cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.m0cfxppbf
title: Drivers of intraspecific variation in seed dispersal can differ across two species of fleshy-fruited savanna plants

description: Various factors may mediate the visitation of frugivores to fruiting
 plants, which can dictate the quantum of seeds removed (dispersed) away
 from the parent plant. Past studies have laid emphasis on species-specific
 factors and environmental contexts that frugivores may use as cues to make
 foraging decisions and differentially visit various plant species.
 However, differences in plant traits (intrinsic factors) and local
 environmental contexts (extrinsic factors) can influence the diversity and
 abundance of frugivores that visit individual plants of the same species,
 resulting in intraspecific variation in seed dispersal. We observed
 individuals of two co-fruiting plant species with morphologically similar
 fruits – Naringi crenulata and Ziziphus oenopolia – for 134 hr and
 examined the influence of fruit crop size, plant height, and fruiting
 neighbourhood on the diversity of visiting avian frugivores and quantum of
 fruit removal for individual plants. We found that despite their
 similarity in fruits and sharing of a similar set of frugivore species,
 the two plant species differed in how they attracted frugivores, with
 consequences for fruit removal rates. Fruit crop size was an important
 determinant of fruit removal for N. crenulata, while plant height led to
 greater visitation and fruit removal for Z. oenopolia. We discuss
 potential reasons for the difference in frugivore visitation and fruit
 removal for the two plant species. Our results support a growing body of
 evidence that intraspecific variation in seed dispersal is pervasive and
 highly context-dependent and describes frugivore interactions of two plant
 species from an understudied tropical savanna.
description: # Drivers of intraspecific variation in seed dispersal can differ across
 two species of fleshy-fruited savanna plants
 [https://doi.org/10.5061/dryad.m0cfxppbf](https://doi.org/10.5061/dryad.m0cfxppbf) ## Data file descriptions | Data file | Description | | :------------------------ | :----------------------------------------------------------------------------------------------------------- | | visits | Contains information on visitations to focal plants | | focals | Contains information on focal observations done on visitors to the focal plants | | focal\_tree\_measurements | Contains information on height and canopy width measurements for focal plants | | focal\_neighbourhoods | Contains information on fruiting plants and their ripe fruit crop sizes in a 10 m radius around focal plants | | ReadMe | Contains detailed descriptions for each column of the above data files |
DOI: 10.15468/dl.nfcyew
title: Occurrence Download

description: A dataset containing 369 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Amelanchier nantucketensis"
 ]
}

 The dataset includes 369 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003916-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18406059
title: Natural history specimens collected and/or identified and deposited.

description: Natural history specimen data collected and/or identified by Emilio Levier, http://www.wikidata.org/entity/Q4256884. Claims or attributions were made on Bionomia, https://bionomia.net using specimen data from the Global Biodiversity Information Facility, https://gbif.org.
description: http://www.wikidata.org/entity/Q4256884
DOI: 10.15468/dl.py9pgf
title: Occurrence Download

description: A dataset containing 1124 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tanaecia julii"
 ]
}

 The dataset includes 1124 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003917-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2xyqvz
title: Occurrence Download

description: A dataset containing 737 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Community Environmental Health Laboratory Eelgrass Monitoring 2013-Present"
 ]
}

 The dataset includes 737 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003918-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.dr7sqvb5t
title: Facilitation cascades across space: monitoring estuarine foundation species from satellites to the microscope

description: Estuaries are productive ecosystems that are vulnerable to human impacts
 and environmental disturbances. Estuaries are often inhabited by
 foundation species that facilitate other organisms by creating and
 modifying habitats. However, spatiotemporal variability and underpinning
 drivers of facilitation from estuarine foundation species are poorly
 studied, especially in the context of monitoring and conservation. Here,
 we combined analyses of satellite, drone, and camera images, close-up
 field sampling of quadrats and individuals, and laboratory microscopy, to
 quantify co-occurrences between the cockle Austrovenus stutchburyi and
 green macroalga Ulva spp., and their associated invertebrate communities,
 across spatial resolutions and environmental gradients in a New Zealand
 estuary. We found a higher abundance of Ulva in winter and a higher
 abundance of Austrovenus at a site near the ocean. Furthermore, Ulva was,
 across space and time, often attached to Austrovenus, either live or dead
 shells, suggesting a hierarchy between a primary (cockle) and secondary
 (macroalgae) foundation species. Finally, Ulva provided a better habitat
 for mobile invertebrates than Austrovenus, and thereby increased estuarine
 diversity through a density-dependent facilitation cascade, that also was
 consistent in space and time. Overall, our study showed that facilitation
 cascades can be indirectly inferred and monitored through remote sensing
 of foundation species using supplementary imaging methods, and that
 integration of data across scales allows researchers to better understand
 drivers and consequences of facilitation from foundation species. These
 insights may aid the development of efficient monitoring strategies and
 ultimately improve management of estuarine ecosystems.
description: # Facilitation cascades across space: monitoring estuarine foundation
 species from satellites to the microscope
 [https://doi.org/10.5061/dryad.dr7sqvb5t](https://doi.org/10.5061/dryad.dr7sqvb5t) ## Description of the data and file structure The data file is named "fc_from_space_data.xlsx" - this data file contains 7 spreadsheets: 'metadata', 'satellite', 'drone', 'camera', 'cockledensity', 'attachment', and 'community'. The 'metadata' spreadsheet describes the column attributes (including abbreviations and units) for the 6 other data spreadsheets. The 6 data spreadsheets represent the multiscale methods presented in our paper and were used to specifically generate the analyses, tables, and figures in our manuscript. For questions, please contact Ken Joseph Clemente at [kenjoseph.clemente@gmail.com](mailto:kenjoseph.clemente@gmail.com)
DOI: 10.15468/pfgudw
title: Two new species of Melastoma L. (Melastomataceae) from Limestone Karst, Khammouane Province, central Laos

description: This dataset contains the digitized treatments in Plazi based on the original journal article Souvannakhoummane, Keooudone, Tanaka, Nobuyuki, Souladeth, Phetlasy, Tagane, Shuichiro, Dang, Van-Son, Yamamoto, Takenori, Yamazaki, Kaito, Pham, Quoc Trong, Phonepaseuth, Phongphayboun, Vongthavone, Thyraphon, Phengmala, Kajonesuk, Kongxaisavath, Deuanta, Sengthong, Anousone (2026): Two new species of Melastoma L. (Melastomataceae) from Limestone Karst, Khammouane Province, central Laos. European Journal of Taxonomy 1034: 1-13, DOI: 10.5852/ejt.2026.1034.3141, URL: https://europeanjournaloftaxonomy.eu/index.php/ejt/article/download/3141/14009Abstract. Two new species, Melastoma calcicolum Souvann. & Tagane sp. nov. and M. souladethianum Souvann. & Nob.Tanaka sp. nov. (Melastomataceae), are described from limestone karst habitats in Khammouane Province, central Laos. Descriptions, photographs, distribution, habitat, phenology, and initial conservation statuses of both newly described species are given. A key to the species of Melastoma in Laos including currently reported species is provided. These discoveries result from extensive fieldwork conducted between 2022 and 2025 in protected areas including Phou Hin Poun National protected area and Phou Pha Marn area. M. calcicolum sp. nov. is distinguished from M. saigonenese by its terete twigs, narrow lanceolate leaves, spaced penicillate emergences on the hypanthium, stalk of emergences on hypanthium shorter, glabrous sepals, and longer styles, while M. souladethianum sp. nov. differs from M. pellegrinianum by its terete branches, small inflorescences with 2–4 flowers, and sparsely bristled hypanthium with strigose hairs. Both species are currently known only from their type localities, occurring in exposed limestone areas, and are preliminarily assessed as Endangered and Critically Endangered based on IUCN criteria due to their restricted distributions and small population sizes. These findings highlight the high botanical diversity and endemism of Laos’s limestone ecosystems and underscore the importance of continued botanical exploration in the region.
DOI: 10.5061/dryad.18931zd4k
title: Short-range correlation of stress chains near solid-to-liquid transition in active monolayers

description: Using a three-dimensional model of cell monolayers, we study the spatial
 organization of active stress chains as the monolayer transitions from a
 solid to a liquid state. The critical exponents that characterize this
 transition map the isotropic stress percolation onto the two-dimensional
 random percolation universality class suggesting short-range stress
 correlations near this transition. This mapping is achieved via two
 distinct, independent pathways: (i) cell-cell adhesion and (ii) active
 traction forces. We unify our findings by linking the nature of this
 transition to high-stress fluctuations, distinctly linked to each pathway.
 The results elevate the importance of the transmission of mechanical
 information in dense active matter and provide a new context for
 understanding the non-equilibrium statistical physics of phase transition
 in active systems.
description: # Short-range correlation of stress chains near solid-to-liquid transition
 in active monolayers
 [https://doi.org/10.5061/dryad.18931zd4k](https://doi.org/10.5061/dryad.18931zd4k) There are two types of simulation output data included here. (i) the center of mass data for each cell and at each output time step and (ii) the time-averaged isotropic stress field. For each drive (cell-cell adhesion, active traction), there are three realizations. Additionally, two Python (.py) codes are included for (i) plotting a field and (ii) cluster statistics for varying distribution percentiles. ## Description of the data and file structure (i) The center of mass data is formatted as time step, x-coordinate, y-coordinate, z-coordinate (ii) The time-averaged isotropic stress fields. For realization 1, for each drive, this is included for each parameter. The finite size scaling is only carried out at the onset of the solid-to-liquid transition (see paper for more details). ## Sharing/Access information Data is generated using the code available here: [https://doi.org/10.5281/zenodo.10790896](https://doi.org/10.5281/zenodo.10790896) ## Code/Software Two Python (.py) codes are included for (i) plotting a field and (ii) cluster statistics for varying distribution percentiles.
DOI: 10.5281/zenodo.18331698
title: PyPSA-USA: GODEEEP-based renewable profiles for county-based bus network - wind_historical_2001_2022

description: wind_historical data for capacity factors in the continental US, processed from PNNL's GODEEEP dataset for a FIPS county-based bus network. Contains 22 NetCDF files.
DOI: 10.5281/zenodo.18331699
title: PyPSA-USA: GODEEEP-based renewable profiles for county-based bus network - wind_historical_2001_2022

description: wind_historical data for capacity factors in the continental US, processed from PNNL's GODEEEP dataset for a FIPS county-based bus network. Contains 22 NetCDF files.
DOI: 10.5061/dryad.x3ffbg7sp
title: Revalidation of the jumping spider genus Cheliceroides Żabka, 1985 based on molecular and morphological data (Araneae, Salticidae)

description: The monotypic genus Cheliceroides Żabka, 1985 is revalidated based on both
 molecular sequence data (ultra-conserved elements and protein-coding genes
 of mitochondrial genomes) and morphological evidence. Results of molecular
 phylogenetic analyses show that Cheliceroides is not closely
 related to Colopsus Simon, 1902, not even in the same tribe, and
 comparative morphological study also demonstrates significant differences
 in the genital structures (e.g., the shape of embolus, with or without a
 pocket on the epigynum) of the two genera. Therefore, here we
 remove Cheliceroides from the synonymy of Colopsus, and its
 generic status is revalidated.
description: # Revalidation of the jumping spider genus *Cheliceroides* Żabka, 1985
 based on molecular and morphological data (Araneae, Salticidae)
 [https://doi.org/10.5061/dryad.x3ffbg7sp](https://doi.org/10.5061/dryad.x3ffbg7sp) ## Description of the data and file structure UCE_alignment.mafft.zip: contains all the alignments for the UCE loci; UCE_2593loci_46spp.phy: final concatenated UCE dataset with 2593 loci for the phylogenetic analysis; UCE_2593loci.MFM.10ML.ran3_5000UFboots.suptree.tre: the best ML tree from the concatenated 2593-loci UCE dataset; UCE_2593loci_partition.txt: partition file for the concatenated 2593-UCE dataset; Mitogenome_alignment.mafft.zip: contains all the alignments for the 13 mitochondrial protein-coding genes; Mitogenome_13PCG.fas: final concatenated 13-mitochondrial-PCG dataset for the phylogenetic analysis; Mitogenome_13PCG.ML.tre: the best ML tree from the concatenated 13-mitochondrial-PCG dataset.
DOI: 10.5061/dryad.3xsj3txpj
title: Data from: Sensory evidence for complex communication and advanced sociality in early ants

description: Advanced social behavior, or eusociality, has been evolutionarily
 profound, allowing colonies of ants, termites, social wasps, and bees to
 dominate competitively over solitary species throughout the Cenozoic.
 Advanced sociality requires not just nestmate cooperation and
 specialization but refined coordination and communication. Here we provide
 independent evidence that 100-million-year-old Cretaceous ants in amber
 were social, based on chemosensory adaptations. Previous studies inferred
 fossil ant sociality from individual ants preserved adjacent to others. We
 analyzed several fossil ants for their antennal sensilla, using original
 rotation imaging of amber microinclusions, and found an array of antennal
 sensilla, specifically for alarm pheromone detection and nestmate
 recognition, sharing distinctive features with extant ants. Even though
 Cretaceous ants were stem groups, the fossilized sensilla confirm
 hypotheses of their complex sociality.
description: # Data from: Sensory evidence for complex communication and advanced
 sociality in early ants
 [https://doi.org/10.5061/dryad.3xsj3txpj](https://doi.org/10.5061/dryad.3xsj3txpj) X-ray CT images of fossilized ants preserved in Cretaceous amber. ## Description of the data and file structure Each zip file includes one specimen data (AMNH_Bu-KL-B-1-21 specimen A; AMNH_Bu-KL-B-1-21 specimen B; AMNH JZC_Bu109), respectively. The scan settings are shown in the "CT_settings.txt" file.
DOI: 10.5281/zenodo.18293998
title: PyPSA-USA: GODEEEP-based renewable profiles for county-based bus network - solar_historical

description: solar_historical data for capacity factors in the continental US, processed from PNNL's GODEEEP dataset for a FIPS county-based bus network. Contains 43 NetCDF files.
DOI: 10.5281/zenodo.18293999
title: PyPSA-USA: GODEEEP-based renewable profiles for county-based bus network - solar_historical

description: solar_historical data for capacity factors in the continental US, processed from PNNL's GODEEEP dataset for a FIPS county-based bus network. Contains 43 NetCDF files.
DOI: 10.5061/dryad.zcrjdfnmd
title: Data from: Population structure varies among four western North American bumble bee species

description: Bumble bees (genus Bombus) are critical pollinators—providing the
 necessary ecological services for food and crop production. In western
 North America, species-rich bumble bee communities inhabit mountain
 ranges. However, as climate change increases temperatures, montane
 populations are restricted to higher elevations and their ability to
 disperse and maintain genetic diversity decreases as suitable habitat
 connecting populations decreases. This genetic isolation could lead to the
 extirpation of local pollinator populations and a loss of genetic
 diversity for pollinator species. We analyzed the genetic diversity of
 four broadly sympatric species of bumble bees with differing elevational
 niches—Bombus flavifrons, B. melanopygus, B. mixtus, and B.
 sylvicola—across the Rocky and Cascade Mountains of western North America
 to assess range-wide population genetic structure. We used microsatellite
 markers to assess genetic differentiation among populations (FST) and
 performed Bayesian clustering analyses to identify genetic groups within
 each study species. Further, we investigated if observed genetic
 differentiation within study species were better explained by isolation by
 distance (IBD) or isolation by resistance (IBR) by incorporating habitat
 suitability models (HSMs) into population structure analyses. Although we
 expected range-wide genetic differentiation for species with more narrow
 niche requirements, we found evidence of this differentiation for all four
 study species, with western populations experiencing significant genetic
 structure relative to inland populations. Additionally, IBR predicted
 genetic structure better than IBD for B. flavifrons and B. mixtus. Our
 results suggest that considering habitat connectivity across the
 geographic range of montane bumble bee species is important for
 understanding their population structures.
description: # Data From: Landscape heterogeneity drives population structure in four
 western bumble bee species
 [https://doi.org/10.5061/dryad.zcrjdfnmd](https://doi.org/10.5061/dryad.zcrjdfnmd) ## Description of the data and file structure Each study species is represented in its own tab Rows represent individual bee specimen allele sizes in base pairs Blank cells represent "missing data" Population =  site at which that bee was collected Name = specimen ID Remaining column names represent microsatellite loci with two columns per loci "For information on sites, see Site_info tab" ## Related Studies See Site_info tab for data used from Koch et al. 2017 "Koch JB, Looney C, Sheppard WS, et al. 2017. Patterns of population genetic structure and diversity across bumble bee communities in the Pacific Northwest. Conserv Genet. 18(3):507–520. [https://doi.org/10.1007/s10592-017-0944-8](https://doi.org/10.1007/s10592-017-0944-8)."
DOI: 10.5061/dryad.rr4xgxdgd
title: Complex models of sequence evolution improve fit, but not gene tree discordance, for tetrapod mitogenomes

description: Variation in gene tree estimates is widely observed in empirical
 phylogenomic data and is often assumed to be the result of biological
 processes. However, a recent study using tetrapod mitochondrial genomes to
 control for biological sources of variation due to their haploid,
 uniparentally inherited, and non-recombining nature found that levels of
 discordance among mitochondrial gene trees were comparable to those found
 in studies that assume only biological sources of variation. Additionally,
 they found that several of the models of sequence evolution chosen to
 infer gene trees were doing an inadequate job of fitting the sequence
 data. These results indicated that significant amounts of gene tree
 discordance in empirical data may be due to poor fit of sequence evolution
 models and that more complex and biologically realistic models may be
 needed. To test how the fit of sequence evolution models relates to gene
 tree discordance, we analyzed the same mitochondrial datasets as the
 previous study using two additional, more complex models of sequence
 evolution that each model a different biologically realistic aspect of the
 evolutionary process: a covarion model to incorporate heterotachy, and a
 model partitioned model to incorporate variable evolutionary patterns by
 codon position. Our results show that both additional models fit the data
 better than the models used in the previous study, with the covarion being
 consistently and strongly preferred as tree size increases. However, even
 these more preferred models still inferred highly discordant mitochondrial
 gene trees, thus deepening the mystery around what we label the
 “Mito-Phylo Paradox” and leading us to ask whether the observed variation
 could be biological after all.
description: # Complex models of sequence evolution improve fit, but not gene tree
 discordance, for tetrapod mitogenomes
 [https://doi.org/10.5061/dryad.rr4xgxdgd](https://doi.org/10.5061/dryad.rr4xgxdgd) This repository contains supplementary material for the associated manuscript, as well as all datasets used (folder: alignments), and example scripts for each analysis. The datasets provided were used in Bayesian MCMC, Stepping-Stone Marginal Likelihood Estimation, Non-Linear Dimensionality Reduction, and Bipartition-Covariance analysis. ## Description of the data and file structure The example RevBayes scripts provided can be used for both MCMC, as well as stepping-stone analyses. Non-linear Dimensionality Reduction and Bipartition-Covariance analysis were performed in CloudForest, and tutorials for each can be found on the CloudForest website. ## Code/Software All example scripts provided are for RevBayes, and additional details on setting up and running these analyses can be found on the RevBayes website.