cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.v19s04p
title: Data from: Dispersion, sedimentation, and aggregation of multi-walled carbon nanotubes as affected by single and binary mixed surfactants

description: Two commonly used dispersants octyl phenol ethoxylate (Triton X-100) and
 sodium dodecyl sulfate (SDS) were employed to explore the effects of
 single or mixed surfactants on the dispersion, sedimentation, and
 aggregation of multi-walled carbon nanotubes (MWCNTs). Nonionic surfactant
 TX100 showed much superior capability to anionic surfactant SDS in
 dispersing MWCNTs due to the benzene ring structure in its tail group. The
 addition of SDS reduced the adsorption of TX100 on the surface of MWCNTs
 and the consequent suspension of MWCNTs. The dispersing ability of
 TX100-SDS binary mixture was between those of individual SDS and TX100.
 The introduction of SDS greatly retarded the sedimentation and aggregation
 of suspended MWCNTs. The critical coagulation concentration (CCC) values
 of suspended MWCNTs dispersed by TX100 (2000 mg/L), SDS (2000 mg/L), and
 TX100-SDS (2000 mg/L of each component) were 48.6, 398, and 324 mM,
 respectively, for the Na+ treatments. The CCC values were much lower for
 Ca2+ treatments, which were 30.4 and 32.1 mM, respectively, for MWCNT
 dispersed by TX100 and TX100-SDS mixture. Overall, these results
 demonstrated that although the introduction of SDS did not improve the
 ability of TX100 in suspending MWCNTs, the suspensions exhibited more
 stable properties than those dispersed by TX100 alone. Our findings have
 important implications on the design of surfactant mixtures and the
 prediction on the behavior and fate of MWCNTs in water environment.
description: data
DOI: 10.5061/dryad.7gc968r
title: Data from: Quantifying terrestrial carbon in freshwater food webs using amino acid isotope analysis—case study with an endemic cave fish

description: 1.Flow of terrestrial carbon though aquatic ecosystems (allochthony) is an
 important but underestimated component of the global carbon cycle. A lack
 of clear consensus about the importance of allochtonous (terrestrial)
 organic carbon is sometimes attributed to uncertainties associated with
 conventional ‘bulk’ isotope data, the most widely used ecological tracer.
 2.Amino acid‐specific isotope analysis is an emerging research method
 promising to address existing limitations of bulk C and N isotope
 analyses. We tested the efficacy of amino acid δ13C data as a
 generalisable measure of allochthony by analysing an aggregated dataset
 (n=168) of primary and secondary data of carbon sources from disparate
 geographical locations across the globe. 3.We found the δ13C fingerprints
 amino acids to be consistently distinct between allochthonous
 (terrestrial) and autochthonous (aquatic) carbon sources. We also found
 that our approach is most effective when we use only essential amino acid
 tracers (i.e., isoleucine, leucine, phenylalanine, threonine, and valine).
 Predictive trends in δ13C fingerprints appear to be largely compatible
 across studies and/or laboratories. 4.As a case study, we used this
 approach to quantify the contribution of terrestrial carbon to an endemic
 cave fish, Cryptotora thamicola, and found that its biomass was comprised
 largely of autochthonous carbon (~75%).
description: Aggregated d13C data and
 metadataSpreadsheet file of d13C
 data and metadata of organic carbon sources. This includes primary data
 collected by the authors of the associated publication, as well as
 secondary data from other publications cited in the
 file.Liew et al_R
 scriptR script written to run
 all statistical analyses detailed in the original
 publication.Fish
 dataAmino acid d13C data of
 a Cryptotora thamicola individual analysed in the original
 publication.Source
 dataSimplified carbon source
 d13C data file for analyses in the R environment.
DOI: 10.5061/dryad.g48v3m0
title: Data from: Large-scale cooperation driven by reputation, not fear of divine punishment

description: Reputational considerations favour cooperation and thus we expect less
 cooperation in larger communities where people are less well-known to each
 other. Some argue that institutions are therefore necessary to co-ordinate
 large-scale cooperation, including moralizing religions that promote
 cooperation through the fear of divine punishment. Here, we use community
 size as a proxy for reputational concerns, and test whether people in
 small, stable communities are more cooperative than people in large, less
 stable communities in both religious and non-religious contexts. We
 conducted a donation game on a large naturalistic sample of 501 people in
 17 communities, with varying religions or none, ranging from small
 villages to large cities in northwestern China. We found that more money
 was donated by those in small, stable communities, where reputation should
 be more salient. Religious practice was also associated with higher
 donations，but fear of divine punishment was not. In a second game on the
 same sample, decisions were private, giving donors the opportunity to
 cheat. We found that donors to religious institutions were not less likely
 to cheat, and community size was not important in this game. Results from
 the donation game suggest donations to both religious and non-religious
 institutions are being motivated by reputational considerations, and
 results from both games suggest fear of divine punishment is not
 important. This chimes with other studies suggesting social benefits
 rather than fear of punishment may be the more salient motive for
 cooperative behaviour in real world settings.
description: Game results used in
 analysisAnonymised dataset
 containing participants in each communities.game experiment
 results_Dryad.xlsx
DOI: 10.5061/dryad.s5g2712
title: Data from: Long-term adult human brain slice cultures as a model system to study human CNS circuitry and disease

description: Most of our knowledge on human CNS circuitry and related disorders
 originates from model organisms. How well such data translate to the human
 CNS remains largely to be determined. Human brain slice cultures derived
 from neurosurgical resections may offer novel avenues to approach this
 translational gap. We now demonstrate robust preservation of the complex
 neuronal cytoarchitecture and electrophysiological properties of human
 pyramidal neurons in long-term brain slice cultures. Further experiments
 delineate the optimal conditions for efficient viral transduction of
 cultures, enabling "high throughput" fluorescence mediated 3D
 reconstruction of genetically targeted neurons at comparable quality to
 state-of-the-art biocytin fillings, and demonstrate feasibility of long
 term live cell imaging of human cells in vitro. This model system has
 implications toward a broad spectrum of translational studies, regarding
 the validation of data obtained in non-human model systems, for
 therapeutic screening and genetic dissection of human CNS circuitry.
description: Reconstructions of GFP
 labeled and Biocytin filled neurons and spine details of the analyzed
 cellsThe data is organized as
 follows: 1) reconstruction: this folder contains two overview gallery
 pictures and subfolders for each GFP labeled and each Biocytin filled
 neurons with the original image file and the reconstruction image + a SWC
 file that can be used to produce a 3D image of the cells 2) spines: This
 folder contains two exel sheets with the values for spine length, spine
 density and spine head diameter of the analyzed cells 3) summary files:
 This exel sheets contain overview information about the reconstructed
 neurons (apical, basal and total dendrite length)Elife_Reconstructions of GFP
 labeled and Biocytin filled neurons and spine details of the analyzed
 cells.7z
DOI: 10.5061/dryad.8kd1d3f
title: Data from: Diversity of haemosporidian parasites in Mississippi songbirds

description: Haemosporidian parasites are extremely diverse in birds, and the more bird
 hosts are tested, the greater the diversity of haemosporidians is found.
 Here, we conducted a survey of haemosporidians in the local populations
 (Oktibbeha County, MS) of common and abundant songbirds. Mist nets were
 used to capture local songbirds and blood was taken from the brachial vein
 for screening and identification of haemosporidians. The parasite
 prevalence was 57%, and this included three genera of haemosporidians.
 Three Haemoproteus lineages were found, with one novel lineage (3%
 different than any known lineage); two Leucocytozoon lineages were found,
 neither of which were novel; and eight Plasmodium lineages were found, one
 of which was novel (5% different than any known lineage), and one of which
 that may be novel (3% different than any known lineage). Leucocytozoon was
 detected for the first time in Mississippi songbirds, indicating the
 importance of surveying for understanding putative haemosporidian range
 shifts.
description: Mitochondrial cyt b
 sequencesData collected from
 blood samples from Mississippi songbirdsBodden_Outlaw_Sequence_File
DOI: 10.5061/dryad.6s57c73
title: Data from: Character displacement of a learned behavior and its implications for ecological speciation

description: Cultural evolution may accelerate speciation, but most support for this
 hypothesis is limited to cases of allopatric speciation through random
 cultural drift. In contrast, cultural evolution’s role in non-allopatric
 speciation (i.e., speciation with gene flow) has been less explored. One
 clade in which cultural evolution may have figured prominently in
 speciation with gene flow includes the conifer-seed-eating finches in the
 red crossbill (Loxia curvirostra) complex. Here we focus on Cassia
 crossbills (L. sinesciuris; an ecotype recently split taxonomically from
 red crossbills) that learn social contact calls from their parents.
 Previous work found that individuals modify their calls throughout life
 such that they become increasingly divergent from a sympatric red
 crossbill ecotype. This open-ended modification of calls could lead to
 character displacement if it causes population-level divergence in call
 structure that, in turn, reduces maladaptive heterospecific flocking.
 Heterospecific flocking is maladaptive because crossbills use public
 information from flockmates to assess resource quality, and feeding rates
 are depressed when flockmates differ in their ability to exploit a shared
 resource (i.e., when flockmates are heterospecifics). We confirm the
 predictions of character displacement by documenting substantial
 population-level divergence in Cassia crossbill call structure over two
 decades, and by using field experiments that demonstrate a reduction in
 heterospecific flock formation in response to recent call divergence.
 Because crossbills choose mates from within flocks, a reduction in
 heterospecific flocking should increase assortative mating and may have
 been critical for speciation of Cassia crossbills in the face of ongoing
 gene flow in as few as 5,000 years. Our results provide evidence for a
 novel and potentially widespread mechanism by which reproductive isolation
 can evolve between sympatric lineages as a byproduct of adaptive cultural
 evolution.
description: call_similarity_over_timefrequency_modulation_and_similarityfrequency_modulation_over_timewithin_individual_change_longest_intervalplayback_experiment_datasympatric_allopatric_pairs_correlationsAssortative flocking benefit with divergencepublic information simulation codeGLMM_code
DOI: 10.5061/dryad.5vf368h
title: Data from: Drift versus selection as drivers of phenotypic divergence at small spatial scales: the case of Belgjarskógur threespine stickleback

description: Divergence in phenotypic traits is facilitated by a combination of natural
 selection, phenotypic plasticity, gene flow and genetic drift, whereby the
 role of drift is expected to be particularly important in small and
 isolated populations. Separating the components of phenotypic divergence
 is notoriously difficult, particularly for multivariate phenotypes. Here
 we assessed phenotypic divergence of threespine stickleback (Gasterosteus
 aculeatus) across 19 semi-interconnected ponds within a small geographic
 region (~7.5 km2) using multivariate comparisons of phenotypic divergence
 (PST) neutral genetic (FST) and environmental (EST) variation. We found
 phenotypic divergence across the ponds in a suite of functionally relevant
 phenotypic traits, including feeding, defense and swimming traits and body
 shape (geometric morphometric). Comparisons of PSTs with FSTs suggest that
 phenotypic divergence is predominantly driven by neutral or stabilizing
 selection, whereas phenotypic divergence in defensive traits is in
 accordance with divergent selection. Comparisons of population pairwise
 PSTs with ESTs suggest that phenotypic divergence in swimming traits is
 correlated with prey availability, whereas there were no clear
 associations between phenotypic divergence and environmental difference in
 the other phenotypic groups. Overall, our results suggest that phenotypic
 divergence of these small populations at small geographic scales is
 largely driven by neutral processes (gene flow, drift), although
 environmental determinants (natural selection or phenotypic plasticity)
 may play a role.
description: ESTDataEST related data containing the proportional limnetic and benthic data per pond for the dietary and invertebrate sampling and the abiotic data including ph, tds and surface areaFSTGeneticDataMicrosattelite data from used to calculate FSTPSTShapeCoordinateDataProcrustes shape coordinate file for calculating the shape PST.PSTMeristicLengthRaw meristic counts and lengths prior to size correction. Use for calculating meristic and length group PSTs.
DOI: 10.5281/zenodo.17057967
title: AI-driven video monitoring and automated detection of sanitation and foraging in stingless bees
DOI: 10.5281/zenodo.17057968
title: AI-driven video monitoring and automated detection of sanitation and foraging in stingless bees
DOI: 10.5061/dryad.c0qt85m
title: Data from: Morphometric convergence among European sand gobies in freshwater (Gobiiformes: Gobionellidae)

description: The five genera of sand gobies inhabit the seas and freshwaters of Europe
 and western Asia and occupy habitats ranging from fully marine to
 exclusively freshwater. In this study, we use geometric morphometrics to
 quantify body shape among sand gobies, in order to investigate how shape
 has evolved and how it is related to habitat. We also compare body shape
 between preserved museum specimens and fresh specimens, to determine
 whether or not fixation and storage in ethanol introduces detectable bias.
 We confirm that the fixed specimens exhibit significant shape changes as
 compared to fresh specimens, and so we perform the bulk of our analyses
 exclusively on fixed specimens. We find that Economidichthys,
 Orsinigobius, and Pomatoschistus occupy distinct regions of morphospace.
 Knipowitschia and Ninnigobius have intermediate forms that overlap with
 Pomatoschistus and Orsinigobius, but not Economidichthys. This pattern is
 also in rough accordance with their habitats: Pomatoschistus is fully
 marine, Economidichthys fully freshwater, and the others fresh with some
 brackish tolerance. We augment a recent phylogeny of sand gobies with data
 for P. quagga, and interpret morphometric shape change on that tree. We
 then evaluate convergence in form among disparate lineages of freshwater
 species by constructing a phylomorphospace, and applying pattern-based
 (convevol) measures of convergence. We find that freshwater taxa occupy a
 mostly separate region of morphospace from marine taxa, and exhibit
 significant convergence in form. Freshwater taxa are characterized by
 relatively larger heads and stockier bodies than their marine relatives,
 potentially due to a common pattern of heterochronic size reduction.
description: SandGobies276alignmentAlignment of partial COI sequences for sand goby phylogenySandGobies276treeBayesian phylogeny of partial COI sequences for sand gobiesSandGobiescalibratedphylogenyCalibrated phylogeny of reduced set of sand gobiesSandgobieslandmarksFixedFreshLandmark data for six species of sand gobies, paired fixed and fresh specimensSandgobiesfixedlandmarksLandmark data for complete dataset of fixed sand goby specimens
DOI: 10.5061/dryad.bd6m135
title: Data from: Null model analyses of temporal patterns of bird assemblages and their foraging guilds revealed the predominance of positive and random associations

description: Patterns of species associations have been commonly used to infer
 interactions among species. If species positively co-occur they may form
 predominantly neutral assemblages and such patterns suggest a relatively
 weak role for compensatory dynamics. The main objective of this study was
 to test this prediction on temporal samples of bird assemblages (n = 19,
 10−57 years) by presence/absence and quantitative null models on
 assemblage and guild levels. These null model outcomes were further
 analysed to evaluate the effects of various dataset characteristics on the
 outcomes of the null models. The analysis of two binary null models in
 combination with three association indices revealed 20 % with significant
 aggregations, 61 % with random associations and only 19 % with significant
 segregations (n = 95 simulations). The results of the quantitative null
 model simulations detected more none-random associations: 61 %
 aggregations, 6 % random associations and 33 % segregations (n = 114
 simulations). Similarly, quantitative analyses on guild levels showed 58 %
 aggregations, 20 % segregations and 22 % random associations (n = 450
 simulations). Bayesian GLMs detected that the outcomes of the binary and
 quantitative null models applied to the assemblage analyses were
 significantly related to census plot size, whereas the outcomes of the
 quantitative analyses were also related to the mean population densities
 of species in the data matrices. In guild level analyses, only 9 % of the
 GLMs showed a significant influence of matrix properties (plot size,
 matrix size, species richness, and mean species population densities) on
 the null model outcomes. The results did not show the prevalence of
 negative associations that would have supported compensatory dynamics.
 Instead, we assume that a similar response of the majority of species to
 climate-driven and stochastic factors may be responsible for the revealed
 predominance of positive associations.
description: Bookham Common,
 EnglandBeven
 1976.xlsxBialowieza forest, plot
 CMBialowieza forest, plot
 KBialowieza forest, plot
 LBialowieza forest, plot
 MSBialowieza forest, plot
 NEBialowieza forest, plot
 NWBialowieza forest, plot
 WGaisatjakke and Valle
 Mts, SwedenEnemar et al.
 2004.xlsxEstenstad forest,
 NorwayHogstad
 1993.xlsxHubbard Brook
 Experimental Forest, New Hampshire, U.S.A.Hubbard Brook
 forest.docxWilliam Trelease Woods,
 Illinois, U.S.AKendeigh
 1982.xlsxSramkova National Nature
 Reserve, SlovakiaKornan
 2013.xlsxFinsefetene
 sedimentation flat, NorwayOstbye et al.
 2007.xlsxDalby Söderskog National
 Park, SwedenSvensson
 2009.xlsxAmmarnäs region,
 SwedenSvensson et al. 1984, plots K1,
 K2.xlsxBirdsong valley,
 SwedenSvensson et al.
 2010.xlsxSłowacki park, City of
 Wrocław, PolandTomialojc
 2011.xlsx
DOI: 10.5061/dryad.62np6jd
title: Data from: The role of cryptic diversity and its environmental correlates in global conservation status assessments: Insights from the threatened bird's-eye primrose (Primula farinosa L.)

description: Aim: Most of the fundamental questions in conservation biogeography
 require the description of species geographical boundaries and the
 identification of discrete biological units within these boundaries.
 International conservation efforts and institutions rely mainly on
 traditional taxonomic approaches for defining these boundaries, resulting
 in significant cryptic diversity going undetected and often extinct. Here,
 we combine high-throughput genomic data with publicly available
 environmental data to identify cryptic diversity in the threatened bird’s
 eye primrose (Primula farinosa). We aim to characterize evolutionary
 lineages and test whether they co-occur with changes in environmental
 conditions. These lineages can be used as intraspecific units for
 conservation to enhance assessments regarding the status of threatened
 species. Location: Europe and temperate Asia (latitude, 40-65°N;
 longitude, 10°E –115°W) Methods: We genotyped 93 individuals from 71
 populations at 1220 loci (4089 SNPs) across the Eurasian distribution of
 P. farinosa. We used phylogenomic and population structure approaches to
 identify intraspecific lineages. We further extracted
 statistically-derived and remotely-sensed environmental information, i.e.
 land-cover, climate and soil characteristics, to define the biotic and
 abiotic environment inhabited by each lineage and test for niche
 similarities among lineages. Additionally, we tested for isolation by
 distance among populations and applied linear and polynomial regressions
 to identify lineage-environment associations. Results: Analyses of genomic
 data revealed six major lineages within P. farinosa corresponding to
 distinct geographic areas. Niche similarity tests indicated that lineages
 occupy distinct abiotic and biotic space. Isolation by distance indicated
 that geography alone cannot explain genetic divergence within P. farinosa,
 while lineage-environment associations suggested potential adaptation to
 different abiotic conditions across lineages. However, relationships with
 the land-cover classes, a proxy for habitat, were weaker. Main conclusion:
 Our results highlight the need for incorporating intraspecific diversity
 in global assessments of species conservation status and the utility of
 genomic and publicly available environmental data in conservation
 biogeography.
description: STACKS VCF file
 outputThe VCF file containing
 alll SNPs identified by STACKS. This file was filtered and further used to
 assess genetic structure across the Eurasian distribution of Primula
 farinosa5xM2n6.vcfRAxML input alignment fileThe Phylip file containing the filtered and aligned SNPs that were used to infer phylogenetic relationships across all sampled Primula farinosa individualsfilt_5xM2n6_30_allSNPs.phy