cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.9s4mw6mfr
title: Moose omics dataframe

description: With accelerated land conversion and global heating at northern latitudes,
 it becomes crucial to understand, how life histories of animals in extreme
 environments adapt to these changes. Animals may either adapt by adjusting
 foraging behaviour or through physiological responses, including adjusting
 their energy metabolism or both. Until now, it has been difficult to study
 such adaptations in free ranging animals due to methodological constraints
 that prevent extensive spatiotemporal coverage of ecological and
 physiological data. Through a novel approach of combining
 DNA-metabarcoding and nuclear magnetic resonance (NMR)-based metabolomics,
 we aim to elucidate the links between diets and metabolism in Scandinavian
 moose Alces alces over three biogeographic zones using a unique dataset of
 265 marked individuals. Based on 17 diet items, we identified four
 different classes of diet types that match browse species availability in
 respective ecoregions in northern Sweden. Individuals in the boreal zone
 consumed predominantly pine and had the least diverse diets, while
 individuals with highest diet diversity occurred in the coastal areas.
 Males exhibited lower average diet diversity than females. We identified
 several molecular markers indicating metabolic constraints linked to diet
 constraints in terms of food availability during winter. While animals
 consuming pine had higher lipid, phospocholine and glycerophosphocholine
 concentrations in their serum than other diet types, birch- and
 willow/aspen-rich diets exhibit elevated concentrations of several amino
 acids. The individuals with highest diet diversity had increased levels of
 ketone bodies, indicating extensive periods of starvation for these
 individuals. Our results show how the adaptive capacity of moose at the
 eco-physiological level varies over a large eco-geographic scale and how
 it responds to land use pressures. In light of extensive ongoing climate
 and land use changes, these findings pave the way for future scenario
 building for animal adaptive capacity.
description: Datum = capture date when animal was sampled
 AgeCapt = animal age at capture Pregnancy =
 pregnancy status ( (0=unknown, 1=pregn, 2=not pregn, M=male)
 NrCalfs = number of calves at heel; blank fields are unknowns or
 males Special = main diet type (&gt;60%) based on
 diet compostion assessed via DNA-metabarcoding; 'Generalist'
 diets do not contain items at proportions &gt;60%.
 H_freq_all = diet diversity based on full diet
 composition Height = elevation of capture location
 (a.s.l.)
 ------------------------------------- 7 main
 diet items included as proportions 97 metaboltes
 included based on the ppm value
DOI: 10.5061/dryad.x69p8czh8
title: Fine-scale changes in speed and altitude suggest protean movements in homing pigeon flights

description: The power curve provides a basis for predicting adjustments that animals
 make in flight speed, for example in relation to wind, distance, habitat
 foraging quality and objective. However, relatively few studies have
 examined how animals respond to the landscape below them, which could
 affect speed and power allocation through modifications in climb rate and
 perceived predation risk. We equipped homing pigeons (Columba livia) with
 high-frequency loggers to examine how flight speed, and hence effort,
 varies in relation to topography and land cover. Pigeons showed mixed
 evidence for an energy-saving strategy, as they minimized climb rates by
 starting their ascent ahead of hills, but selected rapid speeds in their
 ascents. Birds did not modify their speed substantially in relation to
 land cover, but used higher speeds during descending flight, highlighting
 the importance of considering the rate of change in altitude before
 estimating power use from speed. Finally, we document an unexpected
 variability in speed and altitude over fine scales; a source of
 substantial energetic inefficiency. We suggest this may be a form of
 protean behaviour adopted to reduce predation risk when flocking is not an
 option, and that such a strategy could be widespread.
description: Methods detailed in manuscript (https://doi.org/10.1098/rsos.210130).
DOI: 10.5061/dryad.djh9w0vzq
title: The neonicotinoid thiamethoxam impairs male fertility in solitary bees, Osmia cornuta

description: The ongoing loss of global biodiversity is endangering ecosystem
 functioning and human food security. While environmental pollutants are
 well known to reduce fertility, the potential effects of common
 neonicotinoid insecticides on insect fertility remain poorly understood.
 Here, we show that field-realistic neonicotinoid exposure can drastically
 impact male insect fertility. In the laboratory, male and female solitary
 bees Osmia cornuta were exposed to four concentrations of the
 neonicotinoid thiamethoxam to measure survival, food consumption, and
 sperm traits. Despite males being exposed to higher dosages of
 thiamethoxam, females revealed an overall increased hazard rate for
 survival; suggesting sex-specific differences in toxicological
 sensitivity. All tested sublethal concentrations (i.e., 1.5, 4.5, and 10
 ng g-1) reduced sperm quantity by 57% and viability by 42% on average,
 with the lowest tested concentration leading to a reduction in total
 living sperm by 90%. As the tested sublethal concentrations match
 estimates of global neonicotinoid pollution, this reveals a plausible
 mechanism for population declines, thereby reflecting a realistic concern.
 An immediate reduction in environmental pollutants is required to
 decelerate the ongoing loss of biodiversity.
DOI: 10.5061/dryad.0rxwdbrzg
title: Wavenumber-space band clipping in nonlinear periodic structures

description: In weakly nonlinear systems, the main effect of cubic nonlinearity on wave
 propagation is an amplitude-dependent correction of the dispersion
 relation. This phenomenon can manifest either as a frequency shift or as a
 wavenumber shift depending on whether the excitation is prescribed as a
 initial condition or as a boundary condition, respectively. Several models
 have been proposed to capture the frequency shifts observed when the
 system is subjected to harmonic initial excitations. However, these models
 are not compatible with harmonic boundary excitations, which represent the
 conditions encountered in most practical applications. To overcome this
 limitation, we present a multiple scales framework to analytically capture
 the wavenumber shift experienced by dispersion relation of nonlinear
 monatomic chains under harmonic boundary excitations. We demonstrate that
 the wavenumber shifts result in an unusual dispersion correction effect,
 which we term wavenumber-space band clipping. We then extend the framework
 to locally-resonant periodic structures to explore the implications of
 this phenomenon on bandgap tunability. We show that the tuning capability
 is available if the cubic nonlinearity is deployed in the internal springs
 supporting the resonators.
DOI: 10.5061/dryad.7m0cfxpsw
title: Cattle and wild vertebrate habitat use in a long-term exclosure experiment

description: 1. Cattle and other livestock graze more than a quarter of the world’s
 terrestrial area and are widely regarded to be drivers of global
 biodiversity declines. Studies often compare the effects of livestock
 presence/absence but, to our knowledge, no studies have tested for
 interactive effects between large wild herbivores and livestock at varying
 stocking rates on small-bodied wild vertebrates. 2. We
 investigated the effects of cattle stocking rates (none/moderate/high) on
 the diversity of wildlife 0.05-1000 kg using camera traps at a long-term
 exclosure experiment within a semi-arid savanna ecosystem in central
 Kenya. In addition, by selectively excluding wild ‘mesoherbivores’
 (50-1000 kg) and ‘megaherbivores’ (&gt;1000 kg; elephant and giraffe),
 we tested whether the presence of these two wild herbivore guilds
 (collectively, ‘larger wild herbivores’) mediates the effect of cattle
 stocking rate on habitat use and diversity of ‘smaller wildlife’ (mammals
 ranging between 10-70 cm shoulder height and birds). 3. Our
 results show that cattle enhance alpha diversity of smaller wildlife (with
 or without larger wild herbivore presence) and of all wildlife 0.05-1000
 kg (with or without megaherbivore presence), by altering vegetation
 structure. However, for smaller wildlife, this effect is less pronounced
 in the presence of larger wild herbivores, which also shorten grass. In
 the absence of cattle, mesoherbivore-accessible sites showed higher alpha
 diversity of smaller wildlife than sites excluding mesoherbivores.
 4. Smaller wildlife habitat use was increased by
 high-cattle-stocking rates and wild mesoherbivores more in the presence of
 the other. 5. Synthesis and applications. Our findings imply that
 grazing, whether by livestock or wildlife, can enhance local savanna
 wildlife diversity. The biodiversity benefits of localised increases in
 herbivory are likely to be due to shortened grass and associated
 visibility improvements (for predator-avoidance/foraging). This suggests
 that land managers can increase local biodiversity by shortening grass,
 with wild or domestic herbivores (or both), at least in patches within a
 taller-grass matrix.
description: Camera traps deployed in a long-term exclosure experiment for one
 year (2019-2020). Camera trap images organised using
 <em>camtrapR</em> package, with images of the same species at
 the same location taken 60 minutes appart assumed to be
 independent.
description: See README file.
DOI: 10.5061/dryad.n2z34tmvx
title: Data from: Krabbe disease variant classification using parental blood-based diagnostic RNA-seq

description: Krabbe disease (KD) is a rare autosomal recessive lysosomal storage
 disorder (LSD) associated with severe neurodegeneration and high mortality
 and is one of most prevalent LSDs at a recent estimate of 1 in 12,080 live
 births. The disease pathogenesis is related to low/undetectable
 galactocerebrosidase (GALC) activity resulting in an accumulation of a
 cytotoxic GALC substrate, psychosine (Psy), that leads to diffuse
 demyelination, psychomotor delays, and high morbidity/mortality across the
 disease spectrum. Although phenotypic prediction in newborns with a more
 common, homozygous 30kb deletion and very high Psy levels is
 straightforward, there is a larger subset of patients identified through
 newborn screening with missense variants of uncertain significance (VUSs)
 that present with mildly elevated Psy levels that are difficult to
 interpret. Functional data for a small set of missense variants support
 altered GALC trafficking and lysosomal localization in KD compared to a
 loss of catalytic function; however, there are &gt;130 unclassified
 GALC VUSs (ClinVar; 73 missense) with no clear prognostic impact and
 differential onset. We are starting to performed blood-based diagnostic
 RNAseq (whole transcriptomics) to classify such VUSs. Here in this
 dataset, we performed blood-based diagnostic RNAseq on a
 couple to try to classify GALC gene variants in a family with
 Krabbe Disease (KD) and Phenylketonuria (PKU) clinical history. The single
 p.T513M variant carried by one of the couple was known to be pathogenic or
 likely pathogenic variant (ClinVar). Using RNAseq, we identified leaky
 splicing abnormality of portion of transcripts skipping of GALC exon 14
 casuig a frameshift and a premature stop codon allowing us to confirm its
 classifciation as pathogenic. The single c.442+5G&gt;A  GALC
 variant carried by the other individual did not show any splicing defect
 suggesting this variant to be likely benign. This shows that blood-based
 targeted or whole mRNAseq can be perforemd for fater effieicnt diagnostis
 and varoant classification of GALC gene and confirmation of molecular
 diagnosis of KD. This dataset also shows that carrier individuals or
 parental RNAseq can be performed if children peripheral blood or dried
 blood spots (DBSs) are not available to diagnose and classify
 GALC variants. This type of usafe of clinical-grade functional omics
 platforms will enahance rare neurological disease diagnosis. 
description: Blood-based parental diagnostic RNAseq and analysis.
DOI: 10.5061/dryad.0cfxpnw1f
title: Ecological outcomes of hybridization vary extensively in Catostomus fishes

description: Hybridization outcomes vary geographically and can depend on the
 environment. Hybridization can also reshape biotic interactions, leading
 to ecological shifts. If hybrids function differently ecologically in ways
 that enhance or reduce fitness, and those ecological roles vary
 geographically, ecological factors might explain variation in
 hybridization outcomes. However, relatively few studies have focused on
 ecological traits of hybrids. We compared the feeding ecology of
 Catostomus fish species and hybrids by using stable isotopes δ13C and δ15N
 as a proxy for diet and habitat use, and compared two native species, an
 introduced species, and three interspecific hybrid crosses. We included
 hybrids and parental species from seven rivers where hybridization
 outcomes vary. Relative isotopic niches of native species varied
 geographically, but native species did not fully overlap in isotopic space
 in any river sampled, suggesting little overlap of resource use between
 historically sympatric species. The introduced species overlapped with one
 or both native species in every river, suggesting similar resource use and
 potential competition. Hybrids occupied intermediate, matching, or more
 transgressive isotopic niches, and varied within and among rivers.
 Ecological outcomes of hybridization varied across locations, implying
 that hybridization might have unpredictable, idiosyncratic ecological
 effects. --
description: Data on carbon and nitrogen stable isotope ratios were collected
 using a Finnigan DeltaPlus XP mass spectrometer connected to a Costech
 4010 elemental analyzer.
DOI: 10.5061/dryad.s4mw6m95s
title: Pairing functional connectivity with population dynamics to prioritize corridors for Southern California spotted owls

description: Aim: Land use change, climate change, and shifts to disturbance regimes
 make successful wildlife management challenging, particularly when ongoing
 urbanization constrains habitat and movement. Preserving and maintaining
 landscape connectivity is a potential strategy to support wildlife
 responding to these stressors. Using a novel model framework, we
 determined the population-level benefit of a set of identified potential
 corridors for spotted owl population viability. Location: Southern
 California, United States. Methods: Combining habitat suitability and
 dynamic metapopulation models, we compared the benefit of corridors to the
 Southern California spotted owl population, measured as the increase in
 the expected minimum abundance, both now and under a future climate. Our
 approach considered key corridor characteristics important to conservation
 decisions, namely, corridor irreplaceability and local population network
 benefit. Results: We identified two corridors likely to increase Southern
 California spotted owl expected minimum abundance under current climate
 conditions. At the regional scale, of the 16 corridors evaluated, one
 corridor was irreplaceable (i.e. no other corridors in the network could
 provide a similar increase in abundance when the irreplaceable corridor
 was removed) and one corridor was identified as redundant (i.e. remaining
 corridors in the network can provide some of the increases in abundance
 offered by the removed corridor). Both putative corridors connected two
 large, populous, and similarly-sized patches. Additionally, we identified
 two more corridors at the local scale. We found that, under climate
 change, population declines may limit the benefit of connectivity for a
 range-restricted species like the spotted owl. Main Conclusions: Our
 analytical approach highlights important criteria for corridor
 identification and prioritization, namely, irreplaceability versus
 redundancy, local versus regional benefit, and corridor impact in a
 changing landscape. With the capability of incorporating estimated
 functional connectivity into population dynamics, our modeling framework
 advances connectivity decision making for other species of conservation
 concern and archetypal taxa within ecological communities.
description: Please see publication, supplemental information included as a
 pdf in this repository, and the documentation included as a pdf in this
 repository.
DOI: 10.5061/dryad.wm37pvmmf
title: Lifelong exposure to artificial light at night impacts stridulation and locomotion activity patterns in the cricket Gryllus bimaculatus

description: This dataset contains data from a laboratory experiments described in the
 paper: “Levy, K., Wegrzyn, Y., Efronny, R., Barnea, A., & Ayali,
 A. 2021 Lifelong exposure to artificial light at night impacts
 stridulation and locomotion activity patterns in the cricket Gryllus
 bimaculatus. Proc. R. Soc. B
 20211626. https://doi.org/10.1098/rspb.2021.162”. 
 Artificial light at night (ALAN) is increasing worldwide,with most of the
 world population living under light-polluted skies. Growing awareness of
 the harmful effects of ALAN calls for more comprehensive understanding of
 these effects. The stridulation and locomotion patterns of adult male
 crickets reared under different lifelong ALAN intensities were monitored
 simultaneously for five consecutive days in custom-made anechoic chambers.
 Activity periods and acrophases were compared between the experimental
 groups. Control crickets exhibited a robust rhythm, stridulating at night
 and demonstrating locomotor activity during the day. In contrast, ALAN
 affected both the relative level and timing of the crickets’ nocturnal and
 diurnal activity. ALAN induced free-running patterns, manifested in
 significant changes in the median and variance of the activity periods,
 and even arrhythmic behavior. The magnitude of disruption was light
 intensity dependent, revealing an increase in the difference between the
 activity periods calculated for stridulation and locomotion in the same
 individual. Our results demonstrate that ecologically-relevant ALAN
 intensities affect crickets’ behavioral patterns, and may lead to
 decoupling of locomotion and stridulation behaviors at the individual
 level, and to loss of synchronization at the population level.
description: The dataset was collected during a laboratory experiment, in
 which crickets were submitted to different intensities of lifelong
 artificial light at night (ALAN). The data has been processed by a series
 of analyzes (mostly non-parametrical due to inequality of variances) to
 produce a manuscript accepted for publication in Proceedings of the Royal
 Society B.
description: The readme file contains an explanation of each of the variables
 in the dataset. Information on how the measurements
 were conducted and processed can be found in the manuscript.
 NA =  values not available.
DOI: 10.5061/dryad.jm63xsj97
title: Data from: Maternal allocation in relation to weather, predation, and social factors in a colonial cooperative bird

description: Females may adjust prenatal allocation in relation to ecological
 conditions that affect reproductive success, such as weather conditions or
 predation risk. In cooperative breeders, helpers might also influence
 reproductive success and previous studies suggest that females can lay
 smaller eggs or larger clutches when breeding with more helpers. Although
 recent work suggests that helper effects can vary according to climatic
 variables, how social and ecological factors interact to shape prenatal
 allocation is poorly understood. Here, we examine how ecological and
 social components of the breeding environment co-vary with egg mass and
 clutch size, using as a model the sociable weaver (Philetairus socius), a
 colonial, cooperatively breeding passerine. The study spanned 9 years and
 included over 1900 eggs from over 550 clutches. Our analyses combined
 natural variation in weather conditions (rainfall before each reproductive
 event) with a nest predator-exclusion experiment and continuous monitoring
 of the mother’s social environment, allowing us to estimate how individual
 females adjust allocation to reproduction as their number of helpers
 varies. We found that egg mass varied consistently within females and did
 not clearly differ in relation to rainfall or predation risk. Contrary to
 previous studies, there was no evidence for plastic adjustments as females
 gained and lost helpers and egg mass was instead better predicted by
 mother size and identity. Females laid larger clutches when breeding in
 environments where predation risk was experimentally reduced and after
 higher rainfall levels. Yet, there was no evidence for increasing clutch
 size as the number of helpers increased, nor for an interaction between
 helper effects and ecological factors. We conclude that while sociable
 weaver females can vary their clutch size, they show high individual
 consistency in egg mass. In addition, we found no evidence that females
 may maximise fitness through plastic prenatal allocation in relation to
 the number of helpers, or that the presence/absence of helper effects is
 modulated by rainfall levels or predation risk. These results challenge
 our current knowledge on some of the possible benefits of breeding with
 helpers and call for more long-term analyses on reproductive allocation
 adjustments in other cooperative systems.
description: The file 'egg_mass_dataset.txt' contains the data used
 for models with egg mass as the dependent variable. <br> The file
 'clutch_size_dataset.txt' contains the data used for models with
 clutch size as the dependent variable. <br> Please
 see 'Fortuna_egg_mass_clutch_size_dataset_Readme.txt'
 for additional information about the datasets.
DOI: 10.5061/dryad.05qfttf28
title: Sex-specific speed-accuracy tradeoffs shape neural processing of acoustic signals in a grasshopper

description: Speed-accuracy tradeoffs – being fast at the risk of being wrong – are
 fundamental to many decisions and natural selection is expected to resolve
 these tradeoffs according to the costs and benefits of behavior. We here
 test the prediction that females and males should integrate information
 from courtship signals differently because they experience different
 payoffs along the speed-accuracy continuum. We fitted a neural model of
 decision making (a drift-diffusion model of integration to threshold) to
 behavioral data from the grasshopper Chorthippus
 biguttulus to determine the parameters of temporal integration of
 acoustic directional information used by male grasshoppers to locate
 receptive females. The model revealed that males had a low threshold for
 initiating a turning response, yet a large integration time constant
 enabled them to continue to gather information when cues were weak. This
 contrasts with parameters estimated for females of the same species when
 evaluating potential mates, in which response thresholds were much higher
 and behavior was strongly influenced by unattractive stimuli. Our results
 reveal differences in neural integration consistent with the sex-specific
 costs of mate search: Males often face competition and need to be fast,
 while females often pay high error costs and need to be deliberate.
description: See README.md and Clemens J, Ronacher B,
 Reichert MS (2021).<br> Sex-specific speed–accuracy trade-offs shape
 neural processing of acoustic signals in a grasshopper.<br> Proc. R.
 Soc. B 287: 20210005.<br>
 https://doi.org/10.1098/rspb.2021.0005