cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.68v7r
title: Data from: The relationship between variable host grouping and functional responses among parasitoids of Antispila nysaefoliella (Lepidoptera: Heliozelidae)

description: Our study investigated the importance of variability in the parasitoid
 community as a source of selection on host group size using a field
 population of the tupelo leafminer, Antispila nysaefoliella Clemens, which
 specializes on tupelo, Nyssa sylvatica Marsh. Larvae were collected from
 leaves with variable numbers of larvae and screened for parasitism using
 polymerase chain reaction of mitochondrial cytochrome oxidase I using
 markers designed specifically for amplifying parasitoid DNA while
 excluding host DNA. This method of selective PCR was effective for
 detecting the presence and identifying species of immature stages of three
 hymenopteran superfamilies: Chalcidoidea, Ichneumonoidea, and
 Platygastroidea, which represented 83.4, 16.0, and 0.6 percent of the
 total detectable parasitism, respectively. Our resulting sequences were
 then calibrated with sequences from identified adult parasitoids that had
 been either reared or field-captured. A cluster analysis revealed 10
 distinct clades that showed differences in attack patterns with respect to
 host traits and season. Total parasitism followed an inverse
 density-dependent or density-independent pattern with respect to host
 density (number per leaf). However, when parasitoid taxa were considered
 separately, one clade, which could be a cryptic species of Pnigalio
 maculipes Crawford (Chalcidoidea: Eulophidae), was found to increase its
 per leaf attack rate with host density. Our results suggest that
 parasitoid community composition and differences among species in their
 attack strategies can play a large role in determining the adaptive
 advantage of host grouping.
description: Source modifier table
 for GenBank-correctedSource data for
 sequences and origin of genomic samples for GenBank accession numbers
 JN800360-JN800398.PAUP (450bp)-Aug12-2009
 without HostNexus file for
 generating NJ tree in PAUP.ANX-Data
DOI: 10.5061/dryad.q3r1s
title: Data from: Genome-wide prediction of bacterial effector candidates across six secretion system types using a feature-based statistical framework

description: Gram-negative bacteria are responsible for hundreds of millions infections
 worldwide, including the emerging hospital-acquired infections and
 neglected tropical diseases in the third-world countries. Finding a fast
 and cheap way to understand the molecular mechanisms behind the bacterial
 infections is critical for efficient diagnostics and treatment. An
 important step towards understanding these mechanisms is the discovery of
 bacterial effectors, the proteins secreted into the host through one of
 the six common secretion system types. Unfortunately, current prediction
 methods are designed to specifically target one of three secretion
 systems, and no accurate “secretion system-agnostic” method is available.
 Here, we present PREFFECTOR, a computational feature-based approach to
 discover effector candidates in Gram-negative bacteria, without prior
 knowledge on bacterial secretion system(s) or cryptic secretion signals.
 Our approach was first evaluated using several assessment protocols on a
 manually curated, balanced dataset of experimentally determined effectors
 across all six secretion systems, as well as non-effector proteins. The
 evaluation revealed high accuracy of the top performing classifiers in
 PREFFECTOR, with the small false positive discovery rate across all six
 secretion systems. Our method was also applied to six bacteria that had
 limited knowledge on virulence factors or secreted effectors. PREFFECTOR
 web-server is freely available at: http://korkinlab.org/preffector.
description: neg.fastaContains non-effector protein sequences used for training and testing.pos.fastaFile pos.fasta contains effector protein sequences used for training and testing.
DOI: 10.5061/dryad.7md3q
title: Data from: Low but contrasting neutral genetic differentiation shaped by winter temperature in European great tits

description: Gene flow is usually thought to reduce genetic divergence and impede local
 adaptation by homogenising gene pools between populations. However,
 evidence for local adaptation and phenotypic differentiation in highly
 mobile species, experiencing high levels of gene flow, is emerging.
 Assessing population genetic structure at different spatial scales is thus
 a crucial step towards understanding mechanisms underlying intraspecific
 differentiation and diversification. Here, we studied the population
 genetic structure of a highly mobile species – the great tit Parus major –
 at different spatial scales. We analysed 884 individuals from 30 sites
 across Europe including 10 close-by sites (&lt; 50 km), using 22
 microsatellite markers. Overall we found a low but significant genetic
 differentiation among sites (FST = 0.008). Genetic differentiation was
 higher, and genetic diversity lower, in south-western Europe. These
 regional differences were statistically best explained by winter
 temperature. Overall, our results suggest that great tits form a single
 patchy metapopulation across Europe, in which genetic differentiation is
 independent of geographical distance and gene flow may be regulated by
 environmental factors via movements related to winter severity. This might
 have important implications for the evolutionary trajectories of
 sub-populations, especially in the context of climate change, and calls
 for future investigations of local differences in costs and benefits of
 philopatry at large scales.
description: Genetic data for 30
 populations of great tits across EuropeThis file contains the
 combined dataset collected on great tits (Parus major) from 30 sites in
 Europe. Provided are individual data for microsatellites (GenData) and
 environmental data by site (EnvData)Lemoineetal_BJLS4237.R1.xlsx
DOI: 10.15468/h3z3m8
title: To the knowledge of the subtribe Pericalina Hope, 1838 (Coleoptera, Carabidae, Lebiinae), with description of new genus, new subgenus and species from Oriental region

description: This dataset contains the digitized treatments in Plazi based on the original journal article Anichtchenko, Alexander (2024): To the knowledge of the subtribe Pericalina Hope, 1838 (Coleoptera, Carabidae, Lebiinae), with description of new genus, new subgenus and species from Oriental region. Zootaxa 5453 (3): 369-378, DOI: 10.11646/zootaxa.5453.3.4, URL: http://dx.doi.org/10.11646/zootaxa.5453.3.4AbstractA new genus Acoptodera gen. n. is described to place Coptodera piligera Chaudoir, 1883 previously attributed to genus Trichocoptodera Louwerens, 1958, as well as new subgenus Pericalocephala subgen. n. to place remarkable new species from Vietnam: Acoptodera (Pericalocephala) paradoxa sp. n. By the presence of hairs on head, pronotum and elytra, new genus is similar with Trichocoptodera Louwerens, 1958, but can be easely distinguished by flattened pronotum with wide lateral margins and by rounded elytra with serrate edges and fringe of setae on the sides. The status and characters of genera thought to be near relatives of Coptodera genus-group, are briefly discussed. Images of habitus and genitalia are provided.
DOI: 10.34740/kaggle/dsv/14632326
title: SOLANA Price Data Binance API (2020–Now)
DOI: 10.5061/dryad.j83c0
title: Data from: Sex and boldness explain individual differences in spatial learning in a lizard

description: Understanding individual differences in cognitive performance is a major
 challenge to animal behaviour and cognition studies. We used the Eastern
 water skink (Eulamprus quoyii) to examine associations between
 exploration, boldness and individual variability in spatial learning, a
 dimension of lizard cognition with important bearing on fitness. We show
 that males perform better than females in a biologically relevant spatial
 learning task. This is the first evidence for sex differences in learning
 in a reptile, and we argue that it is probably owing to sex-specific
 selective pressures that may be widespread in lizards. Across the sexes,
 we found a clear association between boldness after a simulated predatory
 attack and the probability of learning the spatial task. In contrast to
 previous studies, we found a nonlinear association between boldness and
 learning: both ‘bold’ and ‘shy’ behavioural types were more successful
 learners than intermediate males. Our results do not fit with recent
 predictions suggesting that individual differences in learning may be
 linked with behavioural types via high–low-risk/reward trade-offs. We
 suggest the possibility that differences in spatial cognitive performance
 may arise in lizards as a consequence of the distinct environmental
 variability and complexity experienced by individuals as a result of their
 sex and social tactics.
description: Learning_models_dataData file containing three worksheets. One worksheet with data for GLM analyses and multi-model averaging. Second file for learning curve analyses and third file for generating Figure 1.
DOI: 10.5061/dryad.mr29t
title: Data from: Temporal genetic variance and propagule-driven genetic structure characterize naturalized rainbow trout (Oncorhynchus mykiss) from a Patagonian lake impacted by trout farming

description: Knowledge about the genetic underpinnings of invasions—a theme addressed
 by invasion genetics as a discipline—is still scarce amid well documented
 ecological impacts of non-native species on ecosystems of Patagonia in
 South America. One of the most invasive species in Patagonia’s freshwater
 systems and elsewhere is rainbow trout (Oncorhynchus mykiss). The species
 was introduced in Chile during the early twentieth century for stocking
 and promoting recreational fishing and, during the late twentieth century,
 for farming purposes and is now established or naturalized. We used
 population- and individual-based inference from single nucleotide
 polymorphisms (SNPs) to illuminate three objectives related to the
 establishment and naturalization of rainbow trout in Lake Llanquihue, a
 Patagonian lake heavily affected by trout farming, by sampling five inlet
 streams over two seasons (winter and spring). First, we found that
 significant intra- population (temporal) genetic variance might have
 played a more significant role than inter-population (spatial) genetic
 variance. Allele frequency differences between cohorts, consistent with
 variation in fish length between spring and winter collections, might
 explain temporal genetic differences. Second, individual-based Bayesian
 clustering suggested that genetic structure within Lake Llanquihue was
 largely driven by putative farm propagules found at Yerbas Buenas (YER)
 during spring, but not in winter, suggesting farm broodstock migrate
 upstream to breed during spring at that particular stream. It is unclear
 whether interbreeding has occurred between “pure” naturalized and farm
 trout in this and other streams. Third, estimates of the annual number of
 breeders (Nb) were below 73 in half of the collections, suggestive of
 genetically small and recently founded populations that might experience
 substantial genetic drift. Our results reinforce the notion that
 naturalized trout originated recently from a small yet genetically diverse
 source and that farm propagules might have played a significant role in
 the invasion of rainbow trout within a single lake with intensive trout
 farming. They also argue for better mitigation measures, including
 management of escapes and strategies to minimize unintentional releases
 from farm facilities.
description: Genotype Data for
 Naturalized Rainbow Trout from Lake LLanquihue (Lake District X Region -
 Chile)This dataset corresponds
 to multilocus genotypes for naturalized rainbow trout from Lake Llanquihue
 (Lake District, Chile) screened for 81 single nucleotide polymorphisms
 (coded A=1, C=2, G=3, T=4). Each allele (A1 or A2) is found in a separate
 column (two columns per SNP locus). Metadata for sampling location,
 sampling season (austral winter or spring) and individual ID are
 provided.BenaventeEtAl2015Dryad.txt
DOI: 10.5061/dryad.1ph37
title: Data from: When good neighbors don’t need fences: Temporal landscape partitioning among baboon social groups

description: Intraspecific competition is a key factor shaping space-use strategies and
 movement decisions inmany species, yet how and when neighbors utilize
 shared areas while exhibiting active avoidance of one another is largely
 un- known. Here, we investigated temporal landscape partitioning in a
 population of wild baboons (Papio cynocephalus). We used global
 positioning system (GPS) collars to synchronously record the hourly
 locations of five baboon social groups for ∼900 days, and we used
 behavioral, demographic, and life history data to measure factors
 affecting use of overlap areas. Annual home ranges of neighboring groups
 overlapped substantially, as predicted (baboons are considered
 non-territorial), but home ranges overlapped less when space use was
 assessed over shorter time scales. Moreover, neighboring groups were in
 close spatial proximity to one another on fewer days than predicted by a
 null model, suggesting an avoidance-based spacing pattern. At all time
 scales examined (monthly, biweekly, and weekly), time spent in overlap
 areas was greater during time periods when groups fed on evenly dispersed,
 low-quality foods. The percent of fertile females in social groups was
 negatively correlated with time spent in overlap areas only during weekly
 time intervals. This suggests that broad temporal changes in ecological
 resources are a major predictor of how intensively overlap areas are used,
 and groups modify these ecologically driven spacing patterns at short time
 scales based on female reproductive status. Together, these findings offer
 insight into the economics of territoriality by highlighting the dynamics
 of spacing patterns at differing time scales.
description: Raw for Figure
 1Data
 Excel file containing mean "simple ratio index" for each pair of
 groups during the 2009 hydrological year (Nov-Oct) at 4 time scales
 (hydrological year, monthly, biweekly, and weekly).Raw for Figure 2 and
 Table 1Data Excel file
 containing data on observed encounter days, speed, overlap area, and use
 of overlap area for each pair of groups. These data were used to determine
 whether baboon groups encountered one another more often than expected by
 a null (gas) model.Raw for Figure
 3Data
 Excel file containing spatial proximity data between pair of groups when
 groups were within 250 m of each other. These data were used to determine
 the distribution of encounters across hours of the day.Raw for Table
 2Data
 Excel file containing home range overlap data for each pair of groups at 3
 time scales (monthly, biweekly, and weekly).Raw for Table
 3Data
 Excel file containing data on average percent fertile females, average
 percent feeding time, and percent time spent in overlap area for each pair
 of groups at 3 times scales (monthly, biweekly, and weekly). These data
 were used to determine which factors predicted percent time spent in
 overlap areas at various time scales.
DOI: 10.5061/dryad.k9b4n
title: Data from: Strong genetic differentiation but not local adaptation towards the range limit of a coastal dune plant

description: All species have limited geographic distributions; but the ecological and
 evolutionary mechanisms causing range limits are largely unknown. That
 many species’ geographic range limits are coincident with niche limits
 suggests limited evolutionary potential of marginal populations to adapt
 to conditions experienced beyond the range. We provide a test of range
 limit theory by combining population genetic analysis of microsatellite
 polymorphisms with a transplant experiment within, at the edge of, and 60
 km beyond the northern range of a coastal dune plant. Contrary to
 expectations, lifetime fitness increased towards the range limit with
 highest fitness achieved by most populations at and beyond the range edge.
 Genetic differentiation among populations was strong, with very low,
 non-directional gene flow suggesting range limitation via constraints to
 dispersal. In contrast, however, local adaptation was negligible, and a
 distance-dependent decline in fitness only occurred for those populations
 furthest from home when planted beyond the range limit. These results
 challenge a commonly held assumption that stable range limits match niche
 limits, but also raise questions about the unique value of peripheral
 populations in expanding species’ geographical ranges.
description: TransplantDataData used in Aster model and life history analysis. Includes survival, reproduction status and fruit production within each of three years of the experiment at all sites and for all source populations. See main text for list of sites and sources by code in the file.AsterAnalysisR script for Aster analysisSamisEtal2016_GenotypeDataMicrosatellite genotype data by individual and locus
DOI: 10.5061/dryad.6pn84
title: Data from: Interploidal hybridization and mating patterns in the Sphagnum subsecundum complex

description: Polyploidization is thought to result in instant sympatric speciation, but
 several cases of hybrid zones between one of the parental species and its
 polyploid derivative have been documented. Previous work showed that
 diploid Sphagnum lescurii is an allopolyploid derived from the haploids S.
 lescurii (maternal progenitor) and S. subsecundum (paternal progenitor).
 Here we report the results from analyses of a population where allodiploid
 and haploid S. lescurii co-occur and produce sporophytes. We tested (1)
 whether haploids and diploids form hybrid triploid sporophytes, (2) how
 hybrid and non-hybrid sporophytes compare in fitness, (3) whether hybrid
 sporophytes form viable spores, (4) the ploidy of any viable gametophyte
 offspring from hybrid sporophytes, (5) the relative viability of
 sporelings derived from hybrid and non-hybrid sporophytes, and (6) if
 interploidal hybridization results in introgression between the
 allopolyploid and its haploid progenitor. We found that triploid hybrid
 sporophytes do occur and are larger than non-hybrid sporophytes, but
 exhibit very low germination percentages and produce sporelings that
 develop more slowly than those from non-hybrid sporophytes. All
 sporophytes attached to haploid gametophytes were triploid and were sired
 by diploid males, but all sporophytes attached to diploid gametophytes
 were tetraploid. This asymmetric pattern of interploidal hybridization is
 related to an absence of haploid male gametophytes in the population.
 Surprisingly, all sporelings from triploid sporophytes were triploid, yet
 were genetically variable, suggesting some form of aberrant meiosis that
 warrants further study. There was limited (but some) evidence of
 introgression between allodiploid and haploid S. lescurii.
description: Gametophytes_MsatDataMicrosatellite data for gametophytes - mother, sterile and male plants. Haploids coded as homozygous diploids.Sporophytes_MsatDataMicrosatellite data for triploid and tetraploid sporophytes.Germination Experience Microsatellite DataMothers, sporophytes and lab reared sporelings microsatellite data. Genome size of some samples was measured by flow cytometry. Haploid samples coded as haploid. Incomplete heterozygous diploid, triploid and tetraploid samples are coded accordingly to their microsatellite phenotype.GerminationExp_MsatsData
DOI: 10.5061/dryad.m3c53
title: Data from: Genetic change for earlier migration timing in a population of pink salmon

description: To predict how climate change will influence populations it is necessary
 to understand the mechanisms, particularly microevolution and phenotypic
 plasticity, which allow populations to persist in novel environmental
 conditions. Although evidence for climate-induced phenotypic change in
 populations is widespread, evidence documenting that these phenotypic
 changes are due to microevolution is exceedingly rare. In this study we
 use 32 years of genetic data (17 complete generations) to determine
 whether there has been genetic change toward earlier migration timing in a
 population of pink salmon that shows phenotypic change; average migration
 time occurs nearly 2 weeks earlier than it did 40 years ago. Experimental
 genetic data support the hypothesis that there has been directional
 selection for earlier migration timing, resulting in a substantial
 decrease in the late migrating phenotype (from &gt;30% to &lt;10%
 of the total abundance). From 1983-2011 there was a significant decrease –
 over three fold – in the frequency of a genetic marker for late migration
 timing, but there were minimal changes in allele frequencies at other
 neutral loci. These results demonstrate there has been rapid
 microevolution for earlier migration timing in this population. Circadian
 rhythm genes, however, did not show any evidence for selective changes
 from 1993-2009.
description: Kovach_geneticdataThese data were used in various combinations for the analyses in "Genetic change for earlier migration timing in a pink salmon population." The first sheet includes the microsatellite data, which are in GENEPOP format. The next 8 sheets are the data for the experimental genetic allozyme marker MdH. The last sheet are the daily allele counts for the "control" allozyme locus AGP. See additional details within the data.
DOI: 10.5061/dryad.1s6s162
title: Data from: Serum neurofilament light: a biomarker of neuroaxonal injury after ischemic stroke

description: Objective: To explore the utility of serum neurofilament light chain
 (sNfL) as a biomarker for primary and secondary neuroaxonal injury after
 ischemic stroke (IS) and study its value for the prediction of clinical
 outcome. Methods: We used an ultrasensitive single-molecule array (Simoa)
 assay to measure sNfL levels in healthy controls (HC, N=30) and two
 independent cohorts of patients with IS: (1) with serial serum sampling at
 hospital arrival (N=196), at days 2, 3, and 7 (N=89), and up to 6 months
 post-stroke; (2) with standardized MRI at baseline and at 6 months
 post-stroke, and with cross-sectional serum sampling at 6 months (N=95).
 We determined the temporal profile of sNfL levels, their association with
 imaging markers of neuroaxonal injury, and with clinical outcome. Results:
 Patients with IS had higher sNfL levels compared with HC starting from
 admission until 6 months post-stroke. sNfL levels peaked at day 7 (211.2
 pg/ml [104.7–442.6], median [IQR]) and correlated with infarct volumes
 (day 7: partial r=0.736, p=1.5x10-15). 6 months post-stroke patients with
 recurrent ischemic lesions on MRI (N=19) had higher sNfL compared to those
 without new lesions (N=76, p=0.002). sNfL levels 6 months post-stroke
 further correlated with a quantitative measure of secondary
 neurodegeneration obtained from DTI MRI (r=0.361, p=0.001). sNfL levels 7
 days post-stroke independently predicted modified Rankin scale scores 3
 months post-stroke (cumulative OR [95% confidence interval] = 2.35
 [1.60-3.45]; p=1.24x10-05). Conclusions: sNfL holds promise as a biomarker
 for monitoring primary and secondary neuroaxonal injury after IS and for
 predicting functional outcome.
description: Supplemental data_NfL
 after StrokeFigure_e-1_NfL after
 Stroke, Table_e-1_NfL after Stroke, Table_e-2_NfL after
 Stroke.
DOI: 10.15468/dl.wp5p9t
title: Occurrence Download

description: A dataset containing 2454 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Base de datos de la Colección zoológica del Instituto de Investigación de zonas desérticas de la Universidad Autónoma de San Luis Potosí (BDCZIID-UASLP)"
 ]
}

 The dataset includes 2454 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000707-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.