cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.n576n
title: Data from: Trophic interactions of fish communities at midwater depths enhance long-term carbon storage and benthic production on continental slopes

description: Biological transfer of nutrients and materials between linked ecosystems
 influences global carbon budgets and ecosystem structure and function.
 Identifying the organisms or functional groups that are responsible for
 nutrient transfer, and quantifying their influence on ecosystem structure
 and carbon capture is an essential step for informed management of
 ecosystems in physically distant, but ecologically linked areas. Here, we
 combine natural abundance stable isotope tracers and survey data to show
 that mid-water and bentho-pelagic-feeding demersal fishes play an
 important role in the ocean carbon cycle, bypassing the detrital particle
 flux and transferring carbon to deep long-term storage. Global peaks in
 biomass and diversity of fishes at mid-slope depths are explained by
 competitive release of the demersal fish predators of mid-water organisms,
 which in turn support benthic fish production. Over 50% of the biomass of
 the demersal fish community at depths between 500 and 1800 m is supported
 by biological rather than detrital nutrient flux processes, and we
 estimate that bentho-pelagic fishes from the UK–Irish continental slope
 capture and store a volume of carbon equivalent to over 1 million tonnes
 of CO2 every year.
description: Trueman 2014 Fish
 Isotope dataStable isotope data
 (d13C PDB and d15N air) from white muscle tissue of fishes caught by
 demersal trawl on the Rockall trough. Associated data are: Species name,
 feeding type (benthic or benthopelagic), capture (trawl) depth in meters
 and fish mass in grammes
DOI: 10.5061/dryad.76fk344
title: Data from: The reproductive strategy in a Chloris virgata population in response to precipitation regimes

description: Resource availability influences plant growth and reproduction. Here, a
 controlled experiment was conducted in order to evaluate the adaptation
 response of Chloris virgata to different precipitation conditions, and to
 further predict the reproductive strategy in a population of C. virgata
 under different precipitation regimes. Three regimes (low, typical and
 high) of water addition were used to simulate current precipitation
 patterns. Total 20 individuals for each treatment were analyzed to compare
 tiller number, spike traits, seed traits, the relationship between seed
 size and seed number, and so on. In addition, the effects of different
 precipitation regimes on offspring vigour of C. virgata were also studied.
 Results indicated that tiller number, spike number, seed yield and seed
 number were unchanged under different water addition regimes. While seed
 size was about 0.5 mg at typical and high precipitation levels and were
 higher than that in low precipitation level. The higher seed mass per
 spike and spike mass both occurred at typical and high precipitation
 levels. Significant positive correlations between seed mass and non-seed
 mass in C. virgata in response to precipitation regimes were largely
 allometric (size dependent), as was a significant negative correlation
 between seed size and seed number at low precipitation. The highest
 germination rate and seedling weights both occurred at typical and high
 precipitation levels. These findings showed that different precipitation
 regimes affected reproductive strategy of C. virgata. C. virgata will not
 benefit from low precipitation, while typical and high precipitation will
 improve seed traits and offspring vigour of this species.
description: S1Data for the
 paper.
DOI: 10.5061/dryad.r4v2s53
title: Data from: Male courtship behaviors and female choice reduced during experimental starvation stress

description: Mating behaviors may exhibit trade-offs with survival because the energy
 allocated and time devoted to survival may reduce those available for
 mating behaviors that are important for reproduction. Long-term selection
 experiments for survival in stressful conditions are valuable for
 understanding how survival traits may trade-off with other traits, such as
 reproduction. We investigated how courtship behaviors and female choice
 may vary under stressful conditions in Drosophila melanogaster by mating
 females and males from starvation–selected lines with unselected-control
 lines. Males from starvation-selected lines had reduced courtship
 behaviors with fewer wing bouts per minute and shorter duration of wing
 bouts compared to control males, regardless of female pairing. These
 results are consistent with increased survival in starvation conditions
 showing trade-offs in males. Female mate selectivity also showed
 significant evolutionary changes with unselected-control females
 exhibiting differential courtship durations: shorter courtship durations
 when paired with males from unselected-control lines and longer courtship
 durations with males from starvation-selected lines. In contrast,
 starvation-selected females showed no significant differences in courtship
 duration between unselected-control and starvation-selected males despite
 the reduction in starvation–selected male courtship behaviors. We discuss
 how these results may indicate that starvation selection altered the
 interaction between females and males for mating ability and preferences
 in a complex manner consistent with life-history trade-off models.
description: Courtship dataset for
 starvation versus control D. melanogasterThis file contains all
 the courtship variables measured for all experiments completed looking at
 how starvation-selected (S) males and females across lines (A,B,C) mated
 with control-selected (F) males and females across lines (A,B,C). See
 manuscript for description of variables and units.Courtship_dataset_parentals.csv
DOI: 10.5061/dryad.bb5dr437
title: Data from: A significant component of ageing (DNA damage) is reflected in fading breeding colors: an experimental test using innate antioxidant mimetics in painted dragon lizards

description: A decade ahead of their time, von Schantz and coworkers united sexual
 selection and free radical biology by identifying causal links between
 deep-rooted physiological processes that dictate resistance to toxic waste
 from oxidative metabolism (reactive oxygen species), and phenotypic
 traits, such as ornaments. Ten years later, these ideas have still only
 been tested with indirect estimates of free radical levels (oxidative
 stress) subsequent to the action of innate and dietary antioxidants. Here
 we measure net superoxide (a selection pressure for antioxidant
 production) and experimentally manipulate superoxide antioxidation using a
 synthetic mimetic of superoxide dismutase, Eukarion 134 (EUK). We then
 measure the toxic effect of superoxide in terms of DNA erosion and
 concomitant loss of male breeding coloration in the lizard, Ctenophorus
 pictus. Control males suffered more DNA damage than EUK-males.
 Spectroradiometry showed that male coloration is lost in relation to
 superoxide and covaries with DNA erosion; in control males these variables
 explained 72 % of color loss, whereas in EUK males, the fading of
 coloration was unaffected by superoxide and unrelated to DNA damage. Thus,
 EUK’s powerful antioxidation removes the erosion effect of superoxide on
 coloration and experimentally verifies the prediction that colors reflect
 innate capacity for antioxidation.
description: EukDataOlsson et
 al.
DOI: 10.15468/dl.n5mhde
title: Occurrence Download

description: A dataset containing 97 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Histioteuthis macrohista",
 "HasCoordinate is true",
 "DecimalLatitude is greater than -90",
 "DecimalLatitude is less than 10",
 "DecimalLongitude is greater than -180",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1950",
 "Year is less than or equal to 2014"
 ]
}

 The dataset includes 97 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001151-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.7j21m
title: Data from: Effectiveness of diagnostic screening tests in mass screening for COPD using a cooperative regional system in a region with heavy air pollution: a cross-sectional study

description: Objective: This research aimed to evaluate the effectiveness of a
 cooperative health care model for early detection and diagnosis of chronic
 obstructive pulmonary disease (COPD), in Omuta Japan. Methods: This was a
 cross-sectional observational study. We performed diagnosis of COPD at
 four public health centres in Omuta, Japan from March 2015 to March 2016,
 by adding screening for COPD at the time of routine medical evaluations.
 All patients over 50 years were eligible to participate. Of a total of 397
 eligible patients, 293 agreed to take part in the study. Results: The
 estimated prevalence of COPD in Omuta was 10% among subjects over 40 years
 and was 17% among smokers. Out of those who were screened, over half had
 questionnaire scores over the cut-off of 17 points and decreased
 FEV1/FVC%, indicating COPD (p&gt;0.05). Thirty subjects with suspected
 COPD were given a referral for further investigation at a local central
 hospital, but only six underwent further medical examinations. Conclusion:
 The combination of COPD questionnaire and medical exam was effective as a
 COPD screening tool. Future research should investigate behavioural
 interventions for smoking cessation that can be offered in a cooperative
 model, as well as for improving participation in COPD screening and for
 encouraging early presentation for treatment in those suspected of having
 COPD.
description: COPD in Oomuta
 JapanDRYAD.docx
DOI: 10.5061/dryad.54fp3j1
title: Data from: Males increase call frequency, not intensity, in response to noise, revealing no Lombard effect in the little torrent frog

description: Noise is one of the main factors that can influence the processes of sound
 communication across a wide range of animal groups. Although the effects
 of ambient noise on animal communication, including anthropogenic noise,
 have received increasing attention, few studies have examined changes in
 the fine structure of acoustic signals produced by vocalizing species in
 constantly noisy environments. Here, we used natural recordings to
 determine the associations between stream noise and call parameters in the
 little torrent frog (Amolops torrentis). We also used playbacks of stream
 noise recorded in natural habitats and playbacks of white noise to examine
 how male vocal signals change with increasing noise levels. The results
 show that noise intensity has a significant effect on male call frequency,
 but not on call amplitude or other call characteristics. Based on this
 evidence, we suggest that in streamside species stream noise drives males
 to alter call frequency and call as loudly as possible in order to improve
 discriminability. These findings provide insights into the role played by
 ecological selection in the evolution of noise‐dependent anuran vocal
 plasticity
description: Zhao et
 al_table_ESM1Natural
 recordingsZhao et
 al_table_ESM2Noise
 playbacks
DOI: 10.5061/dryad.b2k93
title: Data from: Age-dependent trajectories differ between within-pair and extra-pair paternity success

description: Reproductive success is associated with age in many taxa, increasing in
 early life followed by reproductive senescence. In socially monogamous,
 but genetically polygamous species, this generates the interesting
 possibility of differential trajectories of within-pair and extra-pair
 siring success with age in males. We investigate these relationships
 simultaneously using within-individual analyses with 13 years of data from
 an insular house sparrow (Passer domesticus) population. As expected, we
 found that both within- and extra-pair paternity success increased with
 age, followed by a senescence-like decline. However, the age trajectories
 of within- and extra-pair paternity successes differed significantly, with
 the extra-pair paternity success increasing faster, albeit
 non-significantly so, in early life, and showing a delayed decline by 1.5
 years on average later in life compared to within-pair paternity success.
 These different trajectories indicate that the two alternative mating
 tactics should have age-dependent payoffs. Males may partition their
 reproductive effort between within- and extra-pair matings depending on
 their current age in order to reap the maximal combined benefit from both
 strategies. The interplay between these mating strategies and age-specific
 mortality may explain the variation in rates of extra-pair paternity
 observed within and between-species.
description: Data_JEB_MaleAgeTrajectoryThis file contains data collected from a wild population of house sparrows, and used to investigate the male age trajectories of extra-pair and within-pair paternity success.FullDataSet_JEB.v1.csv
DOI: 10.5061/dryad.q13v3
title: Data from: Viral pathogen production in a wild grass host driven by host growth and soil nitrogen

description: Nutrient limitation is a basic ecological constraint that has received
 little attention in studies on virus production and disease dynamics.
 Nutrient availability could directly limit the production of viral nucleic
 acids and proteins, or alternatively limit host growth and thus indirectly
 limit metabolic pathways necessary for viral replication. In order to
 compare direct and indirect effects of nutrient limitation on virus
 production within hosts, we manipulated soil nitrogen (N) and phosphorus
 (P) availability in a glasshouse for the wild grass host Bromus hordeaceus
 and the viral pathogen Barley yellow dwarf virus-PAV. We found that soil N
 additions increased viral concentrations within host tissues, and the
 effect was mediated by host growth. Specifically, in statistical models
 evaluating the roles of host biomass production, leaf N and leaf P, viral
 production depended most strongly on host biomass, rather than the
 concentration of either nutrient. Furthermore, at low soil N, larger
 plants supported greater viral concentrations than smaller ones, whereas
 at high N, smaller plants supported greater viral concentrations. Our
 results suggest that enhanced viral productivity under N enrichment is an
 indirect consequence of nutrient stimulation to host growth rate.
 Heightened pathogen production in plants has important implications for a
 world facing increasing rates of nutrient deposition.
description: WhitakerEtAl2015NewPhyt_ElisaSupp_122915Data used to create figures in the Supplementary information (Fig. S1) and to compute relative viral titer using standard curves.WhitakerEtAl2015NewPhyt_data_122915Data used to perform all analyses and create all figures in the published article Whitaker et al. 2015 NewPhytologist.
DOI: 10.15468/dl.sgge7q
title: Occurrence Download

description: A dataset containing 58 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Sus cebifrons"
 ]
}

 The dataset includes 58 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001152-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.84c25
title: Data from: Dynamics of adaptation in experimental yeast populations exposed to gradual and abrupt change in heavy metal concentration

description: Directional environmental change is a ubiquitous phenomenon that may have
 profound effects on all living organisms. However, it is unclear how
 different rates of such change affect the dynamics and outcome of
 evolution. We studied this question using experimental evolution of heavy
 metal tolerance in the baker´s yeast Saccharomyces cerevisiae. To this
 end, we grew replicate lines of yeast for 500 generations in the presence
 of (i) a constant high concentration of cadmium, nickel or zinc, or (ii) a
 gradually increasing concentration of these metals. We found that gradual
 environmental change leads to a delay in fitness increase compared to
 abrupt change, but not necessarily to a different fitness of evolutionary
 endpoints. For the non-essential metal cadmium this delay is due to
 reduced fitness differences between genotypes at low metal concentrations,
 consistent with directional selection to minimize intracellular
 concentrations of this metal. In contrast, for the essential metals nickel
 and zinc different genotypes are selected at different concentrations,
 consistent with stabilizing selection to maintain constant intracellular
 concentrations of these metals. These findings indicate diverse fitness
 consequences of evolved tolerance mechanisms for essential and
 non-essential metals, and imply that the rate of environmental change and
 the nature of the stressor are crucial determinants of evolutionary
 dynamics.
description: gorter_etal_2015_cadmiumgorter_etal_2015_nickelgorter_etal_2015_zincgorter_etal_2015_t100_nickelgorter_etal_2015_t100_zinc
DOI: 10.5061/dryad.30t5b
title: Data from: Drifting to oblivion? Rapid genetic differentiation in an endangered lizard following habitat fragmentation and drought

description: Aim: The frequency and severity of habitat alterations and disturbance are
 predicted to increase in upcoming decades, and understanding how
 disturbance affects population integrity is paramount for adaptive
 management. Although rarely is population genetic sampling conducted at
 multiple time points, pre- and post-disturbance comparisons may provide
 one of the clearest methods to measure these impacts. We examined how
 genetic properties of the federally threatened Coachella Valley
 fringe-toed lizard (Uma inornata) responded to severe drought and habitat
 fragmentation across its range. Location: Coachella Valley, California,
 USA. Methods: We used 11 microsatellites to examine population genetic
 structure and diversity in 1996 and 2008, before and after a historic
 drought. We used Bayesian assignment methods and F-statistics to estimate
 genetic structure. We compared allelic richness across years to measure
 loss of genetic diversity and employed approximate Bayesian computing
 methods and heterozygote excess tests to explore the recent demographic
 history of populations. Finally, we compared effective population size
 across years and to abundance estimates to determine whether diversity
 remained low despite post-drought recovery. Results: Genetic structure
 increased between sampling periods, likely as a result of population
 declines during the historic drought of the late 1990s–early 2000s, and
 habitat loss and fragmentation that precluded post-drought genetic rescue.
 Simulations supported recent demographic declines in 3 of 4 main
 preserves, and in one preserve, we detected significant loss of allelic
 richness. Effective population sizes were generally low across the range,
 with estimates ≤100 in most sites. Main conclusions: Fragmentation and
 drought appear to have acted synergistically to induce genetic change over
 a short time frame. Progressive deterioration of connectivity, low Ne and
 measurable loss of genetic diversity suggest that conservation efforts
 have not maintained the genetic integrity of this species. Genetic
 sampling over time can help evaluate population trends to guide
 management.
description: Uma Inornata
 microsatellite genotypes and collection coordinatesThis is a comma
 delimited txt file containing individual *Uma inornata* genotypic data for
 11 microsatellite markers. Fields include sample number, collection
 year& population name, followed by allele calls in 2 column format. 0
 = missing data. Individual collection localities are available from the
 authors upon request.CVTL_geneticdata.txt
DOI: 10.5061/dryad.5pm5237
title: Data from: Antimicrobial resistance trends in fecal Salmonella isolates from northern California dairy cattle admitted to a veterinary teaching hospital, 2002-2016

description: Nontyphoidal Salmonella infections contribute to approximately 1.2 million
 annual illnesses in the United States. Historical and recent outbreaks
 have been associated with dairy products, ground beef, and direct contact
 with cattle. Salmonella antimicrobial resistance (AMR) is a serious
 concern that can reduce successful treatment of infections, increasing
 recovery time, medical costs, and mortality rates in humans and animals.
 This highlights the need to track AMR in Salmonella isolated from cattle
 to improve treatment plans, manage trends in AMR, and prevent future AMR
 development. A total of 242 Salmonella isolates were retrieved from 9,162
 cattle fecal samples submitted to the University of California, Davis
 Veterinary Medical Teaching Hospital from 2002 to 2016. These isolates
 were tested for antimicrobial susceptibility using a standardized broth
 dilution panel. Multidrug resistance (MDR) to three or more classes of
 antimicrobials was observed in 50.8% of isolates, and the most common MDR
 pattern was
 amoxicillin-ampicillin-cefoxitin-ceftiofur-ceftriaxone-chloramphenicol-streptomycin-tetracycline (23.2%). There were significantly greater odds for antimicrobial resistance to aminoglycosides (OR: 2.03, 95% CI: 1.1 - 3.7), penicillins (OR: 1.87, 95% CI: 1.007 - 3.5), and tetracyclines (OR: 1.87, 95% CI: 1.017 - 3.4) for the 2002-2009 period when compared to the 2010-2016 period. The most prevalent MDR serotypes were Newport (100% MDR, n= 52), Typhimurium (100%, n= 20), and Dublin (71% MDR, n= 46). Risk factors associated with higher odds for isolating MDR Salmonella included isolates from calves when compared to adult cattle (OR: 22.0; 95% C.I.: 3.9 - 125.7), and isolates obtained from cattle suspect of having salmonellosis versus from the infectious disease control surveillance program (OR:13.7; 95%C.I.: 2.8 - 66.8). Despite a temporal trend for reduced AMR to most antimicrobial drug classes, a lack of this observed in the 2002-2009 period when compared to the 2010-2016 period for important drug classes such as cephalosporins (OR: 1.6, 95% CI: 0.87 - 3.1), and a trend for temporal increase in resistant to quinolones drugs (P value 0.004) highlight the relevance of AMR surveillance in cattle with Salmonella infections with the aim of targeting future prophylactic interventions.
description: Antimicrobial resistance
 in SalmonellaData file with minimum
 inhibitory concentrations (MIC) for SalmonellaDataset - Uploaded
 03-25-2018.xlsx