cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.xpnvx0kgn
title: Data from: Feeding effects on liver mitochondrial bioenergetics of Boa constrictor (Serpentes: Boidae)

description: Snakes are interesting examples of overcoming energy metabolism challenges
 as many species can endure long periods without feeding, and their
 eventual meals are of reasonably large sizes, thus exhibiting dual extreme
 adaptations. Consequently, metabolic rate increases considerably to attend
 to the energetic demand of digestion, absorption and, protein synthesis.
 These animals should be adapted to transition from these two opposite
 states of energy fairly quickly, and therefore we investigated
 mitochondrial function plasticity in these states. Herein we compared
 liver mitochondrial bioenergetics of the boid snake Boa constrictor during
 fasting and after meal intake. We fasted the snakes for 60 days, then we
 fed a subgroup with 30% of their body size and evaluated their maximum
 postprandial response. We measured liver respiration rates from
 permeabilized tissue and isolated mitochondria, and from isolated
 mitochondria, we also measured Ca2+ retention capacity, the release of
 H2O2, and NAD(P) redox state. Mitochondrial respiration rates were
 maximized after feeding, reaching until 60% increase from fasting levels
 when energized with complex I-linked substrates. Interestingly, fasting
 and fed snakes exhibited similar respiratory control ratios and citrate
 synthase activity. Furthermore, we found no differences in Ca2+ retention
 capacity, indicating no increase in susceptibility to mitochondrial
 permeability transition pore (PTP), or redox state of NAD(P), although fed
 animals exhibited increases in the release of H2O2. Thus, we conclude that
 liver mitochondria from B. constrictor snakes increase the maintenance
 costs during the postprandial period and quickly improve the mitochondrial
 bioenergetics capacity without compromising the redox balance.
description: 1. Fig 1_Liver
 permeabilized tissue OCR 2. Fig 2 _Liver isolated
 mitochondrial OCR 3. Fig 3_Mitochondrial
 Ca<sup>2+</sup> retention capacity 4. Fig 4_Mitochondrial redox
 state
DOI: 10.5061/dryad.z8w9ghxdb
title: Data and code from: Correlates of individual participation in boundary patrols by male chimpanzees

description: Group territory defense poses a collective action problem: individuals can
 free-ride, benefiting without paying the costs. Individual heterogeneity
 has been proposed to solve such problems, as individuals high in
 reproductive success, rank, fighting ability, or motivation may benefit
 from defending territories even if others free-ride. To test this
 hypothesis, we analyzed 30 years of data from chimpanzees (Pan
 troglodytes) in the Kasekela community, Gombe National Park, Tanzania
 (1978-2007). We examined the extent to which individual participation in
 patrols varied according to correlates of reproductive success (mating
 rate, rank, age), fighting ability (hunting), motivation (scores from
 personality ratings), costs of defecting (the number of adult males in the
 community), and gregariousness (sighting frequency). In contrast to
 expectations from collective action theory, males participated in patrols
 at consistently high rates (mean ± S.D. = 74.5 ± 11.1% of patrols, n=23
 males). The best predictors of patrol participation were sighting
 frequency, age, and hunting participation. Current and former alpha males
 did not participate at a higher rate than males that never achieved alpha
 status. These findings suggest that the temptation to free-ride is low,
 and that a mutualistic mechanism such as group augmentation may better
 explain individual participation in group territorial behavior. 
description: Attached data files include summary data collected at Gombe
 National Park (1998-2007). For detailed methodology, please see the
 associated manuscript.
description: README File:
 README_MASSARO_2022_DATA_updated04mar2022.txt R-code
 for data analysis: CodeforCorrelatesofBoundaryPatrols.R
 Datasets: PPdata.xlsx, PatrolsandPeriph.xlsx, PP5yearPlots.xlsx,
 WholeStudyPatrolRate.xlsx We do not provide access to
 the raw data used in some of these analyses, as this raw data represent a
 substantial fraction of the long-term data from Gombe, which are not
 publicly available at this time due to multiple ongoing studies, but are
 available from the corresponding author on reasonable request
DOI: 10.15468/dl.vusv87
title: Occurrence Download

description: A dataset containing 31742 records in GBIF matching the query:
SELECT
 '467' AS fish_cell,
 GBIF_MGRSCode(1000, decimalLatitude, decimalLongitude, 0) AS cell, -- NO randomization
 COUNT(DISTINCT speciesKey) AS species_richness
 FROM occurrence
 WHERE hasCoordinate = TRUE
 AND speciesKey IS NOT NULL
 AND NOT ARRAY_CONTAINS(issue, 'ZERO_COORDINATE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_OUT_OF_RANGE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_INVALID')
 AND NOT ARRAY_CONTAINS(issue, 'COUNTRY_COORDINATE_MISMATCH')
 AND decimalLatitude &gt;= 46.479780028101516
 AND decimalLatitude &lt;= 51.21395264452012
 AND decimalLongitude &gt;= -80.17725619669127
 AND decimalLongitude &lt;= -69.23837900975829
 AND "year" &gt;= 2015
 AND "year" &lt;= 2026
 AND (coordinateUncertaintyInMeters &lt;= 100 OR coordinateUncertaintyInMeters IS NULL)
 GROUP BY fish_cell, cell

 The dataset's 31742 records were derived from 88 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002984-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.12jm63z01
title: Experimental and numerical calculation data of contact stiffness/Surface roughness/HPT

description: Understanding the dynamic condition of the interface between a railway
 wheel and rail is important to reduce the risks and consider the
 effectiveness of countermeasures for tribological problems. Traditionally
 the difficulty in obtaining accurate non-destructive interfacial
 measurements has hindered systematic experimental investigations. Recently
 an ultrasound reflectometry technique has been developed as a direct
 observation method of a rolling-sliding interface, however the topography
 dependence under the high contact pressures in a wheel-rail contact has
 not been clarified. For this reason, a novel in-situ measurement of the
 contact stiffness using ultrasound reflectometry was carried out for three
 different levels of roughness. A contact pressure equivalent to that in a
 wheel-rail interface was achieved by using a high-pressure torsion test
 approach. The dynamic change of contact stiffness with slip was measured
 using ultrasound and the influence of roughness was investigated. The
 measured changes were validated using a newly developed numerical
 simulation, and mechanisms to explain the observed behaviour were proposed
 in terms of fracture and plastic deformation of the asperity bonds. These
 findings could help in understanding the traction characteristics for
 different roughness conditions and also assist in understanding damage
 mechanisms better, such as wear and rolling contact fatigue.
description: Contact stiffness: measured by ultrasound reflectometry and
 calculated based on a Boundary Element Method (BEM)
 Roughness: measured using a contact
 roughness meter (Mitutoyo Surftest SJ-210) with a cut-off of 0.8 mm and a
 length of 2.4 mm Loads etc:
 high-pressure torsion (HPT) test
description: <strong>Summary</strong> The test numbers te12, 18, and 19 represent medium roughness, high roughness, and low roughness, respectively.   <strong>Details</strong> ‘Ultrasound and HPT_final’ folder: This folder contains the experimental and numerical data plotted in Figures 10~13, 16~19, 20 and 22. 'Roughness_final' folder: This folder contains the data of roughness curve of top and bottom specimens before and after the tests. They were measured using a contact roughness meter (Mitutoyo Surftest SJ-210) with a cut-off of 0.8 mm and a length of 2.4 mm 'Numerical calculation_final' folder: The raw data of numerical calculation code will be provided with the surface topography data.
DOI: 10.48804/mbe90k
title: Data on experienced teachers' engagement towards educational research and on related individual and contextual factors

description: This dataset contains the quantitative (and some qualitative) data from an online questionnaire on the engagement of experienced teachers towards educational research, and on related individual (e.g., beliefs, attitude, self-efficacy, ...) and contextual factors (e.g., workgroups, research initiatives at school, ...).
description: SPSS
DOI: 10.5061/dryad.nzs7h44ss
title: Post-Pleistocene Dispersal Explains the Rapoport Effect in North American Salamanders

description: Aims: In many taxa, the latitudinal span of species’ geographic ranges is
 positively correlated with median latitude (i.e., a Rapoport effect). This
 is frequently explained as adaptation to contemporary climate, however,
 variability in postglacial range expansion among species could also
 explain this pattern. Here, we analyze geographic data for North American
 salamanders to test the causes of Rapoport effects. Location: Temperate
 North America Taxon: Salamanders (order Caudata) Methods: Using range
 maps, we tested for a Rapoport effect. We then manipulated species’
 latitudinal ranges and species pools to test for an impact of postglacial
 range expansion in forming a Rapoport effect. In addition, we built
 ecological niche models for species found south of the Wisconsin Ice Sheet
 during the Last Glacial Maximum and transferred these models to
 postglacial areas. If dispersal is important in forming a Rapoport effect,
 then some species may be able to tolerate northern climates but have not
 expanded northward as a result of variation in geographic access to
 postglacial habitats. Results: We found evidence of a Rapoport effect that
 was robust to the null models we tested. Analyses that manipulated ranges
 and species pools supported a role for variation in postglacial range
 expansion among species, especially for eastern North America. Results
 from transferring ecological niche models indicated that species have
 suitable habitat north of their range limit. Main conclusions: Our
 analyses suggest that variation in postglacial range expansion is likely
 important in shaping geographic range size variation among species in
 areas where climates have changed rapidly. Postglacial colonization and
 range expansion likely plays an important role in forming latitudinal
 biodiversity gradients in many taxa.  Historically, ecophysiology
 and biotic interactions have been emphasized as important contributors to
 diversity gradients, yet our study indicates that postglacial colonization
 also plays a key role in forming latitudinal biodiversity gradients.
DOI: 10.5061/dryad.rbnzs7hcb
title: Evidence for ecological processes driving speciation among endemic lizards of Madagascar

description: Although genetic patterns produced by population isolation during
 speciation are well documented, the biogeographic and ecological processes
 that trigger speciation remain poorly understood. Alternative hypotheses
 for the biogeography and ecology of speciation include geographic
 isolation combined with niche conservation (soft allopatry), or parapatric
 distribution on an environmental gradient with niche divergence
 (ecological speciation). Here we utilize species’ distributions,
 environmental data and two null models (Random Translation and Rotation,
 RTR, and the Background Similarity Test, BST) to test these alternative
 hypotheses among 28 sister pairs of micro-endemic lizards in Madagascar.
 Our results demonstrate strong bimodal peaks along a niche
 divergence-conservation spectrum, with at least 25 out of 28 sister pairs
 exhibiting either niche conservation or divergence, and the remaining
 pairs showing weak ecological signals. Yet despite these significant
 results, we do not find strong associations of niche conservation with
 allopatric distributions, or niche divergence with parapatric
 distributions. Our findings thus provide strong evidence of a role for
 ecological processes driving speciation, rather than the classic
 expectation of speciation through geographic isolation, but demonstrate
 that the link between ecological speciation and parapatry is complex and
 requires further analysis of a broader taxonomic sample to fully resolve.
description: Occurence data collected from online repositories (GBIF, VERNET),
 published literature (Pearson and Raxworthy, 2009; Brown et al, 2014;
 Jezkova et al, 2018)and from the American Museum of Natural History
 collections (Raxworthy). Datasets curated by expert knowledge
 (Raxworthy)
DOI: 10.6086/d1gq3s
title: High-speed terrestrial substrate transitions: how a fleeing cursorial day gecko copes with compliance changes that are experienced in nature

description: 1. Animal movement is often largely determined by abiotic conditions of
 the environment, including substrate properties. While a large body of
 work has improved our understanding of how different substrate properties
 can impact locomotor performance and behavior, few of these studies have
 investigated this relationship during transitions within a single
 locomotor event. 2. In nature, terrestrial animals frequently encounter
 substrate transitions, or changes in substrate level, incline, texture,
 and/or compliance during a single bout of movement, which can be sudden
 for high-speed animals. These animals often adjust their posture and
 kinematics during transitions, and in some cases lose forward velocity. 3.
 We examined the occurrence and effect of non-elastic compliance
 transitions in Rhoptropus afer, a cursorial day gecko known for its
 ability to sprint rapidly for several meters at a time. We recorded
 substrate use during provoked escapes in the field and conducted locomotor
 trials on a trackway that mimicked natural structural habitat conditions
 with transitions from a rigid surface into sand and from sand back to a
 rigid surface. 4. During escapes, R. afer used substrates of different
 compliance (i.e., rock, gravel, and sand) and transitioned to and from the
 more compliant surfaces with even frequency, which matched substrate and
 compliance availability estimates. In laboratory experiments, sprint speed
 was not significantly affected by acute changes in compliance, which was
 likely facilitated by an increased body angle and duty factor upon
 entering the sand, and potentially a high yield strength of the sand
 relative to applied forces. 5. We speculate that this species’ ability to
 maintain speed during compliance transitions underlies their apparent
 indiscriminate substrate use during escapes, and that this behavior may
 offer a selective advantage for evading larger terrestrial predators.
 Using field data to inform and contextualize laboratory experiments thus
 yields important insights as to how animals accommodate acute changes in
 substrate conditions encountered during critical locomotor events. --
DOI: 10.5281/zenodo.18397435
title: Lake ice phenology diverges under warming due to diurnal asymmetry and thermal accumulation
DOI: 10.5281/zenodo.18397434
title: Lake ice phenology diverges under warming due to diurnal asymmetry and thermal accumulation
DOI: 10.5061/dryad.41ns1rnff
title: Data from: Accelerated shifts in terrestrial life zones under rapid climate change

description: Datasets depicting historical (1901-1920), contemporary (1979-2013), and
 future (2061-2080) life zones as global rasters at 30 arc-second
 resolution in GeoTiff format are included, which were produced
 for the study "Accelerated shifts in terrestrial life zones under
 rapid climate change", published in Global Change Biology by Elsen et
 al. Life zones are determined by distinct combinations of biotemperature
 and precipitation and represent broad-scale ecosystem types (sensu
 Holdridge[1]). For the future period, life zone maps were produced using
 five general circulation models (GCMs: CESM1-BGC, MPI-ESM-MR, ACCESS1-3,
 MIROC5, and CMCC-CM), each under two representative concentration
 pathways (RCPs: RCP4.5 and RCP8.5). An ensemble mean across all five
 GCMs is also included for each RCP. All input datasets are
 publicly available and, along with the complete methodology, are
 described in Elsen et al. [1] Holdridge, LR (1947) Determination
 of world plant formations from simple climatic data. Science, 105,
 367–368.
description: The datasets were processed using R and Google Earth Engine
 following the methodology described in Elsen <em>et
 al.</em>
description: Data values in rasters represent two-digit life zones. See Table
 1 in the README for file names and descriptions. See Table 2 in the README
 for life zone descriptions.
DOI: 10.5061/dryad.8gtht76qh
title: Proboscis curling in a pollinator causes extensive pollen movement and loss

description: 1. Precise pollen placement on floral visitors can improve pollen
 transfer, but in many plant species, pollen is deposited onto the flexible
 proboscises of long-tongued insects. These proboscises are curled and
 uncurled between floral visits, potentially causing pollen to be lost or
 displaced. Rates of pollen movement and loss resulting from proboscis
 curling, and hence the potential quality of long-tongued insects as
 pollinators, are unknown. 2. Here we experimentally measure pollen loss
 and movement on the proboscises of Manduca sexta (Sphingidae) hawkmoths.
 We predicted that 1) proboscis curling causes pollen loss; 2) pollen that
 is not lost is displaced from its deposition site; and 3) repeated curls
 result in more displacement. We placed pollen from Datura wrightii, an
 important nectar plant for M. sexta, distal to the knee bend on M. sexta
 proboscises, and recorded the number and location of grains after
 proboscis curls. 3. Consistent with our hypotheses, proboscis curling
 caused significant pollen loss. 1) A single curl resulted in the loss of
 almost 75% of the pollen from the placement site; after repeated curling,
 98% of grains were lost from this site. 2) A single curl was also
 sufficient to displace pollen across all surfaces of the proboscis, but 3)
 further curling did not affect its distribution across surfaces. 4.
 Together, these results suggest that precise pollen placement on the
 proboscises of hawkmoths would be unlikely to increase pollen transfer
 success. We discuss strategies by which flowering plants might mitigate
 the effects of pollen loss from visitors with flexible pollen-pickup
 structures.
description: All dataset collection details are available in the associated
 manuscript.
DOI: 10.5061/dryad.5dv41ns6w
title: Landscape genomics of the streamside salamander: Implications for species management in the face of environmental change

description: Understanding spatial patterns of genetic differentiation and local
 adaptation is critical in a period of rapid environmental change. Climate
 change and anthropogenic development have led to population declines and
 shifting geographic distributions in numerous species. The streamside
 salamander, Ambystoma barbouri, is an endemic amphibian with a small
 geographic range that predominantly inhabits small, ephemeral streams. As
 A. barbouri is listed as near-threatened by the IUCN, we describe
 range-wide patterns of genetic differentiation and adaptation to assess
 the species’ potential to respond to environmental change. We use outlier
 scans and genetic-environment association analyses to identify genomic
 variation putatively underlying local adaptation across the species’
 geographic range. We find evidence for adaptation with a polygenic
 architecture and a set of candidate SNPs that identify genes putatively
 contributing to local adaptation. Our results build on earlier work that
 suggests that some A. barbouri populations are locally adapted despite
 evidence for asymmetric gene flow between the range core and periphery.
 Taken together, the body of work describing the evolutionary genetics of
 range limits in A. barbouri suggest that the species may be unlikely to
 respond naturally to environmental challenges through a range shift or in
 situ adaptation. We suggest that management efforts such as assisted
 migration may be necessary in the future.
description: The dataset contains sequencing data for 112 individuals of the
 streamside salamander (<em>Ambystoma barbouri</em>). Sample
 DNA was processed using double-digest restriction site-associated DNA
 sequencing (ddRADseq) using the restriction enzymes EcoRI and PstI. Due to
 the large genome size of <em>A. barbouri</em>, we included
 only 30 individuals in each of four final libraries to attempt to increase
 sequencing depth across individuals; two individuals from each of four
 sampling locations were duplicately sequenced in different libraries. The
 four libraries were sequenced on an Illumina Hiseq 2000 sequencing system
 at the University of Oregon Genomics Core Facility (gc3f.uoregon.edu),
 using single-end 100bp reads. Samples were demultiplexed using the Stacks
 version 2.52 module <em>process_radtags</em> with options -c
 -q -r enabled.
description: The following files are present in this repository:<br> 1)
 120 gzipped fasta files.<br> Generally one fq.gz file per sample
 (two files for each of the eight duplicately sequenced samples).
 2) sample_metadata.csv<br> Contains four fields: sample ID
 (prefixes on the fq.gz files), duplicate ID (if applicable), collection
 locality name, and sequencing lane. 3)
 location_coords.csv<br> Contains four fields: collection locality
 name, collection locality abbreviation (referenced in the associated
 publication), WGS84 decimal degree longitude, and WGS84 decimal degree
 latitude. This information is also summarized in the
 README.txt file.