cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.4xgxd25c9
title: Data from: The origins of cognitive flexibility in chimpanzees

description: Cognitive flexibility is a core component of executive function, a suite
 of cognitive capacities that enables individuals to update their behavior
 in dynamic environments. Human executive functions are proposed to be
 enhanced compared to other species, but this inference is based primarily
 on neuroanatomical studies. To address this, we examined the nature and
 origins of cognitive flexibility in chimpanzees, our closest living
 relatives. Across three studies, we examined different components of
 cognitive flexibility using reversal learning tasks where individuals
 first learned one contingency and then had to shift responses when
 contingencies flipped. In Study 1, we tested n = 82 chimpanzees ranging
 from juvenility to adulthood on a spatial reversal task, to characterize
 the development of basic shifting skills. In Study 2, we tested how
 n  = 24 chimpanzees use spatial versus arbitrary perceptual
 information to shift, a proposed difference between human and nonhuman
 cognition. In Study 3, we tested n = 40 chimpanzees on a probabilistic
 reversal task. We found an extended developmental trajectory for basic
 shifting and shifting in response to probabilistic feedback—chimpanzees
 did not reach mature performance until late in ontogeny. Additionally,
 females were faster to shift than males were. We also found that
 chimpanzees were much more successful when using spatial versus perceptual
 cues, and highly perseverative when faced with probabilistic versus
 consistent outcomes. These results identify both core features of
 chimpanzee cognitive flexibility that are shared with humans, as well as
 constraints on chimpanzee cognitive flexibility that may represent
 evolutionary changes in human cognitive development.
description: Please see manuscript for all methodological details.
description: Please see key tab for all files for specific definitions of
 variables. Cells are left blank on a given trial when the column is not
 applicable to that trial, as indicated for each study below.
 <strong>Study 1:</strong> 
 <em>R1ErrorPhase</em>: This column distinguished
 perseverative and regressive errors in the first reversal phase. It is
 left blank for warm-up trials, learning trials and second reversal phase
 trials. <strong>Study
 2: </strong> 
 <em>RErrorPhase</em>: This column distinguishes perseverative
 and regressive errors in the first reversal phase. It is left blank for
 warm-up trials and learning trials. 
 <strong>Study 3: </strong> <em>RErrorPhase</em>: This
 column distinguishes perseverative and regressive errors in the first
 reversal phase. It is left blank for learning trials. <em>Outcome</em>: This column
 distinguishes reversal trials of chimpanzees who shifted within the
 30-trial limit from those who did not successfully shift. It is left blank
 for learning trials.  
 <em>PriorCorrect</em>, <em>PriorFeedback</em>, and
 <em>SwitchSide</em>: These codes referred to outcomes from the
 prior trial and were therefore blank in the first trial of a given session
 (where there was no prior trial).
DOI: 10.5061/dryad.bk3j9kdfd
title: Earlier spring snowmelt drives arrowleaf balsamroot phenology in montane meadows

description: Climate change is causing global shifts in phenology, altering when and
 how species respond to environmental cues such as temperature and the
 timing of snowmelt. These shifts may result in phenological mismatches
 among interacting species, creating cascading effects on community and
 ecosystem dynamics. Using passive warming structures and snow removal, we
 examined how experimentally increased temperatures, earlier spring
 snowmelt, and the poorly understood interaction between warming and
 earlier spring snowmelt affected flower onset, flowering duration, and
 maximum floral display of the spring flowering montane species, Arrowleaf
 Balsamroot (Balsamorhiza sagittata), over a seven-year period.
 Additionally, potential cumulative effects of treatments were evaluated
 over the study duration. The combination of heating with snow removal led
 to earlier flower onset, extended flowering duration, and increased
 maximum floral display. While there was year-to-year variation in floral
 phenology, the effect of heating with snow removal on earlier onset and
 maximum floral display strengthened over time. This suggests that
 short-term studies likely underestimate the potential for climate change
 to influence phenological plant traits. Overall, this research indicates
 that Balsamorhiza sagittata’s flowering onset responded more strongly to
 snow removal than to heating, but the combination of heating with snow
 removal allowed plants to bloom earlier, longer, and more profusely,
 providing more pollinator resources in spring. If warming and early
 snowmelt cause similar responses in other plant species besides
 Balsamorhiza sagittata, these patterns could mitigate phenological
 mismatches with pollinators by providing a wider window of time for
 interaction and resiliency in the face of change. This example
 demonstrates that a detailed understanding of how spring-flowering plants
 respond to specific aspects of predicted climatic scenarios will improve
 our understanding of the effects of climate change on native
 plant-pollinator interactions in montane ecosystems. Studies like this
 help elucidate long-term physiological effects of climate-induced
 stressors on plant phenology in long-lived forbs.
description: This data was collected from May to July in 2013 through 2019.
 Individual balsamroot plants were monitored every three days from greening
 to full senescence. Flowering onset, flowering duration, and maximum
 floral display data was analyzed using linear mixed effects models and
 generalized mixed effects models with individuals nested within plots as a
 random effect. 
description: There are 271 missing values in this dataset.
DOI: 10.26165/juelich-data/jchcvg
title: Replication Data for: activity-validator - validation framework for activity profiles from behavior models

description: GitHub - IEK-3 Repository: https//github.com/FZJ-IEK3-VSA
DOI: 10.5061/dryad.z8w9ghxf9
title: Incorporation of soil-derived covariates in progeny testing and line selection to enhance genomic prediction accuracy in soybean breeding

description: The availability of high-dimensional molecular markers has allowed plant
 breeding programs to maximize their efficiency through the genomic
 prediction of a phenotype of interest. Yield is a highly complex and
 quantitative trait whose expression is sensitive to environmental stimuli.
 In this research, we investigated the potential of incorporating soil
 texture and its interaction with molecular markers through covariance
 structures to enhance predictive ability. A total of 797 advanced soybean
 breeding lines derived from 367 unique bi-parental populations were
 genotyped using the Illumina Infinium BARCSoySNP6K BeadChip and tested for
 yield for five years in Tiptonville silt loam, Sharkey clay, and Malden
 fine sand environments. Four statistical models were considered, including
 a default GBLUP model (M1), a reaction norm model (M2) accounting for the
 interaction between molecular markers and the environment (GE), an
 expansion of M2 including soil type (S), and the interaction between soil
 type and molecular markers (GS) (M3), and an alternative version of M3
 without the GE term. Four cross-validation scenarios simulating progeny
 testing and line selection were implemented (CV2, CV1, CV0, and CV00).
 Across environments, the addition of GS in M3 decreased the amount of
 variability captured by both the environment (-30.4%) and residual
 (-39.2%) terms as compared to M1. Within environments, the GS term in M3
 reduced the variability captured by the residual term by roughly 60% and
 30% when compared to M1 and M2, respectively. M3 outperformed all models
 in CV2 (0.577), CV1 (0.480), and CV0 (0.488). The addition of soil texture
 seems to structure the environment term revealing its components that
 could enhance or hinder the predictability of a model. The availability of
 soil texture before the growing season may maximize the functionality of
 covariance structures, particularly in scenarios with untested genotypes
 in untested environments. Genomic selection can optimize the efficiency of
 a soybean breeding program by allowing the reconsideration of field
 experimental design, allocation of resources, reduction of preliminary
 trials, and shortening of the breeding cycle.
DOI: 10.5061/dryad.wpzgmsbpx
title: Correlations between dominant vegetation type and composition and diversity of soil bacterial communities in a subtropical forest

description: Single and mixed vegetation types have significant effects on soil
 parameters and the composition and diversity of soil bacterial
 communities. To understand the influence of different vegetation types on
 the structure of soil bacterial community across soil depth in a
 subtropical forest, we assessed the relative abundance of edaphic
 bacterial community and soil parameters, including pH, cation exchange
 capacity (CEC), and dissolved organic carbon (DOC) in Daiyun Mountain
 Nature Reserve in Fujian Province, southeastern China. The study area
 constitutes pine coniferous forest (CF) of pinus taiwanensis, broad-leaved
 forest (BF) of castanopsis fabri, and a mixed forest comprising CF and BF
 (MF). Quantitative PCR and Illumina sequencing of 16S rDNA were used to
 analyze the abundance, diversity, and composition of soil bacteria. The
 results showed that the pH, CEC and diversity of tree species are all
 associated with the composition of the bacterial community in the soil. It
 was found that CEC, soluble organic nitrogen (DON) and pH largely affected
 the structure of soil bacterial community in A horizon, whereas CEC,
 moisture content (MC) and organic phosphorus (OP) affected the structure
 of soil bacterial community in B horizon. We found that the dominant taxa
 in the CF and BF were Proteobacteria and Acidobacteria, respectively. The
 results of both mental and random forest (RF) analyses displayed groups
 according to vegetation types, indicating that the bacterial communities
 in the research site were significantly influenced by vegetation types in
 subtropical forests. The study highlights the ecological effects of forest
 management and elucidates the differences in the functional structure of
 soil bacterial communities under different vegetation types and soil
 depths.
description: The pH of the soil was
 measured using a glass electrode (Starter 300; Ohaus, USA). Samples were shaken for 30
 min in a 1:2.5 soil: water solution (w/v), and soil moisture was assessed by oven drying until
 a constant mass was achieved. The ratio of soil carbon to nitrogen (C/N
 ratio) was determined using an elemental analyzer (Elementar Vario EL III;
 Elementar, Langenselbod, Germany). The soil suspension was first
 centrifuged at 4000 rpm for 10 minutes and filtered through Whatman 42
 filter paper. Dissolved organic carbon (DOC) was determined using
 TOC-VCPH/CPN analyzer (Elementar Analysensystem GmbH, Germany) and
 exchangeable NH4+-N, NO3--N and soluble organic nitrogen (DON) were
 analyzed using a continuous flow analysis system (Skalar SAN++; Breda,
 Netherlands). Soil organic
 P (OP) was measured using cauterization by Carter et al. (2006). Soil
 cation exchange capacity (CEC) was determined using the ammonium acetate
 method (Fan et al., 2019). The data about micro 16s rDNA was sequenced on
 an Illumina HiSeq platform and 250-bp paired-end reads were generated by
 Novogeno Co., Ltd China.
DOI: 10.5061/dryad.w3r2280t3
title: New non-native pseudocryptic Cyclorhipidion species (Coleoptera: Curculionidae: Scolytinae: Xyleborini) found in the United States as revealed in a multigene phylogeny

description: Pseudocryptic species, those that are difficult to diagnose using
 traditional taxonomic methods, are serious impediments for recognizing the
 introduction of non-native species. Rapid identification of species
 facilitates a rapid response to newly introduced species which can lessen
 their damaging effects. This situation is acute for known pest species
 such as xyleborine ambrosia beetles which are difficult to identify given
 minute morphological, often variable, diagnostic characters. These beetles
 have been introduced into non-native temperate regions and have caused
 economic and ecological havoc. In this study, we produced DNA-based
 phylogenies using four genes for individuals of Cyclorhipidion bodoanum
 (Reitter, 1913), C. distinguendum (Eggers, 1930), and C. pelliculosum
 (Eichhoff, 1878) sampled from their introduced and native Asian ranges and
 as well as other Cyclorhipidion species. In addition, we review subtle
 morphological characters for diagnostic potential for these similar
 species. Bayesian phylogenetic analysis produced well-resolved and
 supported phylogeny that provided evidence for multiple introductions of
 C. bodoanum and C. distinguendum into the US and the occurrence of
 pseudocryptic species. The ambrosia beetles Cyclorhipidion tenuigraphum
 (Schedl, 1953) and C. nemesis Smith & Cognato, sp. nov. are
 reported in North America for the first time. We find that the pattern of
 elytral interstrial setae is an unrealized source for the identification
 of Cyclorhipidion species. This study resulted in the recognition of six
 species adventive to the US with the revised status of C. californicum
 (Wood, 1975). All species known from North American are diagnosed,
 illustrated and a key is provided.
description: See associated published study for details.
DOI: 10.5061/dryad.r2280gbfr
title: Remarkable effects of microbial factors on soil phosphorus bioavailability: a country-scale study

description: Low soil phosphorus (P) bioavailability causes the widespread occurrence
 of P-limited terrestrial ecosystems around the globe. Exploring the
 factors influencing soil P bioavailability at large spatial scales is
 critical for managing these ecosystems. However, previous studies have
 mostly focused on abiotic factors. In this study, we explored the effects
 of microbial factors on soil P bioavailability of terrestrial ecosystems
 using a countrycontinental-scale sampling effort. Our results showed that
 soil microbial biomass carbon (MBC) and acid phosphatase were important
 predictors of soil P bioavailability of agro- and natural ecosystems
 across China although they appeared less important than total soil P. The
 two microbial factors had a positive effect on soil P bioavailability of
 both ecosystem types and were able to mediate the effects of several
 abiotic factors (e.g., mean annual temperature). Meanwhile, we revealed
 that soil phytase could affect soil P bioavailability at the
 countrycontinental scale via ways similar to those of soil MBC and acid
 phosphatase, a pattern being more pronounced in agroecosystems than in
 natural ecosystems. Moreover, we obtained evidence for the positive
 effects of microbial genes encoding these enzymes on soil P
 bioavailability at the countrycontinental scale although their effect
 sizes varied between the two ecosystem types. Taken together, this study
 demonstrated the remarkable effects of microbial factors on soil P
 bioavailability at a large spatial scale, highlighting the importance to
 consider microbial factors in managing the widespread P-limited
 terrestrial ecosystems.
DOI: 10.15468/dl.23jhz4
title: Occurrence Download

description: A dataset containing 21 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Etmopterus fusus"
 ]
}

 The dataset includes 21 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003109-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.kwh70rz62
title: Effects of insularity on genetic diversity within and among natural populations

description: We conducted a review of genetic diversity (GD) within and among
 populations in relation to categorical population size and isolation
 (together “insularity”). Using populations from within the same studies,
 we were able to control for between-study variation in methodology, as
 well as demographic and life histories. Contradictory to typical
 expectations, insularity had relatively minor effects on GD within and
 among population, which points to the more important roles of other
 factors in shaping evolutionary processes. Such effects of insularity were
 sometimes seen – particularly in systems (i.e. studies) where GD was
 already high overall. That is, insularity influenced GD in a study system
 when GD was high even in non-insular populations of the same system –
 suggesting an important role for the “scope” of influences on GD. These
 conclusions were more robust for within - population GD than among -
 population GD, although a number of biases might underlie this difference.
 Overall, our findings indicate that population-level genetic assumptions
 need to be tested rather than assumed in nature, particularly for topics
 highly relevant to current conservation management practices.  
description: See Hunt et al. 2022.
description: The dataset is provided as a single spreadsheet file, but would
 need separate sheets to be exported as .csv before import into
 R.
DOI: 10.5061/dryad.98sf7m0m2
title: Data from: Convergent evolution of disordered lipidic structural color in the fruits of Lantana strigocamara (syn. L. camara hybrid cultivar)

description: Research conducted: The majority of plant colors are produced by
 anthocyanin and carotenoid pigments, but coloration obtained by
 nanostructured materials (i.e., structural colors) is increasingly
 reported in plants. Here, we identify a multilayer photonic structure in
 the fruits of Lantana strigocamara and compare it to a previously
 described origin in Viburnum tinus. Methods: We used a
 combination of transmission electron microscopy, serial EM tomography,
 scanning force microscopy, and optical simulations to characterize the
 photonic structure in L. strigocamara. We also examine the development of
 the structure during maturation. Key results: We find that the
 structural color derives from a disordered, multilayered reflector
 consisting of lipid droplets of ~105 nm that form a plate-like structure
 in 3D. This structure begins to form early in development and reflects
 blue wavelengths of light with increasing intensity over time as the
 structure develops. The lipids used are likely polymers of lipid monomers.
 Main conclusions: Lantana strigocamara is the second origin of a
 lipid-based photonic structure, convergently evolved with the structure in
 Viburnum tinus. Chemical differences between the lipids in L. strigocamara
 and those of V. tinus suggest a distinct evolutionary trajectory with
 implications for the signaling function of structural colors in fruits.
description: Samples for TEM imaging were embedded in Epon resin,
 ultramicrotomed to create 80nm thick sections on copper mesh grids, and
 then imaged on an FEI Tecnai T12. Here, we include the full-size images,
 which were rotated and (in some cases) cropped slightly for the purposes
 of visualization in the manuscript.
description: Images have been identified by the panel that they correspond
 with in the original figures in the paper.
DOI: 10.5281/zenodo.18400306
title: SentinelSphere Workshop Questionnaire Data (Aggregated).

description: SentinelSphere Workshop Questionnaire Data (Aggregated).
DOI: 10.6078/d1z71r
title: Endemism, invasion, and overseas dispersal: The phylogeographic history of the Lesser Antillean frog, Eleutherodactylus johnstonei

description: Cryptogenic species, those whose native and introduced ranges are unknown,
 pose a challenge not only to conservation but also to studies of ecology,
 biogeography, and evolution. One such species is the Lesser Antillean
 frog, Eleutherodactylus johnstonei, which is broadly
 distributed through the Caribbean and mainland South America. The Lesser
 Antilles pose a particular challenge with regard to cryptogenic species
 because these islands have been anthropogenically connected since before
 recorded history. We combined genetic (available on Genbank) and
 morphological data to infer the native and introduced ranges of this
 species. We inferred the insland of Montserrat as the native range of E.
 johnstonei.  Furthermore, we identified two major clades of E.
 johnstonei,  only one of which is responsible for the widespread
 introduced range. Based on previous suggestions that body size differed
 across the range of E. johnstonei, we collected
 snout-urostyle length from 98 females and 582 males throughout the range.
 We found that female body size did not differ between clades. Although
 maximum male body size did not differ, on avergae males were larger in the
 eastern clade comrpising the bulk of introduced localities. Our results
 demonstrate the utility of population and phylogeographic tools in
 resolving the cryptogenic species problem.
DOI: 10.5281/zenodo.18400305
title: SentinelSphere Workshop Questionnaire Data (Aggregated).

description: SentinelSphere Workshop Questionnaire Data (Aggregated).
DOI: 10.5061/dryad.mpg4f4r2k
title: Native and invaded plant communities alter tick exposure risk via different mechanistic pathways

description: Plant invasions may alter vector-borne disease risk by modifying
 microclimates that influence vector survival, or by changing habitat
 conditions that determine reservoir host use. Here, we evaluated multiple
 mechanistic pathways by which plant invasion may alter vector-borne
 disease risk using the common disease vector lone star tick (Amblyomma
 americanum) and the widespread invasive cogongrass (Imperata cylindrica)
 in the southeastern USA. Ticks survived over 50% longer in invaded than
 native plant species dominated communities, likely due to lower
 temperature and higher humidity conditions. However, wildlife host
 activity was higher in native than invaded plant species dominated
 communities. As a result, host-seeking tick abundances were similar
 between invaded and native areas, albeit through different mechanisms:
 longer survival maintained tick abundances in invaded areas while greater
 host use maintained tick abundance in native areas. Multiple, potentially
 off-setting mechanistic pathways should be considered when evaluating
 possible effects of invasive plants on vector-borne disease risk.