cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.24q6q70
title: Data from: Natal habitat preference induction in large mammals – Like mother, like child?

description: Habitat selection has received considerable attention from ecologists
 during the last decades, yet the underlying forces shaping individual
 differences in habitat selection are poorly documented. Some of these
 differences could be explained by the early experience of individuals in
 their natal habitat. By selecting habitat attributes like those
 encountered early in life, individuals could improve resource acquisition,
 survival, and ultimately fitness. This behaviour, known as natal habitat
 preference induction (NHPI), could be particularly common in large
 mammals, because offspring generally stay with their mother for an
 extended period. We used three complementary approaches to assess NHPI in
 a marked population of woodland caribou (Rangifer tarandus caribou): 1)
 population-based resource selection functions (RSFs), 2) individual-based
 RSFs, and 3) behavioural repeatability analyses. All approaches compared
 the behaviour of calves in their natal range to their behaviour as
 independent subadults during the snow-covered (Dec – Apr) and snow-free
 (May – Nov) seasons. Using RSFs, we found that the magnitude of habitat
 selection between calf and subadult stages differed for most covariates,
 yet the signs of statistically significant effects (selection vs.
 avoidance) were generally the same. We also found that some habitat
 selection tactics were highly repeatable across life stages. Notably,
 caribou responses to habitat disturbances were highly repeatable
 year-round, meaning that different individuals reacted differently, but
 consistently, to disturbances. This study highlights the potential role of
 natal habitat preference induction in shaping individual differences in
 habitat selection in large mammals and provides valuable knowledge for the
 management and conservation of a threatened species.
description: Repeatability
 dataData used to estimate
 repeatability of habitat selection in a boreal population of woodland
 caribou in Charlevoix, Québec, Canada, 2004‒2011, during the snow-covered
 and snow-free seasons.RepeatabilityData.xlsx
DOI: 10.5061/dryad.15nj0
title: Data from: DNA methylation and sex allocation in the parasitoid wasp Nasonia vitripennis

description: The role of epigenetics in the control and evolution of behavior is being
 increasingly recognized. Here we test whether DNA methylation influences
 patterns of adaptive sex allocation in the parasitoid wasp Nasonia
 vitripennis. Female N. vitripennis allocate offspring sex broadly in line
 with local mate competition (LMC) theory. However, recent theory has
 highlighted how genomic conflict may influence sex allocation under LMC,
 conflict that requires parent-of-origin information to be retained by
 alleles through some form of epigenetic signal. We manipulated
 whole-genome DNA methylation in N. vitripennis females using the
 hypomethylating agent 5-aza-2′-deoxycytidine. Across two replicated
 experiments, we show that disruption of DNA methylation does not ablate
 the facultative sex allocation response of females, as sex ratios still
 vary with cofoundress number as in the classical theory. However, sex
 ratios are generally shifted upward when DNA methylation is disrupted. Our
 data are consistent with predictions from genomic conflict over sex
 allocation theory and suggest that sex ratios may be closer to the optimum
 for maternally inherited alleles.
description: Offspring counts from
 Nasonia vitripennis femalesThis data file contains
 the male and female offspring counts from Nasonia vitripennis focal
 females (AsymC strain). Focal females were fed either a control diet or a
 diet supplemented with a DNA methylation inhibitor. Females were then
 allowed to oviposit alone (single-foundress), with four STDR females (five
 foundress) or with nine STDR females (ten-foundress). This gives a total
 of 6 treatment combinations. Note that there are two experimental blocks.
 The offspring counts for both AsymC and STDR individuals are
 shown.DryadData.xlsx
DOI: 10.5061/dryad.7f753f0
title: Data from: Consumption explains intraspecific variation in nutrient recycling stoichiometry in a desert fish

description: Consumer-driven nutrient recycling can have substantial effects on primary
 production and patterns of nutrient limitation in aquatic ecosystems by
 altering the rates as well as the relative supplies of the key nutrients
 nitrogen (N) and phosphorus (P). While variation in nutrient recycling
 stoichiometry has been well-studied among species, the mechanisms that
 explain intraspecific variation in recycling N:P are not well-understood.
 We examined the relative importance of potential drivers of variation in
 nutrient recycling by the fish Gambusia marshi among aquatic habitats in
 the Cuatro Ciénegas basin of Coahuila, Mexico. There, G. marshi inhabits
 warm thermal springs with high predation pressure as well as cooler,
 surface runoff-fed systems with low predation pressure. We hypothesized
 that variation in food consumption among these habitats would drive
 intraspecific differences in excretion rates and N:P ratios.
 Stoichiometric models predicted that temperature alone should not cause
 substantial variation in excretion N:P, but that further reducing
 consumption rates should substantially increase excretion N:P. We
 performed temperature and diet ration manipulation experiments in the
 laboratory and found strong support for model predictions. We then tested
 these predictions in the field by measuring nutrient recycling rates and
 ratios as well as body stoichiometry of fish from nine sites that vary in
 temperature and predation pressure. Fish from warm, high-predation sites
 excreted nutrients at a lower N:P ratio than fish from cool, low-predation
 sites, consistent with the hypothesis that reduced consumption under
 reduced predation pressure had stronger consequences for P retention and
 excretion among populations than did variation in body stoichiometry.
 These results highlight the utility of stoichiometric models for
 predicting variation in consumer-driven nutrient recycling within a
 phenotypically variable species.
description: Field Fish
 ExcretionN and P excretion rates
 of Gambusia marshi collected from 9 sites in Cuatro
 Cienegas.fish excretion 2013
 DRYAD.csvField Fish Body
 StoichiometryBody carbon, nitrogen,
 and phosphorus of Gambusia marshi collected from nine sites in Cuatro
 CienegasFish stoich 2013
 DRYAD.csvLaboratory Experiment
 DataExcretion rates, body
 stoichiometry, and other data of Gambusia marshi raised in the laboratory
 under differing temperatures and diet rations.Lab Gambusia Data
 DRYAD.csv
DOI: 10.5061/dryad.44c5f25
title: Data from: Effects of 4-Hydroxy-2,3,3',4',5-pentachlorobiphenyl (4-OH-CB107) on liver transcriptome in rats: implication in the disruption of circadian rhythm and fatty acid metabolism

description: Polychlorinated biphenyls (PCBs) and their hydroxylated metabolites
 (OH-PCBs) have been detected in tissues of both wild animals and humans.
 Several previous studies have suggested adverse effects of OH-PCBs on the
 endocrine and nervous systems in mammals. However, there have been no
 studies on transcriptome analysis of the effects of OH-PCBs, and thus, the
 whole picture and mechanisms underlying the adverse effects induced by
 OH-PCBs are still poorly understood. We therefore investigated the mRNA
 expression profile in the liver of adult male Wistar rats treated with
 4-hydroxy-2,3,3',4',5-pentachlorobiphenyl (4-OH-CB107) to
 explore the genes responsive to OH-PCBs and to understand the potential
 effects of the chemical. Next-generation RNA sequencing analysis revealed
 changes in the expression of genes involved in the circadian rhythm and
 fatty acid metabolism, such as nuclear receptor subfamily 1, group D,
 member 1 (Nr1d1), aryl hydrocarbon receptor nuclear translocator-like
 protein 1 (Arntl), cryptochrome circadian clock 1 (Cry1), and enoyl-CoA
 hydratase and 3-hydroxyacyl-CoA dehydrogenase (Ehhadh), in
 4-OH-CB107-treated rats. In addition, biochemical analysis of the plasma
 revealed a dose-dependent increase in the leucine aminopeptidase (LAP),
 indicating the onset of liver damage. These results suggest that OH-PCB
 exposure may induce liver injury as well as disrupt the circadian rhythm
 and peroxisome proliferator-activated receptor (PPAR)-related fatty acid
 metabolism.
description: Table
 S2List of DEGs Which were
 Affected by 4-OH-CB107 in Dose-Dependent Manner
DOI: 10.6084/m9.figshare.27095803
title: Amyotrophic lateral sclerosis caused by the <i>C9orf72</i> expansion in Norway – prevalence, ancestry, clinical characteristics and sociodemographic status

description: The most common genetic cause of amyotrophic lateral sclerosis (ALS) is the <i>C9orf72</i> expansion. A high incidence of this expansion has been detected in Sweden and Finland. This Norwegian population-based study aimed to identify the prevalence, geographic distribution, ancestry, and relatedness of ALS patients with a <i>C9orf72</i> expansion (C9<sub>pos</sub>). Further, we compared C9<sub>pos</sub> and C9<sub>neg</sub> patients’ clinical presentation, family history of ALS and other neurodegenerative disorders, and sociodemographic status. We recruited ALS patients from all 17 Departments of neurology in Norway. Blood samples and questionnaires regarding clinical characteristics, sociodemographic status and family history of ALS, and other neurodegenerative disorders were collected. The <i>C9orf72</i> expansion was examined for all patients. The study enrolled 500 ALS patients, 8.8% of whom were C9<sub>pos</sub>, with half being sporadic ALS cases. The proportion of C9<sub>pos</sub> cases differed between regions, ranging from 17.9% in the Northern region to 1.9% in the Western region. The majority of C9<sub>pos</sub> patients had non-Finnish European descent and were not closely related. C9<sub>pos</sub> patients exhibited a significantly shorter mean survival time, had a higher frequency of relatives with ALS or dementia, and were more often unmarried/single and childless than C9<sub>neg</sub> patients. C9<sub>pos</sub> patients constitute a large portion of the Norwegian ALS population. Ancestry and relatedness do not adequately explain regional differences. Relying on clinical information to identify C9<sub>pos</sub> patients has proven to be challenging. Half of C9<sub>pos</sub> patients were reported as having sporadic ALS, underlining the importance of carefully assessing family history and the need for genetic testing.
DOI: 10.6084/m9.figshare.27095803.v1
title: Amyotrophic lateral sclerosis caused by the <i>C9orf72</i> expansion in Norway – prevalence, ancestry, clinical characteristics and sociodemographic status

description: The most common genetic cause of amyotrophic lateral sclerosis (ALS) is the <i>C9orf72</i> expansion. A high incidence of this expansion has been detected in Sweden and Finland. This Norwegian population-based study aimed to identify the prevalence, geographic distribution, ancestry, and relatedness of ALS patients with a <i>C9orf72</i> expansion (C9<sub>pos</sub>). Further, we compared C9<sub>pos</sub> and C9<sub>neg</sub> patients’ clinical presentation, family history of ALS and other neurodegenerative disorders, and sociodemographic status. We recruited ALS patients from all 17 Departments of neurology in Norway. Blood samples and questionnaires regarding clinical characteristics, sociodemographic status and family history of ALS, and other neurodegenerative disorders were collected. The <i>C9orf72</i> expansion was examined for all patients. The study enrolled 500 ALS patients, 8.8% of whom were C9<sub>pos</sub>, with half being sporadic ALS cases. The proportion of C9<sub>pos</sub> cases differed between regions, ranging from 17.9% in the Northern region to 1.9% in the Western region. The majority of C9<sub>pos</sub> patients had non-Finnish European descent and were not closely related. C9<sub>pos</sub> patients exhibited a significantly shorter mean survival time, had a higher frequency of relatives with ALS or dementia, and were more often unmarried/single and childless than C9<sub>neg</sub> patients. C9<sub>pos</sub> patients constitute a large portion of the Norwegian ALS population. Ancestry and relatedness do not adequately explain regional differences. Relying on clinical information to identify C9<sub>pos</sub> patients has proven to be challenging. Half of C9<sub>pos</sub> patients were reported as having sporadic ALS, underlining the importance of carefully assessing family history and the need for genetic testing.
DOI: 10.5061/dryad.3ht7gr3
title: Data from: Isolation and no-entry marine reserves mitigate anthropogenic impacts on grey reef shark behavior

description: Reef sharks are vulnerable predators experiencing severe population
 declines mainly due to overexploitation. However, beyond direct
 exploitation, human activities can produce indirect or sub-lethal effects
 such as behavioral alterations. Such alterations are well known for
 terrestrial fauna but poorly documented for marine species. Using an
 extensive sampling of 367 stereo baited underwater videos systems, we show
 modifications in grey reef shark (Carcharhinus amblyrhynchos) occurrence
 and feeding behavior along a marked gradient of isolation from humans
 across the New Caledonian archipelago (South-Western Pacific). The
 probability of occurrence decreased by 68.9% between wilderness areas
 (more than 25 hours travel time from the capital city) and impacted areas
 while the few individuals occurring in impacted areas exhibited cautious
 behavior. We also show that only large no-entry reserves (above 150 km²)
 can protect the behavior of grey reef sharks found in the wilderness.
 Influencing the fitness, human linked behavioral alterations should be
 taken into account for management strategies to ensure the persistence of
 populations.
description: Grey reef shark
 occurrence and behaviorOccurrence of C.
 amblyrhynchos and its feeding behavior towards stereo-BRUVS (Baited Remote
 Underwater Video System) in New Caledonia. This file also includes (i) the
 abundance of sharks (conspecifics and heterospecifics) during the video
 recording, (ii) the sex and length of the individuals recorded and (iii)
 the 3 human and 5 environmental explanatory variables used in the
 models.Juhel et al
 SciRep.csv
DOI: 10.6084/m9.figshare.27020180
title: Effects of COVID-19 on motor neuron disease mortality in the United States: a population-based cross-sectional study

description: In March 2020, the World Health Organization declared the coronavirus disease 2019 (COVID-19) to be a pandemic, stating that those with underlying health conditions are most susceptible, including motor neuron disease (MND). To examine the effect the COVID-19 pandemic had on deaths from MND in the United States. Death certificate data for all MND deaths aged 20 years and older were analyzed from 2017 to 2019 (pre-COVID), then expanded to include 2020 and 2021 (COVID) deaths to evaluate if COVID-19 impacted MND deaths. The average number of MND deaths documented during the COVID-19 years was 8009, up from 7485 MND deaths pre-COVID. The age-adjusted mortality rate among the non-Hispanic population increased during COVID to 2.78 per 100,000 persons (95% CI = 2.73–2.82) from 1.81 (95% CI = 1.78–1.84). The Hispanic population also saw an increase in mortality rate during COVID (1.61, 95% CI = 1.51–1.71) compared with pre-COVID (1.10, 95% CI = 1.03–1.17). Decedent’s home as a place of death also saw a mortality rate increase during COVID (1.51, 95% CI = 1.48–1.54) compared with pre-COVID (1.30, 95% CI = 1.27–1.32). For the Hispanic population, the rate peaked at 80–84 years pre-COVID, but for the COVID years, the rate peaked earlier, at 75–79 years. The total number of MND deaths was greater during COVID than in the preceding years. The analysis suggests there might have been a consequence of circumstances surrounding the global pandemic and the associated restrictions.
DOI: 10.6084/m9.figshare.27020180.v1
title: Effects of COVID-19 on motor neuron disease mortality in the United States: a population-based cross-sectional study

description: In March 2020, the World Health Organization declared the coronavirus disease 2019 (COVID-19) to be a pandemic, stating that those with underlying health conditions are most susceptible, including motor neuron disease (MND). To examine the effect the COVID-19 pandemic had on deaths from MND in the United States. Death certificate data for all MND deaths aged 20 years and older were analyzed from 2017 to 2019 (pre-COVID), then expanded to include 2020 and 2021 (COVID) deaths to evaluate if COVID-19 impacted MND deaths. The average number of MND deaths documented during the COVID-19 years was 8009, up from 7485 MND deaths pre-COVID. The age-adjusted mortality rate among the non-Hispanic population increased during COVID to 2.78 per 100,000 persons (95% CI = 2.73–2.82) from 1.81 (95% CI = 1.78–1.84). The Hispanic population also saw an increase in mortality rate during COVID (1.61, 95% CI = 1.51–1.71) compared with pre-COVID (1.10, 95% CI = 1.03–1.17). Decedent’s home as a place of death also saw a mortality rate increase during COVID (1.51, 95% CI = 1.48–1.54) compared with pre-COVID (1.30, 95% CI = 1.27–1.32). For the Hispanic population, the rate peaked at 80–84 years pre-COVID, but for the COVID years, the rate peaked earlier, at 75–79 years. The total number of MND deaths was greater during COVID than in the preceding years. The analysis suggests there might have been a consequence of circumstances surrounding the global pandemic and the associated restrictions.
DOI: 10.5061/dryad.9ht4g
title: Data from: The negative effects of pathogen-infected prey on predators: a meta-analysis

description: Intra-guild predation (IGP) – where a top predator (IGPred) consumes both
 a basal resource and a competitor for that resource (IGPrey) – has become
 a fundamental part of understanding species interactions and community
 dynamics. IGP communities composed of intraguild predators and prey have
 been well studied; however, we know less about IGP communities composed of
 predators, pathogens, and resources. Resource quality plays an important
 role in community dynamics and may influence IGP dynamics as well. We
 conducted a meta-analysis on predator–pathogen–resource communities to
 determine whether resource quality mediated by the pathogen affected
 predator life-history traits and if these effects met the theoretical
 constraints of IGP communities. To do this, we summarized results from
 studies that investigated the use of predators and pathogens to control
 insect pests. In these systems, the predators are the IGPred and pathogens
 are the IGPrey. We found that consumer longevity, fecundity, and survival
 decreased by 26%, 31% and 13% respectively, when predators consumed
 pathogen-infected prey, making the infected prey a low quality resource.
 Predators also significantly preferred healthy prey over infected prey.
 When we divided consumers by enemy type, strict predators (e.g. wolf
 spiders) had no preference while parasitoids preferred healthy prey. Our
 results suggest that communities containing parasitoids and pathogens may
 rarely exhibit intraguild predation; whereas, communities composed of
 strict predators and pathogens are more likely dominated by IGP dynamics.
 In these latter communities, the consumption of low and high quality
 resources suggests that IGP communities composed of strict predators,
 pathogens and prey should naturally persist, supporting IGP theory.
description: Flick MetaAnalysis
 DataData from manuscripts
 associated with our meta-analysis. These data include longevity,
 fecundity, survival, and choice of predators that consume
 pathogen-infected prey. The pathogen does not infect the predator species.
 All prey items are insect pests.
DOI: 10.5061/dryad.4n953
title: Data from: Effects of overexpressing a native gene encoding 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) on glyphosate resistance in Arabidopsis thaliana

description: Widespread overuse of the herbicide glyphosate, the active ingredient in
 RoundUp®, has led to the evolution of glyphosate-resistant weed biotypes,
 some of which persist by overproducing the herbicide's target enzyme,
 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS). EPSPS is a key enzyme
 in the shikimic acid pathway for biosynthesis of aromatic amino acids,
 lignin, and defensive compounds, but little is known about how
 overproducing EPSPS affects downstream metabolites, growth, or lifetime
 fitness in the absence of glyphosate. We are using Arabidopsis as a model
 system for investigating phenotypic effects of overproducing EPSPS,
 thereby avoiding confounding effects of genetic background or other
 mechanisms of herbicide resistance in agricultural weeds. Here, we report
 results from the first stage of this project. We designed a binary vector
 expressing a native EPSPS gene from Arabidopsis under control of the
 CaMV35S promoter (labelled OX, for over-expression). For both OX and the
 empty vector (labelled EV), we obtained nine independent T3 lines. Subsets
 of these lines were used to characterize glyphosate resistance in
 greenhouse experiments. Seven of the nine OX lines exhibited enhanced
 glyphosate resistance when compared to EV and wild-type control lines, and
 one of these was discarded due to severe deformities. The remaining six OX
 lines exhibited enhanced EPSPS gene expression and glyphosate resistance
 compared to controls. Glyphosate resistance was correlated with the degree
 of EPSPS over-expression for both vegetative and flowering plants,
 indicating that glyphosate resistance can be used as a surrogate for EPSPS
 expression levels in this system. These findings set the stage for
 examination of the effects of EPSPS over-expression on fitness-related
 traits in the absence of glyphosate. We invite other investigators to
 contact us if they wish to study gene expression, downstream metabolic
 effects, and other questions with these particular lines.
description: Yang et al_2017_PLoS
 One_AlldataData associated with the
 glyphosate resistance and EPSPS gene expression of transgenic arabidopsis
 lines.