cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.s8c06j70
title: Data from: Evidence of inbreeding depression but not inbreeding avoidance in a natural house sparrow population

description: Inbreeding is common in small and threatened populations, and often has a
 negative effect on individual fitness and genetic diversity. Thus,
 inbreeding can be an important factor affecting the persistence of small
 populations. In this study we investigated the effects of inbreeding on
 fitness in a small, wild population of house sparrows (Passer domesticus)
 on the island of Aldra, Norway. The population was founded in 1998 by four
 individuals (one female and three males). After the founding event the
 adult population rapidly increased to about 30 individuals in 2001. At the
 same time the mean inbreeding coefficient among adults increased from 0 to
 0.04 in 2001, and thereafter fluctuated between 0.06 and 0.10, indicating
 a highly inbred population. We found a negative effect of inbreeding on
 lifetime reproductive success which seemed to be mainly due to an effect
 of inbreeding on annual reproductive success. This resulted in selection
 against inbred females. However, the negative effect of inbreeding was
 less strong in males, suggesting that selection against inbred individuals
 is at least partly sex-specific. To examine whether individuals avoided
 breeding with close relatives we compared observed inbreeding and kinship
 coefficients in the population with those obtained from simulations of
 random mating. We found no significant differences between the two,
 indicating weak or absent inbreeding avoidance. We conclude that there was
 inbreeding depression in our population. Despite this, birds did not seem
 to actively avoid mating with close relatives, perhaps as a consequence of
 constraints on mating possibilities in such a small population.
description: AdultsThe file contains life
 history data for analyses of the effect of inbreeding on fitness
 components of adult house sparrowsFledglingsThe file contains data for analyses of the effect of inbreeding on recruitment probability of house sparrow fledglings.
DOI: 10.5281/zenodo.16878421
title: Simulation Data of Fe₃O₄ (Magnetite) and SiO₂ (α-Quartz) Nanoparticles in Water Generated with HydroNanoConstruct

description: This dataset contains XYZ and LAMMPS datafiles for a series of Fe₃O₄ (magnetite) and SiO₂ (α-quartz) nanoparticles dispersed in water. The systems were generated using HydroNanoConstruct, a tool designed for the digital construction of hydrated metal and metalloid oxide nanoparticles suitable for molecular simulations. The dataset includes XYZ and LAMMPS datafiles for Fe₃O₄ and SiO₂ nanoparticles of varying sizes and shapes, including spherical and ellipsoidal geometries.
DOI: 10.5281/zenodo.16878420
title: Simulation Data of Fe₃O₄ (Magnetite) and SiO₂ (α-Quartz) Nanoparticles in Water Generated with HydroNanoConstruct

description: This dataset contains XYZ and LAMMPS datafiles for a series of Fe₃O₄ (magnetite) and SiO₂ (α-quartz) nanoparticles dispersed in water. The systems were generated using HydroNanoConstruct, a tool designed for the digital construction of hydrated metal and metalloid oxide nanoparticles suitable for molecular simulations. The dataset includes XYZ and LAMMPS datafiles for Fe₃O₄ and SiO₂ nanoparticles of varying sizes and shapes, including spherical and ellipsoidal geometries.
DOI: 10.5061/dryad.38689
title: Data from: A Z-linked sterility locus causes sexual abstinence in hybrid females and facilitates speciation in Spodoptera frugiperda

description: In the fall armyworm, Spodoptera frugiperda (Lepidoptera, Noctuidae), two
 sympatric strains have been recognized that have been termed corn strain
 (C) and rice strain (R), referring to their most common host plants. Both
 strains are reproductively isolated via a distinct prezygotic barrier as
 well as via an intriguing postzygotic phenomenon: when R females have
 mated with C males, the resulting RC hybrid females exhibit dramatically
 reduced fertility independent of their mating partner. Here we demonstrate
 that the reduced fertility is caused by the fact that these females
 refrain from mating, i.e. females are behaviorally sterile. We identified
 a Z-chromosomally linked sterility locus that is most likely incompatible
 with yet-to-be-identified autosomal (or cytoplasmic) factors leading to
 the observed sexual abstinence. Within-chromosome mapping revealed the
 sterility locus to be located in an area of strongly reduced inter-strain
 recombination.
description: Kost et al. 2016 all raw
 dataData are organized in
 individual sheets per Figure. C always stands for corn strain, R for rice
 strain.Kost
 et al. 2016_read_only.xlsx
DOI: 10.5061/dryad.gs048
title: Data from: Microsatellite genetic structure and cytonuclear discordance in naturally fragmented populations of deer mice (Peromyscus maniculatus)

description: The Great Lakes impose high levels of natural fragmentation on local
 populations of terrestrial animals in a way rarely found within
 continental ecosystems. Although separated by major water barriers,
 woodland deer mouse (Peromyscus maniculatus gracilis) populations on the
 islands and on the Upper Peninsula (UP) and Lower Peninsula (LP) of
 Michigan have previously been shown to have a mitochondrial DNA contact
 zone that is incongruent with the regional landscape. We analyzed 11
 microsatellite loci for 16 populations of P. m. gracilis distributed
 across 2 peninsulas and 6 islands in northern Michigan to address the
 relative importance of geographical structure and inferred postglacial
 colonization patterns in determining the nuclear genetic structure of this
 species. Results showed relatively high levels of genetic structure for
 this species and a significant correlation between interpopulation
 differentiation and separation by water but little genetic structure and
 no isolation-by-distance within each of the 2 peninsulas. Genetic
 diversity was generally high on both peninsulas but lower and correlated
 to island size in the Beaver Island Archipelago. These results are
 consistent with the genetic and demographic isolation of Lower Peninsula
 populations, which is a matter of concern given the dramatic decline in P.
 m. gracilis abundance on the Lower Peninsula in recent years.
description: Microsatellite genotypes
 for Peromyscus maniculatusContains original
 individual genotypes: see ReadMe file.Taylor&Hoffman-2012-data-A_origenotypes.txtNull-adjusted genotypes for Peromyscus maniculatusContains population-level genotypes after adjusting for null alleles, in tab-delimited text format. See ReadMe file for full description.Taylor&Hoffman-2012-data-B_nullcorr.txtStructure clustering data for Peromyscus maniculatusClustering data for Peromyscus maniculatus after adjusting for the presence of null alleles, in a tab-delimited text file. See ReadMe for full description.Taylor&Hoffman-2012-data-C_clustering.txtGeographical distances for Peromyscus maniculatus populationsContains distances, in km, between Peromyscus maniculatus populations in the Great Lakes region.Taylor&Hoffman-2012-data-D-Geodistances.txt
DOI: 10.5281/zenodo.18386464
title: Soil self-cleansing as a lever for food safety and human health
DOI: 10.5281/zenodo.18386465
title: Soil self-cleansing as a lever for food safety and human health
DOI: 10.5061/dryad.730n045
title: Data from: Trait-based modeling of multi-host pathogen transmission: plant-pollinator networks

description: Epidemiological models for multi-host pathogen systems often classify
 individuals taxonomically and use species-specific parameter values, but
 in species-rich communities, that approach may require intractably many
 parameters. Trait-based epidemiological models offer a potential solution,
 but have not accounted for within-species trait variation or
 between-species trait overlap. Here, we propose and study trait-based
 models with host and vector communities represented as trait distributions
 without regard to species identity. To illustrate this approach, we
 develop SIS models for disease spread in plant-pollinator networks with
 continuous trait distributions. We model trait-dependent contact rates in
 two common scenarios: nested networks, and specialized plant-pollinator
 interactions based on trait matching. We find that disease spread in
 plant-pollinator networks is impacted the most by selective pollinators,
 universally attractive flowers, and co-specialized plant-pollinator pairs.
 When extreme pollinator traits are rare, pollinators with common traits
 are most important for disease spread, whereas when extreme flower traits
 are rare, flowers with uncommon traits impact disease spread the most.
 Greater nestedness and specialization both typically promote disease
 persistence. Given recent pollinator declines caused in part by pathogens,
 we discuss how trait-based models could inform conservation strategies for
 wild and managed pollinators. Furthermore, while we have applied our model
 to pollinators and pathogens, its framework is general and can be
 transferred to any kind of species interactions, in any community.
description: R
 ScriptsA zip file including all
 R scripts needed to replicate the figures and other results in the paper.
 It includes a README.TXT file.CorollaLengthDataCSV file of corolla tube length data plotted in Figure 1.
DOI: 10.5061/dryad.br42r
title: Data from: Characterizing the interaction between physicians, pharmacists and pharmaceutical representatives in a middle-income country: a qualitative study

description: Background: Studies around the world have shown that interactions between
 pharmaceutical companies, pharmacists and physicians have a great
 influence on prescribing and drug dispensing practices. In middle-income
 countries, the nature and extent of these interactions have not been well
 researched. Our objectives were to qualitatively explore the nature of the
 interactions between pharmaceutical companies, physicians and pharmacists,
 their impact on drug prescription and dispensing practices in Lebanon.
 Methods and Findings: We used grounded theory approach as well as the
 known sponsor, purposive, and snowballing sampling strategies to identify
 interviewees from the three respective groups: physicians, pharmacists,
 and pharmaceutical representatives. We conducted semi-structured and
 analyzed transcripts thematically. 6 pharmaceutical representatives, 13
 physicians and 13 pharmacists participated in the study. The following
 themes emerged: purpose and driver for the interactions, nature of the
 interactions, incentives, impact on prescription practices, ethical
 considerations, and suggestions for managing the interactions. The main
 purposes for the interaction were educational, promotional, and monitoring
 prescription practices and dispensing, while the main drivers for these
 interactions were market potential and neighborhood socio-economic status.
 Physicians, pharmacists and pharmaceutical representatives who engage in
 these interactions benefit from a variety of incentives, some of which
 were characterized as unethical. It appears that pharmaceutical companies
 give prominence to selected physicians within their communities. Although
 members of the three interviewed groups refer to some of the interactions
 as being problematic, they described a culture of acceptance of gift
 giving. We developed a framework that depicts the prevailing
 politico-cultural environment, the interactions between the three
 professional groups, and their impact on drug prescription. Underreporting
 is the main limitation of this study. Conclusion: Interactions between
 physicians, pharmacists and pharmaceutical representatives are frequent.
 Although these interactions can be beneficial, they still have a
 substantial effect on drug prescription and dispensing practices. Hence,
 the need for new policies that regulate these interactions and penalize
 any misconduct.
description: FINAL
 CODEThis file contains data
 collected from interviews with physicians , pharmacists and pharmaceutical
 representatives.Each participant was given a code representing the
 profession and an assigned number. Data are presented by themes and quotes
 from interviewsPharma coding final-Sept
 1.docx
DOI: 10.5061/dryad.j1d56
title: Data from: Impacts of silicon-based grass defences across trophic levels under both current and future atmospheric CO2 scenarios

description: Silicon (Si) has important functional roles in plants, including
 resistance against herbivores. Environmental change, such as increasing
 atmospheric concentrations of CO2, may alter allocation to Si defences in
 grasses, potentially changing the feeding behaviour and performance of
 herbivores, which may in turn impact on higher trophic groups. Using
 Si-treated and untreated grasses (Phalaris aquatica) maintained under
 ambient (400 ppm) and elevated (640 and 800 ppm) CO2 concentrations, we
 show that Si reduced feeding by crickets (Acheta domesticus), resulting in
 smaller body mass. This, in turn, reduced predatory behaviour by praying
 mantids (Tenodera sinensis), which consequently performed worse. Despite
 elevated CO2 decreasing Si concentrations in P. aquatica, this reduction
 was not large enough to affect the feeding behaviour of crickets or their
 predator. Our results suggest that Si-based defences in plants have
 adverse impacts on both primary and secondary trophic taxa, and these are
 not likely to decline under future climate change scenarios.
description: Cricket and mantid
 performance, silicon and carbon concentration dataAll data (cricket and
 mantid performance, chemistry) support for silicon defence extending up
 the food chain. Data columns include descriptive titles for
 clarity.Supplementary material
 data.xlsx
DOI: 10.5061/dryad.v3t23
title: Data from: The relationship between parasite fitness and host condition in an insect - virus system

description: Research in host-parasite evolutionary ecology has demonstrated that
 environmental variation plays a large role in mediating the outcome of
 parasite infection. For example, crowding or low food availability can
 reduce host condition and make them more vulnerable to parasite infection.
 This observation that poor-condition hosts often suffer more from parasite
 infection compared to healthy hosts has led to the assumption that
 parasite productivity is higher in poor-condition hosts. However, the
 ubiquity of this negative relationship between host condition and parasite
 fitness is unknown. Moreover, examining the effect of environmental
 variation on parasite fitness has been largely overlooked in the
 host-parasite literature. Here we investigate the relationship between
 parasite fitness and host condition by using a laboratory experiment with
 the cabbage looper Trichoplusia ni and its viral pathogen, AcMNPV, and by
 surveying published host-parasite literature. Our experiments demonstrated
 that virus productivity was positively correlated with host food
 availability and the literature survey revealed both positive and negative
 relationships between host condition and parasite fitness. Together these
 data demonstrate that contrary to previous assumptions, parasite fitness
 can be positively or negatively correlated with host fitness. We discuss
 the significance of these findings for host-parasite population biology.
description: Tseng-Myers-dataThis is an excel file of the data used to generate the main findings of the paper Tseng & Myers 2014 PLoS One paper. 5 columns, 156 rows.
DOI: 10.5061/dryad.c1m0p
title: Data from: Landscape diversity and crop vigor influence biological control of the western grape leafhopper (E. elegantula Osborn) in vineyards

description: This study evaluated how the proportional area of natural habitat
 surrounding a vineyard (i.e. landscape diversity) worked in conjunction
 with crop vigor, cultivar and rootstock selection to influence biological
 control of the western grape leafhopper (Erythroneura elegantula Osborn).
 The key natural enemies of E. elegantula are Anagrus erythroneurae S.
 Trjapitzin & Chiappini and A. daanei Triapitsyn, both of which are
 likely impacted by changes in landscape diversity due to their reliance on
 non-crop habitat to successfully overwinter. Additionally, E. elegantula
 is sensitive to changes in host plant quality which may influence
 densities on specific cultivars, rootstocks and/or vines with increased
 vigor. From 2010–2013, data were collected on natural enemy and leafhopper
 densities, pest parasitism rates and vine vigor from multiple vineyards
 that represented a continuum of landscape diversity. Early in the season,
 vineyards in more diverse landscapes had higher Anagrus spp. densities and
 lower E. elegantula densities, which led to increased parasitism of E.
 elegantula. Although late season densities of E. elegantula tended to be
 lower in vineyards with higher early season parasitism rates and lower
 total petiole nitrogen content, they were also affected by rootstock and
 cultivar. While diverse landscapes can support higher natural enemy
 populations, which can lead to increased biological control, leafhopper
 densities also appear to be mediated by cultivar, rootstock and vine
 vigor.
description: Wilson - Vineyard
 Landscape DataData is divided by tabs.
 "FirstRoundEarlySeason", "EarlySeason" and
 "LateSeason" contain yellow sticky-trap data from each of these
 three time periods. "Spiders" contains spider family counts from
 beat sheet sampling. "Parasitism" contains data on parasitism on
 1st and 2nd generation E. elegantula eggs. "SiteDetails"
 contains data on key vineyard characteristics as well as crop vigor and
 landscape diversity.
DOI: 10.5061/dryad.7gk6d
title: Data from: Co-adjustment of yolk antioxidants and androgens in birds

description: Mothers can shape the developmental trajectory of their offspring through
 the transmission of resources such as hormones, antioxidants or
 immunoglobulins. Over the last two decades, an abundant literature on
 maternal effects in birds has shown that several of these compounds (i.e.
 androgens, glucocorticoids and antioxidants) often influence the same
 offspring phenotypic traits (i.e. growth, immunity or oxidative stress
 levels), making interaction effects between egg components a likely
 scenario. However, the potential interactive effects of maternally
 transmitted compounds on offspring development and potential co-adjustment
 of these compounds within an egg are still poorly understood. Here, we
 report the results of an interspecific comparative analysis on birds'
 egg yolk composition (i.e. androgens and antioxidants) where we found that
 yolk carotenoid and vitamin E concentrations are positively associated,
 supporting the hypothesis that these two antioxidants act in synergy. The
 concentrations of vitamin E also increased with increasing concentrations
 of testosterone. This last result confirms the emerging idea that
 androgens and antioxidants are co-adjusted within eggs and that maternally
 transmitted antioxidants might limit the potential direct and indirect
 effects of prenatal exposure to high testosterone levels on oxidative
 stress.
description: SM Dataset Giraudeau
 & Ducatez BL
DOI: 10.5061/dryad.7v910
title: Data from: Lifetime reproductive success, selection on lifespan and multiple sexual ornaments in male European barn swallows

description: Natural and sexual selection arise when individual fitness varies
 according to focal traits. Extra-pair paternities (EPPs) can affect the
 intensity of selection by influencing variance in fitness among
 individuals. Studies of selection require that individual fitness is
 estimated using proxies of lifetime reproductive success (LRS). However,
 estimating LRS is difficult in large, open populations where EPPs cause
 reallocation of biological paternity. Here we used extensive field
 sampling to estimate LRS in a population of barn swallows (Hirundo
 rustica) to estimate selection on lifespan and ornamental traits of males.
 We found selection on lifespan mediated both by within- and extra-pair
 fertilization success and selection on tail length mediated by within- but
 not extra-pair fertilization success. In addition, we found selection on
 tail white spots via extra-pair fertilization success after controlling
 for selection on other traits. These results were not confounded by
 factors that hamper studies of LRS, including non-exhaustive sampling of
 offspring and biased sampling of males. Hence, natural and sexual
 selection mediated by LRS operates on lifespan, tail length and size of
 the tail white spots in barn swallows.
description: Evolution_data_17-0084.R2evolution_data_17-0084.R2.xls
DOI: 10.5061/dryad.tb536
title: Data from: Short-term physiological plasticity: trade-off between drought and recovery responses in three Mediterranean Cistus species

description: Short-term physiological plasticity allows plants to thrive in highly
 variable environments such as the Mediterranean ecosystems. In such
 context, plants that maximize physiological performance under favorable
 conditions, such as Cistus spp., are generally reported to have a great
 cost in terms of plasticity (i.e. a high short-term physiological
 plasticity) due to the severe reduction of physiological performance when
 stress factors occur. However, Cistus spp. also show a noticeable
 resilience ability in response to stress factors. We hypothesized that in
 Cistus species the short-term physiological response to stress and that to
 subsequent recovery can show a positive trade-off to offset the costs of
 the photosynthetic decline under drought. Gas exchange, chlorophyll
 fluorescence and water relations were measured in C. salvifolius, C.
 monspeliensis and C. creticus subsp. eriocephalus during an imposed
 experimental drought and subsequent recovery. Plants were grown outdoor in
 common garden conditions from seeds of different provenances. The
 short-term physiological response to stress and that to recovery were
 quantified via phenotypic plasticity index (PIstress and PIrecovery,
 respectively). A linear regression analysis was used to identify the
 hypothesized trade-off PIstress-PIrecovery. Accordingly, we found a
 positive trade-off between PIstress and PIrecovery, which was consistent
 across species and provenances. This result contributes in explaining the
 profit, more than the cost, of a higher physiological plasticity in
 response to short-term stress imposition for Cistus spp since the costs of
 a higher PIstress are payed back by an as much higher PIrecovery. Absence
 of leaf shedding during short-term drought supports this view. The
 trade-off well described the relative variations of gas exchange and water
 relation parameters. Moreover, the results were in accordance with the
 ecology of this species and provide the first evidence of a consistent
 trade-off between the short-term physiological responses to drought and
 recovery phases in Mediterranean species.
description: Drought_Plasticity_DatasetThe dataset “Drought_Plasticity_Dataset” by Puglielli et al. reports data on the drought response of three Cistus species (C. salvifolius, C. creticus subsp. eriocephalus and C. monspeliensis). The plants were grown from seeds of different provenances under common garden conditions (provenances are reported in the second column of the dataset). The dataset includes data for Control (C) and stress (S) treatment with five replicates per each provenance. The parameters are explicitly labeled within the dataset along with the abbreviations used in the paper and their units. The values of the Phenotypic Plasticity Index sensu Valladares et al. (New Phytologist 148, 79–91) for the drought (PIstress) and recovery (PIrecovery) responses are reported in columns 17 and 18. Each values is associated to the specific parameter and provenance.