cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.v6n86
title: Data from: Mating portfolios: bet-hedging, sexual selection and female multiple mating

description: Polyandry (female multiple mating) has profound evolutionary and
 ecological implications. Despite considerable work devoted to
 understanding why females mate multiply, we currently lack convincing
 empirical evidence to explain the adaptive value of polyandry. Here, we
 provide a direct test of the controversial idea that bet-hedging functions
 as a risk-spreading strategy that yields multi-generational fitness
 benefits to polyandrous females. Unfortunately, testing this hypothesis is
 far from trivial, and the empirical comparison of the across-generations
 fitness payoffs of a polyandrous (bet hedger) versus a monandrous (non-bet
 hedger) strategy has never been accomplished because of numerous
 experimental constraints presented by most ‘model’ species. In this study,
 we take advantage of the extraordinary tractability and versatility of a
 marine broadcast spawning invertebrate to overcome these challenges. We
 are able to simulate multi-generational (geometric mean) fitness among
 individual females assigned simultaneously to a polyandrous and monandrous
 mating strategy. Our approaches, which separate and account for the
 effects of sexual selection and pure bet-hedging scenarios, reveal that
 bet-hedging, in addition to sexual selection, can enhance evolutionary
 fitness in multiply mated females. In addition to offering a tractable
 experimental approach for addressing bet-hedging theory, our study
 provides key insights into the evolutionary ecology of sexual
 interactions.
description: Data from: Mating
 portfolios: bet-hedging, sexual selection and female multiple
 matingRaw data for
 fertilization rates and embryo survival in the two experiments that were
 carried out. Excel file. Column names are self-explanatory (see Material
 and Methods in the article for further details).Mating porfolios RAW DATA
 Dryad.xlsx
DOI: 10.5061/dryad.5rc1973
title: Data from: Bioprinted liver provides early insight into the role of Kupffer cells in TGF-β1 and methotrexate-induced fibrogenesis

description: Hepatic fibrosis develops from a series of complex interactions among
 resident and recruited cells making it a challenge to replicate using
 standard in vitro approaches. While studies have demonstrated the
 importance of macrophages in fibrogenesis, the role of Kupffer cells (KCs)
 in modulating the initial response remains elusive. Previous work
 demonstrated utility of 3D bioprinted liver to recapitulate basic
 fibrogenic features following treatment with fibrosis-associated agents.
 In the present study, culture conditions were modified to recapitulate a
 gradual accumulation of collagen within the tissues over an extended
 exposure timeframe. Under these conditions, KCs were added to the model to
 examine their impact on the injury/fibrogenic response following cytokine
 and drug stimuli. A 28-day exposure to 10 ng/mL TGF-β1 and 0.209 µM
 methotrexate (MTX) resulted in sustained LDH release which was attenuated
 when KCs were incorporated in the model. Assessment of miR-122 confirmed
 early hepatocyte injury in response to TGF-β1 that appeared delayed in the
 presence of KCs, whereas MTX-induced increases in miR-122 were observed
 when KCs were incorporated in the model. Although the collagen responses
 were mild under the conditions tested to mimic early fibrotic injury, a
 global reduction in cytokines was observed in the KC-modified tissue model
 following treatment. Furthermore, gene expression profiling suggests KCs
 have a significant impact on baseline tissue function over time and an
 important modulatory role dependent on the context of injury. Although the
 number of differentially expressed genes across treatments was comparable,
 pathway enrichment suggests distinct, KC- and time-dependent changes in
 the transcriptome for each agent. As such, the incorporation of KCs and
 impact on baseline tissue homeostasis may be important in recapitulating
 temporal dynamics of the fibrogenic response to different agents.
description: Fig1LDH and miR-122 release
 from the standard (-KCs) and modified (+KCs) tissue
 model.Fig2Urea and albumin
 secretion from the standard (-KCs) and modified (+KCs) tissue
 model.Fig3Collagen deposition in
 tissue sections from the standard (-KCs) and modified (+KCs) tissue
 model.Fig4Abundance of
 inflammatory cytokines in the culture medium of the standard (-KCs) and
 modified (+KCs) tissue model.
DOI: 10.5061/dryad.c1dn34b
title: Data from: Within-species patterns challenge our understanding of the Leaf Economics Spectrum

description: The utility of plant functional traits for predictive ecology relies on
 our ability to interpret trait variation across multiple taxonomic and
 ecological scales. Using extensive datasets of trait variation within
 species, across species, and across communities, we analyzed whether and
 at what scales ‘leaf economics spectrum’ (LES) traits show predicted
 trait-trait covariation. We found that most variation in LES traits is
 often, but not universally, at high taxonomic levels (between families,
 between genera in a family). However, we found that trait covariation
 shows distinct taxonomic scale-dependence, with some trait correlations
 showing opposite signs within versus across species. LES traits responded
 independently to environmental gradients within species, with few shared
 environmental responses across traits or across scales. We conclude that,
 at small taxonomic scales, plasticity may obscure or reverse the broad
 evolutionary linkages between leaf traits, meaning that variation in LES
 traits cannot always be interpreted as differences in resource use
 strategy.
description: Within-species leaf
 trait dataIncludes data files and
 a metadata spreadsheet for previously unpublished data on leaf trait
 variation across geographic or elevation gradients in: Eucalyptus obliqua
 & Eucalyptus ovata (Eucalyptus_LeafTrait_Data_20180220.csv), Populus
 tremuloides (Populus_tremuloides_LeafTrait_Data_20180202.csv), Quercus
 gambelii (Quercus_gambelii_LeafTrait_Data_20180220.csv), and Aster
 alpigenus, Castilleja parviflora, Erythronium montanum, Lupinus arcticus,
 Valeriana sitchensis, and Veratrum viride
 (MtRainierFlowers_LeafTrait_Data_20180220.csv). Previously published data
 used in the analysis can be found at DOI: 10.1038/nature0240,
 dx.doi.org/10.3334/ORNLDAAC/1292, and
 10.1111/1365-2435.12790DataFiles_and_Metadata.zip
DOI: 10.3535/jfy-7tt-ne2
title: Thelodus sculptilis

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/p17-d68-vsd
title: Calymene

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/3ds-1bj-ek8
title: Thelodus sculptilis

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/sq4-yd1-ywy
title: Calymene

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.5061/dryad.rj7g1
title: Data from: Making pore choices: repeated regime shifts in stomatal ratio

description: Ecologically important traits do not evolve without limits. Instead,
 evolution is constrained by the set of available and viable phenotypes. In
 particular, natural selection may only favour a narrow range of adaptive
 optima constrained within selective regimes. Here, I integrate data with
 theory to test whether selection explains phenotypic constraint. A global
 database of 599 plant species from 94 families shows that stomatal ratio,
 a trait affecting photosynthesis and defence against pathogens, is highly
 constrained. Most plants have their stomata on the lower leaf surface
 (hypostomy), but species with half their stomata on each surface
 (amphistomy) form a distinct mode in the trait distribution. A model based
 on a trade-off between maximizing photosynthesis and a fitness cost of
 upper stomata predicts a limited number of adaptive solutions, leading to
 a multimodal trait distribution. Phylogenetic comparisons show that
 amphistomy is the most common among fast-growing species, supporting the
 view that CO2 diffusion is under strong selection. These results indicate
 that selective optima stay within a relatively stable set of selective
 regimes over macroevolutionary time.
description: Code and
 datasetsDryad.zip
DOI: 10.3535/eq6-8yk-1tc
title: Calymene

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/ksj-g93-s7j
title: Calymene

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/lym-jj5-223
title: Tremataspis schmidti

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.5061/dryad.t7s3cr8
title: Data from: Assembling the forest herb community after abandonment from agriculture: long-term successional dynamics differ with land-use history

description: 1. Cultivation and pasturing, both historically common forms of
 agriculture in eastern North America, differ in their long-term
 environmental legacies. We ask whether successional re-assembly of the
 forest herb community differs between second-growth stands with
 contrasting agricultural histories. We predicted that herb communities
 would diverge through a process of environmental filtering as colonist
 species responded to the agricultural histories of individual sites and to
 underlying edaphic gradients. 2. Thirty-five second-growth stands were
 grouped into a replicated chronosequence of formerly cultivated and
 pastured sites spanning 80 years after canopy closure. Five
 long-established stands without signs of agricultural history were
 included as controls. Herbaceous vegetation and soil and environmental
 variables were recorded at each site. 3. Forest herb species accumulated
 through the chronosequence. Community composition changed through
 successional time, transitioning from open-forest species to
 shade-tolerant perennial herbs, and differed significantly between
 pastured and cultivated sites. A high degree of similarity among control
 sites suggests eventual convergence, although chronosequence sites at 80
 years had not yet reached the richness and composition observed in the
 controls. Agricultural practices were initially distinguishable in species
 richness, evenness, and composition but agricultural influence receded as
 the stands approached 80 years. 4. Synthesis: Community assembly in
 post-agricultural forests appears to be a process of site-level
 convergence driven by gradual accumulation of species from the regional
 species pool, relatively rapid conformity to soil gradients, and growth of
 the forest stand. This is result is scale-dependent; distributions are
 controlled by topographic filtering at coarser and finer scales.
description: Holmes and Matlack herb
 abundance by siteAbundance of forest herb
 species in each of 40 chronosequence sites.Holmes and Matlack herb
 presence absencePresence date for all
 forest herb species observed in each of 40 chronosequence sites. Used to
 calculate species richness in the associated article.Holmes and Matlack
 environment by siteEnvironmental data
 averaged at the site scale used for analysis on environmental influence on
 plant community composition.
DOI: 10.3535/4ms-snq-16r
title: Thelodus parvidens

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/bpt-71b-s13
title: Procephalaspis sp. ind.

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/gs5-bqe-fkn
title: Calymene

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/m25-cl0-dxr
title: Thyestes? sp. ind.

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/bhj-4wp-q4m
title: Calymene

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/za7-dm5-z60
title: Tahulaspis ordinata

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.5061/dryad.66216
title: Data from: The influence of complex and threatening environments in early life on brain size and behaviour

description: The ways in which challenging environments during development shape the
 brain and behaviour are increasingly being addressed. To date, studies
 typically consider only single variables, but the real world is more
 complex. Many factors simultaneously affect the brain and behaviour, and
 whether these work independently or interact remains untested. To address
 this, zebrafish (Danio rerio) were reared in a two-by-two design in
 housing that varied in structural complexity and / or exposure to a
 stressor. Fish experiencing both complexity (enrichment objects changed
 over time) and mild stress (daily net chasing) exhibited enhanced learning
 and were less anxious when tested as juveniles (between 77-90 days).
 Adults tested aged 1 year, were also less anxious even though fish were
 kept in standard housing after 3 months of age (i.e. no chasing or
 enrichment). Volumetric measures of the brain using magnetic resonance
 imaging (MRI) showed that complexity alone generated fish with a larger
 brain, but this increase in size was not seen in fish that experienced
 both complexity and chasing, or chasing alone. The results highlight the
 importance of looking at multiple variables simultaneously, and reveal
 differential effects of complexity and stressful experiences during
 development of the brain and behaviour.
description: DATASET_DePasquale
 Cairsty et alRaw data of behavioural
 experiments and MRI analyses described in the ms: "The influence of
 complex and threatening environments in early life on brain size and
 behaviour"DePasquale et al_Raw Data
 .xlsx
DOI: 10.15468/dl.u4y2za
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Syngonium podophyllum",
 "Country is Antigua and Barbuda",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027433-250811113504898/datasets/export for details.
DOI: 10.15468/dl.vxuxgm
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Syngonium podophyllum",
 "Country is Bahamas",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0027434-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6n4n9f
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Colemaniella albulus",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001273-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xspbmc
title: Occurrence Download

description: A dataset containing 1279 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "TaxonKey is Trichromis salvini"
 ]
}

 The dataset includes 1279 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001274-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.m44tmy
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Crambella teretifolia",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 9 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001276-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u588y6
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Southwellina macracanthus",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001277-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.db9bvx
title: Occurrence Download

description: A dataset containing 41 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cremolobus chilensis",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 41 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001278-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11056108
title: Multicomplex Integrative Structural Modeling of a Human Histone Deacetylase Interactome

description: Histone deacetylases (HDACs) 1 and 2 are Class I HDACs that are members of several transcriptional regulatory complexes including coREST, MIER, NuRD, and SIN3. The interaction of each HDAC within the complex is undefined. Our studies utilize Affinity Purification and Crosslinking Mass Spectrometry to define HDAC1 and 2 interactions. We determined the structures of NuRD, SIN3A, and coREST by integrative structural modeling.
DOI: 10.5281/zenodo.11498577
title: Multicomplex Integrative Structural Modeling of a Human Histone Deacetylase Interactome

description: Histone deacetylases (HDACs) 1 and 2 are Class I HDACs that are members of several transcriptional regulatory complexes including coREST, MIER, NuRD, and SIN3. The interaction of each HDAC within the complex is undefined. Our studies utilize Affinity Purification and Crosslinking Mass Spectrometry to define HDAC1 and 2 interactions. We determined the structures of NuRD, SIN3A, and coREST by integrative structural modeling.
DOI: 10.5281/zenodo.18425905
title: Ari (ARI) - Gemach DAO On-Chain Agent (TEE) on Fraxtal

description: Ari (ARI) - Gemach DAO On-Chain Agent (TEE) on Fraxtal is a citable, versioned reference bundle for Ari’s on-chain deployment metadata, governance pointers, and public provenance anchors on the Fraxtal chain.

This record is intended to provide:





Stable citation for Ari’s public reference materials via Zenodo DOI versioning




Reproducible provenance by pinning core on-chain references (token + governance) and the canonical IQ AI agent page used to surface deployment details




Machine-friendly metadata for indexing, discovery, and agent/LLM retrieval through standardized files (CITATION.cff, zenodo.json)




Release discipline with a minimal release structure, checksum file, and a repeatable “release → DOI” workflow



What’s included in this Zenodo bundle





README.md — overview, scope, and citation instructions




CITATION.cff — machine-readable citation metadata (update with DOI after minting)




zenodo.json — Zenodo metadata for consistent indexing




references/ONCHAIN-PROVENANCE.md — provenance anchors and external references




release/v0.1.0/CHECKSUMS.sha256 — SHA-256 checksums for included files




release/RELEASE-CHECKLIST.md — checklist for future releases and DOI updates



Primary public provenance anchors

This record ties Ari’s public reference points to:





IQ AI (Ari agent page / proposals): https://app.iqai.com/pending/0xe622627f9e31eAc59d28BE5B8E032017EB683Ec2/proposals




Fraxtal token contract (ARI): 0xe622627f9e31eAc59d28BE5B8E032017EB683Ec2 (viewable via Fraxscan)




Governance contract: 0xB214b758c35801896175C2735369C494F5D5bB88 (viewable via Fraxscan)



TEE scope

This record describes Ari as a TEE-enabled on-chain agent on Fraxtal at the level of a citable reference bundle. Implementation specifics (e.g., enclave configuration, attestation flow, threat model, and any public audits) will be added incrementally in future tagged releases.

How to cite

Zenodo will mint a DOI for this version and a concept DOI for the project. Use the DOI shown on this record page when citing. A machine-readable citation entry is also included in CITATION.cff.

Related resources





GitHub reference folder: https://github.com/GoldstonianConcordanceBible/zenodo-gemachdao/tree/main/ari-gemachdao-tee-fraxtal-agent
DOI: 10.5281/zenodo.18425906
title: Ari (ARI) - Gemach DAO On-Chain Agent (TEE) on Fraxtal

description: Ari (ARI) - Gemach DAO On-Chain Agent (TEE) on Fraxtal is a citable, versioned reference bundle for Ari’s on-chain deployment metadata, governance pointers, and public provenance anchors on the Fraxtal chain.

This record is intended to provide:





Stable citation for Ari’s public reference materials via Zenodo DOI versioning




Reproducible provenance by pinning core on-chain references (token + governance) and the canonical IQ AI agent page used to surface deployment details




Machine-friendly metadata for indexing, discovery, and agent/LLM retrieval through standardized files (CITATION.cff, zenodo.json)




Release discipline with a minimal release structure, checksum file, and a repeatable “release → DOI” workflow



What’s included in this Zenodo bundle





README.md — overview, scope, and citation instructions




CITATION.cff — machine-readable citation metadata (update with DOI after minting)




zenodo.json — Zenodo metadata for consistent indexing




references/ONCHAIN-PROVENANCE.md — provenance anchors and external references




release/v0.1.0/CHECKSUMS.sha256 — SHA-256 checksums for included files




release/RELEASE-CHECKLIST.md — checklist for future releases and DOI updates



Primary public provenance anchors

This record ties Ari’s public reference points to:





IQ AI (Ari agent page / proposals): https://app.iqai.com/pending/0xe622627f9e31eAc59d28BE5B8E032017EB683Ec2/proposals




Fraxtal token contract (ARI): 0xe622627f9e31eAc59d28BE5B8E032017EB683Ec2 (viewable via Fraxscan)




Governance contract: 0xB214b758c35801896175C2735369C494F5D5bB88 (viewable via Fraxscan)



TEE scope

This record describes Ari as a TEE-enabled on-chain agent on Fraxtal at the level of a citable reference bundle. Implementation specifics (e.g., enclave configuration, attestation flow, threat model, and any public audits) will be added incrementally in future tagged releases.

How to cite

Zenodo will mint a DOI for this version and a concept DOI for the project. Use the DOI shown on this record page when citing. A machine-readable citation entry is also included in CITATION.cff.

Related resources





GitHub reference folder: https://github.com/GoldstonianConcordanceBible/zenodo-gemachdao/tree/main/ari-gemachdao-tee-fraxtal-agent
DOI: 10.15468/dl.ahusgm
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mangelia heptagona",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 8 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001279-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.