cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.sbcc2fr5c
title: Supplemented nutrition decreases helminth burden and increases drug efficacy in a natural host-helminth system

description: Gastrointestinal helminths are common parasites of humans, wildlife, and
 livestock, causing chronic infections. In humans and wildlife, poor
 nutrition or limited resources can compromise individuals’ immune
 response, predisposing them to higher helminth burdens. This relationship
 has been tested in laboratory models by investigating infection outcomes
 following reductions of specific nutrients. However, much less is known
 about how diet supplementation can impact susceptibility to infection,
 acquisition of immunity, and drug efficacy in natural host-helminth
 systems. We experimentally supplemented the diet of wood mice (Apodemus
 sylvaticus) with high quality nutrition and measured resistance to the
 common gastrointestinal nematode Heligmosomoides polygyrus. To test
 whether diet can enhance immunity to reinfection, we also administered
 anthelmintic treatment at random in both natural and captive populations.
 Supplemented wood mice were more resistant to H. polygyrus infection,
 cleared worms more efficiently after treatment, avoided a post-treatment
 infection rebound, produced stronger general and parasite-specific
 antibody responses, and maintained better body condition. In addition,
 when applied in conjunction with anthelmintic treatment, supplemented
 nutrition significantly reduced H. polygyrus transmission potential. These
 results show the rapid and extensive benefits of a well-balanced diet and
 have important implications for both disease control and wildlife health
 under changing environmental conditions.
DOI: 10.5061/dryad.gf1vhhmnp
title: Ecological adaptation drives wood frog population divergence in life history traits

description: Phenotypic variation among populations is thought to be generated from
 spatial heterogeneity in environments that exert selection pressures that
 overcome the effects of gene flow and genetic drift. Here, we tested for
 evidence of isolation by distance or by ecology (i.e., ecological
 adaptation) to generate variation in early life history traits and
 phenotypic plasticity among 13 wood frog populations spanning 1200 km and
 7° latitude. We conducted a common garden experiment and related trait
 variation to an ecological gradient derived from an ecological niche model
 (ENM) validated to account for population density variation. Shorter
 larval periods, smaller body weight and relative leg lengths were
 exhibited by populations with colder mean annual temperatures, greater
 precipitation, and less seasonality in precipitation, and higher
 population density (high suitability ENM values). After accounting for
 neutral genetic variation, the QST–FST analysis supported ecological
 selection as the key process generating population divergence. Further,
 the relationship between ecology and traits was dependent upon larval
 density. Specifically, high suitability/high-density populations in the
 northern part of the range were better at coping with greater conspecific
 competition, evidenced by greater post-metamorphic survival and no
 difference in body weight when reared under stressful conditions of high
 larval density. Our results support that both climate and competition
 selection pressures drive clinal variation in larval and metamorphic
 traits in this species. Range-wide studies like this one are essential for
 accurate predictions of population’s responses to ongoing ecological
 change.
DOI: 10.5061/dryad.pg4f4qrn8
title: Processed data file for article "Implications of the iron oxide phase transition on the interiors of rocky exoplanets"

description: This excel file contains pressure-density values obtained from VISAR and
 X-ray diffraction data analysis for iron oxide (FeO) and magnesium oxide
 (MgO), as reported in the Nature Geoscience article: "Implications of
 the iron oxide phase transition on the interiors of rocky
 exoplanets", by F. Coppari et al (2021). Prepared by LLNL under
 Contract DE-AC52-07NA27344.
description: Density values are obtained from X-ray diffraction data, pressure
 values are obtained from velocity interferometer data.
 Please refer to https://doi.org/10.1038/s41561-020-00684-y for
 details on the data analysis process.
description: Sheet 1 contains pressure-density data for FeO from
 https://doi.org/10.1038/s41561-020-00684-y. Sheet 2
 contains pressure-density data for MgO from Nat Geosci 2013.
DOI: 10.15468/dl.dzh8v3
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((100.85002 -1.59013,102.24532 -1.59013,102.24532 -0.21773,100.85002 -0.21773,100.85002 -1.59013))",
 "HasGeospatialIssue is false",
 "IucnRedListCategory is EN",
 "OccurrenceStatus is Present",
 "Year 2015-2026"
 ]
}

 The dataset includes 22 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002702-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.4qrfj6q8m
title: Are you my baby? Testing whether paternity affects behavior of cobreeder male acorn woodpeckers

description: Natural selection is expected to favor males that invest more in offspring
 they sire. We investigated the relationship between paternity and male
 behavior in the acorn woodpecker (Melanerpes formicivorus), cooperative
 breeders that live in family groups including offspring that remain on
 their natal territory, sometimes for years, and cobreeders of both sexes.
 Regardless of group composition, only one communal nest is attended at a
 time. Whereas cobreeding females share maternity equally, one male often
 sires the majority of young in the group’s communal nest. Copulations are
 rarely observed, and thus it has not been possible to link paternity to
 sexual behavior. There were no differences among cobreeder males that did
 or did not sire young in their propensity to roost in the nest cavity at
 night. However, cobreeder males that attended females continuously prior
 to egg-laying were more likely to successfully sire young than males that
 did not, and the relative share of feeding visits and time spent at the
 subsequent nest were positively related to a male’s realized paternity.
 These differences in male behavior were partly due to differences among
 males and partly to plasticity in male behavior covarying with paternity
 share. Feedings by males successfully siring young also involved a larger
 proportion of nutritionally valuable insect prey. Males are aware of their
 paternity success, apparently because of their relative access to females
 prior to egg-laying, and provide more paternal behavior at nests in which
 they are more likely to have sired young.
description: Datasets are mostly from field observations combined with
 parentage analysis
description: Most of the fields are labeled so as to be self-explanatory in
 conjunction with the published paper. NA = missing values. LED = Last Egg
 Date.  There are 3 datasets: (1) Mate_guard.xls has the
 data for individual mate-guarding watches. It was used for the analyses in
 Table 2. (2) Nocturnal_roosting.xls has the data for
 cobreeder male nocturnal roosting in the nest cavity. It was used for part
 of Table 3. (3) Provisioning_behavior.xls has the data
 for provisioning and feeding at the nest by cobreeder males. It was the
 main datafile used for Table 3 (except for the nocturnal roosting models),
 Table 4, and Table 5.
DOI: 10.5061/dryad.7m0cfxpsm
title: Genomic SSR and EST-SSR markers for phylogenetic and pedigree reconstruction: A comparison in sea buckthorn

description: Simple sequence repeat (SSR) markers play an important role in genetic and
 molecular breeding programs, especially for non-model species. We
 identified SSRs from expressed sequence tags (EST-SSRs) and whole genome
 sequences (gSSRs), by analyzing the transcriptome and genome of the
 Mongolian sea buckthorn (Hippophae rhamnoides subsp. Mongolica) cultivar
 ‘Sunny’. Using the same number of loci, EST-SSRs showed higher
 transferability to Hippophae than gSSRs, and phylogenetic trees based on
 EST-SSRs demonstrated higher resolution for classifying Hippophae species
 and subspecies into clades, possibly due to high conservatism and/or
 existence of adaptive divergence between species/subspecies in coding
 sequence regions. In contrast, parentage analyses showed that gSSRs were
 more effective at resolving parentage than EST-SSRs due to higher level of
 polymorphism in gSSRs. The markers developed in this study can be used in
 the identification and pedigree reconstruction of species/subspecies of
 sea buckthorn, while their usage in clarifying phylogenetic relationship
 among species remains to be discussed. The comparison between EST-SSRs and
 gSSRs would provide insight into the trade-off between differentiation and
 polymorphism in marker selection for breeding programs.
DOI: 10.5061/dryad.k98sf7m51
title: Aerial attack strategies of hawks hunting bats, and the adaptive benefits of swarming

description: Aggregation can reduce an individual’s predation risk, by decreasing
 predator hunting efficiency or displacing predation onto others. Here we
 explore how the behaviors of predator and prey influence catch success and
 predation risk in Swainson’s hawks Buteo swainsoni attacking swarming
 Brazilian free-tailed bats Tadarida brasiliensis on emergence. Lone bats
 including stragglers have a high relative risk of predation, representing
 ~5% of the catch but ~0.2% of the population. Attacks on the column were
 no less successful than attacks on lone bats, so hunting efficiency is not
 decreased by group vigilance or confusion. Instead, lone bats were
 attacked disproportionately often, representing ~10% of all attacks.
 Swarming therefore displaces the burden of predation onto bats outside the
 column – whether as isolated wanderers not benefitting from dilution
 through attack abatement, or as peripheral stragglers suffering marginal
 predation and possible selfish herd effects. In contrast, the hawks’ catch
 success depended only on the attack maneuvers that they employed, with the
 odds of success being more than trebled in attacks involving a high-speed
 stoop or rolling grab. Most attacks involved one of these two maneuvers,
 which therefore represent alternative rather than complementary tactics.
 Hence, whereas a bat’s survival depends on maintaining column formation, a
 hawk’s success does not depend on attacking lone bats – even though their
 tendency to do so is sufficient to explain the adaptive benefits of their
 prey’s aggregation behavior. A hawk’s success instead depends on the
 flight maneuvers it deploys, including the high-speed stoop that is
 characteristic of many raptors.
DOI: 10.5061/dryad.prr4xgxkj
title: Data from: Improving the resolution of canine genome-wide association studies using genotype imputation: a study of two breeds

description: Genotype imputation using a reference panel that combines high-density
 array data and publicly available whole genome sequence consortium variant
 data is potentially a cost-effective method to increase the density of
 extant lower-density array datasets. In this study three datasets (two
 Border Collie; one Italian Spinone) generated using a legacy array
 (Illumina CanineHD, 173,662 SNPs) were utilised to assess the feasibility
 and accuracy of this approach and to gather additional evidence for the
 efficacy of canine genotype imputation. The cosmopolitan reference panels
 used to impute genotypes comprised dogs of 158 breeds, mixed breed dogs,
 wolves, and Chinese indigenous dogs as well as breed-specific individuals
 genotyped using the Axiom Canine HD array. The two Border Collie reference
 panels comprised 808 individuals including 79 Border Collies and 426,326
 or 426,332 SNPs; and the Italian Spinone reference panel comprised 807
 individuals including 38 Italian Spinoni and 476,313 SNPs. A high accuracy
 for imputation was observed, with the lowest accuracy observed for one of
 the Border Collie datasets (mean R2 = 0.94) and the highest for the
 Italian Spinone dataset (mean R2 = 0.97). This study’s findings
 demonstrate that imputation of a legacy array study set using a reference
 panel comprising both breed-specific array data and multi-breed variant
 data derived from whole genomes is effective and accurate.  The
 process of canine genotype imputation, using the valuable growing resource
 of publicly available canine genome variant datasets alongside
 breed-specific data, is described in detail to facilitate and encourage
 use of this technique in canine genetics.
description: Three genotype datasets for use in a reference panel for
 genome-wide imputation of dog genotype data. Two single dog breed datasets
 (Border Collie and Italian Spinone) generated using the Axiom Canine HD
 array (&gt;710k markers). One dataset containing genotype data for
 dogs of multiple breeds, the genotypes for markers on the Axiom array
 extracted from whole genome sequence variant data and converted to ped and
 map format using VCFtools.
description: The three compressed folders were created using 7-Zip 19.00. Each
 contains genotype data in plink ped and map format.
 Italian_Spinone_Axiom_Dataset.7z and Border_Collie_Axiom_Dataset.7z
 contain data generated on the Axiom CanineHD array. The ped and map files
 in AHT_WGS_Array_Markers_Extracted.7z consist of data extracted from whole
 genome sequence VCF files for the markers present on the Axiom array, and
 this folder also contains AHT_WGS_Array_Markers_Extracted_Breed_Info.txt
 which states the breed of each dog in the dataset. The markers in
 AHT_WGS_Array_Markers_Extracted.map are identified by their chromosome and
 position, those in Italian_Spinone_Axiom_Dataset.map and
 Border_Collie_Axiom_Dataset.map are identified by their Axiom Probe Set
 ID.
DOI: 10.5061/dryad.cfxpnvx4c
title: Sudden Unexpected Death in Epilepsy: A Personalized Prediction Tool

description: Objective: To develop and validate a tool for individualised prediction of
 Sudden Unexpected Death in Epilepsy (SUDEP) risk, we re-analysed data from
 one cohort and three case-control studies undertaken 1980-2005. Methods:
 We entered 1273 epilepsy cases (287 SUDEP, 986 controls) and 22 clinical
 predictor variables into a Bayesian logistic regression model. Results:
 Cross-validated individualized model predictions were superior to baseline
 models developed from only average population risk or from generalised
 tonic-clonic seizure frequency (pairwise difference in
 leave-one-subject-out expected log posterior density = 35.9, SEM +/-12.5,
 and 22.9, SEM +/-11.0 respectively). The mean cross-validated (95%
 Bootstrap Confidence Interval) Area Under the Receiver Operating Curve was
 0.71 (0.68 to 0.74) for our model versus 0.38 (0.33 to 0.42) and 0.63
 (0.59 to 0.67) for the baseline average and generalised tonic-clonic
 seizure frequency models respectively. Model performance was weaker when
 applied to non-represented populations. Prognostic factors included
 generalized tonic-clonic and focal-onset seizure frequency, alcohol
 excess, younger age of epilepsy onset and family history of epilepsy.
 Anti-seizure medication adherence was associated with lower risk.
 Conclusions: Even when generalised to unseen data, model predictions are
 more accurate than population-based estimates of SUDEP. Our tool can
 enable risk-based stratification for biomarker discovery and
 interventional trials. With further validation in unrepresented
 populations it may be suitable for routine individualized clinical
 decision-making. Clinicians should consider assessment of multiple risk
 factors, and not only focus on the frequency of convulsions.
description: These data are additional to the main article "Sudden
 unexpected death in epilepsy: a personalised prediction tool" which
 is a re-analysis of previously collected data. Please see main article,
 and source papers for details on how the source datasets were
 collected. Source articles: Nilsson L, Farahmand BY, Persson PG, Thiblin I, Tomson T. Risk factors for sudden unexpected death in epilepsy: a case-control study. Lancet. 1999;353:888–893. Walczak TS, Leppik IE, D’Amelio M, et al. Incidence and risk factors in sudden unexpected death in epilepsy: a prospective cohort study. Neurology. 2001;56:519–525. Langan Y, Nashef L, Sander JW. Case-control study of SUDEP. Neurology. 2005;64:1131–1133. Hitiris N, Suratman S, Kelly K, Stephen LJ, Sills GJ, Brodie MJ. Sudden unexpected death in epilepsy: A search for risk factors. Epilepsy Behav. 2007;10:138–141. Additional details also in this meta-analysis: Hesdorffer DC, Tomson T, Benn E, et al. Combined analysis of risk factors for SUDEP. Epilepsia. 2011;52:1150–1159.
DOI: 10.5061/dryad.x69p8czh6
title: Innate and adaptive immune genes associated with MERS-CoV infection in dromedaries

description: The recent SARS-CoV-2 pandemic has refocused attention to the
 betacoronaviruses, only eight years after the emergence of another
 zoonotic betacoronavirus, the Middle East respiratory syndrome coronavirus
 (MERS-CoV). While the wild source of SARS-CoV-2 may be disputed, for
 MERS-CoV, dromedaries are considered as source of zoonotic human
 infections. Testing 100 immune- response genes in 121 dromedaries from
 United Arab Emirates (UAE) for potential association with present MERS-CoV
 infection, we identified candidate genes with important functions in the
 adaptive, MHC-class I (HLA-A-24-like) and II (HLA-DPB1-like), and innate
 immune response (PTPN4, MAGOHB), and in cilia coating the respiratory
 tract (DNAH7).
DOI: 10.34740/kaggle/dsv/14644992
title: World Athletics Calendar (worldathletics.org)
DOI: 10.5061/dryad.f4qrfj6v6
title: Queen execution in a monogynous ant

description: Workers in many species of social insects are capable of laying
 unfertilized eggs, which can develop into haploid males. This causes a
 conflict about male parentage between queens and workers. In a few
 species, this may result in matricide, i.e., workers kill the colony’s
 queen. Queen killing has so far been observed mainly in multi-queen
 colonies or in annual species, when the queen’s fecundity declines at the
 end of the reproductive period. Here, we report queen expulsion and
 matricide in a monogynous, monandrous ant with perennial societies.
 Workers were seen to aggressively expel both related and unrelated queens
 from their nest shortly after the end of hibernation. Queen expulsion and
 matricide led to a significant decrease in the number of workers and
 brood, but eventually increased the direct fitness of workers through
 significant male production. Long-term observations revealed a short
 lifespan of queens, while workers in orphaned colonies survived and
 produced male offspring over several years.
description: Collection of colonies and immediate census; information on the
 maternity of males and the relatedness between queens and workers was
 obtained by visually comparing the genotypes at up to six microsatellite
 loci.
description: Missing data are indicated by blank space. The supplementary material is
 available in an excel-file with different tables: Table 1 summarizes information on
 the composition of colonies (queens, workers, brood, sex ratio) of the ant
 <i>Temnothorax crassisispinus</i> when collected in spring
 2016 and the following years. It is also indicated, which colonies had
 expelled or killed the queen in 2016 or 2017. Table 2 indicates the origin of
 males produced in the colonies in 2016 and 2017, i.e., whether they were
 offspring of the queens, the workers, or unknown females (more details in
 notes to table 2) Table 3 contains the
 microsatellite genotypes of queens, workers, and males from 2016 at six
 loci (L18, L5, GT218, 2MS17, ant3993, GT1) with an interpretation of
 whether males could be assigned to the queen, to workers, or unknown
 mothers. Explanations are given in notes to table 3. Table 4 contains the
 microsatellite genotypes of queens, workers, and males from 2017 at six
 loci (L18, L5, GT218, 2MS17, ant3993, GT1) with an interpretation of
 whether males could be assigned to the queen, to workers, or unknown
 mothers. Explanations are given in notes to table 4.
DOI: 10.5061/dryad.n8pk0p2tn
title: Elasmobranch diversity across a remote coral reef atoll revealed through environmental DNA metabarcoding

description: As elasmobranchs are becoming increasingly threatened, efficient methods
 for monitoring the distribution and diversity of elasmobranch populations
 are required. Environmental DNA (eDNA) metabarcoding is an increasingly
 applied technique that enables mass identification of entire communities
 and is an effective method for the detection of rare and elusive species.
 We performed an eDNA metabarcoding survey for fish communities around a
 coral reef atoll in the Chagos Archipelago and assessed the diversity and
 distribution of elasmobranch species detected within these communities.
 Our eDNA survey detected 353 amplicon sequence variants (ASVs) attributed
 to fishes, 12 of which were elasmobranchs. There were no differences in
 fish communities based on the presence and absence of ASVs between sample
 depth (surface and 40m) or sampling habitat, but communities based on read
 abundance were significantly different between habitats. The dominant
 elasmobranch species were grey reef (Carcharhinus amblyrhynchos) and
 silvertip (C. albimarginatus) sharks, and elasmobranch communities were
 significantly different between sampling depth and habitat. Overall, we
 find that eDNA metabarcoding can be used to reveal the diversity of
 elasmobranchs within broader taxonomic assays, but further research and
 development of targeted metabarcoding primers may be required before it
 can be integrated into a toolkit for monitoring these species.
DOI: 10.5061/dryad.3r2280gf1
title: Virus infections in 27 Plantago lanceolata populations in the Åland Islands in 2015

description: Human alteration of natural habitats may change the processes governing
 species interactions in wild communities. Wild populations are
 increasingly impacted by agricultural intensification, yet it is unknown
 whether this alters biodiversity mediation of disease dynamics. We
 investigated the association between plant diversity (species richness,
 diversity) and infection risk (virus richness, prevalence) in populations
 of Plantago lanceolata in natural landscapes as well as those occurring at
 the edges of cultivated fields. Altogether 27 P. lanceolata populations
 were surveyed for population characteristics and sampled for PCR detection
 of five recently characterized viruses. We find that plant species
 richness and diversity correlated negatively with virus infection
 prevalence. Virus species richness declined with increasing plant
 diversity and richness in natural populations while in agricultural edge
 populations’ species richness was moderately higher, and not associated
 with plant richness. This difference was not explained by changes in host
 richness between these two habitats, suggesting potential pathogen
 spill-over and increased transmission of viruses across the
 agro-ecological interface. Host population connectivity significantly
 decreased virus infection prevalence. We conclude that human use of
 landscapes may change the ecological laws by which natural communities are
 formed with far reaching implications for ecosystem functioning and
 disease.
description: The data set was collected by sampling leaf samples from 10
 Plantago lanceolata plants from 27 populations. DNA and RNA were extracted
 from the samples and PCR detection was performed using specific primers
 for five viruses:Plantago latent caulimovirus (PLCV), Plantago lanceolata
 latent virus (PlLV), Plantago betapartitivirus (PBV), Plantago enamovirus
 (PEV), and Plantago closterovirus (PCV).