemisia brevifolia can be found across multiple
 elevations in the Western Himalayas, a region that is considered a
 biodiversity hotspot and is highly impacted by climate change. This study
 aims at understanding the volatile and phenolic compounds produced by A.
 brevifolia in the high elevation cold deserts of the Western Himalayas
 with the view to understanding the survival strategies employed by plants
 under harsh conditions. Across four sampling sites with different
 elevations, polydimethylsiloxane (PDMS) sampling and subsequent GCMS
 analyses showed that the total number of volatile compounds in the plant
 headspace increased with elevation and that this trend was largely driven
 by an increase in compounds with low volatility, which might improve the
 plant’s resilience to abiotic stress. HPLC analyses showed no effect of
 elevation on the total number of phenolic compounds detected in both young
 and mature leaves. However, the concentration of the majority of phenolic
 compounds decreased with elevation. As the production of phenolic defense
 compounds is a costly trait, plants at higher elevations might face a
 trade-off between energy expenditure and protecting themselves from
 herbivores. This study can therefore help us understand how plants adjust
 secondary metabolite production to cope with harsh environments and reveal
 the climate adaptability of such species in highly threatened regions of
 our planet such as the Himalayas.
description: Details of sample collection and processing can be found in
 manuscript and in its supplementary material.
description: No missing data. If anything unclear, please contact the
 authors.
DOI: 10.25349/d9sc9w
title: The Household Context of In Situ Conservation in a Center of Crop Diversity in Oaxaca, Mexico

description: Crop diversity conservation in situ is an ecosystem service with benefits
 at household, community, and global scales. These include risk reduction
 and adaptation to changing physical and sociocultural environments—both
 important given the accelerating changes in climate, human migration, and
 the industrialization of agriculture. In situ conservation typically
 occurs as part of small-scale, traditionally based agriculture and can
 support cultural identity and values. Although decisions regarding crop
 diversity occur at the household level, few data detail the household
 context of in situ crop diversity management. Our research addressed this
 data gap for maize and Phaseolus bean in Oaxaca, Mexico, a major center of
 diversity for those crops. We defined diversity as farmer-named varieties
 and interviewed 400 farming households across eight communities in two
 contrasting socioecological regions. Our research asked, “In a major
 center of maize and Phaseolus diversity, what are the demographic,
 production, and consumption characteristics of the households that are
 stewarding this diversity?” We describe the context of conservation and
 its variation within and between communities and regions and significant
 associations between diversity and various independent variables,
 including direct maize consumption, region, and marketing of crops. These
 results provide a benchmark for communities to understand and strengthen
 their maize and bean systems in ways they value and for scientists to
 support those communities in dynamically stewarding locally and globally
 significant diversity.
description: In-person interviews with randomly sampled households in 8
 farming communities in the state of Oaxaca, Mexico. The interview
 questions addressed five topics. First, farmer-reported maize and bean
 diversity in terms of named varieties. Second, household demographics,
 including age, sex, education, and primary language of the interviewee,
 household composition, and labor migration. Third, maize and bean farming
 practices, including seed sources, planting environments, production
 inputs, and yield estimates. Fourth, household use of maize and bean
 harvests, including direct consumption as food or feed, and sales. Fifth,
 values in farming, specifically attitudes toward risk and expectations for
 the future.
description: Refer to the README.pdf file for more information about the
 dataset.
DOI: 10.5061/dryad.8w9ghx3ps
title: Data from: Breeding heat tolerant orchardgrass germplasm for summer persistence in high temperature stress environments of the southeastern United States

description: This is digital research data corresponding to a published manuscript,
 Breeding heat tolerant orchardgrass germplasm for summer persistence in
 high temperature stress environments of the southeastern United States, in
 Crop Science, Volume 61, p. 1915 - 1925. Orchardgrass (Dactylis glomerata
 L.) could serve as a cool-season perennial in southeastern production
 systems, but often does not behave as a true perennial under high
 temperature stress conditions of the region. This work sought to develop
 heat-tolerant orchardgrass germplasm through recurrent phenotypic
 selection (RPS) that would both reduce secondary seed dormancy caused by
 high soil temperatures and improve stand persistence over summer months.
 Selection was conducted in a growth chamber 40/30 °C (12/12 h,
 light/darkness), with germinated seedlings subjected to an additional 2–3
 weeks of 40/30 °C conditions. The base germplasm (Cycle 0) and selected
 individuals (Cycles 1–3) were transplanted into the field, then harvested
 for seed. Forty-degree germination tests compared mean cumulative
 germination, velocity of germination within 8 days (VOG8), and realized
 heritability. Stand persistencewas assessed 1 year after transplanting.
description: Methods are described in the manuscript https://doi.org/10.1002/csc2.2049.
description: Descriptions corresponding to each figure and table in the
 manuscript are placed on separate tabs in the Excel file to clarify
 abbreviations and summarize the data headings and units.
DOI: 10.5061/dryad.cjsxksn7m
title: Cloacal microbiomes of sympatric and allopatric Sceloporus lizards vary with environment and host relatedness

description: Animals and their microbiomes exert reciprocal influence; the host’s
 environment, physiology, and phylogeny can impact the composition of the
 microbiome, while the microbes present can affect host behavior, health,
 and fitness. While some microbiomes are highly malleable, specialized
 microbiomes that provide important functions can be more robust to
 environmental perturbations. Recent evidence suggests Sceloporus virgatus
 has one such specialized microbiome, which functions to protect eggs from
 fungal pathogens during incubation. Here, we examine the cloacal
 microbiome of three different Sceloporus species (spiny lizards; Family
 Phrynosomatidae) – Sceloporus virgatus, Sceloporus jarrovii, and
 Sceloporus occidentalis. We compare two species with different
 reproductive modes (oviparous vs. viviparous) living in sympatry: S.
 virgatus and S. jarrovii. We compare sister species living in similar
 habitats (riparian oak-pine woodlands) but different latitudes: S.
 virgatus and S. occidentalis. And, we compare three populations of one
 species (S. occidentalis) living in different habitat types: beach,
 low-elevation forest, and the riparian woodland. We found differences in
 beta diversity metrics between all three comparisons, although those
 differences were more extreme between animals in different environments,
 even though those populations were more closely related. Similarly, alpha
 diversity varied among the S. occidentalis populations and between S.
 occidentalis and S. virgatus, but not between sympatric S. virgatus and S.
 jarrovii. Despite these differences, all three species and all three
 populations of S. occcidentalis had the same dominant taxon,
 Enterobacteriaceae. The majority of the variation between groups was in
 low abundance taxa and at the ASV level, and responded to habitat
 differences, geographic distance, and host relatedness. Understanding wild
 microbiomes and factors that influence their composition is important to
 understanding the ecology and evolution of the host animals.
description: Cloacal swabs were collected from <em>Sceloporus</em>
 lizards species in Washington and Arizona, between 2017 and 2021.
 Microbial DNA was extracted and amplified from these samples, and
 sequences of the 16s V4 regions were generated at IBest Genomics Core
 (University of Idaho) on the Illumina MiSeq platform. More detailed
 methodology can be found in Bunker and Weiss, "Effect of habitat
 variation and host relatedness on <em>Sceloporus</em> cloacal
 microbiomes," or in the attached README file.
DOI: 10.5061/dryad.cz8w9gj5r
title: Dung beetles maintain phylogenetic divergence but functional convergence across a highly fragmented tropical landscape

description: Understanding how human-modified landscapes affect the phylogenetic
 composition and assembly mechanisms of biological communities is critical
 for effectively managing and restoring tropical ecosystems. We evaluated
 how forest coverage loss, fragmentation, and landscape heterogeneity
 affect the phylogenetic diversity of dung beetles and their assembly
 mechanisms in Los Tuxtlas Biosphere Reserve, a protected but highly
 fragmented tropical landscape. We calculated Faith's phylogenetic
 diversity, mean pairwise phylogenetic distance, and mean nearest taxon
 distance for 5,388 individuals in 36 species. The standardised effect
 sizes of these metrics were estimated to control their correlation with
 species richness. Phylogenetic diversity was also assessed separately for
 each dung beetle functional group. Finally, we compared the mean
 functional and phylogenetic pairwise distance and mean nearest taxon
 distance and measured the phylogenetic signal among dung beetle functional
 traits to determine the influence of niche conservatism on the
 phylogenetic structure of species assemblages. Faith's phylogenetic
 diversity of dung beetles was positively correlated with forest coverage,
 while their mean phylogenetic and nearest taxon distance values decreased
 with increasing landscape fragmentation. Necrophagous beetles and forest
 specialists responded most negatively to forest coverage loss and
 fragmentation. Alpha and beta diversity values showed phylogenetic
 overdispersion but functional convergence and weak phylogenetic signals in
 their functional traits, suggesting low niche conservatism. Landscapes
 with moderate forest coverage (≥ 40%) favoured higher phylogenetic beta
 diversity, whereas phylogenetic and functional beta diversity decreased
 significantly in landscapes with low forest coverage (&lt; 30%).
 Synthesis and applications: Forest habitats in fragmented landscapes are
 essential for safeguarding the evolutionary history of dung beetles,
 reducing biotic homogenisation processes by favouring phylogenetic
 overdispersion and complementarity between sites. Therefore, to secure the
 phylogenetic diversity of dung beetles within fragmented tropical
 reserves, we recommend protecting the existing forests, preventing further
 fragmentation of continuous forest areas, and increasing matrix quality by
 implementing biodiversity-friendly production systems. Finally, managers
 should consider assessing different functional groups in other species, as
 their response to landscape disturbance may not be phylogenetically
 similar. The above will allow more effective management practices to
 protect the species most susceptible to disturbances.
description: Please consult the main manuscript "Dung Beetles Maintain
 Phylogenetic Divergence but Functional Convergence across a Highly
 Fragmented Tropical Landscape" and its supporting information for a
 detailed description of the methods used to collect, process, and analyse
 the landscape and dung beetle data.
DOI: 10.5061/dryad.p5hqbzkrc
title: Do habitat and elevation promote hybridization during secondary contact between three genetically distinct groups of warbling vireo (Vireo gilvus)?

description: Following postglacial expansion, secondary contact can occur between
 genetically distinct lineages. These genetic lineages may be associated
 with specific habitat or environmental variables and therefore, their
 distributions in secondary contact could reflect such conditions within
 these areas. Here we used mtDNA, microsatellite, and morphological data to
 study three genetically distinct groups of warbling vireo (Vireo gilvus)
 and investigate the role that elevation and habitat play in their
 distributions. We studied two main contact zones and within each contact
 zone, we examined two separate transects. Across the Great Plains contact
 zone, we found that hybridization between eastern and western groups
 occurs along a habitat and elevational gradient, whereas hybridization
 across the Rocky Mountain contact zone was not as closely associated with
 habitat or elevation. Hybrids in the Great Plains contact zone were more
 common in transitional areas between deciduous and mixed-wood forests, and
 at lower elevations (&lt;1000 m). Hybridization patterns were similar
 along both Great Plains transects indicating that habitat and elevation
 play a role in hybridization between distinct eastern and western genetic
 groups. The observed patterns suggest adaptation to different habitats,
 perhaps originating during isolation in multiple Pleistocene refugia, is
 facilitating hybridization in areas where habitat types overlap.
description: A complete table of our warbling vireo (<em>Vireo
 gilvus</em>) sample locations, sources and identifiers.
DOI: 10.5061/dryad.sxksn035v
title: Fermur lengths of Drosophila melanogaster at different developmental temperatures and Wolbachia-infection types

description: To estimate the influence of developmental temperature and Wolbachia
 infections on body size in Drosophila melanogaster, we disected female
 flies and mounted left forelegs. Pictures were taken under a Leica DFC 490
 microscope. Femur lengths, wich have proven to be a good proxy for
 bodysize, were measured in ImageJ. Our analyses revealed that temperature,
 but not Wolbachia infections strongly influenced female body size. See
 also the corresponing README.txt and the table "FullData.xlsx"
 within SupplementaryData.zip in the supplement of the corresponding
 manuscript "Complex effects of environment and Wolbachia infections
 on the life history of Drosophila melanogaster hosts" (DOI:
 10.1111/jeb.14016) for more details.
DOI: 10.5061/dryad.8931zcrss
title: Exposure to elevated temperature during development affects bumblebee foraging behavior

description: Bee foraging behavior provides a pollination service that has both
 ecological and economic benefits. However, bee population decline could
 directly affect the efficiency of this interaction. Among the drivers of
 this decline, global warming has been implicated as an emerging threat but
 exactly how increasing temperatures affect bee foraging behavior remains
 unexplored. Here, we assessed how exposure to elevated temperatures during
 development affects the foraging behavior and morphology of workers from
 commercial and wild Bombus terrestris colonies. Workers reared at 33°C had
 a higher visiting rate and shorter visiting time than those reared at
 27°C. In addition, far fewer workers reared at 33°C engaged in foraging
 activities and this is potentially related to the drastic reduction in the
 number of individuals produced in colonies exposed to 33°C. The impact of
 elevated developmental temperature on wild colonies was even stronger as
 none of the workers from these colonies performed any foraging trips. We
 also found that rearing temperature affected wing size and shape. Our
 results provide the first evidence that colony temperature can have
 striking effects on bumblebee foraging behavior. Of particular importance
 is the drastic reduction in the number of workers performing foraging
 trips, and the total number of foraging trips made by workers reared in
 high temperatures. Further studies should explore if, ultimately, these
 observed effects of exposure to elevated temperature during development
 lead to a reduction in pollination efficiency.
DOI: 10.5061/dryad.gmsbcc2qp
title: COVID-19 lockdown measures impacted citizen science hedgehog observation numbers in Bavaria, Germany

description: The COVID-19 pandemic has led to temporary changes in human-animal
 interactions due to changes in human activities. Here we report on a surge
 in hedgehog observations during the first COVID-19 lockdown in Germany in
 2020, on the citizen science web portal ‘Igel in Bayern’ (Hedgehogs in
 Bavaria) in Germany. This increase in comparison to previous years could
 be attributed to an increase in the number of people reporting hedgehog
 observations, rather than an increase in the number of hedgehog
 observations done by each observer. Additionally, in contrast to other
 studies on the effects of a COVID-19 lockdown on observations recorded by
 Citizen Science projects, the share of observations made in more urbanized
 areas during the lockdown time was not higher than the change observed in
 less urbanized areas. This is possibly a result of the differences in
 COVID-19 measures between Germany and other countries where preceding
 studies were carried out, in particular the lack of measures limiting
 outdoor activities for citizens.
DOI: 10.6084/m9.figshare.30666599
title: Dataset compiled in "Challenges for carbon crediting in <i>Zostera marina </i>(eelgrass) meadows"

description: Data compiled from the literature used in the review paper by Kennedy et al. 2025 "Challenges for carbon crediting in <i>Zostera marina </i>(eelgrass) meadows". This study addressed the potential for carbon crediting in meadows of <i>Zostera marina</i> (eelgrass), the most widely distributed seagrass species, through a review of sediment OC stocks, CAR, sources and stability (mineral associated organic matter - MAOM) of the organic matter. Out findings for eelgrass, which is a fast-growing colonizing-opportunistic seagrass species, were compared with those for <i>Posidonia oceanica</i>, typifying slow-growing, persistent seagrass species.The first tab of the file explains in detail the information that can be found in the document.
DOI: 10.6084/m9.figshare.30666599.v1
title: Dataset compiled in "Challenges for carbon crediting in <i>Zostera marina </i>(eelgrass) meadows"

description: Data compiled from the literature used in the review paper by Kennedy et al. 2025 "Challenges for carbon crediting in <i>Zostera marina </i>(eelgrass) meadows". This study addressed the potential for carbon crediting in meadows of <i>Zostera marina</i> (eelgrass), the most widely distributed seagrass species, through a review of sediment OC stocks, CAR, sources and stability (mineral associated organic matter - MAOM) of the organic matter. Out findings for eelgrass, which is a fast-growing colonizing-opportunistic seagrass species, were compared with those for <i>Posidonia oceanica</i>, typifying slow-growing, persistent seagrass species.The first tab of the file explains in detail the information that can be found in the document.
DOI: 10.15468/dl.fdxz5j
title: Occurrence Download

description: A dataset containing 45910 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Styphnolobium japonicum"
 ]
}

 The dataset includes 45910 records from 419 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003110-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.