cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.82b5k7s
title: Data from: Quantifying cryptic function loss during community disassembly

description: 1. Emerging theory suggests that the ecosystem-level consequences of
 anthropogenic pressures depend on how species will be disassembled from
 ecological communities (i.e., the disassembly rule). Species loss,
 however, is not the sole ecological cause of ecosystem function loss:
 behaviors underpinning ecosystem function can also be disrupted by
 anthropogenic pressures without detectable declines of component species
 (“cryptic function loss”). 2. Here, we introduce a novel framework that
 integrates behavioral responses into community disassembly metrics. We
 applied this framework to freshwater mussel communities (order Unionida)
 of the midwestern United States, in which intensive agricultural land use
 threatens stream biota. We combined a field experiment, meta-analysis, and
 watershed-scale population dataset to assess how excessive sediment
 concentrations, one of the leading drivers of freshwater biodiversity
 loss, influence community-level water clearance rates of freshwater
 mussels via behavioral (changes in mass-specific clearance rate) and
 population (changes in population density) responses. 3. Our study
 provided three key insights. First, freshwater mussels exhibited high
 behavioral sensitivity to increased total suspended solids (TSS) across
 species (i.e., reduced water clearance rate), whereas population responses
 were highly species-specific. Second, the behavioral response to increased
 TSS causes substantial cryptic function loss under stressful conditions:
 simulated water clearance rates when behavioral response is included can
 be less than half that of mussel communities with no behavioral response.
 Finally, simulations revealed that mussel communities are likely to show
 rapid but consistent rates of ecosystem function loss irrespective of
 disassembly rules. The similar rates of function loss are due to the
 uniform behavioral response to TSS that masks the linkage between
 population sensitivity of a species and its contribution to ecosystem
 function. 4. Our findings suggest that ignoring behavioral processes may
 cause non-negligible underestimation of ecosystem function loss during
 community disassembly, potentially leading to overly optimistic
 assessments of ecosystem resilience.23-Aug-2019
description: Data
 S1Data used for behavioral
 sensitivity analysisCRdata_submit.csv
DOI: 10.5061/dryad.tj1nf5f
title: Diel temperature and pH variability scale with depth across diverse coral reef habitats

description: Coral reefs are facing intensifying stressors, largely due to global
 increases in seawater temperature and decreases in pH. However, there is
 extensive environmental variability within coral reef ecosystems which can
 impact how organisms respond to global trends. We deployed spatial arrays
 of autonomous sensors across distinct shallow coral reef habitats to
 determine patterns of spatiotemporal variability in seawater
 physicochemical parameters. Temperature and pH were positively correlated
 over the course of a day due to solar heating and light-driven metabolism.
 The mean temporal and spatial ranges of temperature and pH were positively
 correlated across all sites, with different regimes of variability
 observed in different reef types. Ultimately, depth was a reliable
 predictor of the average diel ranges in both seawater temperature and pH.
 These results demonstrate there is widespread environmental variability on
 diel timescales within coral reefs related to water column depth, which
 needs to be included in assessments of how global change will locally
 affect reef ecosystems.
description: Temperature and pH time
 series from coral reefsData was collected in
 coral reefs using SeapHOx and SeaFET instruments. Data is in MATLAB
 format. See Metadata file for more information.ReefSeapHOx.matData from: Diel temperature and pH variability scale with depth across diverse coral reef habitats.Data was collected in coral reefs using SeapHOx and SeaFET instruments. Data is in MATLAB format. See metadata file for more information.ReefSeapHOxData.mat
DOI: 10.5061/dryad.8c1g8jf
title: Data from: Host plant-related genomic differentiation in the European cherry fruit fly, Rhagoletis cerasi (L., 1758) (Diptera: Tephritidae)

description: Elucidating the mechanisms and conditions facilitating the formation of
 biodiversity are central topics in evolutionary biology. A growing number
 of studies imply that divergent ecological selection may often play a
 critical role in speciation by counteracting the homogenising effects of
 gene flow. Several examples involve phytophagous insects, where divergent
 selection pressures associated with host plant shifts may generate
 reproductive isolation, promoting speciation. Here, we use ddRADseq to
 assess the population structure and to test for host-related genomic
 differentiation in the European cherry fruit fly, Rhagoletis cerasi (L.,
 1758) (Diptera: Tephritidae). This tephritid is distributed throughout
 Europe and western Asia, and has adapted to two different genera of host
 plants, Prunus spp. (cherries) and Lonicera spp. (honeysuckle). Our data
 imply that geographic distance and geomorphic barriers serve as the
 primary factors shaping genetic population structure across the species
 range. Locally, however, flies genetically cluster according to host
 plant, with consistent allele frequency differences displayed by a subset
 of loci between Prunus and Lonicera flies across four sites surveyed in
 Germany and Norway. These 17 loci display significantly higher FST values
 between host plants than others. They also showed high levels of linkage
 disequilibrium within and between Prunus and Lonicera flies, supporting
 host-related selection and reduced gene flow. Our findings support the
 existence of sympatric host races in R. cerasi embedded within broader
 patterns of geographic variation in the fly, similar to the related apple
 maggot, Rhagoletis pomonella, in North America.
description: Data and Rscripts for
 Rhagoletis cerasi ddRADSeq analysisThis entry contains 1.
 Rscripts of analyses for population structure and for host plant-related
 differentiation in Rhagoletis cerasi (Scripts and input files are
 organised in folders), 2. a full STACKS catalog sequence generated from
 Rhagoletis cerasi RADSeq data, 3. An alignment file (in BAM format) that
 was generated by mapping Rhagoletis cerasi ddRADSeq DNA reads to the
 STACKs catalog.Dryad_VidBakovic.zip
DOI: 10.5061/dryad.644cp2q
title: Data from: Aphid cards – useful model for assessing predation rates or bias prone nonsense?

description: Predation on pest organisms is an essential ecosystem function supporting
 yields in modern agriculture. However, assessing predation rates is
 intricate and they can rarely be linked directly to predator densities or
 functions. We tested whether sentinel prey aphid cards are useful tools to
 assess predation rates in the field. Therefore, we looked at aphid cards
 of different sizes on the ground level as well as within the vegetation.
 Additionally, by trapping ground dwelling predators, we examined whether
 obtained predation rates could be linked to predator densities and traits.
 Predation rates recorded with aphid cards were independent of aphid card
 size. However, predation rates on the ground level were three times higher
 than within the vegetation. We found both predatory carabid activity
 densities as well as community weighted mean body size to be good
 predictors for predation rates. Predation rates obtained from aphid cards
 are stable over card type and related to predator assemblages. Aphid cards
 therefore are a useful, efficient method for rapidly assessing the
 ecosystem function predation. Their use might especially be recommended
 for assessments on the ground level and when time and resource limitations
 rule out more elaborate sentinel prey methods using exclosures with living
 prey animals.
description: aphid_predationTable specifying for each aphid card of each size (cardsize), plot and interval how many aphids were consumed (aphids_taken) and how many remained (aphids_left).carabid_speciesTable stating the carabid beetles species found in each pitfall trap on each plot and sampling interval with abundances of the species.
DOI: 10.5061/dryad.9pc7mj1
title: Data from: Photocatalytic Inactivation of E. coli under UV Light Irradiation using Large Surface Area Anatase TiO2 Quantum Dots

description: In this study, high specific surface area of anatase TiO2 quantum dots
 were successfully synthesized through a novel one-step
 microwave-hydrothermal method in rapid synthesis time (20 min) without
 further heat treatment. XRD analysis and HR-TEM images showed that the
 as-prepared TiO2 quantum dots of ~2 nm size have high crystallinity with
 anatase phase. Optical properties showed that the energy band-gap (Eg) of
 as-prepared TiO2 quantum dots was 3.60 eV, which is higher than the
 standard TiO2 bandgap, which might be due to the quantum size effect.
 Raman studies showed shifting and broadening of the peaks of TiO2 quantum
 dots due to the reducing of the crystallite size. The obtained BET
 specific surface area (381 m2/g) of TiO2 quantum dots is greater compared
 to the surface area (181 m2/g) of commercial TiO2 nanoparticles. The
 photocatalytic activities of TiO2 quantum dots were conducted by the
 inactivation of E. coli under ultraviolet light irradiation and compared
 with commercially available anatase TiO2 nanoparticles. The photocatalytic
 inactivation ability of E. coli was estimated to be 91% at 60 μg/ml for
 TiO2 quantum dots, which is superior to the commercial TiO2 nanoparticles.
 Hence, the present study provides new insight into the rapid synthesis of
 TiO2 quantum dots without any annealing treatment to increase the
 absorbance of ultraviolet light for superior photocatalytic inactivation
 ability of E. coli.
description: XRD-TiO2XRD
DOI: 10.5061/dryad.88p5jh5
title: Data from: Models of community-based primary care for epilepsy in low and middle income countries

description: Objective: To review systematically community-based primary care
 interventions for epilepsy in low and middle income countries to
 rationalize approaches and outcome parameters in relation to epilepsy care
 in these countries. Methods: A systematic search of PubMed, EMBASE, Global
 Index Medicus, CINAHL and Web of Science was undertaken to identify trials
 and implementation of provision of anti-seizure medications, adherence
 reinforcement and/or healthcare provider or community education in
 community-based samples of epilepsy. Data on populations addressed,
 interventions and outcomes were extracted from eligible articles. Results:
 Twenty-four reports were identified, mostly care programs addressing
 active convulsive epilepsy. Phenobarbital has been used most frequently
 though other conventional antiseizure medications have also been used but
 none of the newer. Tolerability rates in these studies are high but
 overall, attrition is considerable. Other approaches have included
 updating primary health care providers, reinforcing treatment adherence in
 clinics and raising community awareness. The coverage of existing
 treatment gap in the community, epilepsy-related mortality and comorbidity
 burden are fleetingly addressed in these programs. Conclusions: The
 cost-free provision, mostly of phenobarbital has resulted in short-term
 seizure freedom in roughly half of the people with epilepsy in LMICs.
 Future programs should include a range of antiseizure medications. These
 should cover apart from seizure control and treatment adherence, primary
 healthcare provider education, raising community awareness and referral
 protocols for specialist care. The programs should ensure sustainability
 and impact assessment at a community level.
description: Supplement_epilepsy_care_review_systematic_review_GS_25082019This file contains: eTable 1: Summary of Search Results; Page 2 eTable 2: Search strategy for the databases searched; Page 6 eTable 3: Risk of Bias assessment of individual studies; Page 3 eTable 4: Study characteristics; Page 7
DOI: 10.5061/dryad.v314nd6
title: Optimizing Coastal Restoration with the Stress Gradient Hypothesis

description: Restoration efforts have been escalating worldwide in response to
 widespread habitat degradation. However, coastal restoration attempts
 notoriously vary in their ability to establish resilient, high-functioning
 ecosystems. Conventional restoration attempts disperse transplants in
 competition-minimizing arrays, yet recent studies suggest that clumping
 transplants to maximize facilitative interactions may improve restoration
 success. Here, we modify the Stress Gradient Hypothesis to generate
 predictions about where each restoration design will perform best across
 environmental stress gradients. We then test this conceptual model with
 field experiments manipulating transplant density and configuration across
 dune elevations and latitudes. In hurricane-damaged Georgia (USA) dunes,
 grass transplanted in competition-minimizing (low density, dispersed)
 arrays exhibited the highest growth, resilience to disturbance, and dune
 formation in low stress conditions. In contrast, transplants survived best
 in facilitation-maximizing (high density, clumped) arrays in high stress
 conditions, but these benefits did not translate to higher transplant
 growth or resilience. In a parallel experiment in Massachusetts where dune
 grasses experience frequent saltwater inundation, fewer transplants
 survived, suggesting that there are thresholds above which intraspecific
 facilitation cannot overcome local stressors. These results suggest that
 ecological theory can be utilized to guide restoration strategies based on
 local stress regimes, maximizing potential restoration success and
 return-on-investment of future efforts.
description: Sea Oat
 DataMeasurements of sea oat
 height and tiller counts for 8 months following experimental
 deploymentSeaOatData.csv
DOI: 10.5061/dryad.h3r3s0r
title: Data from: Modelling the current and future biodiversity distribution in the Chilean Mediterranean Hotspot. The role of protected areas network in a warmer future

description: Aim: Mediterranean Chile is part of the five recognized Mediterranean-type
 climates in the world and harbors a very rich floral diversity. Climate
 change has been reported as a significant threat to its biodiversity. We
 used the flora of Mediterranean Chile to analyze how biodiversity
 patterns, as measured by Phylogenetic Diversity, genus and species
 richness will respond to climate change scenarios and identify the areas
 that will harbor the greatest evolutionary potential and biodiversity
 richness. We also evaluated how these spatial patterns are depicted within
 the current network of protected areas. Location: Chilean Mediterranean
 climate-type Region, South America. Methods: Biodiversity metrics were
 evaluated for current and future climatic scenarios. Species distribution
 models were done using Maxent for 1.727 species and 571 genera.
 Relationships between species/genera gain, loss and turnover were
 evaluated. For Mediterranean endemic species, loss and gain was also
 related to life form. Finally, variation in species gain, loss and
 turnover was evaluated in future climate change scenarios within and
 outside Mediterranean Chile state protected areas. Results: We found a
 general decrease in species richness in the entire Region toward future
 climate change scenarios. Phylogenetic Diversity is predicted to be higher
 than expected by richness in the north and south of the area, and lower
 than expected by richness in the Andes mountain. The highest average
 species and genus loss is predicted to occur outside the protected areas,
 meanwhile species and genus gain is higher within them. Main conclusions:
 Future biodiversity patterns are reported here for the first time in the
 Chilean Mediterranean Region. Our findings enhance the importance of the
 current protected areas to harbor this future variation, despite their
 reduced number and size along the region.
description: Modeled current and
 future biodiversity patterns under two climate change scenarios in the
 Chilean Mediterranean Hotspot (Fuentes-Castillo et al. Diversity and
 Distributions)Raster TIF files for
 current and future biodiversity patterns in the Chilean Mediterranean
 Hotspot under two climate change scenarios (CSIRO-MK3 RCP2.6 &
 RCP8.5): (1) Phylogenetic Diversity (PD), Genus Richness (GR), Species
 Richness (SR). (2) Normalized discrepancy between PD and GR. (3) Species
 & Genus gain, loss, and turnover.Current_and_Future_Biodiversity_patterns_MedChile.rar
DOI: 10.5061/dryad.v3fb667
title: Data from: Warm and out of breath: thermal phenotypic plasticity in oxygen supply

description: 1. Aquatic ectotherms face a challenge of obtaining sufficient oxygen, and
 it is commonly claimed that this challenge increases with increasing
 environmental temperature, causing concerns about the fate of aquatic
 ecosystems under climate change. 2. However, the oxygen challenge
 hypothesis often ignores the effect of known phenotypic plastic responses.
 These can occur on either a within- or multigenerational scale, where
 multiple reactions act in concert to increase oxygen supply in response to
 increased temperature in a wide range of traits (molecular, egg content,
 behaviour, cell structures, morphology). 3. Here we combine a novel
 modelling approach with empirical measurements that enable quantification
 of how both the oxygen supply (maximum oxygen diffusion rate) and demand
 (metabolic rate) is affected by temperature while allowing for phenotypic
 plasticity. 4. We exposed the aquatic ectotherm Daphnia magna to a range
 of temperatures (17-28 °C) over several asexual generations and confirm
 that phenotypic plasticity contributes to an increased ability to obtain
 oxygen on the whole organism level at high temperatures. 5. This response
 is strongest within the highest temperature range (22-28 °C), where the
 change in oxygen challenge is expected to be most pronounced. However, the
 observed thermal plasticity in oxygen supply failed to compensate for the
 increased demand. 6. Thus, we provide empirical evidence that the oxygen
 challenge in aquatic ectotherms increases with increasing temperature,
 even in the presence of phenotypic plasticity in oxygen supply.
description: Individual respiration
 and o2crit dataPlease read methods in
 the main article, as well as sheet 2 where column variable names are
 explained. R script for data analysis available upon
 request.all
 data.xlsx
DOI: 10.5061/dryad.0fg8g9h
title: Data from: Conserved visual sensitivities across divergent lizard lineages that differ in an ultraviolet sexual signal

description: The sensory drive hypothesis predicts the correlated evolution of
 signalling traits and sensory perception in differing environments. For
 visual signals, adaptive divergence in both colour signals and visual
 sensitivities between populations may contribute to reproductive isolation
 and promote speciation, but this has rarely been tested or shown in
 terrestrial species. We tested whether opsin protein expression differs
 between divergent lineages of the tawny dragon (Ctenophorus decresii) that
 differ in the presence/absence of an ultraviolet sexual signal. We
 measured the expression of four retinal cone opsin genes (SWS1, SWS2, RH2,
 LWS) using droplet digital PCR. We show that gene expression between
 lineages does not differ significantly, including the UV wavelength
 sensitive SWS1. We discuss these results in the context of mounting
 evidence that visual sensitivities are highly conserved in terrestrial
 systems. Multiple competing requirements may constrain divergence of
 visual sensitivities in response to sexual signals. Instead, signal
 contrast could be increased via alternative mechanisms, such as background
 selection. Our results contribute to a growing understanding of the roles
 of visual ecology, phylogeny, and behaviour on visual system evolution in
 reptiles.
description: Opsin gene expression
 dataDong-etal-2019-Opsin.csvR Markdown statistical analysesDong_etal-2019-R.pdfreadme
DOI: 10.5061/dryad.vb68g9d
title: Data from: Larval assemblages over the abyssal plain in the Pacific are highly diverse and spatially patchy

description: Abyssal plains are among the most biodiverse yet least explored marine
 ecosystems on our planet, and they are increasingly threatened by human
 impacts, including future deep seafloor mining. Recovery of abyssal
 populations from the impacts of polymetallic nodule mining will be
 partially determined by the availability and dispersal of pelagic larvae
 leading to benthic recolonization of disturbed areas of the seafloor. Here
 we use a tree-of-life (TOL) metabarcoding approach to investigate the
 species richness, diversity, and spatial variability of the larval
 assemblage at mesoscales across the abyssal seafloor in two mining-claim
 areas in the eastern Clarion Clipperton Fracture Zone (CCZ; abyssal
 Pacific). Our approach revealed a previously unknown taxonomic richness
 within the meroplankton assemblage, detecting larvae from 12 phyla, 23
 Classes, 46 Orders, and 65 Families, including a number of taxa not
 previously reported at abyssal depths or within the Pacific Ocean. A novel
 suite of parasitic copepods and worms were sampled, from families that are
 known to associate with other benthic invertebrates or demersal fishes as
 hosts. Larval assemblages were patchily distributed at the mesoscale, with
 little similarity in OTUs detected among deployments even within the same
 30 x 30 km study area. Our results provide baseline observations on larval
 diversity prior to polymetallic nodule mining in this region, and
 emphasize our overwhelming lack of knowledge regarding larvae of the
 benthic boundary layer in abyssal plain ecosystems.
description: OTU_Table_AbundInfo_AllOverview (1 tab for each marker) of presence/absence of OTUs at sampling stations.OTU_Table_TaxInfo_AllTaxonomic identity of each OTU (1 tab for each marker)18S_V1_2.OTUrepsequencesRepresentative nucleotide sequence of each OTU captured with the 18S_V1&2 marker18S_V7_8.OTUrepsequencesRepresentative nucleotide sequence of each OTU captured with the 18S_V7&8 markermtCOI.OTUrepsequencesRepresentative nucleotide sequence of each OTU captured with the mtCOI marker.