cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.mw6m9060v
title: Data for: Microclimate shifts in nest-boxes and natural cavities throughout reproduction

description: Animals breeding in nest-boxes experience nesting environments in which
 they did not originally evolve. Despite the central importance of nesting
 microclimate for offspring fitness, little is known about the thermal
 properties of human-provided nest sites compared to natural ones. In
 particular, comparisons with offspring in the nest are lacking. Here, we
 compare microclimate (temperature and absolute humidity) from the onset of
 breeding, thus starting with nest-site choice and ending with the
 post-fledging stage, quantified in natural cavities and nest-boxes used by
 several species of hollow-nesting birds in a temperate deciduous forest.
 We confirm that across all nesting stages, nest-boxes were thermally
 unstable when compared to natural cavities, with higher temperature
 maximums, larger amplitudes and worse insulation from maximum ambient
 temperatures relative to natural cavities. Surprisingly, as average
 humidity of natural cavities was previously shown to be higher than in
 nest-boxes, in the presence of actively thermoregulating young, nest-boxes
 were more humid than natural cavities. When offspring were in the nest,
 internal microclimatic shifts were mitigated three times more effectively
 in natural cavities than in nest-boxes (in terms of mean daily differences
 from ambient temperature). Artificial cavity microclimate is likely to
 amplify the adverse effects of projected temperature increases by
 compromising thermoregulation of developing animals. We stress that
 conservation efforts should focus on the protection of areas offering
 natural breeding-hollows to reduce the potential impacts of climate change
 on breeding animals.
DOI: 10.5061/dryad.tb2rbp040
title: Beetle diversity in dead wood is lower in non-native than native tree species, especially those more distantly related to native species

description: 1. Non-native tree species are widely used in forest plantations. This may
 have negative consequences for biodiversity. Hitherto, most studies have
 compared species diversity between native and non-native forest stands,
 which makes it difficult to separate the impact of tree species per se
 from stand characteristics. Our study, conducted in the south of Sweden,
 compares saproxylic beetle diversity across different nutritional groups,
 in dead wood of two native and four non-native tree species in a block
 design after one and three seasons. Such an approach allows analysis of
 the impact of non-native tree species per se. 2. Mean species richness
 (±SD) per log was lower in non-native than in native tree species
 (non-native trees: lodgepole pine: 10.7 (± 5.3); Sitka spruce: 8.5 (±
 4.3), Douglas fir: 7.1 (± 4.3), Japanese larch 9.4 (± 4.6); native trees:
 Norway spruce: 12.0 (± 6.0), Scots pine: 12.3 (± 5.2)). Sample-based
 rarefaction revealed that when only native tree species were pooled, the
 species richness was higher than for all tree species combined. The
 difference in species composition among tree species was strongly driven
 by bark and wood consumers in the first season, while for predators and
 fungivores, the differences were smaller. Species composition differed
 more after one season. 3. Dissimilarity in beetle species composition was
 positively correlated with phylogenetic distances of the tree species.
 Species richness was lower in non-native tree species that are only
 remotely related to native trees species. Of the studied non-native tree
 species, lodgepole pine was more closely related to native tree species
 and consistently harboured higher species richness. 4. Synthesis and
 applications. Although non-native tree species also harbour saproxylic
 beetle communities, the use of non-native tree species, especially those
 only remotely related to native tree species, reduces local diversity of
 saproxylic beetles. Thus, for biodiversity conservation, an extensive use
 of non-native tree species is not recommended as this increases the risk
 of losing forest biodiversity, especially when they are only distantly
 related to native tree species.
DOI: 10.5061/dryad.qrfj6q5kj
title: Object neophilia in wild herring gulls in urban and rural locations

description: Living with increasing urbanisation and human populations requires
 resourcefulness and flexibility in wild animals’ behaviour. Animals have
 to adapt to anthropogenic novelty in habitat structure and resources that
 may not resemble, or be as beneficial as, natural resources. Herring gulls
 (Larus argentatus) increasingly reside in towns and cities to breed and
 forage, yet how gulls are adjusting their behaviour to life in urban areas
 is not yet fully understood. This study investigated wild herring gulls’
 responses to novel and common anthropogenic objects in urban and rural
 locations. We also examined whether gulls’ age influenced their object
 response behaviour. We found that, out of the 126 individual gulls
 presented with objects, 34% approached them. This suggests that the
 majority of targeted gulls were wary or lacked interest in the
 experimental set-up. Of the 43 gulls that approached the objects, we found
 that those tested in urban locations approached more slowly than their
 rural counterparts. Overall, gulls showed no preference for either novel
 or common anthropogenic objects, and age did not influence likelihood of
 approach, approach speed or object choice. Individuals paid most attention
 to the object they approached first, potentially indicative of individual
 preferences. Our findings indicate that most herring gulls are not as
 attracted to anthropogenic objects as anecdotal reports have suggested.
 Covering up obvious food rewards may thus help mitigate human-gull
 conflict over anthropogenic food sources.
DOI: 10.5061/dryad.70rxwdc27
title: First virtual endocast description of an early Miocene representative Pan-Octodontoidea (Caviomorpha, Hystricognathi) and considerations on the early brain evolution in South American rodents

description: The study of the cranial endocast provides valuable information to
 understand the behavior of an organism since it coordinates sensory
 information and motor functions. In this work, we describe for the first
 time the anatomy of the encephalon of an early Miocene pan-octodontoid
 caviomorph rodent (Prospaniomys priscus) found in the Argentinean
 Patagonia, based on virtual 3D endocast. This fossil rodent has an
 endocast morphology here considered ancestral for Pan-Octodontoidea and
 also other South American caviomorph lineages, such as an encephalon with
 anteroposteriorly aligned elements, mesencephalon dorsally exposed,
 well-developed vermis of the cerebellum, rhombic cerebral hemispheres with
 well-developed temporal lobes. Prospaniomys also has relatively small
 olfactory bulbs, large paraflocculi of the cerebellum, low endocranial
 volume, and a degree of neocorticalization. Its EQ is lower compared with
 Paleogene North American and European non-caviomorph rodents, but slightly
 higher than several late early and late Miocene caviomorphs. The
 paleoneurological anatomical information supports the hypothesis that
 Prospaniomys was a generalist caviomorph rodent with terrestrial habits,
 and enhanced low-frequency auditory specializations. The scarce
 paleoneurological information indicates that several endocast characters
 in caviomorph rodents could change with ecological pressures. This work
 sheds light on the anatomy and evolution of several paleoneurological
 aspects of this particular group of South American rodents. 
description: The specimen MACN-PV CH1913 of
 <em>Prospaniomys</em> <em>priscus</em> was
 collected in early Miocene levels (Arquitanian–Burdigalian; ca. 20–21 Ma)
 of the Sarmiento Formation exposed at Pampa de Gan Gan, Chubut Province,
 Argentina (Fleagle and Bown, 1983; Arnal and Kramarz, 2011). The cranium
 is externally clean, but inside and in the orbital region it is filled
 with a hard matrix. The specimen was studied using
 high-resolution microtomography. The encephalon region was manually
 segmented and the 3D reconstructions were made using Slicer.
description: The .stl files can be opened with any program used to explore CT
 scans or generate 3D models.
DOI: 10.5061/dryad.0gb5mkm4w
title: Hotspots of (sub)alpine plants in the Irano-Anatolian Global Biodiversity Hotspot are insufficiently protected

description: Aim: The mountainous regions in SW Asia harbours a high number of endemic
 species, many of which are restricted to the high-elevation zone. The
 (sub)alpine habitats of the region are under particular threat due to
 global change, but their biodiversity hotspots and conservation status
 have not been investigated so far. Location: Subalpine-alpine habitats of
 SW Asia Methods: Distribution data of all (sub)alpine vascular plant
 species of the region was compiled, resulting in 19,680 localities from
 1672 (sub)alpine species, the majority of them being restricted to the
 region (76%). Six quantitative indices of species diversity were used on
 the basis of 0.5°×0.5° grid cells to identify (sub)alpine hotspots.
 Hotspots whose surface area in the (sub)alpine zone was covered by nature
 reserves maximally by 10% were defined as conservation gaps. Results: A
 high proportion (80%) of the endemic species of the study area is
 range-restricted and narrowly distributed. The results of all six indices
 were highly correlated. Using the top 5%, 10% and 20% richest cells
 supported by any index, 32, 53 and 98 cells, respectively, were identified
 as Hotspots. Almost 60% of these Hotspots at all three levels were
 identified as unprotected (i.e., constituted Conservation Gaps).
 Generally, only 22%, 18% and 16%, respectively, of the alpine surface area
 of the identified Hotspots were covered by nature reserves for the top 5%,
 10% and 20% richest cells, respectively.   Main conclusions:
 Although the rate of protection in (sub)alpine Hotspots exceeds that of
 the entire region it is still insufficient, because these Hotspots are
 much richer in endemic and in range-restricted species, but at the same
 time are under high pressure of global change. Therefore, the
 establishment of new nature reserves with high conservation efficiency in
 (sub)alpine habitats with a particular focus on the identified Hotspots is
 strongly recommended.
DOI: 10.5061/dryad.jwstqjqdd
title: Raw data from: Visual and motor signatures of locomotion dynamically shape a population code for feature detection in Drosophila, part 1

description: Natural vision is dynamic: as an animal moves, its visual input changes
 dramatically. How can the visual system reliably extract local features
 from an input dominated by self-generated signals? In Drosophila, diverse
 local visual features are represented by a group of projection neurons
 with distinct tuning properties. Here we describe a connectome-based
 volumetric imaging strategy to measure visually evoked neural activity
 across this population. We show that local visual features are jointly
 represented across the population, and that a shared gain factor improves
 trial-to-trial coding fidelity. A subset of these neurons, tuned to small
 objects, is modulated by two independent signals associated with
 self-movement, a motor-related signal and a visual motion signal. These
 two inputs adjust the sensitivity of these feature detectors across the
 locomotor cycle, selectively reducing their gain during saccades and
 restoring it during intersaccadic intervals. This work reveals a strategy
 for reliable feature detection during locomotion. This dataset contains
 GCaMP6f and syt1GCaMP6f calcium responses from identified optic glomeruli
 in the Drosophila central brain, as well as walking behavior tracking
 data. It accompanies the manuscript Visual and motor signatures of
 locomotion dynamically shape a population code for feature detection in
 Drosophila, by MH Turner et al.
description: Visually evoked responses from optic glomeruli were extracted
 using the pan-glomerulus imaging and alignment approach described in
 <em>Visual and motor signatures of locomotion dynamically shape a
 population code for feature detection in Drosophila</em>, by MH
 Turner et al. Briefly, raw imaging data were motion corrected and aligned
 to a connectome-based map of optic glomeruli in the central brain.
 Fluorescence signals from the corresponding voxels for each optic
 glomerulus were averaged to produce the optic glomerulus response trace.
 These response traces are included in .hdf5 datafiles that are accompanied
 by animal, experimental and stimulus metadata as well as stimulus timing
 information requried to align visual stimuli with fluorescence
 traces.
description: The main analysis, modeling and figure generation code, which
 produced and can interact with the datafiles included in this dataset, can
 be found here.
DOI: 10.5281/zenodo.18341429
title: Supplementary data / figures PhD Thesis_Fisauli

description: Thesis: Data-Driven Insights from Different Tephra Archives: Reconstructing the Explosive Volcanic History in Northern Victoria Land, Antarctica
DOI: 10.5281/zenodo.18341428
title: Supplementary data / figures PhD Thesis_Fisauli

description: Thesis: Data-Driven Insights from Different Tephra Archives: Reconstructing the Explosive Volcanic History in Northern Victoria Land, Antarctica
DOI: 10.5061/dryad.g1jwstqtw
title: Raw data from: Visual and motor signatures of locomotion dynamically shape a population code for feature detection in Drosophila, part 2

description: Natural vision is dynamic: as an animal moves, its visual input changes
 dramatically. How can the visual system reliably extract local features
 from an input dominated by self-generated signals? In Drosophila, diverse
 local visual features are represented by a group of projection neurons
 with distinct tuning properties. Here we describe a connectome-based
 volumetric imaging strategy to measure visually evoked neural activity
 across this population. We show that local visual features are jointly
 represented across the population, and that a shared gain factor improves
 trial-to-trial coding fidelity. A subset of these neurons, tuned to small
 objects, is modulated by two independent signals associated with
 self-movement, a motor-related signal and a visual motion signal. These
 two inputs adjust the sensitivity of these feature detectors across the
 locomotor cycle, selectively reducing their gain during saccades and
 restoring it during intersaccadic intervals. This work reveals a strategy
 for reliable feature detection during locomotion. This dataset contains
 GCaMP6f and syt1GCaMP6f calcium responses from identified optic glomeruli
 in the Drosophila central brain, as well as walking behavior tracking
 data. It accompanies the manuscript Visual and motor signatures of
 locomotion dynamically shape a population code for feature detection in
 Drosophila, by MH Turner et al.
description: Visually evoked responses from optic glomeruli were extracted
 using the pan-glomerulus imaging and alignment approach described in
 <em>Visual and motor signatures of locomotion dynamically shape a
 population code for feature detection in Drosophila</em>, by MH
 Turner et al. Briefly, raw imaging data were motion corrected and aligned
 to a connectome-based map of optic glomeruli in the central brain.
 Fluorescence signals from the corresponding voxels for each optic
 glomerulus were averaged to produce the optic glomerulus response trace.
 These response traces are included in .hdf5 datafiles that are accompanied
 by animal, experimental and stimulus metadata as well as stimulus timing
 information requried to align visual stimuli with fluorescence
 traces.
description: The main analysis, modeling and figure generation code, which
 produced and can interact with the datafiles included in this dataset, can
 be found here.
DOI: 10.5061/dryad.j3tx95xjk
title: Raw data from: Visual and motor signatures of locomotion dynamically shape a population code for feature detection in Drosophila, part 3

description: Natural vision is dynamic: as an animal moves, its visual input changes
 dramatically. How can the visual system reliably extract local features
 from an input dominated by self-generated signals? In Drosophila, diverse
 local visual features are represented by a group of projection neurons
 with distinct tuning properties. Here we describe a connectome-based
 volumetric imaging strategy to measure visually evoked neural activity
 across this population. We show that local visual features are jointly
 represented across the population, and that a shared gain factor improves
 trial-to-trial coding fidelity. A subset of these neurons, tuned to small
 objects, is modulated by two independent signals associated with
 self-movement, a motor-related signal and a visual motion signal. These
 two inputs adjust the sensitivity of these feature detectors across the
 locomotor cycle, selectively reducing their gain during saccades and
 restoring it during intersaccadic intervals. This work reveals a strategy
 for reliable feature detection during locomotion. This dataset contains
 GCaMP6f and syt1GCaMP6f calcium responses from identified optic glomeruli
 in the Drosophila central brain, as well as walking behavior tracking
 data. It accompanies the manuscript Visual and motor signatures of
 locomotion dynamically shape a population code for feature detection in
 Drosophila, by MH Turner et al.
description: Visually evoked responses from optic glomeruli were extracted
 using the pan-glomerulus imaging and alignment approach described in
 <em>Visual and motor signatures of locomotion dynamically shape a
 population code for feature detection in Drosophila</em>, by MH
 Turner et al. Briefly, raw imaging data were motion corrected and aligned
 to a connectome-based map of optic glomeruli in the central brain.
 Fluorescence signals from the corresponding voxels for each optic
 glomerulus were averaged to produce the optic glomerulus response trace.
 These response traces are included in .hdf5 datafiles that are accompanied
 by animal, experimental and stimulus metadata as well as stimulus timing
 information requried to align visual stimuli with fluorescence
 traces.
description: The main analysis, modeling and figure generation code, which
 produced and can interact with the datafiles included in this dataset, can
 be found here.
DOI: 10.5061/dryad.rbnzs7hf9
title: Data from: Spatial consistency in drivers of population dynamics of a declining migratory bird

description: 1. Many migratory species are in decline across their geographical ranges.
 Single-population studies can provide important insights into drivers at a
 local scale, but effective conservation requires multi-population
 perspectives. This is challenging because relevant data are often hard to
 consolidate, and state-of-the-art analytical tools are typically tailored
 to specific datasets. 2. We capitalized on a recent data harmonization
 initiative (SPI-Birds) and linked it to a generalized modeling framework
 to identify the demographic and environmental drivers of large-scale
 population decline in migratory pied flycatchers (Ficedula hypoleuca)
 breeding across Britain. 3. We implemented a generalized integrated
 population model (IPM) to estimate age-specific vital rates, including
 their dependency on environmental conditions, and total and breeding
 population size of pied flycatchers using long-term (34–64 years)
 monitoring data from seven locations representative of the British
 breeding range. We then quantified the relative contributions of different
 vital rates and population structures to changes in short- and long-term
 population growth rates using transient life table response experiments
 (LTREs). 4. Substantial covariation in population sizes across breeding
 locations suggested that change was the result of large-scale drivers.
 This was supported by LTRE analyses, which attributed past changes in
 short-term population growth rates and long-term population trends
 primarily to variation in annual survival and dispersal dynamics, which
 largely act during migration and/or non-breeding season. Contributions of
 variation in local reproductive parameters were small in comparison,
 despite sensitivity to local temperature and rainfall within the breeding
 period. 5. We show that both short- and longer-term population changes of
 British-breeding pied flycatchers are likely linked to factors acting
 during migration and in non-breeding areas, where future research should
 be prioritized. We illustrate the potential of multi-population analyses
 for informing management at (inter)national scales and highlight the
 importance of data standardization, generalized and accessible analytical
 tools, and reproducible workflows to achieve them.
description: Data collection protocols are described in the paper, and further
 references provided therein. Raw data were harmonised and converted to a
 standard format by SPI-Birds (https://spibirds.org/)
 and then collated into the input data provided here using code deposited
 on https://github.com/SPI-Birds/SPI-IPM. Details on this step of data processing will be added to https://spi-birds.github.io/SPI-IPM/. The MCMC sample data files are the outputs of the integrated population models fitted in the study. Please refer to the published article and material deposited on the associated GitHub repository for more details. 
description: Data is provided as .rds files. Files can be read directly into
 the software "R" using the "readRDS"
 function.
DOI: 10.5061/dryad.m905qfv4v
title: Adult male birds advance spring migratory phenology faster than females and juveniles across North America

description: Advances in spring migratory phenology comprise some of the most
 well-documented evidence for the impacts of climate change on birds.
 Nevertheless, surprisingly little research has investigated whether birds
 are shifting their migratory phenology equally across sex and age
 classes – a question critical to understanding the potential for
 trophic mismatch. We used 60-years of bird banding data across North
 America – comprising over 4 million captures in total – to investigate
 both spring and fall migratory phenology for a total of 98 bird species
 across sex and age classes, with the exact numbers of species for each
 analysis depending on season-specific data availability. Consistent with
 protandry, in spring (n=89 species), adult males were the first to arrive
 and immature females were the last to arrive. In fall (n=98), there was
 little difference between sexes, but adults tended to depart earlier than
 juveniles. Over 60 years, adult males advanced their phenology the fastest
 (-0.84 days per decade, 95CrI = -1.22 to -0.47, n=36), while adult and
 immature females advanced at a slower pace, causing the gap in male and
 female arrival times to widen over time. In the fall, there was no overall
 trend in phenology by age or sex (n=57), driven in part by high
 interspecific variation related to breeding and molt strategies. Our
 results indicate consistent and predictable age- and sex-based differences
 in the rates at which species’ springtime phenology is shifting. The
 growing gap between male and female migratory arrival indicates sex-based
 plasticity in adaptation to climate change that has strong potential to
 negatively impact current and future population trends.
description: See Methods of Neate-Clegg & Tingley, Global Change
 Biology. Briefly, raw banding data were extracted from the USGS Bird
 Banding Lab. A series of stringent filters were applied to narrow the
 dataset down to meet sample size requirements. Then, Weibull-corrected
 phenological metrics were calculated for every age group and sex for every
 species.