cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.qs13nt1
title: Data from: Land‐sharing potential of large carnivores in human‐modified landscapes of western India

description: The current Protected Area (PA)network is not sufficient to ensure
 long-term persistence of wide-ranging carnivore populations.Within India,
 this is particularly the case for species that inhabit non-forested areas
 since PAs disproportionately over-represent forested ecosystems. With
 growing consideration of human-use landscapes as potential habitats for
 adaptable large carnivores, India provides a model for studying them in
 densely populated landscapes, where there is little understanding about
 human-carnivore interactions in shared spaces. Using key informant
 interviews and an occupancy modeling framework, we assessed the
 distribution of three large carnivore species, the leopard Panthera
 pardus, Indian grey wolf Canis lupus pallipes and striped hyena Hyaena
 hyaena, across a ~89,000 km2 semi-arid multi-use landscape in western
 India, and quantified ecological drivers of their presence.The three
 species occupied 57% (leopard), 64% (wolf) and 75% (hyena) of the
 landscape of which only 2.6% area is protected as national parks or
 wildlife sanctuaries. Presence of the three carnivores was differentially
 favored by certain types of agriculture,while populations of domestic
 livestock supported them in this landscape with low densities of large
 wild prey. Our results demonstrate the adaptability of large carnivores in
 human-modified landscapes and we call for an expansion of the current
 conservation narratives which currently focus on forested protected
 areas,to include the high potential that anthropogenic landscapes offer as
 habitats where people and predators can co-adapt and persist.
description: all species occupancy
 covariate fileThis contains the data
 on occupancy covariates used for all three species in our logistic
 regression models.Leopard detection matrix
 and covariatesThis file contains the
 detection matrix and detection covariates used for leopard in our logistic
 regression models.Wolf detection matrix
 and covariatesThis file contains the
 detection matrix and detection covariates used for wolf in our logistic
 regression models.Hyena detection matrix
 with covariatesThis file contains the
 detection matrix and detection covariates used for hyena in our logistic
 regression models.
DOI: 10.5061/dryad.0gm2pm3
title: Data from: Variation in sexual brain size dimorphism over the breeding cycle in the three-spined stickleback

description: Snapshot analyses have demonstrated dramatic intraspecific variation in
 the degree of brain sexual size dimorphism (SSD). Although brain SSD is
 believed to be generated by the sex-specific cognitive demands of
 reproduction, the relative roles of developmental and population specific
 contributions to variation in brain SSD remain little studied. Using a
 common garden experiment, we tested for sex-specific changes in brain
 anatomy over the breeding cycle in three-spined stickleback (Gasterosteus
 aculeatus) sampled from four locations in Northern Europe. We found that
 the male brain increased in size (ca. 24%) significantly more than the
 female brain towards breeding, and that the resulting brain SSD was
 similar (ca. 20%) for all populations over the breeding cycle. Our
 findings support the notion that the stickleback brain is highly plastic
 and changes over the breeding cycle, especially in males, likely as an
 adaptive response to the cognitive demands of reproduction (e.g. nest
 construction and parental care). The results also provide evidence to
 suggest that breeding-related changes in brain size may be the reason for
 the widely varying estimates of brain SSD across studies of this species,
 cautioning against interpreting brain size measurements from a single
 time-point as fixed/static.
description: dryad_briansizedimorphism_buecheletal2019Excel file containing brain size and behavioural data over three time points over the breeding cycle in sticklebacks
DOI: 10.5061/dryad.hg225q3
title: Data from: PPARγ promotes diabetes-associated centrosome amplification via increasing the expression of SKA1 directly at the transcriptional level

description: We have published recently that type 2 diabetes can induce cell centrosome
 amplification, due to the action of high glucose, palmitic acid and
 insulin, and ROCK1 and 14-3-3σ are signal mediators. In this study, we
 further investigated the molecular mechanisms of the centrosome
 amplification in colon cancer HCT116 cells. Treatment of the cells with
 high glucose, palmitic acid and insulin increased the expression of
 peroxisome proliferator-activated receptor γ (PPARγ) as well as the
 spindle- and kinetochore-associated protein 1 (SKA1), knockdown of each of
 which resulted in the inhibition of the treatment-triggered centrosome
 amplification. Knockdown of PPARγ inhibited the treatment-evoked increase
 in SKA1 level, while knockdown of SKA1 did not modify the treatment-
 increased PPARγ level. We found a predicted binding site for PPARγ in the
 promoter region of the SKA1 gene from the JASPAR database. Experimental
 results showed that the treatment increased the mRNA level of SKA1, which
 could be inhibited by PPARγ chemical inhibitor or siRNA. Moreover, we were
 able to show that PPARγ could bind to the binding site in the SKA1 gene
 promoter, which was increased by the experimental treatment. In
 conclusion, it is suggest that the pathophysiological factors in type 2
 diabetes, high glucose, palmitic acid and insulin, induce the cell
 centrosome amplification through PPARγ-SKA1 pathway in which PPARγ
 increases the expression of SKA1 via directly enhancing the SKA1 gene
 transcription.
description: Publish
 FiguresPublish
 Figuresoriginal
 figuresoriginal
 figuresOriginal
 Figure.zip
DOI: 10.5061/dryad.q0r84n4
title: Data from: Evolutionary costs and benefits of infection with diverse strains of Spiroplasma in pea aphids

description: The heritable endosymbiont Spiroplasma infects many insects and has
 repeatedly evolved the ability to protect its hosts against different
 parasites. Defenses do not come for free to the host, and theory predicts
 that more costly symbionts need to provide stronger benefits to persist in
 host populations. We investigated the costs and benefits of Spiroplasma
 infections in pea aphids (Acyrthosiphon pisum), testing 12 bacterial
 strains from three different clades. Virtually all strains decreased aphid
 lifespan and reproduction, but only two had a (weak) protective effect
 against the parasitoid Aphidius ervi, an important natural enemy of pea
 aphids. Spiroplasma induced fitness costs were variable, with strains from
 the most slowly evolving clade reaching higher titers and curtailing aphid
 lifespan more strongly than other strains. Some Spiroplasma strains shared
 their host with a second endosymbiont, Regiella insecticola. Although the
 result of an unfortunate handling error, these co-infections proved
 instructive, because they showed that the cost of infection with
 Spiroplasma may be attenuated in the presence of Regiella. These results
 suggest that mechanisms other than protection against A. ervi maintain pea
 aphid infections with diverse strains of Spiroplasma, and that studying
 them in isolation will not provide a complete picture of their effects on
 host fitness.
description: DATAData of the experiments
 1, 2, and 3 are on sheets 1, 2, and 3, respectively.
DOI: 10.5061/dryad.p936ng4
title: Data from: Adaptive radiation and the evolution of nectarivory in a large songbird clade

description: The accumulation of exceptional ecological diversity within a lineage is a
 key feature of adaptive radiation resulting from diversification
 associated with the subdivision of previously underutilized resources. The
 invasion of unoccupied niche space is predicted to be a key determinant of
 adaptive diversification, and this process may be particularly important
 if the diversity of competing lineages within the area, in which the
 radiation unfolds, is already high. Here, we test whether the evolution of
 nectarivory resulted in significantly higher rates of morphological
 evolution, more extensive morphological disparity, and a heightened
 build-up of sympatric species diversity in a large adaptive radiation of
 passerine birds (the honeyeaters, ca. 190 species) that have diversified
 extensively throughout continental and insular settings. We find that a
 large increase in rates of body size evolution and general expansion in
 morphological space followed an ancestral shift to nectarivory, enabling
 the build-up of large numbers of co-occurring species that vary greatly in
 size, compared to related and co-distributed non-nectarivorous clades.
 These results strongly support the idea that evolutionary shifts into
 novel areas of niche space play a key role in promoting adaptive radiation
 in the presence of likely competing lineages.
description: Meliphagides MCC
 TreeMaximum clade
 credibility tree of the Meliphagides from the study of Marki et al. (2017)
 Mol. Phylogen. Evol.MCC_NoOutgroups_0612.tre1000MeliphagidesTreesPosterior distribution of 1000 trees of the Meliphagides from the study of Marki et al. (2017) Mol. Phylogen. Evol.Morphological dataMorphological individual-level measurement data for the Meliphagides and a range of other Australasian passerine families.FullData_261118.xlsx
DOI: 10.5061/dryad.26hb35q
title: Data from: Associations between habitat quality, body size, and reproductive fitness in the alpine endemic spider Vesubia jugorum

description: Aim. In theory, the highest-quality habitat across a species’ range should
 support individuals with the highest fitness, making it possible to
 evaluate the outputs of species distribution models (SDM) by exploring the
 relation between habitat quality and functional traits related to species’
 fitness. However, this relation has been tested almost exclusively in
 plants. We investigated the degree to which morphological and reproductive
 traits of an alpine spider varied along a gradient of habitat quality
 projected via species distribution models. Location. Southwestern Alps
 (France and Italy) Time period. 2007–2018 Major taxa studied. Vesubia
 jugorum (Arachnida: Araneae: Lycosidae) Methods. We used climatic,
 topographical and geomorphological variables at a resolution of 250 m to
 model habitat quality for V. jugorum, with multiple algorithms
 (generalized additive models, boosted regression trees, and maximum
 entropy models). We collected spiders in the field and measured their body
 size and egg-case size (a functional trait related to reproductive
 success). We tested the relation between functional traits and habitat
 quality with linear mixed models. Results. All SDM algorithms we tested
 fit the data well, with similar explanatory ability. Models revealed a
 positive relation between the probability of presence and cumulative
 precipitation and percentage of rock. An additional important variable in
 the SDMs was duration of snow coverage, with optimal projected habitat
 quality between 40 and 100 days/year with snow. Modeled habitat quality
 was positively associated with maximum body and egg-case size. Main
 conclusions. Our work provides evidence of a positive association between
 projected habitat quality and traits of a terrestrial invertebrate. A
 model that fits the data well potentially can be used to predict
 variations in species’ traits, thus offering an experimental test of SDM
 projections with field-collected data. We encourage SDM users to
 incorporate data on functional traits into their modeling fitting
 exercises.
description: Occurrence localities
 and morphological traits of Vesubia jugorumVesubia_Occurrence_records: occurrence localities used to generate the SDM. Vesubia_Measure_morphological_traits: morphological measures of females, males and juveniles of Vesubia jugorum. Vesubia_Measure_cocoons: cocoon size of females of Vesubia jugorum captured in the fieldVESUBIA_data.zip
DOI: 10.5281/zenodo.17639073
title: Craywatch: Validated presence/absence dataset of invasive crayfish species in Flanders, Belgium (2024-2025)

description: This dataset contains validated presence/absence data of invasive crayfish species in Flanders, Belgium. The data were collected through the citizen science project Craywatch and submitted as observations to Waarnemingen.be. Here they are aggregated to indicate the presence/absence of 7 target species per sampling session.

Data processing

Observations were quality-controlled and corrected where necessary (e.g. merging split entries, removing duplicates, correcting location identifiers, adding missing location IDs based on volunteer confirmation). The aggregation and validation was done using the following criteria:



Sampling session: observations from the same location_id were grouped into a single sampling session (session_id) if they occurred within a contiguous period with gaps no larger than 7 days. The sampling session starts with start_date and ends with end_date. The total number of crayfish caught during a sampling session is indicated in count.

Effort calculation: trap_days were calculated as the sum of the maximum number of active traps on each day of the session. Missing daily trap counts were imputed from adjacent days within the session. 

Validation status (validation_status):



valid: assigned if a species was present (presence = 1) OR if the species was absent (presence = 0) with sufficient sampling effort (i.e. at least 12 trapdays).

invalid: assigned if the species was absent, (presence = 0) but the sampling effort was insufficient (<12 trapdays) to reliably confirm absence.



Source data (observation_ids): the identifiers of the raw observations that constituted to a record are retained. It is possible to look up this records through Waarnemingen.be or GBIF (e.g. for ID 318178915: https://waarnemingen.be/observation/318178915/ or https://www.gbif.org/occurrence/search?occurrence_id=Natuurpunt:Waarnemingen:318178915&advanced=1).


Target species



Procambarus clarkii

Procambarus virginalis

Procambarus acutus

Faxonius limosus

Faxonius virilis

Pacifastacus leniusculus

Pontastacus leptodactylus


Column definitions



session_id: Unique identifier for the aggregated sampling session (location_id + sequence number).

location_id: Unique identifier for the sampling location.

latitude: Latitude in decimal degrees (WGS84).

longitude: Longitude in decimal degrees (WGS84).

start_date: Date when the sampling session started (YYYY-MM-DD).

end_date: Date when the sampling session ended (YYYY-MM-DD).

trap_days: Total sampling effort (sum of active traps per day), used to determine validation status.

validation_status: Reliability of the record: valid (proven presence or validated absence) or invalid (absence with insufficient effort).

scientific_name: Scientific name of the target species.

presence: Binary indicator: 1 = Present, 0 = Absent.

count: Total number of individuals caught during the session.

observation_ids: Semicolon-separated list of original observation IDs from Waarnemingen.be (for traceability). Only populated for presences.
DOI: 10.5281/zenodo.17639074
title: Craywatch: Validated presence/absence dataset of invasive crayfish species in Flanders, Belgium (2024-2025)

description: This dataset contains validated presence/absence data of invasive crayfish species in Flanders, Belgium. The data were collected through the citizen science project Craywatch and submitted as observations to Waarnemingen.be. Here they are aggregated to indicate the presence/absence of 7 target species per sampling session.

Data processing

Observations were quality-controlled and corrected where necessary (e.g. merging split entries, removing duplicates, correcting location identifiers, adding missing location IDs based on volunteer confirmation). The aggregation and validation was done using the following criteria:



Sampling session: observations from the same location_id were grouped into a single sampling session (session_id) if they occurred within a contiguous period with gaps no larger than 7 days. The sampling session starts with start_date and ends with end_date. The total number of crayfish caught during a sampling session is indicated in count.

Effort calculation: trap_days were calculated as the sum of the maximum number of active traps on each day of the session. Missing daily trap counts were imputed from adjacent days within the session. 

Validation status (validation_status):



valid: assigned if a species was present (presence = 1) OR if the species was absent (presence = 0) with sufficient sampling effort (i.e. at least 12 trapdays).

invalid: assigned if the species was absent, (presence = 0) but the sampling effort was insufficient (<12 trapdays) to reliably confirm absence.



Source data (observation_ids): the identifiers of the raw observations that constituted to a record are retained. It is possible to look up this records through Waarnemingen.be or GBIF (e.g. for ID 318178915: https://waarnemingen.be/observation/318178915/ or https://www.gbif.org/occurrence/search?occurrence_id=Natuurpunt:Waarnemingen:318178915&advanced=1).


Target species



Procambarus clarkii

Procambarus virginalis

Procambarus acutus

Faxonius limosus

Faxonius virilis

Pacifastacus leniusculus

Pontastacus leptodactylus


Column definitions



session_id: Unique identifier for the aggregated sampling session (location_id + sequence number).

location_id: Unique identifier for the sampling location.

latitude: Latitude in decimal degrees (WGS84).

longitude: Longitude in decimal degrees (WGS84).

start_date: Date when the sampling session started (YYYY-MM-DD).

end_date: Date when the sampling session ended (YYYY-MM-DD).

trap_days: Total sampling effort (sum of active traps per day), used to determine validation status.

validation_status: Reliability of the record: valid (proven presence or validated absence) or invalid (absence with insufficient effort).

scientific_name: Scientific name of the target species.

presence: Binary indicator: 1 = Present, 0 = Absent.

count: Total number of individuals caught during the session.

observation_ids: Semicolon-separated list of original observation IDs from Waarnemingen.be (for traceability). Only populated for presences.
DOI: 10.5061/dryad.jn95jm1
title: Data from: A taxonomic review and revisions of Microstomidae (Platyhelminthes: Macrostomorpha)

description: Microstomidae (Platyhelminthes: Macrostomorpha) diversity has been almost
 entirely ignored within recent years, likely due to inconsistent and often
 old taxonomic literature and a general rarity of sexually mature collected
 specimens. Herein, we reconstruct the phylogenetic relationships of the
 group using both previously published and new 18S and CO1 gene sequences.
 We present some taxonomic revisions of Microstomidae and further describe
 8 new species of Microstomum based on both molecular and morphological
 evidence. Finally, we briefly review the morphological taxonomy of each
 species and provide a key to aid in future research and identification
 that is not dependent on reproductive morphology. Our goal is to clarify
 the taxonomy and facilitate future research into an otherwise very
 understudied group of tiny (but important) flatworms.
description: 18S CO1 Concatentated
 AlignmentDNA alignment in FASTA
 format. Includes 18S and CO1 sequences of all specimens used in the study
 as well as outgroups. Genbank numbers or specimen numbers are given after
 species name.CO1
 AlignmentDNA alignment in FASTA
 format of Cytochrome Oxidase One (CO1) sequences. Data includes partial
 CO1 sequences from all Microstomidae in study as well as outgroups and was
 used, specifically, for bPTP analyses.18S CO1 Concatenated
 TreefileResults from maximum
 likelihood analysis of concatenated datasets in IQTree v1.6.4. The best
 fitting model was determined using the ModelFinder algorithm implemented
 in IQTree. We performed 1000 ultrafast bootstrap replicates in IQTree,
 applying edge-proportional partitions with best-fit models independently
 selected for each gene in the concatenated datasets. Treefile is in Newick
 format.
DOI: 10.5061/dryad.tp5923t
title: Data from: Evolution of altruistic cooperation among nascent multicellular organisms

description: Cooperation is a classic solution to hostile environments that limit
 individual survival. In extreme cases this may lead to the evolution of
 new types of biological individuals (e.g., eusocial super-organisms). We
 examined the potential for inter-individual cooperation to evolve via
 experimental evolution, challenging nascent multicellular ‘snowflake
 yeast’ with an environment in which solitary multicellular clusters
 experienced low survival. In response, snowflake yeast evolved to form
 cooperative groups composed of thousands of multicellular clusters that
 typically survive selection. Group formation occurred through the creation
 of protein aggregates, only arising in strains with high (&gt;2%)
 rates of cell death. Nonetheless, it was adaptive and repeatable, though
 ultimately evolutionarily unstable. Extracellular protein aggregates act
 as a common good, as they can be exploited by cheats that do not
 contribute to aggregate production. These results highlight the importance
 of group formation as a mechanism for surviving environmental stress, and
 underscore the remarkable ease with which even simple multicellular
 entities may evolve—and lose—novel social traits.
description: Data
 Files
DOI: 10.5061/dryad.9hg52sm
title: Data from: Evidence for convergent evolution of ultrasonic hearing in toothed whales (Cetacea: Odontoceti)

description: Toothed whales (Cetacea: Odontoceti) are the most diverse group of modern
 cetaceans, originating during the Eocene/Oligocene transition ~38 million
 years ago. All extant odontocetes echolocate; a single origin for this
 behavior is supported by a unique facial source for ultrasonic
 vocalizations and a cochlea adapted for hearing the corresponding echoes.
 The craniofacial and inner ear morphology of Oligocene odontocetes support
 a rapid (Simocetus and Olympicetus suggest an ability to generate
 ultrasonic sound, until now, the bony labyrinths of taxa of this grade
 have not been investigated. Here, we use µCT to examine a petrosal of a
 taxon with clear similarities to Olympicetus avitus. Measurements of the
 bony labyrinth, when added to an extensive dataset of cetartiodactyls,
 resulted in this specimen sharing a morphospace with stem whales,
 suggesting a transitional inner ear. This discovery implies that either
 the lineage leading to this Olympicetus–like taxon lost the ability to
 hear ultrasonic sound, or adaptations for ultrasonic hearing evolved
 twice, once in xenorophids and again on the stem of the odontocete crown
 group. We favor the latter interpretation as it matches a well-documented
 convergence of craniofacial morphology between xenorophids and extant
 odontocetes.
description: Tiff stack of CT slices
 of CCNHM 1000Zipped tiff stack of
 leveled CT slices of close-up of the bony labyrinth based on microCT scan
 of CCNHM-1000 petrosal. Files generated in VGStudioMax 2.2 from original
 CT data volume.CCNHM1000-imagestack.zipCCNHM–1000 inner ear endocast modelDigital endocast of the bony labyrinth (inner ear) of CCNHM-1000; 3D model in STL format. STL generated in VGStudioMax 2.2.CCNHM1000_inner_ear_endocast.stlPart 1 of the NSI Volume data filesZipped section of 3D volume files of original CT data of CCNHM 1000 close-up scan of the inner ear. All files of this series should be extracted and used together.CTdata1-CCNHM1000.zipPart 2 of NSI Volume data filesCompressed section of 3D volume files of original CT data of CCNHM 1000 close-up scan of the inner ear. All files of this series should be extracted and used together.CTdata2-CCNHM1000.7z