cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.70rxwdbwh
title: Stochastic processes and ecological connectivity drive stream invertebrate community responses to short-term drought

description: 1. Community responses to and recovery from disturbances depend on local
 (e.g. presence of refuges) and regional (connectivity to recolonization
 sources) factors. Droughts are becoming more frequent in boreal regions,
 and are likely to constitute a severe disturbance for boreal stream
 communities where organisms largely lack adaptations to such hydrological
 extremes. 2. We conducted an experiment in 24 seminatural stream flumes to
 assess the effects of local and regional factors on the responses of
 benthic invertebrate communities to a short-term drought. We manipulated
 flow (drought vs. constant-flow), spatial arrangement of leaf litter
 patches (aggregated vs. evenly distributed) and colonization from regional
 species pool (enhanced vs. ambient connectivity) to test the combined
 effects of disturbance, connectivity, and resource arrangement on the
 structural and functional responses of benthic invertebrate communities.
 3. We found that a drought as short as one week reduced invertebrate
 richness and abundances, mainly through stochastic extinctions. Such
 changes in richness were not reflected in functional diversity. This
 suggests that communities were characterized by a high degree of
 functional redundancy, which allowed maintenance of functional diversity
 despite species losses. Feeding groups responded differently to drought,
 with organic matter decomposers responding more than scrapers and
 predators. 4. Three weeks was insufficient for a complete invertebrate
 community recovery from the drought. However, recovery was greater in
 channels subjected to enhanced connectivity, which increased taxonomic
 diversity and abundance of certain taxa. Spatial configuration of
 resources explained the least variation in our response variables, having
 a significant effect only on invertebrate abundance and evenness (both
 sampling occasions) and species richness (end of recovery period). 5. Even
 a short drought, if occurring late to the season, may not allow
 communities to recover before the onset of winter, thus having a
 potentially long-lasting effect on stream communities. For boreal
 headwaters, extreme dewatering poses a novel disturbance regime that may
 trigger substantial and potentially irreversible changes. An improved
 understanding of such changes is needed to underpin adaptive management
 strategies in these increasingly fragmented and disturbed ecosystems.
 18-Dec-2020
DOI: 10.7280/d1xx1c
title: Data for: Topological defects produce kinks in biopolymer filament bundles

description: Bundles of stiff filaments are ubiquitous in the living world, found both
 in the cytoskeleton and in the extracellular medium. These bundles are
 typically held together by smaller cross-linking molecules. We
 demonstrate, analytically, numerically, and experimentally, that such
 bundles can be kinked, that is, have localized regions of high curvature
 that are long-lived metastable states. We propose three possible
 mechanisms of kink stabilization: a difference in trapped length of the
 filament segments between two cross-links, a dislocation where the
 endpoint of a filament occurs within the bundle, and the braiding of the
 filaments in the bundle. At a high concentration of cross-links, the last
 two effects lead to the topologically protected kinked states. Finally, we
 explore, numerically and analytically, the transition of the metastable
 kinked state to the stable straight bundle.
description: Data is divided into Experimental results and Simulation
 results.  For "Experiment-images.zip": Images
 reconsituted collagen were taken using Olympus Fluoview 1200 system with
 60x oil 1.45 NA objective.  For "Simulation
 results": Data has been split into 31 zip files. Once unzipped files
 are divided into /input/ and /output/.
description: Further detail can be found in attached readme files
 ("readme_simulation_data.txt" and
 "ExperimentREADME.txt") and in the full
 publication, https://doi.org/10.1073/pnas.2024362118.
   Compressed archives can be unzipped with
 7zip.
DOI: 10.15468/dl.fqbntk
title: Occurrence Download

description: A dataset containing 30 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((100.85002 -1.59013,102.24532 -1.59013,102.24532 -0.21773,100.85002 -0.21773,100.85002 -1.59013))",
 "HasGeospatialIssue is false",
 "IucnRedListCategory is NT",
 "OccurrenceStatus is Present",
 "Year 2015-2026"
 ]
}

 The dataset includes 30 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002715-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.d51c5b025
title: Cold tolerance of laboratory-reared Asian longhorned beetles

description: Low winter temperatures in temperate climates can limit the success of
 non-native species. The Asian longhorned beetle, Anoplophora glabripennis,
 is an invasive wood-boring pest of hardwood trees in North America and
 Europe. Native A. glabripennis populations are spread across several
 climate zones in China and the Korean Peninsula and are likely to
 encounter low temperatures in at least some of this range. Understanding
 the lethal limits of the overwintering life stages of A. glabripennis is
 essential for accurately modeling the risk that invasive populations pose
 to non-native environments. In this study, we provide the first systematic
 characterization of the cold tolerance strategy and lower lethal limits of
 A. glabripennis eggs, larvae, and pupae. In diapausing larvae, the most
 common overwintering stage in this species, we measure hemolymph glycerol
 and osmolality and identify the effects of prolonged low temperature
 exposure. In developing pupae, we identify sublethal effects caused by low
 temperature exposure before freezing. Eggs and larvae were the most
 cold-tolerant life stages; eggs were freeze-avoidant with an average
 supercooling point of -25.8 °C and larvae were freeze tolerant with an
 LT90 of -25 °C. Hemolymph osmolality of freeze-tolerant larvae, on
 average, increased to 811 mOsm during chilling. This increase was
 primarily driven by a concurrent, average increase of 232 mM hemolymph
 glycerol. Pupae died upon exposure to freezing temperatures, but
 accumulate strong sublethal effects prior to freezing, indicating that
 they are chill susceptible. Taken together, these data will be useful to
 inform species distribution modeling in A. glabripennis.
DOI: 10.5068/d1j67r
title: Collective decision-making when quantity is more important than quality: Lessons from a kidnapping social parasite

description: Identifying the general principles that shape mechanisms of collective
 decision-making requires studies that span a diversity of ecological
 contexts. However, collective decision-making has only been explored in a
 handful of systems. Here, I investigate the ecologically mediated costs
 and benefits of collective-decisions by socially parasitic kidnapping ants
 (Temnothorax americanus) over where to launch raids to steal host brood. I
 first investigate their sampling strategies and preferences with
 choice-tests. Using more realistic spatial scales, I confirm the findings
 of others that colonies use a sequential choice strategy, and do not
 compare options simultaneously. I then ask which ecological conditions
 could favor the evolution of this strategy by testing the following
 hypotheses from optimal foraging and mate choice theories: (1) raiding
 decisions are time constrained or (2) search payoffs are low due to
 resource uniformity. Spatial distribution and phenological data on nest
 contents support the first hypothesis. Host nests contain an optimal ratio
 of brood and workers for a brief period relative to discovery rates.
 Colonies, therefore, benefit from raiding most nests they find in this
 period rather than deliberating over the best choice, favoring host
 quantity over quality. These findings contrast with best-of-n collective
 decision-making in other systems and demonstrate that ecological
 constraints on information acquisition can alter how collectives process
 information.
description: See attached README pdf file for usage notes.
DOI: 10.5061/dryad.xgxd254fg
title: Data from: Neural pathways of autonomic reflexes in familial autonomic ganglionopathy

description: Objective: We determined the molecular basis of a new monogenetic
 recessive disorder that results in familial neurogenic orthostatic
 hypotension (nOH) with impaired sympathetic (SNS) and parasympathetic
 (PNS) activity. Methods: Two adult siblings from one family (I-4, I-5) and
 an another subject from a second family (II-3) presented with severe nOH,
 poor compensatory increase in heart rate, small non-reactive pupils and
 constipation. All three affected members had low norepinephrine levels and
 diffuse autonomic failure. Results: Whole exome sequencing of DNAs from
 subjects (I-4, I-5) showed compound heterozygosity for c.907_908delCT
 (p.L303Dfs*115) /c.688G&gt;A (p.D230N) pathologic variants in the
 acetylcholine receptor, neuronal nicotinic, alpha 3 subunit (CHRNA3) gene.
 The II-3 from the second family was homozygous for the same frameshift(fs)
 variant (p.L303Dfs*115// p.L303Dfs*115). The CHRNA3 is a subunit of
 nicotinic acetylcholine receptors (nAChRs) that regulate SNS and PNS
 activity through fast synaptic transmission in the autonomic ganglia. The
 fs variant is obviously pathogenic and the p.D230N variant is predicted to
 be damaging (SIFT)/probably damaging (PolyPhen2). The p.D230N variant lies
 on the interface between CHRNA3 and other nAChR subunits based on
 structural modeling and is predicted to destabilize the nAChR pentameric
 complex. Conclusions: We report a novel genetic disease that affected
 three individuals from two unrelated families who presented with nOH and
 diffuse autonomic failure. These subjects had rare pathologic variants in
 the CHRNA3 gene that co-segregate with and are predicted to be the likely
 cause of their SNS and PNS failure.
DOI: 10.5061/dryad.s4mw6m95n
title: Data from: Horizontal Transmission of the Heritable Protective Endosymbiont Hamiltonella defensa Depends on Titre and Haplotype

description: Secondary endosymbionts of aphids have an important ecological and
 evolutionary impact on their host, as they provide resistance to natural
 enemies but also reduce the host’s lifespan and reproduction. While
 secondary symbionts of aphids are faithfully transmitted from mother to
 offspring, they also have some capacity to be transmitted horizontally
 between aphids. Here we explore whether 11 isolates from 3 haplotypes of
 the secondary endosymbiont Hamiltonella defensa differ in their capacity
 for horizontal transmission. These isolates vary in the protection they
 provide against parasitoid wasps as well as the costs they inflict on
 their host, Aphis fabae. We simulated natural horizontal transmission
 through parasitoid wasps by stabbing aphids with a thin needle and
 assessed horizontal transmission success of the isolates from one shared
 donor clone into three different recipient clones. Specifically, we asked
 whether potentially costly isolates reaching high cell densities in aphid
 hosts are more readily transmitted through this route. This hypothesis was
 only partially supported. While transmissibility increased with titre for
 isolates from two haplotypes, isolates of the H. defensa haplotype 1 were
 transmitted with greater frequency than isolates of other haplotypes with
 comparable titres. Thus, it is not sufficient to be merely
 frequent—endosymbionts might have to evolve specific adaptations to
 transmit effectively between hosts.
description: Explanation for the variable names in the two data files
 "Pinprick_data.txt" and "Pinprick_qPCR_results.txt"
 are given in the Read_me.txt. The statistical analysis is provided in the
 R_script_Frontiers.txt (can be used as an .Rmd file).
DOI: 10.5061/dryad.9s4mw6mff
title: Prospective Quantification of CSF Biomarkers in Antibody-Mediated Encephalitis

description: Objective: To determine whether neuronal and neuroaxonal injury,
 neuroinflammation, and synaptic dysfunction associate with clinical course
 and outcomes in antibody-mediated encephalitis (AME), we measured
 biomarkers of these processes in CSF from patients presenting with AME and
 cognitively normal individuals. Methods: Biomarkers of neuronal
 (total tau, VILIP-1) and neuroaxonal damage (neurofilament light chain
 [NfL]), inflammation (YKL-40), and synaptic function (neurogranin,
 SNAP-25) were measured in CSF obtained from 45 patients at the time of
 diagnosis of NMDA receptor (n = 34) or LGI1/CASPR2 (n = 11) AME and 39
 age- and sex-similar cognitively normal individuals. The association
 between biomarkers and modified Rankin Scale (mRS) scores were evaluated
 in a subset (n = 20) of longitudinally followed patients.
 Results: Biomarkers of neuroaxonal injury (NfL) and
 neuroinflammation (YKL-40) were elevated in AME cases at presentation,
 whereas markers of neuronal injury and synaptic function were stable
 (total tau) or decreased (VILIP-1, SNAP-25, neurogranin). The
 log-transformed ratio of YKL-40/SNAP-25 optimally discriminated patients
 from cognitively normal individuals (area under the receiver operating
 characteristic curve 0.99; 95% confidence interval 0.97, &gt;0.99).
 Younger age (ρ = −0.56; p = 0.01), lower VILIP-1 (ρ = −0.60; p &lt;
 0.01) and SNAP-25 (ρ = −0.54; p = 0.01), and higher log10(YKL-40/SNAP-25)
 (ρ = 0.48; p = 0.04) associated with greater disease severity (higher mRS
 score) in prospectively followed patients. Higher YKL-40 (ρ = 0.60; p =
 0.02) and neurogranin (ρ = 0.55; p = 0.03) at presentation were associated
 with higher mRS scores 12 months following hospital discharge.
 Conclusions: CSF biomarkers suggest that neuronal integrity is
 acutely maintained in AME, despite neuroaxonal compromise. Low levels of
 biomarkers of synaptic function may reflect antibody-mediated
 internalization of cell surface receptors and may represent an acute
 correlate of antibody-mediated synaptic dysfunction, with the potential to
 inform disease severity and outcomes.
DOI: 10.5061/dryad.s7h44j15v
title: The Thr92Ala-DIO2 polymorphism affects outcomes in LT4-treated women

description: Context: The Thr92Ala-DIO2 polymorphism may affect hypothyroid patients’
 responses to levothyroxine (LT4) treatment. Objective: To study whether
 the Thr92Ala-DIO2 polymorphism affects hypothyroid patients’ responses to
 levothyroxine (LT4) treatment. Design: Secondary analysis of a randomized
 intervention study. Setting: Primary care center. Patients or Other
 Participants: 109 hypothyroid women aged 21-70 years with normal TSH
 levels grouped in homozygous Thr92-DIO2 (THR; n=39) and homozygous
 Ala92-DIO2 plus heterozygous (ALA; n=70) groups. Intervention: Change in
 LT4 dose. Main Outcome Measure: Cognitive testing examined declarative
 memory (paragraph recall) and executive function (letter cancelation,
 trail making, Iowa gambling task, N-back number correct/incorrect, and
 subject ordered pointing). Mood and health status were assessed with the
 profile of mood states (POMS) questionnaire, affective lability scale
 (ALS), and thirty-six item short-form health survey (SF-36). Results: At
 baseline THR subjects had better memory scores vs. ALA subjects on the
 2-back number correct test; ALA subjects performed better with the POMS,
 ALS, and SF-36 surveys relative to the THR group (controlling for age,
 sex, and education). Reassessment revealed lower LT4 dose did not change
 the existing cognitive differences between THR and ALA individuals. Lower
 LT4 worsened the performance of ALA patients, eliminated differences in
 POMS and ALS, and minimized differences in SF-36. An increase in LT4 dose
 did not affect existing differences between groups. Conclusions: Results
 suggest carrying the Thr92Ala-DIO2 polymorphism could be a factor to
 consider when planning treatment for hypothyroidism and assessing
 outcomes. Further studies with larger cohorts are needed to confirm these
 results. 
description: Data collected through psychological testing. Processed through
 basic statistical analyses. 
description: Data sets are complete.
DOI: 10.25338/b8ws6r
title: Data for project: Discontinuance among California’s electric vehicle buyers: Why are some consumers abandoning their electric vehicles?

description: For the market introduction of electric vehicles to be successful
 first-time adopters need to make continual purchases of the vehicles.
 Discontinuance, the act of abandoning a new technology after once being an
 adopter, has implications for market growth and could prevent electric
 vehicles ever reaching 100% market share. In December 2019 we resurveyed
 PEV owning housholds who we have prfeviously surveyed in 4 seperate cohort
 surveys. The data is from 5 survyes. The 5 questionnaire surveys
 conducted between 2015 and 2019 include 4 cohort surveys and a final panel
 survey where respondents are recruited form one of the first 4
 surveys. The initial questionnaire surveys were conducted in
 2015, 2016, 2017, and 2018. These surveys recruited households in
 California who purchased a PEV between 2012 and 2018. The California Air
 Resources Board helped in recruitment by sending survey invites to
 households who applied for a California Clean Vehicle Rebate. The final
 fifth survey was conducted in December 2019.
description: Data collection was via email addressed, the survey was online
 using lime survey platform. For more inforomation contact
 shardman@ucdavis.edu. Or see publication: project report link
 pending.
description: Only three demographic varibles are included as per regulations
 on indirect identifiers and human subject research
DOI: 10.5061/dryad.qnk98sfff
title: Reproductive character displacement and potential underlying drivers in a species-rich and florally diverse lineage of tropical angiosperms (Ruellia; Acanthaceae)

description: Reproductive character displacement is a pattern whereby sympatric
 lineages diverge more in reproductive character morphology than allopatric
 lineages. This pattern has been observed in many plant species, but
 comparably few have sought to disentangle underlying mechanisms. Here, in
 a diverse lineage of Neotropical plants (Ruellia; Acanthaceae), we present
 evidence of reproductive character displacement in a macroevolutionary
 framework (i.e., among species) and document mechanistic underpinnings. In
 a series of inter-specific hand pollinations in a controlled glasshouse
 environment, we found that crosses between species that differed more in
 overall flower size, particularly in style length, were significantly less
 likely to produce viable seeds. Further, species pairs that failed to set
 seed were more likely to have sympatric distributions in nature.
 Competition for pollinators and reinforcement to avoid costly
 inter-specific mating could both result in these patterns and are not
 mutually exclusive processes. Our results add to growing evidence that
 reproductive character displacement contributes to exceptional floral
 diversity of angiosperms.
DOI: 10.5061/dryad.73n5tb2w8
title: Panicum hallii RIL population (HAL2 X FIL2 ) genetic map

description: This project represents the method of constructing genetic map for the
 Panicum hallii Recombinant Inbreed Line (RIL) population. This population
 is a cross between one inland (HAL2) and one coastal (FIL2) natural
 accession of P. hallii. This map compromise of 441 RIL individuals
 genotyped for 901 markers.  The raw sequences  for RIL
 individuals are available in NCBI SRA archive Umbrella project
 PRJNA701489.  
description: This data submitted here in this project is in R/qtl format.
DOI: 10.5061/dryad.cnp5hqc3t
title: Legacy effect of grazing intensity mediates the bottom-up controls of resource addition on soil food webs

description: 1. Large-scale studies have demonstrated that nitrogen (N) and water (W)
 availability greatly affect terrestrial ecosystems worldwide, and this is
 especially true for the resource-poor semi-arid grasslands. Yet,
 experimental evidence is lacking for how N and W availability affect soil
 food webs across historical grazing intensity-altered environments at a
 local scale. 2. Here, we included N- and W-addition treatments in an
 8-year grazing experiment (with four grazing intensities) to determine how
 the legacy effects of grazing intensity mediate the responses of key
 components of soil food webs (plants, microorganisms, and nematodes) to
 resource addition in a semi-arid grassland. 3. After 4 years of N- and
 W-addition treatments (with no grazing during that 4-year period), we
 found that a legacy of grazing, even light grazing, had significant
 negative effects on the components of plant community and soil food webs.
 Both N and W addition increased above- and below-ground plant biomass,
 especially under moderate and heavy grazing. N addition had negative
 effects on the biomass of bacteria under no grazing, while W addition
 increased the biomass of actinomycetes under light grazing. N addition
 decreased the abundance of omnivorous + carnivorous nematodes under light
 and heavy grazing, while W addition increased their abundance under heavy
 grazing. Overall, the effects of resource addition on soil food webs
 progressively decreased from the lowest trophic level (primary producers,
 i.e., plants), to intermediate tropic levels (microorganisms and
 root-feeding nematodes), to higher trophic levels (microbial-feeding
 nematodes and omnivorous + carnivorous nematodes). 4. Synthesis and
 applications. Our results, which are the first data concerning the effects
 of resource addition on key components of soil food webs across a
 historical grazing-induced environmental gradient, show that the strong
 bottom-up controls of resource addition on soil food webs are mediated by
 the legacy of grazing intensity. These finding should be useful for
 predicting the responses of grassland ecosystems to future climate change
 and suggest that the recovery of degraded grasslands will require more
 than restoration measure of resource inputs alone.
DOI: 10.5061/dryad.9p8cz8wfc
title: Data from: Rapid evolution of latitudinal clines in growth and defense of an invasive weed

description: Re-estabishment of heritable latitudinal clines in growth-related traits
 has been recognized as evidence for adaptive evolution in invasive plants.
 However, less is known about latitudinal clines in defense and joint
 clinal evolution of growth and defense in invasive plants. We planted 14
 native Argentinean populations and 14 introduced Chinese populations of
 Aternanthera philoxeroides in repicate common gardens in China. We
 investigated the latitudinal clines of traits related to growth and
 defense, and plasticity of these traits in relation to experiment site and
 soil nitrogen. We found that chemical defense decreased with latitude in
 native populations but increased with latitude in introduced populations.
 For growth rate, latitudinal clines were positive in introduced
 populations but nonexistent in native populations. There were also
 parallel positive latitudinal clines in total/shoot biomass and specific
 leaf area. Experiment site affected the occurrence or magnitude of
 latitudinal clines in growth rate, branch intensity and triterpenoid
 saponins concentration. Introduced populations were more plastic to
 experiment site and soil nitrogen than native populations. We provide
 evidence for rapid evolution of clines in growth and defense in an
 invasive plant. Altered herbivory gradients and trade-off between growth
 and defense may explain non-parallel clines between the native and
 introduced ranges