cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.sq5kk
title: Data from: Effects of zoochory on the spatial genetic structure of plant populations

description: Spatial genetic structure (SGS) of plants results from the non-random
 distribution of related individuals. SGS provides information on gene flow
 and spatial patterns of genetic diversity within populations. Seed
 dispersal creates the spatial template for plant distribution. Thus, in
 zoochorous plants, dispersal mode and disperser behavior might have a
 strong impact on SGS. However, many studies only report the taxonomic
 group of seed dispersers, without further details. The recent increase in
 studies on SGS provides the opportunity to review findings and test for
 the influence of dispersal mode, taxonomic affiliation of dispersers and
 their behavior. We compared the proportions of studies with SGS among
 groups and tested for differences in strength of SGS using Sp statistics.
 Presence of SGS differed among taxonomic groups, with reduced presence in
 plants dispersed by birds. Strength of SGS was instead significantly
 influenced by the behavior of seed dispersal vectors, with higher SGS in
 plant species dispersed by animals with behavior traits that result in
 short seed dispersal distances. We observed a high variance in SGS of
 plants dispersed by animals that actively or passively accumulate seeds.
 Additionally, we found SGS was also affected by pollination and marker
 type used. Our study highlights the importance of vector behavior on SGS
 even in the presence of variance created by other factors. Thus, more
 detailed information on the behavior of seed dispersers would contribute
 to better understand which factors shape the spatial scale of gene flow in
 animal-dispersed plant species.
description: SGS of plant species
 with animal seed dispersal_Gelmi-CandussoTable containing data
 collected from articles analyzed on the review: Effects of zoochory on the
 spatial genetic structure of plant populations. The data includes plant,
 pollination and seed dispersal system, marker type used for analysis, Sp
 statistics with SE values of every population analyzed on each of the
 studies with presence of SGS.Review_Gelmi-Candusso_All
 populations data file.csv
DOI: 10.5061/dryad.37s6bb42
title: Data from: New environmental metabarcodes for analysing soil DNA: potential for studying past and present ecosystems

description: Metabarcoding approaches use total and typically degraded DNA from
 environmental samples to analyse biotic assemblages and can potentially be
 carried out for any kinds of organisms in an ecosystem. These analyses
 rely on specific markers, here called metabarcodes, which should be
 optimized for taxonomic resolution, minimal bias in amplification of the
 target organism group and short sequence length. Using bioinformatic
 tools, we developed metabarcodes for several groups of organisms: fungi,
 bryophytes, enchytraeids, beetles and birds. The ability of these
 metabarcodes to amplify the target groups was systematically evaluated by
 (1) in silico PCRs using all standard sequences in the EMBL public
 database as templates, (2) in vitro PCRs of DNA extracts from surface soil
 samples from a site in Varanger, northern Norway, and (3) in vitro PCRs of
 DNA extracts from permanently frozen sediment samples of late-Pleistocene
 age (~ 16 000–50 000 yr BP) from two Siberian sites, Duvanny Yar and Main
 River. Comparison of the results from the in silico PCR with those
 obtained in vitro showed that the in silico approach offered a reliable
 estimate of the suitability of a marker. All target groups were detected
 in the environmental DNA, but we found large variation in the level of
 detection among the groups and between modern and ancient samples. Success
 rates for the Pleistocene samples were highest for fungal DNA, whereas
 bryophyte, beetle and bird sequences could also be retrieved, but to a
 much lesser degree. The metabarcoding approach has considerable potential
 for biodiversity screening of modern samples and also as a paleoecological
 tool.
description: Epp_etal_metabarcodes_dryadThis file contains all consensus sequences retrieved from clones of environmental samples and referred to in Table S6 of the Supplementary material.
DOI: 10.5061/dryad.9v017mr
title: Data from: The effects of male harm vary with female quality and environmental complexity in Drosophila melanogaster

description: Mate competition provides the opportunity for sexual selection which often
 acts strongly on males, but also the opportunity for sexual conflict that
 can alter natural selection on females. Recent attention has focused on
 the potential of sexual conflict to weaken selection on females if male
 sexual attention, and hence harm, is disproportionately directed toward
 high over low quality females, thereby reducing the fitness difference
 between these females. However, sexual conflict could instead strengthen
 selection on females if low quality females are more sensitive to male
 harm than high quality females, thereby magnifying fitness differences
 between them. We quantify the effects of male exposure on low vs. high
 quality females in Drosophila melanogaster in each of two environments
 (“simple” and “complex”) that are known to alter behavioural interactions.
 We show that the effects of male harm are greater for low compared to high
 quality females in the complex but not the simple environment, consistent
 with mate competition strengthening selection on females in the former but
 not in the latter environment.
description: Female fitness
 dataThe data are provided as
 a .csv file. Each row reports, for a given replicate, the survival (as a
 proportion) of the 35 females in that replicate and the average fecundity
 of 10 randomly chosen surviving females from that replicate. Total_fitness
 is the product of these. Females were low or high quality (Quality) and
 experienced low or high exposure to males (Male_exposure) in either a
 simple or complex mating environment (Environment). The experiment was
 performed in two blocks.MacPherson_data.csv
DOI: 10.5061/dryad.j64s5rn
title: Data from: Insect wing loss is tightly linked to the treeline: evidence from a diverse stonefly assemblage

description: The secondary loss of flight in previously winged insect lineages has long
 fascinated biologists. Habitat stability and isolation are thought to play
 important roles in driving wing reduction (Roff 1990, 1994), with exposure
 to high winds suggested to accelerate this process (Darwin 1859), although
 the role exposure plays in insect wing loss has never been empirically
 demonstrated. Here we assess fine-scale distributional records from a
 diverse regional stonefly assemblage, to demonstrate a widespread
 association between wing loss and the treeline in New Zealand. The
 observed pattern suggests that exposure plays a crucial role driving wing
 loss in alpine insects.
description: Species collection
 records, and average altitudeInterspecific treeline
 data.xlsx
DOI: 10.5061/dryad.709ch3g
title: Data from: Intraspecific brain size variation between coexisting sunfish ecotypes

description: Variation in spatial complexity and foraging requirements between habitats
 can impose different cognitive demands on animals that may influence brain
 size. However, the relationship between ecologically-related cognitive
 performance and brain size is not well established. We test whether
 variation in relative brain size and brain region size in fish is
 associated with habitat use within a population of pumpkinseed sunfish
 composed of different ecotypes that inhabit either the structurally
 complex shoreline littoral habitat or simpler open-water pelagic habitat.
 Sunfish using the littoral habitat have on average 8.3% larger brains than
 those using the pelagic habitat. We found little difference in the
 proportional sizes of five brain regions between ecotypes. The results
 suggest that cognitive demands on sunfish may be reduced in the pelagic
 habitat given no habitat-specific differences in body condition. They also
 suggest that either a short divergence time or physiological processes may
 constrain changes to concerted, global modifications of brain size between
 sunfish ecotypes.
description: Intraspecific brain size
 variation between coexisting sunfish ecotypes - DataRaw data used for paper
 'Intraspecific brain size variation between coexisting sunfish
 ecotypes'IBSVBCSE_Data_ESM.csv
DOI: 10.5061/dryad.dh7cd36
title: Data from: Estimating density for species conservation: comparing camera trap spatial count models to genetic spatial capture-recapture models

description: Density estimation is integral to the effective conservation and
 management of wildlife. Camera traps in conjunction with spatial
 capture-recapture (SCR) models have been used to accurately and precisely
 estimate densities of “marked” wildlife populations comprising
 identifiable individuals. The emergence of spatial count (SC) models holds
 promise for cost-effective density estimation of “unmarked” wildlife
 populations when individuals are not identifiable. We evaluated model
 agreement, precision, and survey costs, between i) a fully marked approach
 using SCR models fit using non-invasive genetic data, and ii) an unmarked
 approach using SC models fit using camera trap data, for a recovering
 population of the mesocarnivore fisher (Pekania pennanti). The SCR density
 estimates ranged from 2.95 to 3.42 (2.18–5.19 95% BCI) fishers 100 km−2.
 The SC density estimates were influenced by their priors, ranging from
 0.95 (0.65–2.95 95% BCI) fishers 100 km−2 for the uninformative model to
 3.60 (2.01–7.55 95% BCI) fishers 100 km−2 for the model informed by prior
 knowledge of a 16 km2 fisher home range. We caution against using strongly
 informative priors but instead recommend using a range of unweighted prior
 knowledge. Thin detection data was problematic for both SCR and SC models,
 potentially producing biased low estimates. The total cost of the genetic
 survey ($47 610) was two-thirds of the camera trap survey ($77 080), or
 comparable ($75 746) if genetic sampling effort was increased to include
 sex and trap-behaviour covariates in SCR models. Density estimation of
 unmarked populations continues to be a series of trade-offs but as methods
 improve and integrate, so will our estimates.
description: Trap Deployment File
 (TDF)Site location
 dataTDF.csvEncounter Data File (EDF)Individual encounter histories for SCR models.edf.csvFisher Camera DetectionsUnmarked fisher camera detection dataFisher_60min2016_matrix.csv
DOI: 10.5061/dryad.6cp7c2j1
title: Data from: Selection on floral design in Polemonium brandegeei (Polemoniaceae): female and male fitness under hawkmoth pollination

description: Plant-pollinator interactions promote the evolution of floral traits that
 attract pollinators and facilitate efficient pollen transfer. The spatial
 separation of sex-organs, herkogamy, is believed to limit sexual
 interference in hermaphrodite flowers. Reverse herkogamy (stigma recessed
 below anthers) and long narrow corolla-tubes are expected to promote
 efficiency in male function under hawkmoth pollination. We tested this
 prediction by measuring selection in six experimental arrays of Polemonium
 brandegeei, a species that displays continuous variation in herkogamy,
 resulting in a range of recessed to exserted stigmas. Under glasshouse
 conditions, we measured pollen removal and deposition, and estimated
 selection gradients (ß) through female fitness (seeds set) and male
 fitness (siring success based on 6 polymorphic microsatellite loci).
 Siring success was higher in plants with more nectar sugar and narrow
 corolla-tubes. However, selection through female function for reverse
 herkogamy was considerably stronger than was selection through male
 function. Hawkmoths were initially attracted to larger flowers, but
 overall preferred plants with reverse herkogamy. Greater pollen deposition
 and seed set also occurred in reverse herkogamous plants. Thus, reverse
 herkogamy may be maintained by hawkmoths through female rather than male
 function. Further, our results suggest that pollinator attraction may play
 a considerable role in enhancing female function.
description: moth_array_dataThis data describes the floral measurements and fitness measures (seeds set and seeds sired) analyzed in the paper. The exact location and definition of measurements are described in Figure 2 of the manuscript.
DOI: 10.5061/dryad.sq63c
title: Data from: The wheat curl mite Aceria tosichella (Acari: Eriophyoidea) is a complex of cryptic lineages with divergent host ranges: evidence from molecular and plant bioassay data

description: Aceria tosichella (the wheat curl mite, WCM) is a global pest of wheat and
 other cereals, causing losses by direct damage, as well as the
 transmission of plant viruses. The mite is considered to have an unusually
 wide host range for an eriophyoid species. The present study tested the
 commonly held assumption that WCM is a single, highly polyphagous species
 by assessing the host range of genetically distinct lineages of WCM
 occurring in Poland on different host plants. Genotyping was performed by
 analyzing nucleotide sequence data from fragments of the mitochondrial
 cytochrome c oxidase subunit I (COI) and the nuclear D2 region of 28S
 rDNA. Mean between-lineage distance estimated using COI data was found to
 be one order of magnitude greater than the within-clade lineage and, in
 some cases, comparable to distances between WCM lineages and a congeneric
 outgroup species. Host acceptance was tested by quantifying population
 growth for different WCM mitochondrial (mt)DNA lineages when transferred
 from source host plants to test plants. These experiments revealed
 significant differences in host colonization ability between mtDNA
 lineages, ranging from highly polyphagous to more host-specific. The
 present study reveals that WCM is composed of several discrete genetic
 lineages with divergent host-acceptance and specificity traits. Genetic
 variation for host acceptance within A. tosichella s.l. may act as a
 reproductive barrier between these lineages, most of which had narrow host
 ranges. Two lineages appear to have high pest potential on cereals,
 whereas several others appear to specialize on wild grass species. We
 conclude that WCM is not a homogeneous species comprising polyphagous
 panmictic populations rather it is a complex of genetically distinct
 lineages with variable host ranges and therefore variable pest potential.
description: Host acceptance for
 mtDNA lineagesResults of experiments
 showing population growth for different WCM mtDNA lineages when
 transferred from source host plants to test plants. Column headings:
 host.org - original host, host.nov - novel host, feme - no. of females
 settled, progeny - no. of progeny found after 14 days, lineage - mtDNA
 lineageacetos.csv
DOI: 10.5061/dryad.m464p56
title: Data from: Estimating costs of aphid resistance to parasitoids conferred by a protective strain of the bacterial endosymbiont Regiella insecticola

description: Heritable bacterial endosymbionts are common in aphids (Hemiptera:
 Aphididae), and they can influence ecologically important traits of their
 hosts. It is generally assumed that their persistence in a population is
 dependent on a balance between the costs and benefits they confer. A good
 example is Hamiltonella defensa Moran et al., a facultative symbiont that
 provides a benefit by strongly increasing aphid resistance to parasitoid
 wasps, but becomes costly to the host in the absence of parasitoids.
 Regiella insecticola Moran et al. is another common symbiont of aphids and
 generally does not influence resistance to parasitoids. In the green peach
 aphid, Myzus persicae (Sulzer), however, one strain (R5.15) was discovered
 that behaves like H. defensa in that it provides strong protection against
 parasitoid wasps. Here we compare R5.15-infected and uninfected lines of
 three M. persicae clones to test whether this protective symbiont is
 costly as well, i.e., whether it has any negative effects on aphid
 life-history traits. Furthermore, we transferred R5.15 to two other aphid
 species, the pea aphid, Acyrthosiphon pisum (Harris), and the black bean
 aphid, Aphis fabae Scopoli, where this strain is also protective against
 parasitoids and where we could compare its effects with those of
 additional, non-protective strains of R. insecticola. Negative effects of
 R5.15 on host survival and lifetime reproduction were limited and
 frequently non-significant, and these effects were comparable or in one
 case weaker than those of R. insecticola strains that are not protective
 against parasitoid wasps. Unless the benefit of protection is counteracted
 by detrimental effects on traits that were not considered in this study,
 R. insecticola strain R5.15 should have a high potential to spread in
 aphid populations.
description: Aphid life history
 traitsSee README
 file.aphid_life-history_traits_for_DRYAD.txt
DOI: 10.5061/dryad.23ns79v
title: Data from: Compact cities or sprawling suburbs? optimising the distribution of people in cities to maximise species diversity

description: 1. Conservation of biodiversity in urban environments depends on the
 responses of species to the intensity of urban development. ‘Land sharing’
 and ‘land sparing’ represent alternate ends of a gradient that
 conceptualises a trade-off between the human population and biodiversity.
 We used a linear optimisation procedure to 1) identify the optimal
 allocation of land for people and nature, 2) assess whether the optimal
 allocation is more similar to land sparing or land sharing, and 3) examine
 how this might change under scenarios of human population growth. 2. We
 surveyed birds in 28 landscapes, each 25 ha in size, along a gradient of
 human population density (zero to ~1600 persons/25 ha) in the Greater
 Melbourne region, Australia. Species’ responses to population density were
 estimated using generalised additive models (GAMs). These relationships
 were then used to determine the optimal allocation of land among different
 categories of population density based on maximising a community index,
 the geometric mean of relative abundance (G) of bird species. 3. Human
 population density was an important driver of the reporting rate for 28
 species. Response curves differed among ‘urban avoider’, ‘urban adapter’
 and ‘urban exploiter’ species. For the current human population in the
 study area, optimal allocation of land included elements of both land
 sharing and land sparing. However, for scenarios of increased population
 size, optimal allocation converged upon a land sparing design. 5.
 Synthesis and applications. Urban areas represent a mosaic of land uses
 that offer habitats of differing quality. Land sharing, based on
 sustaining biota amongst residential areas, performed poorly under all
 scenarios due to its inability to support species that depend on natural
 or semi-natural habitat. To sustain more than a homogenised avifauna in
 urban regions, large tracts of natural vegetation are needed within, or
 adjacent to, the urban environment. Protecting natural areas on urban
 fringes will be critical to the safeguarding of nature in the future as
 urban populations and land-use inevitably expand.
description: Melbourne urban
 birdsData on the relation
 ship between the reporting rate of bird species and human population
 density (POP.DENSITY ), mean annual rainfall (RAINFALL), and distance to
 the nearest large conservation reserve (NEAR.DIST.RESERVE
 )data
 dryad.csv
DOI: 10.5061/dryad.593cc
title: Data from: A data-driven model for influenza transmission incorporating media effects

description: Numerous studies have attempted to model the effect of mass media on the
 transmission of diseases such as influenza, however quantitative data on
 media engagement has until recently been difficult to obtain. With the
 recent explosion of “big data” coming from online social media and the
 like, large volumes of data on a population’s engagement with mass media
 during an epidemic are becoming available to researchers. In this study we
 combine an online data set comprising millions of shared messages relating
 to influenza with traditional surveillance data on flu activity to suggest
 a functional form for the relationship between the two. Using this data we
 present a simple deterministic model for influenza dynamics incorporating
 media effects, and show that such a model helps explain the dynamics of
 historical influenza outbreaks. Furthermore, through model selection we
 show that the proposed media function fits historical data better than
 other media functions proposed in earlier studies.
description: fluTwitterDataInfluenza and Twitter data used in this study.
DOI: 10.15468/dl.4kzspd
title: Occurrence Download

description: A dataset containing 182 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Notopora schomburgkii",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 182 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001399-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.9t4471k
title: Data from: Selective attention by priming in host search behavior of 2 generalist butterflies

description: In phytophagous insects such as butterflies, there is an evolutionary
 trend towards specialization in host plant use. One contributing mechanism
 for this pattern may be found in female host search behavior. Since search
 attention is limited, generalist females searching for hosts for
 oviposition may potentially increase their search efficacy by aiming their
 attention on a single host species at a time, a behavior consistent with
 search image formation. Using laboratory reared and mated females of two
 species of generalist butterflies, the comma, Polygonia c-album, and the
 painted lady, Vanessa cardui (Lepidoptera: Nymphalidae), we investigated
 the probability of finding a specific target host (among non-host
 distractors) immediately after being primed with an oviposition experience
 of the same host as compared to different host in indoor cages. We used
 species-specific host plants that varied with respect to growth form,
 historical age of the butterfly-host association, and relative preference
 ranking. We found improved search efficacy after previous encounters of
 the same host for some but not all host species. Positive priming effects
 were found only in hosts with which the butterfly has a historically old
 relationship and these hosts are sometimes also highly preferred. Our
 findings provides additional support for the importance of behavioral
 factors in shaping the host range of phytophagous insects, and show that
 butterflies can attune their search behavior to compensate for negative
 effects of divided attention between multiple hosts.
description: Host priming data of two
 generalist butterfliesthe file contains the
 behavioral data of all three experiments used in survival analyses
 included in the study “Selective attention by priming in host search
 behavior of two generalist butterflies” By Gamberale-Stille, G. et
 al.PrimingDryad.txt