cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.g893nb0
title: Data from: Indirect interactions influence contact network structure and diffusion dynamics

description: Interaction patterns at the individual level influence the behaviour of
 diffusion over contact networks. Most of the current diffusion models only
 consider direct interactions, capable of transferring infectious items
 among individuals, to build transmission networks of diffusion. However,
 delayed indirect interactions, where a susceptible individual interacts
 with infectious items after the infected individual has left the
 interaction space, can also cause transmission events. We define a
 diffusion model called the same place different time transmission (SPDT)
 based diffusion that considers transmission links for these indirect
 interactions. Our SPDT model changes the network dynamics where the
 connectivity among individuals varies with the decay rates of link
 infectivity. We investigate SPDT diffusion behaviours by simulating
 airborne disease spreading on data-driven contact networks. The SPDT model
 significantly increases diffusion dynamics with a high rate of disease
 transmission. By making the underlying connectivity denser and stronger
 due to the inclusion of indirect transmissions, SPDT models are more
 realistic than SPST models for the study of various airborne diseases
 outbreaks. Importantly, we also find that the diffusion dynamics including
 indirect links are not reproducible by the current SPST models based on
 direct links, even if both SPDT and SPST networks assume the same
 underlying connectivity. This is because the transmission dynamics of
 indirect links are different from those of direct links. These outcomes
 highlight the importance of the indirect links for predicting outbreaks of
 airborne diseases.
description: SPDT_NETThis is the constructed SPDT contact network among 364K nodes over 32 days using GPS locations of Momo users. This network has both direct and indirect links. In this network, the links have the following format: Host-ID, Neighbor-ID, Host-Arrival-Time, Host-Depart-Time, Neb-Arrival-Time, Neb-Depart-Time. Each link has been created for visiting a common location within 3 hours of host node departure. The node ID is anonymised and spatial location information is also removed. This is only the links over time.
DOI: 10.5061/dryad.r18r8p1
title: Data from: Hummingbirds budget energy flexibly in response to changing resources

description: 1. Managing energy stores in response to variable resource availability is
 a key component to individual fitness, yet because directly measuring
 energy budgets is difficult, daily energy management is rarely measured.
 2. Hummingbirds’ energy management is relatively simple to model compared
 to other endotherms because they have high mass-specific metabolic rates
 and store little fat. 3. We determined which aspects of the hummingbird
 daily energy budget (i.e. thermoregulation, daytime activity costs,
 nighttime costs) change at the individual level in response to
 environmental variation. 4. We found that daily energy expenditure varied
 three-fold in two populations of broad-billed hummingbirds (Cynanthus
 latirostris). 5. Our model indicated the energy budget was distributed in
 the following proportions: daytime activity, 59% (range 22-84%);
 thermoregulation, 23% (11 – 32%), basal metabolism, 7% (3 – 16%), and
 nighttime energy 17% (6 – 37%). Activity costs were higher at the hotter,
 homogeneous site and during the early-wet season at both sites. 6.
 Increased daily energy expenditure was related to decreased nectar
 availability, and not significantly related to temperature or bird mass.
 With climate change, the indirect energetic costs of shifting resources
 could have greater impacts on endotherm energy budgets than direct costs
 such as thermoregulation. Increased foraging and activity costs could
 decrease the energy available to birds for somatic repair and
 reproduction, potentially causing differential fitness across seasons and
 sites.
description: DLW daily energy
 expenditure measurementsDoubly-labelled
 measurements of daily energy expenditure for broad-billed hummingbirds in
 ArizonaDLW_summary.csvModeled values for hummingbird daily energy budgetIncludes multiple scenarios for daytime activity, thermoregulation, torpor use, and BMREnergyBudget_model_values.csvValidation of the DLW protocol, part AComparing control and bird samples' oxygen enrichment.Validation_Enrichment_dose_A.csvValidation of DLW protocol, part BTesting equilibration timesValidation_enrichment_eqb_B.csvValidation of DLW protocol, part CCO2 production by dose using the modified DLW protocolValidation_CO2produc_dose_C.csvScholander-Irving measurements for Costa's hummingbirdsRespirometry measurements of oxygen consumption for Costa's hummingbirds in a temperature-controlled chamber. Used to model the thermoneutral zone for broad-billed hummingbirds. Data collected in 1986 by DR Powers.Costas1986_VO2_DRPowers.csvFloral Census DataField point count data for floral abundance at Harshaw and Sonoita across seasons.FloralCensusData2013.csvMetadata and file descriptors for energy budget datasetsContains descriptions for all dataset files accompanying this paper (each column and its possible values are described).Metadata_EnergyBudget_ShankarEtal.docx
DOI: 10.15468/dl.394ccj
title: Occurrence Download

description: A dataset containing 50 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-71.61794 42.24329,-70.57704 42.24329,-70.57704 42.76401,-71.61794 42.76401,-71.61794 42.24329))",
 "HasGeospatialIssue is false",
 "TaxonKey is Ambystoma laterale"
 ]
}

 The dataset includes 50 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001805-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.1v31m0c
title: Data from: Behavioral responses to conspecific mobbing calls are predator-specific in great tits (Parus major)

description: When facing a predator, animals need to perform an appropriate
 anti-predator behavior such as escaping or mobbing to prevent predation.
 Many bird species exhibit distinct mobbing behaviors and vocalizations
 once a predator has been detected. In some species, mobbing calls transmit
 information about predator type, size and threat, which can be assessed by
 conspecifics. We recently found that great tits (Parus major) produce
 longer D calls with more elements and longer intervals between elements
 when confronted with a sparrowhawk, a high-threat predator, in comparison
 to calls produced in front of a less-threatening tawny owl. In the present
 study, we conducted a playback experiment to investigate if these
 differences in mobbing calls elicit different behavioral responses in
 adult great tits. We found tits to have a longer latency time and to keep
 a greater distance to the speaker when sparrowhawk mobbing calls were
 broadcast. This suggests that tits are capable of decoding information
 about predator threat in conspecific mobbing calls. We further found a
 tendency for males to approach faster and closer than females, which
 indicates that males are willing to take higher risks in a mobbing context
 than females.
description: Behavioral response of
 great tits to conspecific mobbing callsData have been obtained
 during field work in southwest Germany outside the breeding season of
 great tits.Data Ecology and
 Evolution.xlsx
DOI: 10.15468/dl.ujfxwg
title: Occurrence Download

description: A dataset containing 12019 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Museo Argentino de Ciencias Naturales \"Bernardino Rivadavia\" (MACN). Ameghino National Collection (MACNA)"
 ]
}

 The dataset includes 12019 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001809-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.4fn50k3
title: Data from: Land management modulates the environmental controls on global earthworm communities

description: Aim: Soils and their biological communities face increasing pressure from
 multiple global drivers, including land management and climate change. In
 soils, earthworms play key roles in ecosystem functioning, but the
 environmental controls on their global communities are not fully
 understood. Here, an earthworm dataset was compiled to investigate the
 effects of environmental controls and land management on global earthworm
 communities. Location: 40 ° S – 65 ° N. Time period: 1962 to 2016. Major
 taxa studied: Earthworms Methods: A dataset of 899 earthworm community
 observations, together with environmental variables, was compiled across
 169 globally distributed sites. Sites included natural forests and
 grasslands or managed arable, pasture or plantation ecosystems. Total,
 anecic, endogeic and epigeic abundances were compared in natural and
 managed ecosystems to quantify the effects of land management across
 climates. A hierarchical model was used to test interactions between
 earthworm communities with environmental controls and management across
 eighteen ecosystem types. Results: Land management prompted little change
 in total earthworm abundance at the global scale, but reduced species
 richness and shifted community composition. Endogeic earthworms were more
 abundant in managed ecosystems, while anecic and epigeic earthworms show
 variable responses across ecosystem types. Global relationships between
 total earthworm species richness and abundance were explained by climate,
 soil pH and land management. Main conclusions: Land management modulates
 the effects of environmental controls on global earthworm communities,
 through direct disturbance and indirect changes in edaphic conditions.
description: Earthworm_community_dataset_JohnstonGEBEarthworm community dataset, including measures of total earthworm community abundance and species richness with environmental variables across the different studies, climates and ecosystem types.Earthworm_data_sourcesArticle information for the studies compiled in the earthworm community dataset.
DOI: 10.5061/dryad.2rd5c3b
title: Data from: Phylogenetic relationships of Iranian Allium sect. Allium (Amaryllidaceae, Allioideae) as inferred from nrDNA ITS, cpDNA rps16 and trnL–F sequences

description: Allium is a particularly species rich (more than 800 species) and
 economically important genus, with numerous taxonomic problems at all
 levels of classification. In this study, we try to uncover the
 phylogenetic relationships in the common leek (A. ampeloprasum) based on
 selected samples of this species and its putative relatives in sect.
 Allium from Iran. The silica-dried leaf samples of 56 accessions
 representing 23 species of Allium were sequenced for this study, 53
 sequences of nrDNA ITS, 35 sequences of plastid rps16 and 52 sequences of
 trnL-F were generated and several accessions were extracted from GenBank
 in order to cover all recognized main lineages in the genus. Maximum
 Parsimony and Bayesian Inference generated similar trees, but the
 placement of A. ampeloprasum and its relatives differs slightly in the
 nuclear versus plastid datasets. In the nrITS tree A. ampeloprasum is
 retrieved in a highly supported clade with A. iranicum, while in the
 combined plastid tree A. ampeloprasum formed a highly supported clade with
 A. vineale. This supports the hypothesis of a possible hybrid origin of A.
 ampeloprasum. Allium iranicum formed a clade in the plastid tree, but was
 resolved as paraphyletic in the nrITS tree, probably due to presence of
 multiple non-concerted copies of nrITS. Close relationships are suggested
 between following species: A. aznavense and A. wendelboi with A.
 talyschense, A. erubescens and A. rotundum with A. scorodoprasum, and A.
 abbasii with A. phanerantherum.
description: Species
 PhenologyPhenology of Allium
 spp.
DOI: 10.5061/dryad.pd5hh46
title: Data from: Rethinking the effects of body size on the study of brain size evolution

description: Body size correlates with most structural and functional components of an
 organism’s phenotype – brain size being a prime example of allometric
 scaling with animal size. Therefore, comparative studies of brain
 evolution in vertebrates rely on controlling for the scaling effects of
 body size variation on brain size variation by calculating brain
 weight/body weight ratios. Differences in the brain size-body size
 relationship between taxa are usually interpreted as differences in
 selection acting on the brain or its components, while selection pressures
 acting on body size, which are among the most prevalent in nature, are
 rarely acknowledged, leading to conflicting and confusing conclusions. We
 address these problems by comparing brain-body relationships from across
 &gt;1,000 species of birds and non-avian reptiles. Relative brain size
 in birds is often assumed to be 10 times larger than in reptiles of
 similar body size. We examine how differences in the specific gravity of
 body tissues and in body design (e.g., presence/absence of a tail or a
 dense shell) between these two groups can affect estimates of relative
 brain size. Using phylogenetic comparative analyses, we show that the gap
 in relative brain size between birds and reptiles has been grossly
 exaggerated. Our results highlight the need to take into account
 differences between taxa arising from selection pressures affecting body
 size and design, and call into question the widespread misconception that
 reptile brains are small and incapable of supporting sophisticated
 behavior and cognition.
description: DryadData on brain mass and
 body mass for 175 non-avian reptiles and 934 bird species used in Font et
 al. (2019)
DOI: 10.5061/dryad.7nm4970
title: Data from: Plant-driven changes in soil microbial communities influence seed germination through negative feedbacks

description: 1. Plant-soil feedbacks (PSFs) drive plant community diversity via
 interactions between plants and soil microbes. However, we know little
 about how frequently PSFs affect plants at the seed stage, and the
 compositional shifts in fungi that accompany PSFs on germination. 2. We
 conducted a pairwise PSF experiment to test whether seed germination was
 differentially impacted by conspecific versus heterospecific soils for
 seven grassland species. We used metagenomics to characterize shifts in
 fungal community composition in soils conditioned by each plant species.
 To investigate whether changes in the abundance of certain fungal taxa
 were associated with multiple PSFs, we assigned taxonomy to soil fungi and
 identified putative pathogens that were significantly more abundant in
 soils conditioned by plant species that experienced negative or positive
 PSFs. 3. We observed negative, positive, and neutral PSFs on seed
 germination. Although conspecific and heterospecific soils for pairs with
 significant PSFs contained host-specialized soil fungal communities, soils
 with specialized microbial communities did not always lead to PSFs. The
 identity of host-specialized pathogens, i.e. taxa uniquely present or
 significantly more abundant in soils conditioned by plant species
 experiencing negative PSFs, overlapped among plant species, while putative
 pathogens within a single host plant species differed depending on the
 identity of the heterospecific plant partner. Finally, the magnitude of
 feedback effects on germination were not related to the degree of fungal
 community differentiation between species pairs involved in negative PSFs.
 4. Synthesis. Our findings reveal the potential importance of PSFs at the
 seed stage. Although plant species developed host-specialized fungal
 communities in rhizosphere soil, pathogens were not strictly
 host-specific, and varied not just between plant species, but according to
 the identity of plant partner. These results illustrate the complexity of
 microbe-mediated interactions between plants at different life stages that
 next-generation sequencing can begin to unravel.
description: Miller_et_al_GerminationGermination data for seeds buried in soils conditioned by conspecific and heterospecific plant speciesMiller_et_al_FungalCommunitiesMatrix of fungal taxa by sample found in soils conditioned by seven different plant species.Miller_et_al_FeedbackDistanceData relating distance (in multivariate space) of fungal communities in soils conditioned by different plant species to the magnitude of plant soil feedback observed
DOI: 10.5281/zenodo.18392639
title: Topological Intersection of Worldlines and Material Non-Uniqueness in High-$\gamma$ Minkowskian Configurations

description: We identify a topological anomaly in Special Relativity (SR) arising from specific spacetime configurations at subluminal velocities ($v < c$). We demonstrate that for high Lorentz factors ($\gamma > 10^4$), the worldline of a massive object can intersect a single spatial hypersurface multiple times without violating causality constraints. This phenomenon, which we term \textit{Emergent Retrocausality}, challenges the axiom of "Ontological Uniqueness" of matter. By introducing a configuration function $f$ and analyzing the energy-momentum tensor $T^{\mu\nu}$, we prove that material duplication is a valid solution to the field equations in a multi-sheeted interpretation of Minkowski spacetime.

 

This manuscript is current in Official Peer Review.

Not final version.Copyright©2026 Alex De Giuseppe.All rights reserved.

This work is protected by copyright. Any form of plagiarism, unauthorized reproduction, or misappropriation of ideas, mathematically results, or text without proper citation constitutes a violation of academic and intellectual property standards and common laws.

No commercial use, adaptation, or derivative works are permitted without explicit written permission from the author.

For correspondence, citations, collaboration inquiries, or feedback please contact:degiuseppealex@gmail.com

The hash files that determine ownership have been created
DOI: 10.5281/zenodo.18392640
title: Topological Intersection of Worldlines and Material Non-Uniqueness in High-$\gamma$ Minkowskian Configurations

description: We identify a topological anomaly in Special Relativity (SR) arising from specific spacetime configurations at subluminal velocities ($v < c$). We demonstrate that for high Lorentz factors ($\gamma > 10^4$), the worldline of a massive object can intersect a single spatial hypersurface multiple times without violating causality constraints. This phenomenon, which we term \textit{Emergent Retrocausality}, challenges the axiom of "Ontological Uniqueness" of matter. By introducing a configuration function $f$ and analyzing the energy-momentum tensor $T^{\mu\nu}$, we prove that material duplication is a valid solution to the field equations in a multi-sheeted interpretation of Minkowski spacetime.

 

This manuscript is current in Official Peer Review.

Not final version.Copyright©2026 Alex De Giuseppe.All rights reserved.

This work is protected by copyright. Any form of plagiarism, unauthorized reproduction, or misappropriation of ideas, mathematically results, or text without proper citation constitutes a violation of academic and intellectual property standards and common laws.

No commercial use, adaptation, or derivative works are permitted without explicit written permission from the author.

For correspondence, citations, collaboration inquiries, or feedback please contact:degiuseppealex@gmail.com

The hash files that determine ownership have been created
DOI: 10.5061/dryad.902cq26
title: Data from: Alternative functional trajectories along succession after different land-use in central Amazonia

description: 1. The recovery capacity and the successional pathways of tropical forests
 after anthropogenic disturbance vary considerably and may depend on prior
 land-use type and intensity. It is still unclear if forests subjected to
 high intensity impact, such as periodically burned pastures, are capable
 of restoring their original functional properties. 2. This study analysed
 the functional trait dynamics of the dominant species in successional
 trajectories following two land uses, pasture or clear-cut, north of
 Manaus. Fourteen years of demographic data from the Biological Dynamics of
 Forest Fragments Project were used to determine the dominant species of
 the two successional trajectories, for which leaf area, leaf dry mass
 content, specific leaf area and wood density were collected whereas seed
 mass was obtained from literature. Community weighted mean (CWM) of each
 trait was weighted by basal area determined annually along succession. PCA
 was used to analyse the extension and direction of the functional
 trajectories of plots. 3. Forests regenerating from pastures increased in
 wood density along successional time, but other traits did not change
 significantly. Succession after clear-cut exhibited increasing leaf dry
 mass content and seed mass, and decreasing leaf area along time, but no
 change in wood density. Functional trajectories of plots after clear-cut
 were more extensive and directional than those of pasture-derived plots.
 4. Synthesis and applications: We demonstrate how central Amazonian
 secondary forests subjected to different land uses showed differences in
 functional trait trajectories, in ways parallel to previously shown
 changes in biomass, floristic diversity and forest structure. These
 results indicate that natural recovery of forest functional traits is
 affected by prior land-use history, with implications for management and
 restoration. Thus, natural recovery of forests on abandoned pastures is
 much slower than clear-cuts, even though seed sources from mature forests
 are very close to these areas, and the former may need intervention to
 counteract the diverted succession.
description: Fernandes Neto et al.
 2019. Species_functional-traitsThat file is related
 with all functional trati data collected on this work. Original file is on
 excel and data was used on R program. The abbreviations descriptions are
 on a spreadsheet inside on the file.Fernandes Neto et al.
 2019. Plots_relative-dominanceThat data is related
 with the values from relative dominance of the species and comes from
 Pioneiras Project data. Therefore, it is a data processed from census of
 secondary succession on these two types of land-use (pastures and clear
 cut) by the Pioneiras Project.