cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.60s6033
title: Data from: Experimental evolution demonstrates evolvability of preferential nutrient allocation to competing traits, in response to chronic malnutrition.

description: Investigating the evolutionary origins of disease vulnerability is an
 important aspect of evolutionary medicine that strongly complements our
 current understanding on proximate causes of disease. Life history
 trade-offs mediated through evolutionary changes in resource allocation
 strategies could be one possible explanation to why suboptimal traits that
 leave bodies vulnerable to disease exist. For example, Drosophila
 melanogaster populations experimentally evolved to tolerate chronic larval
 malnutrition succumb to intestinal infection despite eliciting a competent
 immune response, owing to the loss of their intestinal integrity. Here, I
 test if evolved changes in resource allocation underlies this trade-off,
 by assaying preferential allocation of dietary protein towards growth and
 tissue repair in the same populations. Using two phenotypic traits:
 regeneration of intestinal epithelium post-pathogenic infection and body
 weight, I show that in accordance to the dynamic energy budget theory
 (DEB) dietary protein acquired during the larval phase is allocated to
 both growth and adult tissue repair. Furthermore, by altering the ratio of
 protein and carbohydrates in the larval diets I demonstrate that in
 comparison to the control populations, the evolved (selected) populations
 differ in their protein allocation strategy towards these two traits.
 While the control populations stored away excess protein for tissue
 repair, the selected populations invested it towards immediate increase in
 body weight rather than towards an unanticipated tissue damage. Thus, I
 show how macronutrient availability and their allocation between traits
 can alter resistance, and provide empirical evidence that supports the
 ‘mismatch hypothesis’, wherein vulnerability to disease is proposed to
 stem from the differences between ancestral and current environment.
description: fitness of control and
 selected populations on standard and high protein: carbohydrate
 dietThis data is from
 laboratory populations of D. melanogaster that have evolved tolerance to
 chronic larval malnutrition, in an experimental evolution set-up
 maintained for over 180 generations. The six evolved (selected)
 populations (S1-S6) and the corresponding six control populations (C1-C6)
 were raised as larvae on standard and high protein: carbohydrate (high
 P:C) diet. The emerging adult females were assayed for three traits: a)
 susceptibility to intestinal infection by Pseudomonas entomophila; b)
 ability to restore intestinal integrity upon infection (smurf phenotype);
 and c) body weight upon emergence. The excel file here presents the data
 from these assays.Dryad data
 file.xlsx
DOI: 10.5281/zenodo.18384090
title: Datasets Associated with the 2020 Mw 6.5 Monte Cristo Range Earthquake

description: This file includes coseismic, postseismic deformation field and phase-gradient products from InSAR obervations, together with the regional mean background stress tensors of the source area inferred from the quantum annealing algorithm.
DOI: 10.5281/zenodo.18384089
title: Datasets Associated with the 2020 Mw 6.5 Monte Cristo Range Earthquake

description: This file includes coseismic, postseismic deformation field and phase-gradient products from InSAR obervations, together with the regional mean background stress tensors of the source area inferred from the quantum annealing algorithm.
DOI: 10.7910/dvn/p2unty
title: Meditation and Symptom Relief in Schizophrenia: Supporting Data for Neuropsychological and Clinical Outcomes

description: &lt;p&gt;This dataset accompanies the research study &lt;em&gt;"Meditation as a Tool for Symptom Relief in Schizophrenia: Bridging Neuroscience and Mental Health"&lt;/em&gt; and provides anonymized quantitative and qualitative data collected during a 12-week mindfulness-based intervention (MBI) program for individuals diagnosed with schizophrenia.&lt;/p&gt;

&lt;p&gt;The data includes:&lt;/p&gt;
&lt;ul&gt;
 &lt;li&gt;Pre- and post-intervention scores from the Positive and Negative Syndrome Scale (PANSS)&lt;/li&gt;
 &lt;li&gt;Results from cognitive performance assessments (Digit Span and Trail Making Tests)&lt;/li&gt;
 &lt;li&gt;Quality of life scores from the WHOQOL-BREF&lt;/li&gt;
 &lt;li&gt;Thematic summaries derived from semi-structured interviews with patients and healthcare providers&lt;/li&gt;
&lt;/ul&gt;

&lt;p&gt;The purpose of this dataset is to evaluate the clinical efficacy, cognitive impact, and cultural feasibility of meditation as an adjunctive therapy for schizophrenia. It supports the study’s aim to integrate contemplative neuroscience with mental health care by offering robust, multimodal evidence.&lt;/p&gt;

&lt;p&gt;All identifying information has been removed in compliance with ethical research standards. Researchers interested in replicating or building upon this work are encouraged to reference this dataset.&lt;/p&gt;
description: R, 4.5.1
DOI: 10.5061/dryad.gp3ng
title: Data from: Genetic variation in social environment construction influences the development of aggressive behavior in Drosophila melanogaster

description: Individuals are not merely subject to their social environments; they
 choose and create them, through a process called social environment (or
 social niche) construction. When genotypes differ in social
 environment-constructing behaviors, different genotypes are expected to
 experience different social environments. As social experience often
 affects behavioral development, quantitative genetics and psychology
 theories predict that genetic variation in social environment construction
 should have an important role in determining phenotypic variation;
 however, this hypothesis has not been tested directly. I identify multiple
 mechanisms of social environment construction that differ among natural
 genotypes of Drosophila melanogaster and investigate their consequences
 for the development of aggressive behavior. Male genotypes differed in the
 group sizes that they preferred and in their aggressive behavior; both of
 these behaviors influenced social experience, demonstrating that these
 behaviors function as social environment-constructing traits. Further, the
 effects of social experience—as determined in part by social environment
 construction—carried over to affect focal male aggression at a later time
 and with a new opponent. These results provide manipulative experimental
 support for longstanding hypotheses in psychology, that genetic variation
 in social environment construction has a causal role in behavioral
 development. More broadly, these results imply that studies of the genetic
 basis of complex traits should be expanded to include mechanisms by which
 genetic variation shapes the environments that individuals experience.
description: development experiment
 data for dryadData from the
 development experiment. Includes the number of focal lunges measured on
 days 1 and 2 for each individual (day1.focal.lunge and day2.focal.lunge),
 the number of times each focal male was attacked by stimulus males
 (day1.at.focal.lunge, day2.at.focal.lunge), and the amount of time the
 focal male spent on patch on day 2 (day2.time) as well as identifiers such
 as genotype.data for
 dryad.csvpreference data for
 dryadData from the group-size
 preference experiment. Includes the number of observations that the focal
 male was observed on the food patches containing large or small groups, or
 elsewhere in the arena, plus identifiers such as
 genotype.
DOI: 10.5061/dryad.c4b89
title: Data from: Conditional fetal and infant killing by male baboons

description: Sexually selected feticide—the death of infants in utero as a result of
 male behaviour—has only rarely been described or analysed, although it is
 presumed to be favoured by the same selective pressures that favour
 sexually selected infanticide. To test this hypothesis, we measured the
 frequency of feticide and infanticide by male baboons of the Amboseli
 basin in Kenya, and examined which characteristics of a male and his
 environment made him more likely to commit feticide and/or infanticide. We
 found a dramatic increase in fetal and infant death rates, but no increase
 in death rates of 1- to 2-year-old individuals, following the immigration
 of males who stood to benefit from feticide and infanticide. Specifically,
 fetal and infant death rates were highest following immigrations in which:
 (i) the immigrant male rapidly attained high rank, (ii) that male remained
 consistently resident in the group for at least three months, (iii) food
 availability and social group range overlap was relatively low and (iv)
 relatively many pregnant females and/or dependent infants were present.
 Together, these results provide strong evidence for the existence of both
 sexually selected feticide and infanticide in our population, and they
 indicate that feticide and infanticide are conditional male behavioural
 strategies employed under particular circumstances.
description: Immigration
 Characteristics/Death RatesDryad
 Data.xlsx
DOI: 10.5061/dryad.kt69d
title: Data from: RNA-Seq analysis identifies genes associated with differential reproductive success under drought-stress in accessions of wild barley Hordeum spontaneum

description: Background: The evolutionary basis of reproductive success in different
 environments is of major interest in the study of plant adaptation. Since
 the reproductive stage is particularly sensitive to drought, genes
 affecting reproductive success during this stage are key players in the
 evolution of adaptive mechanisms. We used an ecological genomics approach
 to investigate the reproductive response of drought-tolerant and sensitive
 wild barley accessions originating from different habitats in the Levant.
 Results: We sequenced mRNA extracted from spikelets at the flowering stage
 in drought-treated and control plants. The barley genome was used for a
 reference-guided assembly and differential expression analysis. Our
 approach enabled to detect biological processes affecting grain production
 under drought stress. We detected novel candidate genes and differentially
 expressed alleles associated with drought tolerance. Drought associated
 genes were shown to be more conserved than non-associated genes, and
 drought-tolerance genes were found to evolve more rapidly than other
 drought associated genes. Conclusions: We show that reproductive success
 under drought stress is not a habitat-specific trait but a shared
 physiological adaptation that appeared to evolve recently in the
 evolutionary history of wild barley. Exploring the genomic basis of
 reproductive success under stress in crop wild progenitors is expected to
 have considerable ecological and economical applications.
description: Phenotypic
 dataPhenotypicData.xlsxbash command file used for data analysiscommands.sh
DOI: 10.5061/dryad.nf15dn8
title: Data from: Diabetes mellitus and the risk of fractures at specific sites: a meta-analysis

description: Objective: Diabetes mellitus (DM) is associated with an increased fracture
 risk; however, the impact of DM and subsequent fracture at different sites
 and the associations according to patient characteristics remain unknown.
 Design: Meta-analysis. Data Sources: The PubMed, EMBASE, and Cochrane
 Library databases were searched from inception to March 2018. Eligibility
 Criteria: We included prospective and retrospective cohort studies on the
 associations of DM and subsequent fracture risk at different sites. Data
 extraction and synthesis: Two authors independently extracted data and
 assessed the study quality. Relative risks (RRs) with 95% confidence
 intervals (CIs) were calculated using a random-effects model, and the
 heterogeneity across the included studies was evaluated using I2 and Q
 statistics. Results: Overall, DM was associated with an increased risk of
 total (RR: 1.32; 95% CI: 1.17–1.48; P&lt;0.001), hip (RR: 1.77; 95%
 CI: 1.56–2.02; P&lt;0.001), upper arm (RR: 1.47; 95% CI: 1.02–2.10;
 P=0.037), and ankle fractures (RR: 1.24; 95% CI: 1.10–1.40;
 P&lt;0.001), whereas DM had no significant impact on the incidence of
 distal forearm (RR: 1.02; 95% CI: 0.88–1.19; P=0.809) and vertebral
 fractures (RR: 1.56; 95% CI: 0.78–3.12; P=0.209). RR ratios suggested that
 compared with type 2 DM (T2DM) patients, type 1 DM (T1DM) patients had
 greater risk of total (RR ratio: 1.24; 95% CI: 1.08–1.41; P=0.002), hip
 (RR ratio: 3.43; 95% CI: 2.27–5.17; P&lt;0.001), and ankle fractures
 (RR ratio: 1.71; 95% CI: 1.06 –2.78; P=0.029). Although no other
 significant differences were observed between subgroups, the association
 of DM with upper arm or ankle, vertebrae, and total fracture differed
 according to sex, study design, and country, respectively. Conclusions: DM
 patients had greater risks of total, hip, upper arm, and ankle fractures,
 with T1DM having a more harmful effect than T2DM.
description: ABSTRACT DATA BY HAO
 WANGdetail of every
 figure
DOI: 10.5061/dryad.j860v
title: Data from: Effects of hummingbird morphology on specialization in pollination networks vary with resource availability

description: Specialization of species in interaction networks influences network
 stability and ecosystem functioning. Spatial and temporal variation in
 resource availability may provide insight into how ecological factors,
 such as resource abundance, and evolutionary factors, such as
 phylogenetically conserved morphological traits, influence specialization
 within mutualistic networks. We used independent measures of hummingbird
 abundance and resources (nectar), information on hummingbird traits and
 plant–hummingbird interactions to examine how resource availability and
 species' morphology influence the specialization of hummingbirds in
 three habitat types (forest, shrubs, cattle ranch) sampled over 10
 sessions across two years in the southern Andes of Ecuador. Specialization
 of hummingbird species in the networks was measured by three indices:
 d' (related to niche partitioning), generality (related to niche
 width) and PSI (related to pollination services). Specialization indices
 d', generality and PSI of hummingbird species were influenced by
 resource availability. All indices indicated that specialization of
 hummingbirds increased when the availability of resources decreased.
 Variation in d' was also explained by an interaction between resource
 availability and bill length; hummingbirds with a long bill switched from
 being more specialized than other species when resource availability was
 low to being similarly specialized when availability was high. Overall,
 our results highlight the importance of ecological and evolutionary
 factors determining the specialization of species in interaction networks.
 We demonstrate in particular that ecological gradients in resource
 availability cause substantial changes in consumers' foraging
 behavior contingent on their morphology. Changes in pollinator
 specialization along resource gradients can have impacts on ecosystem
 functions, such as pollination by animals.
description: data_aDryadFOREST: data of hummingbird – flower interactions in forest site Shrubs: data of hummingbird – flower interactions in shrubs site Cattle ranch: data of hummingbird – flower interactions in cattle ranch site Info_aboutsite: Georeferenced information about the site. Necat info: Information about nectar production rates of the different plant species Flower_phenology:: contains the data on the nectar production rates of the different plant species
DOI: 10.5061/dryad.d6n271pv
title: Data from: Mutualism effectiveness and vertical transmission of symbiotic fungal endophytes in response to host genetic background

description: Certain species of the Pooideae subfamily develop stress tolerance and
 herbivory resistance through symbiosis with vertically-transmitted,
 asexual fungi. This symbiosis is specific, and genetic factors modulate
 compatibility between partners. Although gene flow is clearly a fitness
 trait in allogamous grasses, since it injects hybrid vigor and raw
 material for evolution, it could reduce compatibility and thus, mutualism
 effectiveness. To explore the importance of host genetic background in
 modulating the performance of symbiosis, Lolium multiflorum plants,
 infected and non-infected with Neotyphodium occultans, were crossed with
 genetically distant plants of isolines (susceptible and resistant to
 diclofop-methyl herbicide) bred from two cultivars, and exposed to stress.
 The endophyte improved seedling survival in genotypes susceptible to
 herbicide, while it had a negative effect on one of the genetically
 resistant crosses. Mutualism provided resistance to herbivory
 independently of the host genotype, but this effect vanished under stress.
 While no endophyte effect was observed on host reproductive success, it
 was increased by inter-population plant crosses. Neither gene flow nor
 herbicide had an important impact on endophyte transmission. Host fitness
 improvements due to gene flow do not appear to result in direct conflict
 with mutualism while this seems to be an important mechanism for the
 ecological and contemporary evolution of the symbiotum.
description: Archiving
 dataEach sheet of the Excel
 file contains each measured variable (survival to herbicide, aphid
 herbivory, plant yield and endophyte transmission) in the two experiments.
 The logic is easy to understand since the nomenclature is the same used in
 the article.
DOI: 10.5061/dryad.td771
title: Data from: Sub-lethal effects on fish provide insight into a biologically-relevant threshold of hypoxia

description: Hypoxia (low dissolved oxygen) is a mounting concern for aquatic
 ecosystems as its prevalence increases with rising anthropogenic nutrient
 inputs. Hypoxia is most commonly defined as 2.0 mg l–1 of dissolved
 oxygen, although this level varies widely across studies and agency
 regulations. Such definitions may be too conservative, as
 ecologically-relevant non-lethal effects (e.g. consumption and growth) of
 hypoxia on important aquatic species, such as fish, often occur at oxygen
 levels much higher than 2.0 mg l–1. In addition, many mechanisms that
 regulate hypoxia tolerance in fish have been proposed, including
 temperature, habitat, location in the water column, and body size, but
 there is ongoing debate over which mechanisms are most important. Using a
 structured meta-analysis of published studies, we showed consistent,
 significant negative effects on fish growth and consumption below 4.5 mg
 l–1. While the total amount of variation explained was generally low,
 below 4.5 mg l–1 of dissolved oxygen, phylogenetic relationships accounted
 for most of the explained variation in fish growth. Ecological factors
 including body size, location in the water column (pelagic, demersal, or
 benthopelagic), habitat (freshwater, marine, or diadromous), and
 temperature explained very little of the effect of hypoxia on fish growth
 and explained only a moderate level of variation in consumption. Our
 results suggest a dramatically higher threshold for sub-lethal effects of
 hypoxia on fish than oxygen levels generally set for regulation purposes,
 and provide little support for accepted ecological mechanisms thought to
 influence hypoxia tolerance.
description: Consumption
 DataData used in a
 meta-analysis of the effects of low dissolved oxygen on fish
 consumption.ConsumptionData.csvGrowth DataData used in a meta-analysis of the effects of low dissolved oxygen on fish growth.GrowthData.csv
DOI: 10.6084/m9.figshare.31155231
title: Interpretable machine learning models for QSAR-based prediction of anti-<i>Salmonella typhi</i> activity

description: This study aimed to develop a robust machine learning (ML)-based quantitative structure-activity relationship (QSAR) model to identify potential drug candidates active against multidrug-resistant Salmonella typhi. A curated ChEMBL-derived dataset was assessed for modelability, yielding a high MODI value of 0.89. A hybrid feature selection workflow was applied to retain 20 chemically interpretable molecular descriptors, and eight diverse ML classifiers were systematically trained and benchmarked. The Support Vector Machine (SVM) model achieved the highest performance (MCC = 0.61, ROC-AUC = 0.90) on the hold-out test set. Overall, rigorous ML-QSAR modeling offers a reliable and efficient framework for virtual screening and prioritization of novel anti-S. typhi agents discovery.
DOI: 10.6084/m9.figshare.31155231.v1
title: Interpretable machine learning models for QSAR-based prediction of anti-<i>Salmonella typhi</i> activity

description: This study aimed to develop a robust machine learning (ML)-based quantitative structure-activity relationship (QSAR) model to identify potential drug candidates active against multidrug-resistant Salmonella typhi. A curated ChEMBL-derived dataset was assessed for modelability, yielding a high MODI value of 0.89. A hybrid feature selection workflow was applied to retain 20 chemically interpretable molecular descriptors, and eight diverse ML classifiers were systematically trained and benchmarked. The Support Vector Machine (SVM) model achieved the highest performance (MCC = 0.61, ROC-AUC = 0.90) on the hold-out test set. Overall, rigorous ML-QSAR modeling offers a reliable and efficient framework for virtual screening and prioritization of novel anti-S. typhi agents discovery.
DOI: 10.15468/dl.9h597y
title: Occurrence Download

description: A dataset containing 367 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "OccurrenceStatus is Present",
 "TaxonKey is Apodemus draco",
 "Year 1970-2024"
 ]
}

 The dataset includes 367 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001163-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.g1h6b
title: Data from: To kill a kangaroo: understanding the decision to pursue high-risk/high-gain resources

description: In this paper, we attempt to understand hunter–gatherer foraging decisions
 about prey that vary in both the mean and variance of energy return using
 an expected utility framework. We show that for skewed distributions of
 energetic returns, the standard linear variance discounting (LVD) model
 for risk-sensitive foraging can produce quite misleading results. In
 addition to creating difficulties for the LVD model, the skewed
 distributions characteristic of hunting returns create challenges for
 estimating probability distribution functions required for expected
 utility. We present a solution using a two-component finite mixture model
 for foraging returns. We then use detailed foraging returns data based on
 focal follows of individual hunters in Western Australia hunting for
 high-risk/high-gain (hill kangaroo) and relatively low-risk/low-gain (sand
 monitor) prey. Using probability densities for the two resources estimated
 from the mixture models, combined with theoretically sensible utility
 curves characterized by diminishing marginal utility for the highest
 returns, we find that the expected utility of the sand monitors greatly
 exceeds that of kangaroos despite the fact that the mean energy return for
 kangaroos is nearly twice as large as that for sand monitors. We conclude
 that the decision to hunt hill kangaroos does not arise simply as part of
 an energetic utility-maximization strategy and that additional social,
 political or symbolic benefits must accrue to hunters of this highly
 variable prey.
description: Hunting returns
 dataDelimited plain text
 file with the following columns: date, age_cat, sex, foraging_activity,
 total_foraging_time, total_kcal. These correspond to: (1) date of focal
 follow, (2) age category of focal forager, (3) sex of focal forager, (4)
 type of hunt, (5) total hunt time in min, (6) total energetic returns in
 kcal.hunting.returns.txt