cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.tmpg4f535
title: Data for: Neural basis of social influence of observing other’s perception in dot-number estimation

description: This functional magnetic resonance imaging study reports the neural basis
 of the social influence of observing others’ perceptions in dot-number
 estimation. We found that the medial prefrontal cortex (MPFC) was
 associated with the detection of the self-other discrepancy. The posterior
 part of MPFC was especially functionally connected with the right superior
 parietal lobule (SPL), which is sensitive to numerical perception. The SPL
 activation was modulated after observing others’ perceptions in the
 dot-number estimation task. Furthermore, the multivariate pattern analysis
 showed that the spatial activity patterns altered after the observation.
 These suggest that the MPFC detects the self-other discrepancy of
 numerical perception and communicates with the number-sensitive SPL, and
 triggers the modulation of the activation in the SPL.
description: We used SPM12 running on MATLAB software to process the scanned
 images. We performed slice-timing correction, scan-to-scan realignment,
 normalization to the MNI space, and spatial smoothing (FWHM = 8 mm). A
 high-pass filter (cutoff cycle = 128 s) was used to remove low-frequency
 noise. In GLM1, brain activation for the number of dots
 during the stimulus phase was examined. GLM2 included a
 condition in the stimulus phase and two conditions (Con and Inc) in the
 choice phase of the Observation sessions. The contrast of Inc &gt; Con
 calculated the brain activation associated with the self-other
 discrepancy.
description: The image data files (Nifti format) can be opened using SPM,
 MRIcron, and FSL.
DOI: 10.5061/dryad.2547d7wvt
title: MicroCT surface scans of mice humeri (climbing experiment)

description: This data consists of 3D surface scans of 43 mice humeri (right anatomical
 side), which have been extracted from micro-computed tomography (microCT)
 files. The original analysis of these bones was conducted in an earlier
 study (Siegel & Jones [1975] American Journal of Physical
 Anthropology 42:141-144), focusing on the effects of climbing activity on
 bone dimensions. In the new study by Karakostis and Wallace (DOI after
 publication: 10.1002/ajpa.24700), the 3D surface scans were used to
 compare between habitual climbers (21) and controls (22) by applying the
 "Validated Entheses-based Reconstruction of Activity" (V.E.R.A.)
 method on four muscle attachment sites of the humerus (greater tubercle,
 lesser tubercle, supinator crest, and deltoid tuberosity). Significant
 entheseal differences were found between activity groups in both
 univariate and multivariate analyses, showing that our approach can be
 used to identify skeletal evidence of habitual climbing activities in
 mice.
description: The bones were first analyzed in the original experimental study
 on this material (Siegel & Jones [1975] American Journal of
 Physical Anthropology 42:141–144). For the purposes of the new study
 (Karakostis and Wallace; DOI after publication: 10.1002/ajpa.24700), the
 bones were scanned using a microCT 40 Scanco medical scanner
 (Brüttisellen, Switzerland),  at an isometric voxel size of 10 μm. Then,
 isosurfaces were generated and extracted as 3D surface models in STL
 format using the Avizo Lite software (v. 9.2.0, FEI Visualization Sciences
 Group, Hillsboro, OR). Finally, they were imported into Meshlab (v.
 2021.05, ISTI-CNR Inc., Pisa, Italy) to be analyzed based on the
 "Validated Entheses-based Reconstruction of Activity" (V.E.R.A.)
 method.
description: The uploaded 3D surface scans (STL format) can be opened in any
 program or software used to visualize and process 3D data, such as the
 open-access Meshlab software (v. 2021.05, ISTI-CNR Inc., Pisa, Italy) or
 Avizo Lite (v. 9.2.0, FEI Visualization Sciences Group, Hillsboro,
 OR).
DOI: 10.5061/dryad.2280gb5x4
title: Data from: Successional shifts in tree demographic strategies in wet and dry Neotropical forests

description: This dataset summarizes demographic rates, abundances and basal area
 across a succession of ~800 (sub) tropical tree species to explore
 generalities in demographic trade-offs and successional shifts in
 demographic strategies across four Neotropical forests that cover a large
 rainfall gradient. We used repeated forest inventory data from
 chronosequences in two wet (Costa Rica, Panama) and two dry forests
 (Yucatán, Oaxaca, both Mexico) to quantify demographic rates of ~800 tree
 species. For each forest, we explored the main demographic trade-offs and
 assigned tree species to five demographic groups by performing a weighted
 Principal Component Analysis (PCA) that accounts for differences in sample
 size. We aggregated the basal area and abundance across demographic groups
 to identify successional shifts in demographic strategies over the entire
 successional gradient from very young (&lt;5 years) to old-growth
 forests. This dataset provides raw and transformed demographic rates,
 their weights in the weighted PCA, assignments to demographic groups, and
 forest inventory data at the species level, as well as the code for
 performing the weighted PCA.
description: See Rüger et al. in revision. Successional
 shifts in tree demographic strategies in wet and dry Neotropical forests.
 Global Ecology and Biogeography The file
 ‘weightedPCA.R’ contains an implementation of the weighted principal
 component analysis described in Delchambre, L. 2014. Weighted principal
 component analysis: a weighted covariance eigendecomposition approach.
 Mon. Not. R. Astron. Soc. 446(2), 3545-3555.
DOI: 10.5061/dryad.280gb5mtb
title: Function of juvenile plumage in the northern goshawk (Accipiter gentilis): Aggressive mimicry hypothesis

description: Multiple raptors show juvenile plumage that is substantially different
 from that of their parents. Here, we test the prediction that the
 colouration of the juvenile northern goshawk (Accipiter gentilis)
 resembling the colouration of the common buzzard (Buteo buteo) acts as a
 form of aggressive mimicry. The goshawk specialises in hunting larger
 birds and mammals up to the size of geese or hares, while the buzzard
 preys mostly on small rodents. Potential prey may thus consider juvenile
 goshawks as less dangerous raptors, and the juvenile goshawk may thus gain
 an advantage when hunting. We used the Eurasian magpie (Pica pica), a
 common prey of the goshawk, to test this prediction. We compared the
 behavioural responses of magpie parents defending their freshly fledged
 young towards stuffed dummies of an adult goshawk, juvenile goshawk, and
 buzzard. To be able to assess whether this behaviour differs from
 responses to a nest predator and a harmless bird we also presented a
 common raven (Corvus corax) and common pheasant (Phasianus colchicus) as
 baseline stimuli. The overall intensity of antipredatory behaviour towards
 the juvenile and adult goshawks did not differ, but magpies took more
 risks facing juvenile goshawks. Additionally, the intensity of
 antipredatory behaviour towards the juvenile goshawk was higher than
 towards the buzzard, but the willingness to take risks did not differ in
 relation to the two predators. The overall intensity of antipredator
 behaviour thus supports the conclusion that magpies do not distinguish
 between juvenile and adult goshawks, while they do distinguish juvenile
 goshawks from buzzards. Conversely, the willingness to take risks supports
 the conclusion that magpies do not distinguish juvenile goshawks from
 buzzards.
description: Title of Dataset Function of juvenile plumage in the northern goshawk
 (Accipiter gentilis): Aggressive mimicry hypothesis Description of the
 data and file structure The data include information on the territory
 identity and individual birds within the magpie family. Further, there are
 two predictors, the dummy type and the sequence in which the dummy was
 presented, as each magpie pair was confronted with a series of dummies.
 Lastly, there are eight response variables describing the behaviour of
 magpies. Sharing/Access information Links to other publicly accessible
 locations of the data: Original data. Data was derived from the following
 sources: Original data.
DOI: 10.5061/dryad.1vhhmgqxb
title: Acclimation limits for embolism resistance and osmotic adjustment accompany the geographic dry edge of Mediterranean species

description: Survival and growth of woody species in the Mediterranean are mainly
 restricted by water availability. We tested the hypothesis that
 Mediterranean species acclimate their xylem vulnerability and osmotic
 potential along a precipitation gradient. We studied five predominant
 co-occurring Mediterranean species; Quercus calliprinos, Pistacia
 palaestina, Pistacia lentiscus, Rhamnus lycioides, and Phillyrea
 latifolia, over two summers at three sites. The driest of the sites is the
 distribution edge for all the five species. We measured key hydraulic and
 osmotic traits related to drought resistance, including resistance to
 embolism (Ψ50) and the seasonal dynamics of water and osmotic potentials.
 The leaf water potentials (Ψ1) of all species declined significantly along
 the summer, reaching significantly lower Ψl at the end of summer in the
 drier sites. Surprisingly, we did not find plasticity along the drought
 gradient in Ψ50 or osmotic potentials. This resulted in much narrower
 hydraulic safety margins (HSM) in the drier sites, where some species
 experienced significant embolism. Our analysis indicates that reduction in
 HSM to null values put Mediterranean species in embolism risk as they
 approach their hydraulic limit near the geographic dry edge of their
 distribution.
description: The PLC curves and resistance to embolism were measured using the
 Cavitron. The pre-dawn and midday water potentials were
 measured using a pressure bomb. The C13 was measured
 with a 13C cavity ring-down analyzer. The osmotic
 potential was measured using an osmometer. All methods
 are described in Alon et al., Acclimation limits for embolism resistance
 and osmotic adjustment accompany the geographic dry edge of Mediterranean
 species. 2023. Functional Ecology
description: Excel
DOI: 10.5061/dryad.r4xgxd2ht
title: Data for: Genomic variation across Chinook salmon populations reveals effects of a duplication on migration alleles and supports fine scale structure

description: Distribution of ecotypic variation in natural populations is influenced by
 neutral and adaptive evolutionary forces that are challenging to
 disentangle without understanding of genomic architecture for phenotypic
 traits. This study provides a high-resolution portrait of genomic
 variation in Chinook salmon (Oncorhynchus tshawytscha) with emphasis on a
 region of major effect for ecotypic variation in migration timing. With a
 filtered dataset of ~13 million SNPs from low coverage whole genome
 resequencing of 53 populations (3,566 barcoded individuals), we contrasted
 patterns of genomic variation within and among major lineages and examined
 the extent of a selective sweep at a major effect region underlying
 migration timing (GREB1L/ROCK1). Allele frequency variation in
 GREB1L/ROCK1 was highly correlated with mean migration timing for early-
 and late-run populations within each of the lineages (r2 between
 0.58–0.95; P &lt; 0.001). However, the extent of selection within the
 genomic region controlling migration timing was much narrower in one
 lineage (interior stream-type) compared to the other two major lineages
 which corresponded to the breadth of phenotypic variation in migration
 timing observed among lineages. Evidence of a duplicated block within
 GREB1L/ROCK1 may be responsible for reduced recombination in this portion
 of the genome and contributes to phenotypic variation within and across
 lineages. Lastly, SNP positions across GREB1L/ROCK1 were assessed for
 their utility in discriminating migration timing among lineages, and we
 recommend multiple markers nearest the duplication to provide highest
 accuracy in conservation applications such as those that aim to protect
 early migrating Chinook salmon. These results highlight the need to
 investigate variation throughout the genome and the effects of structural
 variants on ecologically relevant phenotypic variation in natural species.
DOI: 10.5061/dryad.fj6q573zt
title: Annual surveys of capercaillie in Scotland from 2010 to 2020

description: The population size of Capercaille Tetrao urogallus in Scotland was
 estimated from annual counts of males at 151 known (79-100) spring lek
 sites and 45 counts of males, females, and their broods in August during
 the period 2010-2020, combined with published survival estimates.
 Population size declined from an estimated 580 birds (95% CL: 462-698) in
 2011 to 304 (239-369) in 2020 and the extinction probability was 23% after
 25 years, 95% after 50 years and 100% after 100 years. Removing mortality
 associated with collisions against fences lowered extinction probabilities
 to 0%, 3% and 40%, respectively, emphasizing fence removal as a management
 priority. Greatest declines occurred in Deeside & Donside,
 Morayshire & Ross-shire and Perthshire & Trossachs. In the
 Badenoch & Strathspey stronghold, where an estimated 83% of males
 remain, numbers of occupied leks and lekking males have decreased in the
 last five years and are associated with reduced breeding success over the
 last 10 years. Our estimates of population size are only half that derived
 from the last official national survey in winter 2015/16. We discuss
 possible reasons for this difference including underestimates from
 lek-based surveys linked to male detection probabilities. Finally, we
 recommend improvements to the current annual monitoring scheme, including
 repeat counts at leks and use of novel remote acoustic devices and
 restoration of annual brood counts in remaining key forests.
description: Data can be accessed using Excel.
DOI: 10.5061/dryad.63xsj3v6h
title: Developmental changes in red-eyed treefrog embryo behavior increase escape-hatching success in wasp attacks

description: The arboreal embryos of red-eyed treefrogs (Agalychnis callidryas) hatch
 prematurely to escape from egg-predators, and escape success increases
 with age. We assessed developmental changes in the behavior and hatching
 performance of embryos attacked by wasps (Polybia rejecta) and their
 contributions to improved embryo survival. We recorded videos of 4- and
 5-day-old embryos exposed to wasp attacks and determined each embryo’s
 fate. For a stratified random sample of embryos that escaped and died, we
 determined the occurrence, sequence, and timing of events during
 wasp-embryo interactions. We constructed path diagrams of event sequences,
 tested for age effects on transition probabilities, and measured durations
 of periods between key events. Overall escape success was 38% higher in
 older embryos. They were more likely to hatch pre-emptively than younger
 ones, thus less likely to experience direct attacks, suggesting that
 developmental gains in mechanosensory sensitivity may increase hatching
 responses to indirect cues. During direct attacks, embryos were equally
 likely to be captured by wasps at both ages and hatching speed was
 similar, suggesting no relevant difference in escape-hatching performance.
 After a wasp ruptured their egg capsule, older embryos were more likely to
 exit and did so much sooner; younger embryos remained in ruptured capsules
 for longer and were more likely to be attacked again. This developmental
 change in embryo behavior indicates decreased tolerance for egg-stage risk
 as the chance of tadpole survival increases, suggesting that ontogenetic
 adaptation to changing risk trade-offs contributes strongly to the
 developmental increase in escape success.
DOI: 10.5281/zenodo.18402255
title: 3D electron diffraction data for nitroxoline and related compounds

description: All data were collected with GLACIOS (HZI, Brunswick, Germany) EPU‑D (Thermo Fisher) module in continuous‑rotation mode on a CETA detector and processed with PETS2. Each dataset includes the original MRC file, a stack of TIFF images extracted from the MRC file, and the PETS2 processing files. The following datasets are included:



 Nitroxoline, CSD deposition code: 2526594

Nitroxoline–copper complex, CSD deposition code: 2526598

Nitroxoline–Mg complex (isotructural to Cu-nitroxoline, featuring diffuse scattering due to stacking faults)

Nitroxoline–aluminum complex — meridional configuration, two enantiomers in the asymmetric unit, CSD deposition code: 2526603

Nitroxoline–phenylmaleic acid co‑crystal, CSD deposition code: 2526606
DOI: 10.5281/zenodo.18402256
title: 3D electron diffraction data for nitroxoline and related compounds

description: All data were collected with GLACIOS (HZI, Brunswick, Germany) EPU‑D (Thermo Fisher) module in continuous‑rotation mode on a CETA detector and processed with PETS2. Each dataset includes the original MRC file, a stack of TIFF images extracted from the MRC file, and the PETS2 processing files. The following datasets are included:



 Nitroxoline, CSD deposition code: 2526594

Nitroxoline–copper complex, CSD deposition code: 2526598

Nitroxoline–Mg complex (isotructural to Cu-nitroxoline, featuring diffuse scattering due to stacking faults)

Nitroxoline–aluminum complex — meridional configuration, two enantiomers in the asymmetric unit, CSD deposition code: 2526603

Nitroxoline–phenylmaleic acid co‑crystal, CSD deposition code: 2526606
DOI: 10.5061/dryad.3bk3j9kph
title: Diet composition of moose (Alces alces) in winter, Sweden

description: 1. Differences in botanical diet compositions among a large number of
 moose fecal samples collected during winter correlated with the
 nutritional differences identified in the same samples (Mantel-r = 0.89, p
 = 0.001), but the nutritional differences were significantly smaller (p
 &lt; 0.001). 2. Nutritional geometry revealed that moose mixed Scots
 pine Pinus sylvestris and Vaccinium spp. as nutritionally complementary
 foods to reach a nutritional target resembling Salix spp. twigs, and
 selected for Salix spp. browse (Jacob’s D &gt; 0). 3. Available
 protein (AP) and total non-structural carbohydrates (TNC) were
 significantly correlated in observed diets but not in hypothetical diets
 based on food availability. 4. The level of Acetoacetate in moose serum
 (i.e., ‘starvation’) was weakly negatively associated with digestibility
 of diets (p = 0.08) and unrelated to increasing AP:TNC and AP:NDF ratios
 in diets (p &gt; 0.1). 5. Our study is the first to demonstrate
 complementary feeding in free-ranging moose to attain a nutritional target
 that has previously been suggested in a feeding trial with captive moose.
 Our results add support to the hypothesis of nutritional balancing as a
 driver in the nutritional strategy of moose with implications for both the
 management of moose and food resources.
description: MS Excel
DOI: 10.5061/dryad.dv41ns231
title: Upper thermal limits predict herpetofauna responses to forest edge and cover

description: Amphibians and reptiles are sensitive to changes in the thermal
 environment, which varies considerably in human-modified landscapes.
 Although it is known that thermal traits of species influence their
 distribution in modified landscapes, how herpetofauna respond specifically
 to shifts in ambient temperature along forest edges remains unclear. This
 may be because most studies focus on local-scale metrics of edge exposure,
 which only account for a single edge or habitat patch. We predicted that
 accounting for the combined effect of multiple habitat edges in a
 landscape would best explain herpetofaunal response to thermally-mediated
 edge effects. We (1) surveyed herpetofauna at two lowland, fragmented
 forest sites in central Colombia, (2) measured the critical thermal
 maximum (CTmax) of the species sampled, (3) measured their edge exposure
 at both local and landscape scales, and (4) created a thermal profile of
 the landscape itself. We found that species with low CTmax occurred both
 further from forest edges and in areas of denser vegetation, but were
 unaffected by the landscape-scale configuration of habitat edges.
 Variation in the thermal landscape was driven primarily by changes in
 vegetation density. Our results suggest that amphibians and reptiles with
 low CTmax are limited by both canopy gaps and proximity to edge, making
 them especially vulnerable to human modification of tropical forest.
description: Animal data (included here) were collected in the field and lab.
 Landscape data were derived from the vegetation density map (inlcuded
 here) either directly (tree cover) or using the BioFrag edge response
 software, available on GitHub.
description: Summary data may be viewed in Excel and R, whereas spatial data
 may be viewed in R or GIS software such as ArcMap or QGIS.
DOI: 10.25338/b8bh14
title: Data from: Stability assessment of organic sulfur and organosulfate compounds in filter samples for quantification by Fourier Transform-Infrared Spectroscopy and Ion Chromatography

description: This data set contains various measurements obtained from the analyses of
 polytetrafluoroethylene (PTFE) filters. The goal of the paper is to assess
 the potential of using PTFE filters collected in the Interagency
 Monitoring of Protected Visual Environments (IMPROVE) to measure organic
 sulfur compounds. The data include 1) gravimetric mass measurements to
 assess mass stability over time, 2) FT-IR spectra to assess and understand
 the changes of the functional groups of each compound, and 3) IC and/or
 Inductively Coupled Plasma Optical Emission Spectroscopy (ICP-OES) to
 assess extraction efficiency and stability of each compound. All data were
 in ug/filter units except FT-IR spectra which is in absorbance units (AU).
 The compounds were organosulfur, methanesulfonic acid (MSA),
 hydroxymethanesulfonate ion (HMS), and organosulfate methyl sulfate (MS)
 and 2-methyl tetrol sulfate (2-MTS).
description: This data was collected from gravimetric measurements and FT-IR
 spectra analysis of polytetrafluoroethylene (PTFE) filters. AIRSpec was
 used to baseline FT-IR spectra. Filters were extracted and the solution
 was analyzed over time for IC data and/or ICPOES.
DOI: 10.5281/zenodo.18392873
title: MERKT aptamer libraries
DOI: 10.5281/zenodo.18392872
title: MERKT aptamer libraries