cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.q31s0
title: Data from: Age-dependent modulation of songbird summer feather molt by temporal and functional constraints

description: Time constraints influence various ecological, life-history, and
 demographic properties of individuals and populations of many species
 throughout the annual cycle. Feather molt is a timely undertaking that is
 considered among the three most energy-demanding processes in the life
 cycle of birds. To deal with time pressure, passerines may shorten their
 molt duration, using three non–mutually exclusive mechanisms: (1)
 replacing only part of the plumage, (2) increasing the speed of molt, and
 (3) postponing the renewal of some or all the plumage to a later season
 (i.e., from the summer to the overwintering period). We used a comparative
 approach by measuring 12,349 individuals from 134 passerine species to
 explore how feather molt of juvenile and adult passerines is
 evolutionarily modulated under time constraints. The results indicate that
 breeding at northern latitudes and long-distance migration limit the time
 available for molt and that the consequences of time constraints were age
 dependent. While the duration of adult summer molt decreased, the extent,
 rather than the duration, of juvenile molt declined under time
 constraints. This study highlights the importance of considering time
 constraints in order to enhance the understanding of selective forces that
 shape life-history processes and their consequences throughout the annual
 routine.
description: S1S2S3
DOI: 10.15468/dl.9yna8w
title: Occurrence Download

description: A dataset containing 1984 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CHN.15.4_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Cyanopica cyanus"
 ]
}

 The dataset includes 1984 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001087-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.27630
title: Data from: Strain identification and quorum sensing inhibition characterization of marine-derived Rhizobium sp. NAO1

description: A novel strategy for combating pathogens is through the ongoing
 development and use of anti-quorum sensing (QS) treatments such as
 therapeutic bacteria or their anti-QS substances. Relatively little is
 known about the bacteria that inhabit the open ocean and of their
 potential anti-pathogenic attributes; thus, in an initiative to identify
 these types of therapeutic bacteria, planktonic microbes from the North
 Atlantic Ocean were collected, isolated, cultured and screened for anti-QS
 activity. Screening analysis identified one such strain, Rhizobium sp.
 NAO1. Extracts of Rhizobium sp. NAO1 were identified via ultra-performance
 liquid chromatography (UPLC) analysis. They were shown to contain N-acyl
 homoserine lactone (AHL)-based QS analogues (in particular, the N-butyryl
 homoserine lactone (C4-AHL) analogue) and could disrupt biofilm formation
 by Pseudomonas aeruginosa PAO1. QS inhibition was confirmed using confocal
 scanning laser microscopy and growth curves, and it was shown to occur in
 a dose-dependent manner without affecting bacterial growth. Secondary
 metabolites of Rhizobium sp. NAO1 inhibited PAO1 pathogenicity by
 downregulating AHL-mediated virulence factors such as elastase activity
 and siderophore production. Furthermore, as a result of biofilm structure
 damage, the secondary metabolite products of Rhizobium sp. NAO1
 significantly increased the sensitivity of PAO1 to aminoglycoside
 antibiotics. Our results demonstrated that Rhizobium sp. strain NAO1 has
 the ability to disrupt P. aeruginosa PAO1 biofilm architecture, in
 addition to attenuating P. aeruginosa PAO1 virulence factor production and
 pathogenicity. Therefore, the newly identified ocean-derived Rhizobium sp.
 NAO1 has the potential to serve as a QS inhibitor and may be a new
 microbial resource for drug development.
description: Row Data of Figure 2 to
 figure 6Row data form figure 2
 to figure 6
DOI: 10.5061/dryad.5nn3hf3
title: Data from: Comparing the sampling performance of sound recorders versus point counts in bird surveys: a meta-analysis

description: 1) Autonomous sound recording is a promising survey method for birds and
 other vocalising terrestrial wildlife. However, while there are clear
 advantages of sound recording methods over classical point counts
 conducted by humans, it has been difficult to quantitatively assess how
 they compare in their sampling performance. Quantitative comparisons of
 bird species richness between acoustic recorders and human point counts
 have previously been hampered by the differing and often unknown detection
 ranges among sampling methods. 2) We performed two meta-analyses based on
 28 studies where bird point counts were paired with sound recordings at
 the same sampling sites. We compared alpha and gamma richness estimated by
 both survey methods after equalizing their effective detection ranges. We
 further assessed the influence of technical sound recording specifications
 (microphone signal-to-noise ratio, height, and number) on the bird
 sampling performance of sound recorders compared to unlimited radius point
 counts. 3) We show that after standardizing detection ranges, alpha and
 gamma richness from both methods are statistically indistinguishable,
 while there might be an avoidance effect in point counts. Furthermore, we
 show that microphone signal-to-noise ratio (a measure of its quality),
 height and number positively affect performance through increasing the
 detection range, allowing recordings to match the performance of human
 point counts. 4) Synthesis and applications: We demonstrate that when used
 properly, high-end sound recording systems can sample terrestrial wildlife
 just as well as human observers conducting point counts. Correspondingly,
 we suggest a first standard methodology for sampling birds with autonomous
 sound recorders, to obtain results comparable to point counts and enable
 practical sampling. We also give recommendations for carrying out
 effective surveys and making the most out of autonomous sound
 recorders.15-Jun-2018
description: meta-analysis -
 dataThis file contains all
 summary statistics for the species richness values of each publication,
 along with technical, auxiliary data used in the analysis. Columns are
 described in the README file.meta-analysisR script used for analysing the data and producing the figures
DOI: 10.5061/dryad.q5mg97b
title: Data from: Competition and coexistence in plant communities: intraspecific competition is stronger than interspecific competition

description: Theory predicts that intraspecific competition should be stronger than
 interspecific competition for any pair of stably coexisting species, yet
 previous literature reviews found little support for this pattern. We
 screened over 5400 publications and identified 39 studies that quantified
 phenomenological intraspecific and interspecific interactions in
 terrestrial plant communities. Of the 67% of species pairs in which both
 intra- and interspecific effects were negative (competition),
 intraspecific competition was, on average, four to five-fold stronger than
 interspecific competition. Of the remaining pairs, 93% featured
 intraspecific competition and interspecific facilitation, a situation that
 stabilizes coexistence. The difference between intra- and interspecific
 effects tended to be larger in observational than experimental data sets,
 in field than greenhouse studies, and in studies that quantified
 population growth over the full life cycle rather than single fitness
 components. Our results imply that processes promoting stable coexistence
 at local scales are common and consequential across terrestrial plant
 communities.
description: Data and R
 codeThe zip archive contains
 one data file and a number of R scripts. These are all the files needed to
 reproduce the analyses reported in the paper. The readme.txt file inside
 the zip archive provides instructions on running the
 scripts.datapluscode.zip
DOI: 10.5061/dryad.5s61r
title: Data from: Fatal attraction of non-vector impairs fitness of manipulating plant virus

description: 1. Host manipulation refers to the expression of a host phenotype that is
 partly under the genetic control of a parasite. This phenomenon can
 enhance parasite transmission rates and is responsible for biological
 marvels such as 'Zombie-ants' and the 'fatal
 attraction' of Toxoplasma-infected rodents to their feline predators.
 Such host manipulation has evolved in all major phylogenetic lineages of
 parasites and is assumed to enhance the fitness of the parasite. 2.
 However, the capacity to manipulate is not ubiquitous; that is, many
 clades of parasites comprise manipulating and non-manipulating species.
 This pattern leads to the prediction of costs that select against the
 evolution of manipulation, but this has been difficult to show
 empirically. 3. In the present study, we used a tripartitate system
 consisting of chili (Capsicum annuum) plants infected with Pepper golden
 mosaic virus and colonized by non-vector whiteflies (Trialeurodes
 vaporariorum), to study the effects on viral load when a non-vector
 herbivore feeds on the infected plants. 4. We observed that virus-infected
 plants emitted odours that attracted adult whiteflies, contained three
 times more amino acids in the phloem than mock-inoculated controls and
 supported higher whitefly reproduction as compared to controls. However,
 viral load decreased almost 100-fold in whitefly-carrying plants, which
 was associated with a depletion of phloem amino acids. 5. Synthesis. We
 show that a plant virus can suffer from a reduced within-host reproduction
 rate when virus-induced alterations of the plant cause a 'fatal
 attraction' of a non-vector insect that exploits the altered plant
 phenotype at its own benefits. The resulting fitness costs might represent
 a force that can select against the evolution of host manipulation by
 parasites.
description: Data for Angeles-Lopez
 et al. J Ecol 2017All data related to
 Ángeles-López et al "Fatal Attraction of Non-Vector Impairs Fitness
 of Manipulating Plant Virus", including data on plant volatiles,
 decisions taken by whiteflies in cage and olfactometer assays, amino acid
 contents in the phloem, concentrations of jasmonic acid and salicylic acid
 and the results of a PCR conducted to confirm the presence of the virus in
 infected plants.Angeles-Lopez_DryadDataJournalOfEcology.xlsx
DOI: 10.5061/dryad.5gn34
title: Data from: Does perceived predation risk affect patterns of extra-pair paternity? A field experiment in a passerine bird

description: 1. Non-consumptive predator effects have been shown to influence a wide
 range of behavioural, life history, and morphological traits. Extra-pair
 reproduction is widespread among socially monogamous birds and may incur
 predation costs. Consequently, altered rates of extra-pair reproduction
 are expected in circumstances characterized by increased adult perceived
 predation risk. 2. Additionally, extra-pair reproduction is expected to be
 most affected for birds with phenotypes that generally increase predation
 risk (such as more active individuals). 3. In two consecutive years,
 perceived predation risk was manipulated for great tits, Parus major
 breeding in 12 nest-box plots by broadcasting sounds of their main
 predator (European sparrowhawk Accipiter nisus; 6 plots). As a control
 treatment, sounds of a sympatric, avian non-predator species were
 broadcasted (Eurasian blackbird, Turdus merula; 6 plots). 4. Levels of
 extra-pair paternity did not differ between plots with different
 predation-risk treatments. Males that moved more in a novel environment
 (more active or ‘faster exploring’) tended to have offspring with fewer
 partners, but this effect did not vary with predation-risk treatment. 5.
 From an adaptive viewpoint, predation costs associated with extra-pair
 reproduction may be small and may not outweigh the benefits of extra-pair
 behaviour. Research on a broader range of taxa with different mating
 strategies is now needed to confirm the generality of our findings.
description: Table1Data for Table
 1EPPdataArchiveTable1.csvTable2Data for table 2EPPdataArchiveTable2.csv
DOI: 10.5061/dryad.q3848
title: Data from: Population differentiation in the context of Holocene climate change for a migratory marine species, the southern elephant seal

description: Understanding observed patterns of connectivity requires an understanding
 of the evolutionary processes that determine genetic structure among
 populations, with the most common models being associated with isolation
 by distance, allopatry or vicariance. Pinnipeds are annual breeders with
 the capacity for extensive range overlap during seasonal migrations,
 establishing the potential for the evolution of isolation by distance.
 Here we assess the pattern of differentiation among six breeding colonies
 of the southern elephant seal, Mirounga leonina, based on mtDNA and 15
 neutral microsatellite DNA markers, and consider measures of their
 demography and connectivity. We show that all breeding colonies are
 genetically divergent and that connectivity in this highly mobile pinniped
 is not strongly associated with geographic distance, but more likely
 linked to Holocene climate change and demographic processes. Estimates of
 divergence times between populations were all after the Last Glacial
 Maximum, and there was evidence for directional migration in a clockwise
 pattern (with the prevailing current) around the Antarctic. We discuss the
 mechanisms by which climate change may have contributed to the
 contemporary genetic structure of southern elephant seal populations and
 the broader implications.
description: SES genepop_15
 lociGenePop file of
 microsatellite DNA data
DOI: 10.5061/dryad.676q3
title: Data from: The copulatory plug delays ejaculation by rival males and affects sperm competition outcome in house mice

description: Females of many species mate with multiple males (polyandry), resulting in
 male–male competition extending to post-copulation (sperm competition).
 Males adapt to such post-copulatory sexual selection by altering features
 of their ejaculate that increase its competitiveness and/or by decreasing
 the risk of sperm competition through female manipulation or interference
 with rival male behaviour. At ejaculation, males of many species deposit
 copulatory plugs, which are commonly interpreted as a male adaptation to
 post-copulatory competition and are thought to reduce or delay female
 remating. Here, we used a vertebrate model species, the house mouse, to
 study the consequences of copulatory plugs for post-copulatory
 competition. We experimentally manipulated plugs after a female's
 first mating and investigated the consequences for rival male behaviour
 and paternity outcome. We found that even intact copulatory plugs were
 ineffective at preventing female remating, but that plugs influenced the
 rival male copulatory behaviour. Rivals facing intact copulatory plugs
 performed more but shorter copulations and ejaculated later than when the
 plug had been fully or partially removed. This suggests that the
 copulatory plug represents a considerable physical barrier to rival males.
 The paternity share of first males increased with a longer delay between
 the first and second males' ejaculations, indicative of fitness
 consequences of copulatory plugs. However, when males provided little
 copulatory stimulation, the incidence of pregnancy failure increased,
 representing a potential benefit of intense and repeated copulation
 besides plug removal. We discuss the potential mechanisms of how plugs
 influence sperm competition outcome and consequences for male copulatory
 behaviour.
description: Data on experimental
 plug removal and additional monogamous matingsSheet 1: Data from plug
 removal experiment (sperm competition); Sheet 2: Plug size data from
 additional monogamous matings (see ESM); Sheet 3: Variable descriptions
 for sheets 1 & 2.DataForDryad_Sutter&Lindhom.xlsx
DOI: 10.5061/dryad.th60q
title: Data from: Health trajectories reveal the dynamic contributions of host genetic resistance and tolerance to infection outcome

description: Resistance and tolerance are two alternative strategies hosts can adopt to
 survive infections. Both strategies may be genetically controlled. To
 date, the relative contribution of resistance and tolerance to infection
 outcome is poorly understood. A bioluminescent Listeria monocytogenes (Lm)
 infection challenge model on four genetically diverse mouse strains was
 used to study the genetic determination and dynamic contributions of host
 resistance and tolerance to listeriosis, a serious food-borne infectious
 disease in humans. Conventional statistical analyses revealed significant
 genetic variation in both resistance and tolerance, but could not capture
 the time-dependent relative importance of either strategy. These
 limitations were overcome by the development of novel statistical tools to
 analyse individual infection trajectories portraying simultaneous changes
 in infection severity and health. Based on these tools, early expression
 of resistance followed later by expression of tolerance, emerged as
 important hallmarks for surviving Lm infections. Trajectory analysis
 further revealed that survivors and non-survivors follow distinct
 infection paths, which are also genetically determined, and provided new
 survival thresholds as objective endpoints in infection experiments.
 Future studies may use trajectories as novel traits for mapping and
 identifying genes that control infection dynamics and outcome. A Matlab
 script for user-friendly trajectory analysis is provided.
description: S5 Dataset for use with
 S4 - Trajectory analysisContains dataset for
 trajectory analysis with 4 mouse-strains (A/J, C3H, BL6 and BALB), two
 survival groups (Yes and No), and individual IDs. Body Weights (BW) and
 infection severity (LLI) are given from days 0 to 14 days post
 infectionTrajectorydata.xlsxlough_trajectory_analysisMatlab script for trajectory analysis.
DOI: 10.5061/dryad.1gk3014
title: Data from: Human variation in the shape of the birth canal is significant and geographically structured

description: The human birth canal shows a tight fit with the size of the neonate,
 which can lead to obstetric complications. This is not the case in other
 apes, and has been explained as the outcome of conflicting evolutionary
 pressures for bipedal locomotion and parturition of a highly-encephalised
 fetus. Despite the suggested evolutionary constraints on the female
 pelvis, we show that women are, in fact, extremely variable in the shape
 of the bony birth canal, with human populations having differently-shaped
 pelvic canals. Neutral evolution through genetic drift and differential
 migration are largely responsible for the observed pattern of
 morphological diversity, which correlates well with neutral genetic
 diversity. Climatic adaptation might have played a role, albeit a minor
 one, with populations from colder regions showing a more transversally
 oval shape of the canal inlet. The significant extent of canal shape
 variation among women from different regions of the world has important
 implications for modern obstetric practice in multi-ethnic societies, as
 modern medical understanding has been largely developed on studies of
 European women.
description: Diameters of human bony
 birth canal in different populationsAntero-posterior and
 medio-lateral diameters of the birth canal (inlet, midplane and outlet) in
 women from different recent and archaeological populations. The
 measurements were taken by Dr Lia Betti on skeletal remains using an
 internal caliper. The pelvic girdle was rearticulated firmly at the level
 of the auricular surface, and plasticine was used to fill in the pubic
 symphysis. Elastic bands were use to keep the bones in articulation while
 taking the measurements.Dataset.csv
DOI: 10.5061/dryad.78386
title: Data from: High genetic variation in resting stage production in a metapopulation: is there evidence for local adaptation?

description: Local adaptation is a key process for the maintenance of genetic diversity
 and population diversification. A better understanding of the mechanisms
 that allow (or prevent) local adaptation constitutes a key in apprehending
 how and at what spatial scale it occurs. The production of resting stages
 is found in many taxa and reflects an adaptation to outlast adverse
 environmental conditions. Daphnia magna (Crustacea) can alternate between
 asexual and sexual reproduction, the latter being linked to dormancy, as
 resting stages can only be produced sexually. In this species, on a
 continental scale, resting stage production is locally adapted, i.e. it is
 induced when the photoperiod indicates the imminence of habitat
 deterioration. Here, we aimed to explore whether selection is strong
 enough to maintain local adaptation at a scale of a few kilometers. We
 assessed life history traits of 64 D. magna clones originating from 11
 populations of a meta-population with permanent and intermittent pool
 habitats. We found large within- and between-population variation for all
 dormancy-related traits, but no evidence for the hypothesised higher
 resting stage production in animals from intermittent habitats. We discuss
 how gene flow, founder events or other forms of selection might interfere
 with the process of local adaptation.
description: phenotypes_finlandEach line contains: population, clone and replicate ID; whether the data were collected to measure ephippia or male production (Trait-measured); the habitat type; the different phenotypes. Data transformations (e.g. square-root) were done directly during the analysis in R.
DOI: 10.5061/dryad.863r3
title: Data from: Visuo-spatial cueing in children with differential reading and spelling profiles

description: Dyslexia has been claimed to be causally related to deficits in
 visuo-spatial attention. In particular, inefficient shifting of visual
 attention during spatial cueing paradigms is assumed to be associated with
 problems in graphemic parsing during sublexical reading. The current study
 investigated visuo-spatial attention performance in an exogenous cueing
 paradigm in a large sample (N = 191) of third and fourth graders with
 different reading and spelling profiles (controls, isolated reading
 deficit, isolated spelling deficit, combined deficit in reading and
 spelling). Once individual variability in reaction times was taken into
 account by means of z-transformation, a cueing deficit (i.e. no
 significant difference between valid and invalid trials) was found for
 children with combined deficits in reading and spelling. However, poor
 readers without spelling problems showed a cueing effect comparable to
 controls, but exhibited a particularly strong right-over-left advantage
 (position effect). Isolated poor spellers showed a significant cueing
 effect, but no position effect. While we replicated earlier findings of a
 reduced cueing effect among poor nonword readers (indicating deficits in
 sublexical processing), we also found a reduced cueing effect among
 children with particularly poor orthographic spelling (indicating deficits
 in lexical processing). Thus, earlier claims of a specific association
 with nonword reading could not be confirmed. Controlling for ADHD-symptoms
 reported in a parental questionnaire did not impact on the statistical
 analysis, indicating that cueing deficits are not caused by more general
 attentional limitations. Between 31 and 48 % of participants in the three
 reading and/or spelling deficit groups as well as 32 % of the control
 group showed reduced spatial cueing. These findings indicate a
 significant, but moderate association between certain aspects of
 visuo-spatial attention and subcomponents of written language processing,
 the causal status of which is yet unclear.
description: PONE_D_16_49580R_FTCThe Dataset is available in the SPSS format and each variable contains a description.