cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.fj83q7f
title: Data from: Attenuated accumulation of jasmonates modifies stomatal responses to water deficit

description: To determine whether drought-induced root jasmonate [jasmonic acid (JA)
 and jasmonic acid-isoleucine (JA-Ile)] accumulation affected shoot
 responses to drying soil, near-isogenic wild-type (WT) tomato (Solanum
 lycopersicum cv. Castlemart) and the def-1 mutant (which fails to
 accumulate jasmonates during water deficit) were self- and reciprocally
 grafted. Rootstock hydraulic conductance was entirely rootstock dependent
 and significantly lower in def-1, yet def-1 scions maintained a higher
 leaf water potential as the soil dried due to their lower stomatal
 conductance (gs). Stomatal sensitivity to drying soil (the slope of
 gsversus soil water content) was low in def-1 self-grafts but was
 normalized by grafting onto WT rootstocks. Although soil drying increased
 12-oxo-phytodienoic acid (OPDA; a JA precursor and putative
 antitranspirant) concentrations in def-1 scions, foliar JA accumulation
 was negligible and foliar ABA accumulation reduced compared with WT
 scions. A WT rootstock increased drought-induced ABA and JA accumulation
 in def-1 scions, but decreased OPDA accumulation. Xylem-borne jasmonates
 were biologically active, since supplying exogenous JA via the
 transpiration stream to detached leaves decreased transpiration of WT
 seedlings but had the opposite effect in def-1. Thus foliar accumulation
 of both ABA and JA at WT levels is required for both maximum
 (well-watered) gs and stomatal sensitivity to drying soil.
description: de Ollas at al
 2018Raw data of all figures
 and supplementalde Ollas et al
 2018.xlsx
DOI: 10.5061/dryad.08m53
title: Data from: Ecological, evolutionary and human-mediated determinants of poeciliid species richness on Caribbean islands

description: Aim: The theory of island biogeography provides a predictive framework
 relating species richness to island size and distance from the mainland.
 However, the theory as originally formulated does not necessarily scale to
 large islands and continental landmasses that are capable of generating
 species through in situ speciation (rather than entirely by colonization),
 nor does it necessarily account for how human introduction of species
 alters traditional biogeographical patterns. Here, we examine the
 ecological (colonization and extinction), evolutionary (in situ
 speciation) and human-mediated (deliberate introductions) determinants of
 species richness in a taxonomic group that has undergone a radiation on
 Caribbean islands: live-bearing fishes of the family Poeciliidae.
 Location: The Caribbean. Methods: We created a database of both native and
 introduced poeciliid species occurrence on Caribbean islands through
 literature review, and estimated the number of colonizations versus
 speciation events on each island using a molecular phylogeny. Linear
 regression and other statistical tests were used to explore species–area
 and species–isolation relationships. Results: Species richness on small
 islands results entirely from colonization and does not significantly
 increase with island area, whereas on larger islands species richness
 increases dramatically as a function of area due primarily to in situ
 speciation. Poeciliid fishes have been introduced widely, both as a
 by-product of their popularity in the aquarium hobby and as a means of
 mosquito control. We show that such establishments have occurred
 disproportionately on islands depauperate in native species, and that
 introduced species richness is positively correlated with economic
 interconnectedness (shipping traffic) and human population size. Main
 conclusions: On large Caribbean islands in situ speciation has elevated
 the number of poeciliid species beyond that predicted from ecological
 processes alone. Introduced species significantly alter biogeographical
 patterns.
description: Poeciliid fishes on
 Caribbean islandsData set containing
 poeciliid numbers on Caribbean islands and other habitat and ecological
 variables.Poeciliidae (analysis
 ready).xls
DOI: 10.5061/dryad.683n3
title: Data from: Tick infestation of chicks in a seabird colony varies with local breeding synchrony, local nest density and habitat structure

description: Parasites are a major risk for group-living animals and seabirds are
 notoriously susceptible to ectoparasite infestations because they commonly
 nest in dense colonies. Ticks parasitize seabirds across all
 biogeographical regions and they can be particularly harmful to nestlings,
 but the ecological factors that affect their transmission to chicks are
 little studied and poorly understood. Here we show that abundance of tick
 larvae in blue-footed booby (Sula nebouxii) broods varies with local nest
 synchrony and density, and also with habitat structure: abundance
 increased with local breeding synchrony, was linearly and quadratically
 related to local nest density, and was highest toward the southern end of
 the study area which has suitable (boulder-rich) habitat for ticks. Also,
 with increasing chick age infestation first increased and then declined.
 The results of this study highlight how local physical and social
 environmental factors influence infestation of seabird nestlings by ticks.
description: Tick abundance on
 blue-footed booby broodsIn February of 2008, we
 selected 50 focal nests, located in forest, grassland and beach, with 15
 day-old (±2 days) first-hatched or singleton chicks. Locations of all
 nests in the study area were mapped, and local nest density was the number
 of pairs within 5 m and local breeding synchrony was the standard
 deviation of their laying dates.When these broods (their first-hatched
 chicks) were 15, 29 and 43 days old, we estimated tick abundance on all
 1-3 broodmates.DRYAD data JAV
 2016.xls
DOI: 10.5061/dryad.n8tt5
title: Data from: Multi-scale effects of habitat structure and landscape context on a vertebrate with limited dispersal ability (the brown-throated sloth, Bradypus variegatus)​

description: As human population, food consumption, and demand for forest products
 continue to rise over the next century, the pressures of land use change
 on biodiversity are projected to intensify. In tropical regions,
 countryside habitats that retain abundant tree cover and structurally
 complex canopies may complement protected areas by providing suitable
 habitats and landscape connectivity for a significant portion of the
 native biota. Species with low dispersal capabilities are among the most
 at risk of extinction as a consequence of land use change. We assessed how
 the spatial distribution of the brown-throated sloth (Bradypus
 variegatus), a model species for a vertebrate with limited dispersal
 ability, is shaped by differences in habitat structure and landscape
 patterns of countryside habitats in north-central Costa Rica using a
 multi-scale framework. We quantified the influence of local habitat
 characteristics and landscape context on sloth occurrence using
 mixed-effects logistic regression models. We recorded 27 sloths within
 countryside habitats and found that both local and landscape factors
 significantly influenced their spatial distribution. Locally, sloths
 favored structurally complex habitats, with greater canopy cover and
 variation in tree height and basal area. At the landscape scale, sloths
 demonstrated a preference for habitats with high proportions of forest and
 nearly large tracts of forest. Although mixed-use areas and tree
 plantations are not substitutes for protected forests, our results suggest
 they provide important supplemental habitats for sloths. To promote the
 conservation and long-term viability of sloth populations in the tropical
 countryside, we recommend for land managers to retain structurally complex
 vegetation and large patches of native habitat.
description: Neam & Lacher 2018 –
 Sloth Occurrence & Habitat Attributes at Multiple Spatial
 ScalesData on sloth occurrence
 and local and landscape variables used in the analysis. The first sheet
 contains the local scale data, the second through fourth sheets contain
 the landscape scale data, and the last sheet contains the column
 descriptions.Neam&Lacher2018_SlothOccurrence_HabitatAttributes_MultipleScales.xlsx
DOI: 10.5061/dryad.864bv
title: Data from: Functions of innate and acquired immune system are reduced in domestic pigeons (Columba livia domestica) given a low protein diet

description: Racing pigeons are exposed to and act as carriers of diseases. Dietary
 protein requirement for their maintenance has not been determined
 experimentally despite their being domesticated for over 7000 years. A
 maintenance nitrogen (protein) requirement (MNR) for pigeons was
 determined in a balance study using diets containing 6, 10 and 14% crude
 protein (CP). Then, the effects of feeding the diets were investigated to
 determine whether they were adequate to sustain innate and acquired immune
 functions. Nitrogen intake from the 6% CP diet was sufficient to maintain
 nitrogen balance and body weight in pigeons. However, the immune functions
 of phagocytosis, oxidative burst and lymphocyte proliferation in pigeons
 fed this diet were reduced compared with those fed 10 and 14% CP diets.
 Pigeons given the 6 and 10% CP diets had lower antibody titres following
 inoculation against Newcastle disease (ND) than those on the 14% CP diet.
 A confounding factor found on autopsy was the presence of intestinal
 parasites in some of the pigeons given the 6 and 10% CP diets; however,
 none of the pigeons used to measure MNR or acquired immunity to ND were
 infested with parasites. In conclusion, neither the 6 nor 10% CP diets
 adequately sustained acquired immune function of pigeons.
description: Supplementary material
 file_raw dataData for a nitrogen
 balance study and immune studies
DOI: 10.5061/dryad.s3j0n
title: Data from: Investigating the impacts of field-realistic exposure to a neonicotinoid pesticide on bumblebee foraging, homing ability and colony growth

description: The ability to forage and return home is essential to the success of bees
 as both foragers and pollinators. Pesticide exposure may cause behavioural
 changes that interfere with these processes, with consequences for colony
 persistence and delivery of pollination services. We investigated the
 impact of chronic exposure (5–43 days) to field-realistic levels of a
 neonicotinoid insecticide (2·4 ppb thiamethoxam) on foraging ability,
 homing success and colony size using radio frequency identification (RFID)
 technology in free-flying bumblebee colonies. Individual foragers from
 pesticide-exposed colonies carried out longer foraging bouts than
 untreated controls (68 vs. 55 min). Pesticide-exposed bees also brought
 back pollen less frequently than controls indicating reduced foraging
 performance. A higher proportion of bees from pesticide-exposed colonies
 returned when released 1 km from their nests; this is potentially related
 to increased orientation experience during longer foraging bouts. We
 measured no impact of pesticide exposure on homing ability for bees
 released from 2 km, or when data were analysed overall. Despite a trend
 for control colonies to produce more new workers earlier, we found no
 overall impacts of pesticide exposure on whole colony size. Synthesis and
 applications. This study shows that field-realistic neonicotinoid exposure
 can have impacts on both foraging ability and homing success of
 bumblebees, with implications for the success of bumblebee colonies in
 agricultural landscapes and their ability to deliver crucial pollination
 services. Pesticide risk assessments should include bee species other than
 honeybees and assess a range of behaviours to elucidate the impact of
 sublethal effects. This has relevance for reviews of neonicotinoid risk
 assessment and usage policy world-wide.
description: Data associated with
 Stanley et al. 2016 J App EcolThis data file contains
 all the data analysed in Stanley et al. 2016 Journal of Applied Ecology.
 All descriptions of methods and how data were collected can be found in
 the manuscript.Data for archiving
 29.4.2016.xlsx
DOI: 10.5061/dryad.hc270
title: Data from: Comparison of Nottingham Prognostic Index and Adjuvant Online prognostic tools in young women with breast cancer: review of a single-institution experience

description: Objective: Accurately predicting the prognosis of young patients with
 breast cancer (&lt;40 years) is uncertain since the literature
 suggests they have a higher mortality and that age is an independent risk
 factor. In this cohort study we considered two prognostic tools;
 Nottingham Prognostic Index and Adjuvant Online (Adjuvant!), in a group of
 young patients, comparing their predicted prognosis with their actual
 survival. Setting: North East England. Participants: Data was
 prospectively collected from the breast unit at a Hospital in Grimsby
 between January 1998 and December 2007. A cohort of 102 young patients
 with primary breast cancer was identified and actual survival data was
 recorded. The Nottingham Prognostic Index and Adjuvant! scores were
 calculated and used to estimate 10-year survival probabilities.
 Pearson's correlation coefficient was used to demonstrate the
 association between the Nottingham Prognostic Index and Adjuvant! scores.
 A constant yearly hazard rate was assumed to generate 10-year cumulative
 survival curves using the Nottingham Prognostic Index and Adjuvant!
 predictions. Results: Actual 10-year survival for the 92 patients who
 underwent potentially curative surgery for invasive cancer was 77.2% (CI
 68.6% to 85.8%). There was no significant difference between the actual
 survival and the Nottingham Prognostic Index and Adjuvant! 10-year
 estimated survival, which was 77.3% (CI 74.4% to 80.2%) and 82.1% (CI
 79.1% to 85.1%), respectively. The Nottingham Prognostic Index and
 Adjuvant! results demonstrated strong correlation and both predicted
 cumulative survival curves accurately reflected the actual survival in
 young patients. Conclusions: The Nottingham Prognostic Index and Adjuvant!
 are widely used to predict survival in patients with breast cancer. In
 this study no statistically significant difference was shown between the
 predicted prognosis and actual survival of a group of young patients with
 breast cancer.
description: Final Data
 SetData set of 92 young
 women (less than 40 years go age) who presented with invasive breast
 cancer between the years 1998-2007 in the North Lincolnshire area in the
 United Kingdom. The data includes cancer characteristics and follow-up
 survival figures for each participant up to September
 2014.
DOI: 10.15468/dl.grftr7
title: Occurrence Download

description: A dataset containing 331 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-77.54546 -0.37393,-75.74219 -2.17088,-75.23669 -0.5808,-77.07466 0.15963,-77.54546 0.15963,-77.54546 -0.37393))",
 "HasGeospatialIssue is false",
 "TaxonKey is Melanosuchus niger"
 ]
}

 The dataset includes 331 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001046-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.5r6pq
title: Data from: Inter-assemblage facilitation: the functional diversity of cavity-producing beetles drives the size diversity of cavity-nesting bees

description: Inter-specific interactions are important drivers and maintainers of
 biodiversity. Compared to trophic and competitive interactions, the role
 of non-trophic facilitation among species has received less attention.
 Cavity-nesting bees nest in old beetle borings in dead wood, with
 restricted diameters corresponding to the body size of the bee species.
 The aim of this study was to test the hypothesis that the functional
 diversity of cavity-producing wood boring beetles - in terms of cavity
 diameters - drives the size diversity of cavity-nesting bees. The
 invertebrate communities were sampled in 30 sites, located in forested
 landscapes along an elevational gradient. We regressed the species
 richness and abundance of cavity nesting bees against the species richness
 and abundance of wood boring beetles, non-wood boring beetles and
 elevation. The proportion of cavity nesting bees in bee species assemblage
 was regressed against the species richness and abundance of wood boring
 beetles. We also tested the relationships between the size diversity of
 cavity nesting bees and wood boring beetles. The species richness and
 abundance of cavity nesting bees increased with the species richness and
 abundance of wood boring beetles. No such relationship was found for
 non-wood boring beetles. The abundance of wood boring beetles was also
 related to an increased proportion of cavity nesting bee individuals.
 Moreover, the size diversity of cavity-nesting bees increased with the
 functional diversity of wood boring beetles. Specifically, the mean and
 dispersion of bee body sizes increased with the functional dispersion of
 large wood boring beetles. The positive relationships between cavity
 producing bees and cavity nesting bees suggest that non-trophic
 facilitative interactions between species assemblages play important roles
 in organizing bee species assemblages. Considering a community-wide
 approach may therefore be required if we are to successfully understand
 and conserve wild bee species assemblages in forested landscapes.
description: Bee community data
 frameBee species by site data
 frame as comma delimited .csv fileBeetle community data
 frameBeetle species by site
 data frame as comma delimited .csv fileEnvironmental
 variablesEnvironmental variables
 by site data frame as comma delimited .csv fileVariables used to
 calculate regrowthAdditional environmental
 variables used to calculate the degree of regrowth (shading) in power line
 clearings. The file consists of a variables by site data frame and is
 comma delimited in .csv file format
DOI: 10.5061/dryad.mg5ng
title: Data from: Better than fish on land? Hearing across metamorphosis in salamanders

description: Early tetrapods faced an auditory challenge from the impedance mismatch
 between air and tissue in the transition from aquatic to terrestrial
 lifestyles during the Early Carboniferous (350 Ma). Consequently,
 tetrapods may have been deaf to airborne sounds for up to 100 Myr until
 tympanic middle ears evolved during the Triassic. The middle ear
 morphology of recent urodeles is similar to that of early ‘lepospondyl’
 microsaur tetrapods, and experimental studies on their hearing
 capabilities are therefore useful to understand the evolutionary and
 functional drivers behind the shift from aquatic to aerial hearing in
 early tetrapods. Here, we combine imaging techniques with
 neurophysiological measurements to resolve how the change from aquatic
 larvae to terrestrial adult affects the ear morphology and sensory
 capabilities of salamanders. We show that air-induced pressure detection
 enhances underwater hearing sensitivity of salamanders at frequencies
 above 120 Hz, and that both terrestrial adults and fully aquatic juvenile
 salamanders can detect airborne sound. Collectively, these findings
 suggest that early atympanic tetrapods may have been pre-equipped to
 aerial hearing and are able to hear airborne sound better than fish on
 land. When selected for, this rudimentary hearing could have led to the
 evolution of tympanic middle ears.
description: Individual sensitivity
 thresholdsIndividual sensitivity
 thresholds determined by evoked potentials.datasets.docx
DOI: 10.5061/dryad.0875q1v2
title: Data from: Land management practices associated with house loss in wildfires

description: Losses to life and property from unplanned fires (wildfires) are forecast
 to increase because of population growth in peri-urban areas and climate
 change. In response, there have been moves to increase fuel
 reduction—clearing, prescribed burning, biomass removal and grazing—to
 afford greater protection to peri-urban communities in fire-prone regions.
 But how effective are these measures? Severe wildfires in southern
 Australia in 2009 presented a rare opportunity to address this question
 empirically. We predicted that modifying several fuels could theoretically
 reduce house loss by 76%-97%, which would translate to considerably fewer
 wildfire-related deaths. However, maximum levels of fuel reduction are
 unlikely to be feasible at every house for logistical and environmental
 reasons. Significant fuel variables in a logistic regression model we
 selected to predict house loss were (in order of decreasing effect): (1)
 the cover of trees and shrubs within 40m of houses, (2) whether trees and
 shrubs within 40m of houses was predominantly remnant or planted, (3) the
 upwind distance from houses to groups of trees or shrubs, (4) the upwind
 distance from houses to public forested land (irrespective of whether it
 was managed for nature conservation or logging), (5) the upwind distance
 from houses to prescribed burning within 5 years, and (6) the number of
 buildings or structures within 40m of houses. All fuel treatments were
 more effective if undertaken closer to houses. For example, 15% fewer
 houses were destroyed if prescribed burning occurred at the observed
 minimum distance from houses (0.5km) rather than the observed mean
 distance from houses (8.5km). Our results imply that a shift in emphasis
 away from broad-scale fuel-reduction to intensive fuel treatments close to
 property will more effectively mitigate impacts from wildfires on
 peri-urban communities.
description: house_lossCovariates measured at each of 499 houses within wildfires that burnt on 7 February 2009 in Victoria, Australia
DOI: 10.5061/dryad.dm2v1bk
title: Data from: Pontoon trap for salmon and trout equipped with a seal exclusion device catches larger salmons

description: The growing seal populations of the Baltic have led to more frequent
 interactions with coastal fisheries. The motivation for seals to interact
 with fishing gear is high. It provides high densities of fish. A
 successful means of mitigating the conflict is the pontoon trap. Seal
 visits here have been frequent. Seals have access to most parts of the
 trap system including the middle chamber, which is an overhead
 environment. Concerns have been raised about seals possible entanglement
 in this specific part of the trap. As a means of keeping seals from
 entering the middle chamber, two different Seal Exclusion Devices (SEDs)
 were tested. A diamond mesh SED and a square mesh SED, which was rotated
 45°. The aim was to compare the functionality of the different SEDs with
 respect to seal deterrent abilities and catch composition. The hypothesis
 tested were (i) that seals would not be able to enter the middle chamber,
 (ii) that the catch would increase and (iii) that the SED would deter
 larger fish from swimming into the middle chamber. Catch data and
 underwater film were collected. Larger salmons were caught in traps
 equipped with SEDs. The SEDs did not affect the number of caught fish or
 the total catch per soak day.
description: Salmon and trout catch
 2012 and 2016Catch from 2012 and 2016
 from a pontoon trap equipped with two different types of Seal Exclusion
 Devices. Each caught fish was weighed individually at every harvest
 occasion. Total catch, number of harvest occasions, Catch Per Unit Effort
 (CPUE) - total numbers of fish per soak day in one trap and Weight Per
 Unit Effort (WPUE)- weight of the catch per soak day in one trap, can be
 calculated from this data.Seal visits 2012 and
 2016Filmed number of hours
 and seal visits in pontoon traps equipped with two different types of Seal
 Exclusion Devices, compared to a Control. The study took place in 2012 and
 2016.