cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.432vj5j
title: Data from: Egg-laying environment modulates offspring responses to predation risk in an amphibian

description: Predator-induced plasticity has been in the focus of evolutionary
 ecological research in the last decades, but the consequences of temporal
 variation in the presence of cues predicting offspring environment have
 remained controversial. This is partly due to the fact that the role of
 early environmental effects has scarcely been scrutinized in this context
 while also controlling for potential maternal effects. In this study we
 investigated how past environmental conditions, i.e. different
 combinations of risky or safe adult (pre-natal) and oviposition (early
 post-natal) environments affected offspring’s plastic responses in
 hatching time and locomotor activity to predation risk during development
 in the smooth newt (Lissotriton vulgaris). We found that females did not
 adjust their reproductive investment to the perceived level of risk in the
 adult environment, and this pre-natal environment had generally negligible
 effect on offspring phenotype. However, when predator cues were absent
 during oviposition, larvae raised in the presence of predator cues delayed
 their hatching and exhibited a decreased activity compared to control
 larvae developing without predator cues, which responses are advantageous
 when predators pose a threat to hatched larvae. In the presence of
 predator cues during oviposition, the difference in hatching time
 persisted,but the difference in general locomotor activity disappeared
 between risk-exposed and control larvae. Our findings provide clear
 experimental evidence that fine-scale temporal variation in a predictive
 cue during and after egg-laying interactively affect offspring phenotype,
 and highlight the importance of the early post-natal environment, which
 may exert a substantial influence on progeny’s phenotype also under
 natural conditions.
description: DATA_Toth&HettyeyData collected during the conducted experiment and used in the statistical analyses. Data file was created in MS Excel. In the column headings, "Env" is an abbreviation of "environment", whereas "SVL" denotes females' snout-to-vent length.
DOI: 10.5061/dryad.mc2p8
title: Data from: Assessing the sustainability of African lion trophy hunting, with recommendations for policy

description: While trophy hunting provides revenue for conservation, it must be
 carefully managed to avoid negative population impacts, particularly for
 long-lived species with low natural mortality rates. Trophy hunting has
 had negative effects on lion populations throughout Africa, and the
 species serves as an important case study to consider the balance of costs
 and benefits, and to consider the effectiveness of alternative strategies
 to conserve exploited species. Age-restricted harvesting is widely
 recommended to mitigate negative effects of lion hunting, but this
 recommendation was based on a population model parameterized with data
 from a well-protected and growing lion population. Here, we used
 demographic data from lions subject to more typical conditions, including
 source–sink dynamics between a protected National Park and adjacent
 hunting areas in Zambia's Luangwa Valley, to develop a stochastic
 population projection model and evaluate alternative harvest scenarios.
 Hunting resulted in population declines over a 25-yr period for all
 continuous harvest strategies, with large declines for quotas &gt;1
 lion/concession (~0.5 lion/1,000 km2) and hunting of males younger than
 seven years. A strategy that combined periods of recovery, an age limit of
 ≥7 yr, and a maximum quota of ~0.5 lions shot/1,000 km2 yielded a risk of
 extirpation &lt;10%. Our analysis incorporated the effects of human
 encroachment, poaching, and prey depletion on survival, but assumed that
 these problems will not increase, which is unlikely. These results suggest
 conservative management of lion trophy hunting with a combination of
 regulations. To implement sustainable trophy hunting while maintaining
 revenue for conservation of hunting areas, our results suggest that
 hunting fees must increase as a consequence of diminished supply. These
 findings are broadly applicable to hunted lion populations throughout
 Africa and to inform global efforts to conserve exploited carnivore
 populations.
description: Data for baseline Leslie
 matrices for the Luangwa valley lion populationData and description for
 baseline Leslie matrices for male and female lions.
DOI: 10.5061/dryad.nc221
title: Data from: Historical connectivity, contemporary isolation, and local adaptation in a widespread but discontinuously distributed species, Rhododendron oldhamii, endemic to Taiwan

description: Elucidation of the evolutionary processes that constrain or facilitate
 adaptive divergence is a central goal in evolutionary biology, especially
 in non-model organisms. We tested whether changes in dynamics of gene flow
 (historical vs contemporary) caused population isolation and examined
 local adaptation in response to environmental selective forces in
 fragmented Rhododendron oldhamii populations. Variation in 26 expressed
 sequence tag-simple sequence repeat loci from 18 populations in Taiwan was
 investigated by examining patterns of genetic diversity, inbreeding,
 geographic structure, recent bottlenecks, and historical and contemporary
 gene flow. Selection associated with environmental variables was also
 examined. Bayesian clustering analysis revealed four regional population
 groups of north, central, south and southeast with significant genetic
 differentiation. Historical bottlenecks beginning 9168–13,092 years ago
 and ending 1584–3504 years ago were revealed by estimates using
 approximate Bayesian computation for all four regional samples analyzed.
 Recent migration within and across geographic regions was limited.
 However, major dispersal sources were found within geographic regions.
 Altitudinal clines of allelic frequencies of environmentally associated
 positively selected outliers were found, indicating adaptive divergence.
 Our results point to a transition from historical population connectivity
 toward contemporary population isolation and divergence on a regional
 scale. Spatial and temporal dispersal differences may have resulted in
 regional population divergence and local adaptation associated with
 environmental variables, which may have played roles as selective forces
 at a regional scale.
description: R.oldhamii SSR for
 MSAmicrosatellite datafor18
 populations samples of Rhododendron oldhamii
DOI: 10.5061/dryad.6f3q5
title: Data from: Remnant Pachira quinata pasture trees have greater opportunities to self and suffer reduced reproductive success due to inbreeding depression

description: Habitat fragmentation is extensive throughout the world, converting
 natural ecosystems into fragments of varying size, density and
 connectivity. The potential value of remnant trees in agricultural
 landscapes as seed sources and in connecting fragments has formed a
 fertile area of debate. This study contrasted the mating patterns of
 bat-pollinated Pachira quinata trees in a continuous forest to those in
 pasture through microsatellite-based paternity analysis of progeny. The
 breeding system was determined by analysis of pollen tube growth and seed
 production from controlled pollinations. Fitness of selfed and outcrossed
 seed was compared by germination and seedling growth. There was more
 inbreeding within pasture trees (outcrossing=0.828±0.015) compared with
 forest trees (0.926±0.005). Pasture trees had fewer sires contributing to
 mating events, but pollen dispersal distances were greater than those in
 the forest. Paternity analysis showed variation in outcrossing rates among
 pasture trees with high proportions of external and self pollen sources
 detected. A leaky self-incompatibility system was found, with self pollen
 having reduced germination on stigmas and slower growth rate through the
 style. Controlled pollinations also showed a varied ability to self among
 trees, which was reflected in the selfing rates among pasture trees shown
 by the paternity analysis (0–80% selfing). Self pollination resulted in
 lower seed set, germination and seedling growth compared with outcrossing.
 While remnant trees in agricultural landscapes are involved in broader
 mating patterns, they show increased but varied levels of inbreeding,
 which result in reduced fitness.
description: SSR
 dataSSR genotypes from 5
 loci for progeny arrays from LB SP sites. Numbers are allele size. 0 =
 missing valueSSR.xlsxplant traitsPlant traits from LB SP sites. DBH = diameter at 1.3m, Seed = seed quantity (5=high, 1=low), CapL = capsule length, CapW = capsule width, Age = plant age (5=old, 1=young), DistT = distance to nearest tree, T50m = number of trees within 50m, T250m = number of trees within 250m, T250_500m = number of trees 250-500m, T500m = number of trees within 500m, tm-ts = Ritlands multilocus minus single locus outcrossing rate, rp = Ritlands correlated paternity, tm = Ritlands multilocus outcrossing rate, He = heterozygosity, r1 = genetics relatedness to the nearest tree, r5 = genetics relatedness to the nearest 5 trees.traits.xlsx
DOI: 10.5061/dryad.st217
title: Data from: Male-specific genotype by environment interactions influence viability selection acting on a sexually selected inversion system in the seaweed fly, Coelopa frigida.

description: In the seaweed fly, Coelopa frigida, a large chromosomal inversion system
 is affected by sexual selection and viability selection. However, our
 understanding of the interaction between these two selective forces is
 currently limited as research has focused upon a limited range of
 environments. We allowed C. frigida larvae to develop in two different
 algae, Fucus and Laminaria, and then measured viability and body size for
 each inversion genotype. Significant male-specific genotype-by-environment
 interactions influenced viability and body size. For males developing in
 Laminaria, the direction of viability selection acts similarly on the
 inversion system as the direction of sexual selection. In contrast, for
 males developing in Fucus, viability selection opposes sexual selection.
 These results demonstrate that through considering viability selection in
 different environments, the costs and benefits associated with sexual
 selection can be found to vary.
description: DataData from: Male-specific
 genotype by environment interactions influence viability selection acting
 on a sexually selected inversion system in the seaweed fly, Coelopa
 frigida. See file for a description of contents.Results for
 Dryad.xlsx
DOI: 10.5061/dryad.m2m1b
title: Data from: Tracing the origins of Calanus sp. in the Saguenay‑St. Lawrence Marine Park (Québec, Canada) using δ13C as a marker

description: The Saguenay-St. Lawrence Marine Park (SSLMP) is a region that sustains a
 high abundance of zooplankton. The connectivity between zooplankton
 populations within the SSLMP and the surrounding areas was investigated
 for Calanus finmarchicus and C. hyperboreus. Deep-dwelling stage V
 copepodites (CVs) were collected in the Marine Park as well as in putative
 source regions in the St. Lawrence system in July 2009 (a time when they
 were entering into diapause). In May 2010, at the end of the overwintering
 period, diapausing CVs were sampled again in the Marine Park. To
 discriminate the origins and to predict the probable regions of origin of
 these deep-dwelling diapausing CVs in the SSLMP, a quadratic discriminant
 function analysis (QDFA) was performed. The classification algorithm was
 based on the carbon isotopic composition (δ13C) and percent carbon (%C) of
 individual copepods, as these variables are conservative when lipids are
 extracted prior to analysis. Our results suggest that about 23% of the
 Calanus spp. population sampled in SSLMP in late spring 2010 originated
 from the Saguenay Fjord (inside the SSLMP). The remainder of this
 population originated from regions outside the SSLMP, including the Lower
 St. Lawrence Estuary, and likely further east in the Gulf of St. Lawrence.
 Our results revealed high connectivity across the Saguenay and the St.
 Lawrence systems, as well as the potential for significant local
 production and recruitment of Calanus spp. within the Saguenay Fjord. This
 study also revealed the effectiveness of using δ13C as a marker in
 delineating the origin of Calanus spp., which has a relatively long
 non-feeding overwintering and diapausing period making it amenable to the
 conservation of isotopic signatures.
description: δ13C related to the
 origin of Calanus spp.. A Canadian Healthy Oceans Network Population
 Connectivity project, PC-08Deep-dwelling stage V
 copepodites (CVs) were collected in the Marine Park as well as in putative
 source regions in the St. Lawrence system using a vertical tow initiated
 near the bottom to 100 m with a 75 cm diameter, 202 μm Nitex plankton net
 equipped with an opening-closing device. The dataset include variables
 used to perform the QDFAs: Percent lipid content of individuals
 (%Lipids),dry weight before (DW) and after lipid extraction (DWLE), δ13C,
 δ14N, %C.CHONe_PC-08_PerrinG_data_field.xlsx
DOI: 10.5061/dryad.r37bt93
title: Data from: Human paths have positive impacts on plant richness and diversity: a meta-analysis

description: We assess the impacts of human paths, trails and roads on plant species
 richness and Shannon diversity. Most reviews of this topic have not
 considered community-level measures, and have focused on excessive tourism
 impacts. We found significant positive effects of paths on plant richness
 and diversity. The effect size for richness was highest when studies
 included roads (paved) or trails (unpaved). The effect size found for
 diversity was highest when studies were in grasslands. We also found
 experimental designs comparing high levels of path use to low levels of
 path use, near-to-path vs. far-from-path and path-presence vs.
 path-absence comparisons obtained the largest effect sizes. There was no
 evidence that non-native species explained most increases in species
 richness or diversity. The effect sizes of human paths on plant
 communities are comparable in magnitude to those reported for other
 mammals’ disturbance and ecosystem engineering activities.
description: Supplementary Dataset
 revisedThis is the excel file
 with all the data included in the meta-analyses.
DOI: 10.5061/dryad.49b6j7t
title: Data from: Variation in growth and developmental responses to supraoptimal temperatures near latitudinal range limits of gypsy moth Lymantria dispar (L.), an expanding invasive species

description: Variation in thermal performance within and between populations provides
 the potential for adaptive responses to increasing temperatures associated
 with climate change. Organisms experiencing temperatures above their
 optimum on a thermal performance curve exhibit rapid declines in function
 and these supraoptimal temperatures can be a critical physiological
 component of range limits. The gypsy moth, Lymantria dispar (L.)
 (Lepidoptera: Erebidae), is one of the best-documented biological
 invasions and factors driving its spatial spread are of significant
 ecological and economic interest. The present study examines gypsy moth
 sourced from different latitudes across its North American range for
 sensitivity to high temperature in constant temperature growth chamber
 experiments. Supraoptimal temperatures result in higher mortality in
 northern populations compared with populations from the southern range
 extent (West Virginia and coastal plain of Virginia, U.S.A.). Sublethal
 effects of high temperature on traits associated with fitness, such as
 smaller pupal mass, are apparent in northern and West Virginia
 populations. Overall, the results indicate that populations near the
 southern limits of the range are less sensitive to high temperatures than
 northern populations from the established range. However, southern
 populations are lower performing overall, based on pupal mass and
 development time, relative to northern populations. This suggests that
 there may be a trade-off associated with decreased heat sensitivity in
 gypsy moth. Understanding how species adapt to thermal limits and possible
 fitness trade-offs of heat tolerance represents an important step toward
 predicting climatically driven changes in species ranges, which is a
 particularly critical consideration in conservation and invasion ecology.
description: Latitudinal Range
 DataData collected in 2014
 for the latitudinal range portion of the manuscript. Details can be found
 in the accompanying README file.Dryad Latitudinal Range
 Data.csvSouthern Range
 DataData collected in 2015
 for the southern range portion of the manuscript. Details can be found in
 the accompanying README file.Dryad Southern Range
 Data.csvSouthern Range Survival
 DataSummary of survival data
 by cup for the southern range portion of the manuscript. Details can be
 found in the accompanying README file.Dryad Southern Range Survival
 Data.csvLatitudinal Range
 AnalysisR script for analysis of
 Latitudinal Range DataDryad Latitudinal Range
 Analysis.RSouthern Range
 AnalysisR script for analysis of
 Southern Range Data and Southern Range Survival DataDryad Southern Range
 Analysis.R
DOI: 10.5061/dryad.9cn66
title: Data from: Genetic uniformity and long-distance clonal dispersal in the invasive androgenetic Corbicula clams

description: The clam genus Corbicula is an interesting model system to study the
 evolution of reproductive modes since it includes both sexual and asexual
 (androgenetic) lineages. While the sexual populations are restricted to
 the native Asian areas, the androgenetic lineages are widely distributed
 being also found in America and Europe where they form a major aquatic
 invasive pest. We investigated the genetic diversity of native and
 invasive Corbicula populations through a worldwide sampling. The use of
 mitochondrial and nuclear (microsatellite) markers revealed an extremely
 low diversity in the invasive populations with only four, undiversified,
 genetic lineages distributed across Europe and America. On the contrary,
 in the native populations, both sexual and androgenetic lineages exhibited
 much higher genetic diversity. Remarkably the most abundant and widely
 distributed invasive forms, the so-called form A and form R found in
 America and Europe respectively, are fixed for the same single COI
 (cytochrome c oxydase subunit I) haplotype and same multilocus genotype.
 This suggests that form R, observed in Europe since the 1980s, derived
 directly from form A found in America since the 1920s. In addition, this
 form shares alleles with some Japanese populations indicating a Japanese
 origin for this invasive lineage. Finally, our study suggests that few
 androgenetic Corbicula individuals successfully invaded the non-native
 range and then dispersed clonally. This is one striking case of genetic
 paradox raising the issue of invasive and evolutionary success of
 genetically undiversified populations.
description: Corbicula spp. COI
 sequences alignment file.Fasta file containing
 alignment of COI sequences (545 bp fragment) from Corbicula spp. The
 alignment was generated via BioEdit 7.0.5.3.Pigneur_et_al_COI_aligned.fastaSource file for DAPC.Genepop file for DAPC using adegenet and R. Genetic data from 10 microsatellite loci in Corbicula spp..Corbi_dapc_noZA.genCode lines for DAPC on Corbicula spp. genetic dataset.Code lines for DAPC using package adegenet and R. The codelines include the find.clusters, the DAPC and the graphics commands.CodelinesDAPC.txtBayesian Inference Corbicula spp..Tree file corresponding to result of the Bayesian inference reported in Figure 2.treeFile.nexMaximum Likelihood Corbicula spp. .Tree file corresponding to result of the Maximum Likelihood phylogeny reported in Figure 2.TreeFileML.txt
DOI: 10.5061/dryad.19f18
title: Data from: Characterization of glutathione transferases involved in the pathogenicity of Alternaria brassicicola

description: Background: Glutathione transferases (GSTs) represent an extended family
 of multifunctional proteins involved in detoxification processes and
 tolerance to oxidative stress. We thus anticipated that some GSTs could
 play an essential role in the protection of fungal necrotrophs against
 plant-derived toxic metabolites and reactive oxygen species that
 accumulate at the host-pathogen interface during infection. Results:
 Mining the genome of the necrotrophic Brassica pathogen Alternaria
 brassicicola for glutathione transferase revealed 23 sequences, 17 of
 which could be clustered into the main classes previously defined for
 fungal GSTs and six were ‘orphans’. Five isothiocyanate-inducible GSTs
 from five different classes were more thoroughly investigated. Analysis of
 their catalytic properties revealed that two GSTs, belonging to the GSTFuA
 and GTT1 classes, exhibited GSH transferase activity with isothiocyanates
 (ITC) and peroxidase activity with cumene hydroperoxide, respectively.
 Mutant deficient for these two GSTs were however neither more susceptible
 to ITC nor less aggressive than the wild-type parental strain. By contrast
 mutants deficient for two other GSTs, belonging to the Ure2pB and GSTO
 classes, were distinguished by their hyper-susceptibility to ITC and low
 aggressiveness against Brassica oleracea. In particular AbGSTO1 could
 participate in cell tolerance to ITC due to its glutathione-dependent
 thioltransferase activity. The fifth ITC-inducible GST belonged to the
 MAPEG class and although it was not possible to produce the soluble active
 form of this protein in a bacterial expression system, the corresponding
 deficient mutant failed to develop normal symptoms on host plant tissues.
 Conclusions: Among the five ITC-inducible GSTs analyzed in this study,
 three were found essential for full aggressiveness of A. brassicicola on
 host plant. This, to our knowledge is the first evidence that GSTs might
 be essential virulence factors for fungal necrotrophs.
description: supp data
 sequencesfasta file of the
 sequences used for the phylogenetic analysis