cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.2rbnzs7rc
title: Data from: Familiar size affects perception differently in virtual reality and the real world

description: The promise of virtual reality as a tool for perceptual and cognitive
 research rests on the assumption that perception in virtual environments
 generalizes to the real world. Here, we conducted two experiments to
 compare size and distance perception between virtual reality and physical
 reality (Maltz et al., 2021). In Experiment 1, we used virtual reality
 (VR) to present dice and Rubik’s cubes at their typical sizes or reversed
 sizes at distances that maintained a constant visual angle. After viewing
 the stimuli binocularly (to provide vergence and disparity information) or
 monocularly, participants manually estimated perceived size and distance.
 Unlike physical reality, where participants relied less on familiar size
 and more on presented size during binocular vs. monocular viewing, in VR
 participants relied heavily on familiar size regardless of the
 availability of binocular cues. In Experiment 2, we demonstrated that the
 effects in VR generalized to other stimuli and to a higher-quality VR
 headset. These results suggest that the utility of binocular cues and
 familiar size differs substantially between virtual and physical reality.
 A deeper understanding of perceptual differences is necessary before
 assuming that research outcomes from VR will generalize to the real world.
description: Optotrak system was used to collect measurements. Each
 participant's mean across trial conditions is presented for
 Experiment 1, mean or median is indicated for Experiment 2. Data is
 presented for participants included in the analysis.
description: Excel, Jamovi, JASP
DOI: 10.5061/dryad.c2fqz61c6
title: Phylogenetic matrix from: Osteology and neuroanatomy of a Miocene phasianid (Aves: Galliformes) from the Miocene of Nebraska

description: Tetraoninae (grouse) and Meleagridinae (turkeys) are conspicuous
 representatives of the modern North American avifauna. The pre-Pleistocene
 fossil record of these clades has historically been limited to fragmentary
 remains, in some cases contributing to confusion rather than improving our
 understanding of how these charismatic landfowl evolved. We report an
 exquisitely preserved partial skeleton representing a new species of Late
 Miocene phasianid from the Ash Hollow Formation of Nebraska. Centuriavis
 lioae is a phasianid species close in size to modern sage-grouse that
 diverged prior to the grouse-turkey split and thus offers insight into the
 early history of this radiation. The cranial endocast resembles other
 North American phasianids and differs from odontophorids in exhibiting a
 strongly projected Wulst bordered by a well-defined vallecula.
 Phylogenetic analyses indicate that Centuriavis lioae gen. et sp. nov.
 forms a clade with Tetraoninae, Meleagridinae, and Pucrasia macrolopha
 (Koklass pheasant). The new fossil species provides a late Miocene minimum
 calibration for the divergence of these extant taxa from other Galliformes
 and supports the hypothesis of a single dispersal from Asia to North
 America by a lineage that later gave rise to grouse and turkeys.
description: In order to resolve the phylogenetic placement of
 <em>Centuriavis lioae</em>, we scored the new taxon into the
 morphological data matrix of Ksepka (2009). We added 16 new characters and
 two additional fossil taxa, the possible stem phasianid
 <em>Palaeortyx</em> <em>gallica</em> and the
 recently described crown phasianid <em>Panraogallus</em>
 <em>hezhengensis</em>. The expanded matrix contains 136
 characters based on osteology, soft tissue anatomy, and reproductive
 biology and samples seven outgroup species (Lithornithiformes,
 Tinamiformes, and Anseriformes), 55 extant species of Galliformes, and
 five fossil species of Galliformes. 
description: In order to constrain the relationships of extant taxa, we
 applied a backbone constraint topology based on the results of a recent ML
 analysis of 2,208,355 bp of molecular sequence data from 4,817
 concatenated UCE loci by Hosner et al. (2017). This backbone is included
 as a tree in the NEXUS file.
DOI: 10.15468/dl.9m4csa
title: Occurrence Download

description: A dataset containing 6644 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Col·lecció d'algues de l'herbari de la Universitat de Barcelona"
 ]
}

 The dataset includes 6644 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003222-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.ttdz08m26
title: Supplemental documents for: Temperature-associated selection linked to putative chromosomal inversions in king scallop (Pecten maximus)

description: The genomic landscape of divergence – the distribution of differences
 among populations or species across the genome – is increasingly
 characterized to understand the role that microevolutionary forces such as
 natural selection and recombination play in causing and maintaining
 genetic divergence. This line of inquiry has also revealed chromosome
 structure variation to be an important factor shaping the landscape of
 adaptive genetic variation. Due to a high prevalence of chromosome
 structure variation and the strong pressure for local adaptation
 necessitated by their sessile nature, bivalve molluscs are an ideal taxon
 for exploring the relationship between chromosome structure variation and
 local adaptation. Here, we report a population genomic survey of king
 scallop (Pecten maximus) across its natural range in the northeastern
 Atlantic Ocean, utilizing a recent chromosome-level genome assembly. We
 report the presence of at least three large (12-22 Mb), putative
 chromosomal inversions associated with sea surface temperature and whose
 frequencies are in contrast to neutral population structure. These results
 highlight a potentially large role for recombination-suppressing
 chromosomal inversions in local adaptation and suggest a hypothesis to
 explain the maintenance of differences in reproductive timing found at
 relatively small spatial scales across king scallop populations.
DOI: 10.5061/dryad.nvx0k6dw4
title: Phenology in the deep sea: Seasonal and tidal feeding rhythms in a keystone octocoral

description: Biological rhythms are widely known in terrestrial and marine systems,
 where the behavior or function of organisms may be tuned to environmental
 variation over periods from minutes to seasons or longer. Although well
 characterized in coastal environments, phenology remains poorly understood
 in the deep sea. Here we characterized intra-annual dynamics of feeding
 activity for the deep-sea octocoral Paragorgia arborea. Hourly changes in
 polyp activity were quantified using a time-lapse camera deployed for a
 year on Sur Ridge (1230 m depth; Northeast Pacific). The relationship
 between feeding and environmental variables, including surface primary
 production, temperature, acoustic backscatter, current speed and
 direction, was evaluated. Feeding activity was highly seasonal, with a
 dormancy period identified between January and early April, reflecting
 seasonal changes in food availability as suggested by primary production
 and acoustic backscatter data. Moreover, feeding varied with tides, which
 likely affected food delivery through cyclic oscillation in current speed
 and direction. This study provides the first evidence of behavioral
 rhythms in a coral species at depth greater than 1km. Information on the
 feeding biology of this cosmopolitan deep-sea octocoral will contribute to
 a better understanding of how future environmental change may affect
 deep-sea coral communities and the ecosystem services they provide.
description: The number of <em>Paragorgia</em>
 <em>arborea</em> coral colonies with open, intermediate and
 closed polyps was estimated from images collected every two hours by a
 time lapse-camera deployed between March 6, 2020, and March 16, 2021, at a
 depth of 1,230 m on Sur Ridge (Monterey Bay National Marine Sanctuary). In
 total, 4,439 images were annotated using the PAPARA(ZZ)I version 2.8
 software application (Marcon & Purser, 2017). 5 different coral
 colonies were monitored and classified into one of three categories:
 closed (retracted polyps), intermediate (polyps in intermediate state) and
 open (more than half of the colony with extruded polyps with fully
 extended tentacles). Environmental variables (bottom
 pressure, bottom temperature, acoustic backscatter, current speed and
 direction, northward, eastward and upward flow speeds) were measured by
 two ADCPs (300 kHz and 1 MHz ADCPs) deployed next to the time-lapse camera
 between March and December 2020. Measurements recorded over a distance of
 1 m (12.5 to 13.5 and 1.5 to 2.5 m above bottom for the 300 kHz and 1MHz
 ADCPs, respectively) were used in the analyses. Only time points matching
 image acquisition times are represented. ADCP data were processed with
 WinADCP version 1.14 (300 kHz ADCP) and Surge version 1.15.03 (1 MHz ADCP)
 software programs. 8-day average/standard deviation
 surface primary production values were downloaded from the Ocean
 Productivity Website (http://sites.science.oregonstate.edu/ocean.productivity/).
DOI: 10.5061/dryad.dbrv15f4c
title: Heterocypris incongruens maintains an egg bank in stormwater habitats and influences the development of larval mosquito, Culex restuans

description: Dormant propagules can provide a rapid colonization source for temporary
 aquatic habitats and set the trajectory for community dynamics, yet the
 egg banks of stormwater management systems have received little attention.
 We asked which species hatched from the sediment of drainage ditches in
 Champaign County, IL, and found bdelloid rotifers and ostracods
 (Heterocypris incongruens) to be the most common taxa. These sites also
 are colonized by mosquitoes, and we established laboratory experiments to
 examine interspecific interactions between common co-occurring taxa. Culex
 restuans larvae were reared in the presence or absence of H. incongruens
 at two intra- and interspecific densities (20 or 40 total individuals) and
 their survivorship to adulthood, development time to adulthood, adult body
 size, and sex ratio were determined. Survival for Cx. restuans was
 significantly lower at high larval density than at low larval density in
 both treatments. Culex restuans larvae reared in the presence of H.
 incongruens had a shorter development time to adulthood and emerged as
 larger adults compared to those reared in the absence of H. incongruens.
 The sex ratios in the H. incongruens treatments were female-biased whereas
 those in the Culex-only treatments were male-biased. These differences may
 have epidemiological implications, as only female mosquitoes serve as
 disease vectors. Our results emphasize the importance of understanding
 interspecific interactions in influencing larval mosquito development
 traits.
DOI: 10.5061/dryad.rxwdbrvc9
title: Data from: Do endemic mushrooms on oceanic islands and archipelagos support the theory of island biogeography?

description: Terrestrial plant species on islands have a long history of study to
 determine how they evolved and what explains their levels of endemicity,
 but studies on fungi are lacking. Here, we examine: 1) how percent
 endemism of non-lichenized class Agaricomycetes; hereafter, “mushrooms”
 compares to angiosperms, ferns, bryophytes, and lichens from oceanic
 islands/archipelagos; 2) whether endemic mushrooms evolved from an
 ancestor diversifying into multiple species after island colonization
 (cladogenesis) or over time evolved into a single endemic species unique
 from its ancestral mainland counterpart (anagenesis); and 3) if mushroom
 percent endemism and cladogenesis are correlated to geographic variables
 that help explain these phenomena in other species groups. Checklists of
 mushrooms and other species groups from seven oceanic islands/archipelagos
 were compared. Having multiple endemic congeners from a single
 island/archipelago was used to infer cladogenesis versus anagenesis in
 endemic mushrooms. Pearson’s correlation coefficients were calculated
 between an island/archipelago’s percent endemism and percent cladogenesis,
 and their distance to the nearest mainland, area, maximum elevation, and
 latitude from the equator. These data contain information on mushrooms,
 angiosperms, ferns, bryophytes, and lichens from the Hawaiian Islands,
 Galápagos, Canary Islands, Madeira, Azores, Cabo Verde, and Christmas
 Island.
description: See associated README file,
 "Metadata" tab within supplementary files, and
 "Methods" section of the paper for additional
 information.
description: See associated README file,
 "Metadata" tab within supplementary files, and
 "Methods" section of the paper for additional
 information.
DOI: 10.5061/dryad.n02v6wx15
title: Data for: Dispersal-limited symbionts exhibit unexpectedly wide variation in host specificity

description: A fundamental aspect of symbiotic relationships is host specificity,
 ranging from extreme specialists associated with only a single host
 species to generalists associated with many different species. Although
 symbionts with limited dispersal capabilities are expected to be host
 specialists, some are able to associate with multiple hosts. Understanding
 the micro- and macroevolutionary causes of variations in host specificity
 is often hindered by sampling biases and the limited power of traditional
 evolutionary markers. Here, we studied feather mites to address the
 barriers associated with estimates of host specificity for
 dispersal-limited symbionts. We sampled feather mites (Proctophyllodidae)
 from a nearly comprehensive set of North American breeding warblers
 (Parulidae) to study mite phylogenetic relationships and host-symbiont
 codiversification. We used pooled-sequencing (Pool-Seq) and short-read
 Illumina technology to interpret results derived from a traditional
 barcoding gene (cytochrome c oxidase subunit 1) versus 11 protein-coding
 mitochondrial genes using concatenated and multispecies coalescent
 approaches. Despite the statistically significant congruence between mite
 and host phylogenies, mite-host specificity varies widely, and host
 switching is common regardless of the genetic marker resolution (i.e.,
 barcode versus multilocus). However, the multilocus approach was more
 effective than the single barcode in detecting the presence of a
 heterogeneous Pool-Seq sample. These results suggest that presumed
 symbiont dispersal capabilities are not always strong indicators of host
 specificity or of historical host-symbiont coevolutionary events.
 Comprehensive sampling at fine phylogenetic scales may help to better
 elucidate the microevolutionary filters that impact macroevolutionary
 processes regulating symbioses, particularly for dispersal-limited
 symbionts.
DOI: 10.5281/zenodo.18340650
title: Geolocator Data Package: Thursh nightingale Luscinia Luscinia in South Sweden

description: This repository contains the raw data and the trajectory information generated with the GeoPressureR workflow in thrush nightingales (Luscinia luscinia) captured near Lund, Sweden, during the breeding season between 2022 and 2025.

It contains data from 12 tags, 11 of which have ok pressure data, from which geoposition was possible. 

This data is currently in the process of being published in several research articles.
DOI: 10.5281/zenodo.18340651
title: Geolocator Data Package: Thursh nightingale Luscinia Luscinia in South Sweden

description: This repository contains the raw data and the trajectory information generated with the GeoPressureR workflow in thrush nightingales (Luscinia luscinia) captured near Lund, Sweden, during the breeding season between 2022 and 2025.

It contains data from 12 tags, 11 of which have ok pressure data, from which geoposition was possible. 

This data is currently in the process of being published in several research articles.
DOI: 10.5061/dryad.tb2rbp03j
title: Museomics contributes to the spatiotemporal assessment of genetic diversity and structure in wild and ex situ conservation organisms: a case study of three endangered coastal plants in Japan

description: Understanding the extent to which genetic diversity of wild populations in
 ex situ conservation can be retained is crucial for the management of such
 populations. Wild individuals collected in the target area in the past and
 present can be used to estimate the number of alleles lost over time in
 wild populations and thereby the number of alleles whose loss could be
 prevented by ex situ conservation. Here, we assessed the genetic diversity
 of wild and ex situ conservation populations of three endangered coastal
 herb species, Cirsium maritimum Makino (Asteraceae), Linaria japonica Miq.
 (Plantaginaceae) and Suaeda glauca (Bunge) Bunge (Amaranthaceae), which
 are endangered species on Awaji Island, Hyogo Prefecture, Japan, via
 multiplexed inter-simple sequence repeat genotyping by sequencing
 (MIG-seq). We incorporated the museomics approach, which involves
 conducting genetic analyses of museum specimens collected from the
 targeted wild populations in the past to estimate the temporal transition
 of genetic diversity in wild populations and the number of alleles
 maintained in ex situ conservation. Our results reveal a
 declining trend in genetic diversity in the wild populations of all
 investigated species, although this trend is not significant. In all the
 species, numerous alleles were already lost in current wild populations,
 whereas they were present in the past wild and ex situ conservation
 populations. Our study indicates that extinct alleles in current wild
 populations have been maintained in ex situ conservation by museomics
 approach. These approaches were effective in verifying the genetic
 diversity retention effects of ex situ conservation populations.
DOI: 10.5061/dryad.s4mw6m990
title: Global lake surface water temperature layers

description: In modeling species distributions and population dynamics,
 spatially-interpolated climatic data are often used as proxies for real,
 on-the-ground measurements. In shallow freshwater systems, this practice
 may be problematic as interpolations used for surface waters are generated
 from terrestrial sensor networks measuring air temperatures. Using these
 may therefore bias statistical estimates of species' environmental
 tolerances or population projections -- particularly among pleustonic and
 epilimnetic organisms. I used a global database of satellite-derived lake
 surface water temperatures (LSWT) to assess and correct for the
 statistical correspondence between air and LSWT as a function of
 atmospheric and topographic predictors, resulting in the creation of
 monthly high-resolution global maps of air-LSWT offsets, corresponding
 uncertainty measures, and derived LSWT-based bioclimatic layers for use by
 the scientific community.
description: All files are in LZW-compressed geoTIFF formats, some of which
 include interleaved layers. Many GIS tools can work with these file types,
 including in R (<em>terra</em> &
 <em>raster</em> packages), Python (<em>gdal, rasterio,
 georaster, & geotiff </em>packages), and ArcGIS.
DOI: 10.5061/dryad.m0cfxpp6v
title: Data for: Transformation of dissolved organic matter by two Indo-Pacific sponges

description: Dissolved organic matter (DOM) is the largest organic carbon reservoir in
 the ocean and an integral component of biogeochemical cycles. The role of
 free-living microbes in DOM transformation has been studied thoroughly,
 whereas little attention has been directed towards the influence of
 benthic organisms. Sponges are efficient filter feeders and common
 inhabitants of many benthic communities circumglobally. In our study, we
 investigated how two tropical coral reef sponges shape marine DOM. We
 compared bacterial abundance, inorganic and organic nutrients in off reef,
 sponge inhalant, and sponge exhalant water of Melophlus sarasinorum and
 Rhabdastrella globostellata. DOM and bacterial cells were taken up, and
 dissolved inorganic nitrogen was released by the two Indo-Pacific sponges.
 Both sponge species utilized a common set of 142 of a total of 3040
 compounds detected in DOM on a molecular formula level via
 ultrahigh-resolution mass spectrometry. In addition, species-specific
 uptake was observed, likely due to differences in their associated
 microbial communities. Overall, the sponges removed presumably semi-labile
 and semi-refractory compounds from the water column, thereby competing
 with pelagic bacteria. Within minutes, sponge holobionts altered the
 molecular composition of surface water DOM (inhalant) into a composition
 similar to deep-sea DOM (exhalent). The apparent radiocarbon age of DOM
 increased consistently from off reef and inhalant to exhalant by about 900
 14C years for M. sarasinorum. In the pelagic, similar transformations
 require decades to centuries. Our results stress the dependence of DOM
 lability definition on the respective environment and illustrate that
 sponges are hotspots of DOM transformation in the ocean. Here, we provide
 the data from this study. The four tables contain the metadata, bulk
 measurements of dissolved organic carbon (DOC), total dissolved nitrogen,
 NOx, and radiocarbon dating of DOC, bacterioplankton abundances measured
 with a flow cytometer, and relative peak intensities of molecular formulas
 obtained through Fourier-transform ion cyclotron resonance mass
 spectrometry and the online tool ICBM-OCEAN.
DOI: 10.15468/dl.aygnpp
title: Occurrence Download

description: A dataset containing 401 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Poecilogale albinucha"
 ]
}

 The dataset includes 401 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003224-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.