cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.dr283
title: Data from: Extremely low nucleotide polymorphism in Pinus krempfii Lecomte, a unique flat needle pine endemic to Vietnam

description: Pinus krempfii Lecomte is a morphologically and ecologically unique pine,
 endemic to Vietnam. It is regarded as vulnerable species with distribution
 limited to just two provinces: Khanh Hoa and Lam Dong. Although a few
 phylogenetic studies have included this species, almost nothing is known
 about its genetic features. In particular, there are no studies addressing
 the levels and patterns of genetic variation in natural populations of P.
 krempfii. In this study, we sampled 57 individuals from six natural
 populations of P. krempfii and analyzed their sequence variation in ten
 nuclear gene regions (approximately 9 kb) and 14 mitochondrial (mt) DNA
 regions (approximately 10 kb). We also analyzed variation at seven
 chloroplast (cp) microsatellite (SSR) loci. We found very low haplotype
 and nucleotide diversity at nuclear loci compared with other pine species.
 Furthermore, all investigated populations were monomorphic across all
 mitochondrial DNA (mtDNA) regions included in our study, which are
 polymorphic in other pine species. Population differentiation at nuclear
 loci was low (5.2%) but significant. However, structure analysis of
 nuclear loci did not detect genetically differentiated groups of
 populations. Approximate Bayesian computation (ABC) using nuclear sequence
 data and mismatch distribution analysis for cpSSR loci suggested recent
 expansion of the species. The implications of these findings for the
 management and conservation of P. krempfii genetic resources were
 discussed.
description: Frequencies and
 compositions of cpSSRThis files contains two
 sheets, one is the chlorotype frequency and the other is the composition
 of 22 chlorotypes.cp SSR
 new.xlsx
DOI: 10.15468/dl.atnuru
title: Occurrence Download

description: A dataset containing 24034 records in GBIF matching the query:
SELECT
 '408' AS fish_cell,
 GBIF_MGRSCode(1000, decimalLatitude, decimalLongitude, 0) AS cell, -- NO randomization
 COUNT(DISTINCT speciesKey) AS species_richness
 FROM occurrence
 WHERE hasCoordinate = TRUE
 AND speciesKey IS NOT NULL
 AND NOT ARRAY_CONTAINS(issue, 'ZERO_COORDINATE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_OUT_OF_RANGE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_INVALID')
 AND NOT ARRAY_CONTAINS(issue, 'COUNTRY_COORDINATE_MISMATCH')
 AND decimalLatitude &gt;= 37.42857426825602
 AND decimalLatitude &lt;= 41.89415215079384
 AND decimalLongitude &gt;= 28.782060897027332
 AND decimalLongitude &lt;= 35.96444851417518
 AND "year" &gt;= 2015
 AND "year" &lt;= 2026
 AND (coordinateUncertaintyInMeters &lt;= 100 OR coordinateUncertaintyInMeters IS NULL)
 GROUP BY fish_cell, cell

 The dataset's 24034 records were derived from 111 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001303-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.617bk
title: Data from: Early life expenditure in sexual competition is associated with increased reproductive senescence in male red deer

description: The evolutionary theories of senescence predict that investment in
 reproduction in early life should come at the cost of reduced somatic
 maintenance, and thus earlier or more rapid senescence. There is now
 growing support for such trade-offs in wild vertebrates, but these
 exclusively come from females. Here, we test this prediction in male red
 deer (Cervus elaphus) using detailed longitudinal data collected over a
 40-year field study. We show that males which had larger harems and
 thereby allocated more resources to reproduction during early adulthood
 experienced higher rates of senescence in both harem size and rut
 duration. Males that carried antlers with more points during early life
 did not show more pronounced declines in reproductive traits in later
 life. Overall, we demonstrate that sexual competition shapes male
 reproductive senescence in wild red deer populations and provide rare
 empirical support for the disposable soma theory of ageing in males of
 polygynous vertebrate species.
description: Lemaitre et al. dryad -
 DataDataframe used for main
 analysis in the paper.
DOI: 10.5061/dryad.9k6k0
title: Data from: Ontogeny tends to recapitulate phylogeny in digital organisms

description: Biologists have long debated whether ontogeny recapitulates phylogeny and,
 if so, why. Two plausible explanations are that (i) changes to early
 developmental stages are selected against because they tend to disrupt
 later development and (ii) simpler structures often precede more complex
 ones in both ontogeny and phylogeny if the former serve as building blocks
 for the latter. It is difficult to test these hypotheses experimentally in
 natural systems, so we used a computational system that exhibits
 evolutionary dynamics. We observed that ontogeny does indeed recapitulate
 phylogeny; traits that arose earlier in a lineage’s history also tended to
 be expressed earlier in the development of individuals. The relative
 complexity of traits contributed substantially to this correlation, but a
 significant tendency toward recapitulation remained even after accounting
 for trait complexity. This additional effect provides evidence that
 selection against developmental disruption also contributed to the
 conservation of early stages in development.
description: CalculatingORPscoresAndComplexityCorrelationEffectThis file reads in the data--the order in which tasks were evolved and the order they are expressed--and calculates both the ontogeny recapitulates phylogeny (ORP) scores and the Complexity Correlation Effect (via Tukey’s Jackknife Method described in Sokal and Rohlf, 1995).Data-OrderTasksEvolvedAndAreExpressedSee the readme file.
DOI: 10.5061/dryad.hs727
title: Data from: Latitudinal and voltinism compensation shape thermal reaction norms for growth rate

description: Latitudinal variation in thermal reaction norms of key fitness traits may
 inform about the response of populations to climate warming, yet their
 adaptive nature and evolutionary potential is poorly known. We assessed
 the contribution of quantitative genetic, neutral genetic and
 environmental effects to thermal reaction norms of growth rate for
 populations of the damselfly Ischnura elegans. Among populations, reaction
 norms differed primarily in elevation suggesting that time constraints
 associated with shorter growth seasons in univoltine, high-latitude as
 well as multivoltine, low-latitude populations selected for faster growth
 rates. Phenotypic divergence among populations is consistent with
 selection rather than drift as QST was greater than FST in all cases. QST
 estimates increased with experimental temperature and were influenced by
 genotype by environment interactions. Substantial additive genetic
 variation for growth rate in all populations suggests that evolution of
 trait means in different environments is not constrained. Heritability of
 growth rates was higher at high temperature, driven by increased genetic
 rather than environmental variance. While environment-specific
 non-additive effects also may contribute to heritability differences among
 temperatures, maternal effects did not play a significant role (where
 these could be accounted for). Genotype by environment interactions
 strongly influenced the adaptive potential of populations, and our results
 suggest the potential for microevolution of thermal reaction norms in each
 of the studied populations. In summary, the observed latitudinal pattern
 in growth rates is adaptive and results from a combination of latitudinal
 and voltinism compensation. Combined with the evolutionary potential of
 thermal reaction norms, this may affect populations’ ability to respond to
 future climate warming.
description: Shama et al_Ischnura ms
 datamicrosatellite
 genotypes
DOI: 10.5061/dryad.ds14v9n
title: Data from: Grazing pressure affects offspring sex ratio in a socially monogamous passerine on the Tibet Plateau

description: Livestock grazing can affect habitat structure and availability of
 arthropod prey for grassland birds, and ultimately determines habitat
 quality. The habitat quality may affect breeding strategies (e.g. sex
 ratio adjustment) in bird species, but yet studies investigating grazing
 intensity on offspring sex ratio are still rare. In this paper, we
 examined the effect of grazing intensity by livestock on the secondary sex
 ratio of an alpine-steppe passerine, the Isabelline Wheatear Oenanthe
 isabellina, on the Tibet Plateau. Offspring sex ratio of Isabelline
 Wheatears significantly correlated with a quadratic term -- (grazing
 intensity)2. The wheatears nesting in areas grazed at low intensity by
 mixed livestocks produced significantly more sons than those in ungrazed
 area (0.41 vs. 0.58, Z=-2.836, P=0.005), while brood sex ratios from other
 treatments (ungrazing vs. intensive grazing and low-intensity grazing vs.
 intensive grazing) did not differ significantly. Variation in offspring
 sex ratio was not related to other factors such as maternal condition,
 paternal condition and other two-way interactions. These results suggest
 that breeding birds of grasslands are sensitive to variation in habitat
 conditions, and provide additional evidence that grazing intensity affects
 avian reproduction in cryptic ways that are rarely studied. Our findings
 suggest that flexible management including timely rotational grazing is
 needed to optimize bird species reproduction and maintain ecosystem
 health.
description: analytical data of the
 GLMMsanalytical data of the
 GLMMsSupplementary
 material.xlsx
DOI: 10.5061/dryad.3bb462v
title: Data from: Mollusks from the upper Shackleton Limestone (Cambrian Series 2), Central Transantarctic Mountains, East Antarctica

description: An assemblage of Cambrian Series 2, Stages 3–4 conchiferan mollusks from
 the Shackleton Limestone, Transantarctic Mountains, East Antarctica is
 formally described and illustrated. The fauna includes one bivalve, one
 macromollusk and ten micromollusks, including the first description of the
 species Xinjispira simplex outside North China. The new fauna shows some
 similarity to previously described micromollusks from lower Cambrian
 glacial erratics from the Antarctic Peninsula. The fauna, mainly composed
 of steinkerns, is relatively low diversity, but the presence of diagnostic
 taxa, including helcionelloid Mackinnonia rostrata, bivalve Pojetaia
 runnegari, cambroclavid Cambroclavus absonus and bradoriid Spinospitella
 coronata as well as the botsfordiid brachiopod Schizopholis yorkensis in
 the overlying Holyoake Formation correlates the succession to the
 Dailyatia odyssei Zone (Cambrian Stage 3–4) in South Australia.
description: Supplementary file 1
 Occurrences of species left in open nomenclatureThis files lists
 published material included in the taxa Davidonia corrugata, Xianfengella
 yatesi, Pelagiella subangulata and Anabarella australis. These have been
 included here for convenience as they are referred to in the main text,
 but not typically included in systematics sections for specimens with only
 tentative affinities for previously described species.
DOI: 10.5061/dryad.09dg6
title: Data from: Functional decoupling between flowers and leaves in the Ameroglossum pernambucense complex can facilitate local adaptation across a pollinator and climatic heterogeneous landscape

description: Decoupling between floral and leaf traits is expected in plants with
 specialized pollination systems to assure a precise flower–pollinator fit,
 irrespective of leaf variation associated with environmental heterogeneity
 (functional modularity). Nonetheless, developmental interactions among
 floral traits also decouple flowers from leaves regardless of selection
 pressures (developmental modularity). We tested functional modularity in
 the hummingbird-pollinated flowers of the Ameroglossum pernambucense
 complex while controlling for developmental modularity. Using two
 functional traits responsible for flower–pollinator fit [floral tube
 length (TL) and anther–nectary distance (AN)], one floral trait not linked
 to pollination [sepal length (SL), control for developmental modularity]
 and one leaf trait [leaf length (LL)], we found evidence of flower
 functional modularity. Covariation between TL and AN was ca. two-fold
 higher than the covariation of either of these traits with sepal and leaf
 lengths, and variations in TL and AN, important for a precise
 flower–pollinator fit, were smaller than SL and LL variations.
 Furthermore, we show that previously reported among-population variation
 of flowers associated with local pollinator phenotypes was independent
 from SL and LL variations. These results suggest that TL and AN are
 functionally linked to fit pollinators and sufficiently decoupled from
 developmentally related floral traits (SL) and vegetative traits (LL).
 These results support previous evidences of population differentiation due
 to local adaptation in the A. pernambucense complex and shed light on the
 role of flower–leaf decoupling for local adaptation in species distributed
 across biotic and abiotic heterogeneous landscapes.
description: Wanderley et
 al_data
DOI: 10.5061/dryad.d5r24
title: Data from: Trading heat and hops for water: dehydration effects on locomotor performance, thermal limits, and thermoregulatory behavior of a terrestrial toad

description: Due to their highly permeable skin and ectothermy, terrestrial amphibians
 are challenged by compromises between water balance and body temperature
 regulation. The way in which such compromises are accommodated, under a
 range of temperatures and dehydration levels, impacts importantly the
 behavior and ecology of amphibians. Thus, using the terrestrial toad
 Rhinella schneideri as a model organism, the goals of this study were
 twofold. First, we determined how the thermal sensitivity of a centrally
 relevant trait—locomotion—was affected by dehydration. Secondly, we
 examined the effects of the same levels of dehydration on thermal
 preference and thermal tolerance. As dehydration becomes more severe, the
 optimal temperature for locomotor performance was lowered and performance
 breadth narrower. Similarly, dehydration was accompanied by a decrease in
 the thermal tolerance range. Such a decrease was caused by both an
 increase in the critical minimal temperature and a decrease in the thermal
 maximal temperature, with the latter changing more markedly. In general,
 our results show that the negative effects of dehydration on behavioral
 performance and thermal tolerance are, at least partially, counteracted by
 concurrent adjustments in thermal preference. We discuss some of the
 potential implications of this observation for the conservation of anuran
 amphibians.
description: File 1 - TPC
 parameters_csvFile 2 - Absolute
 locomotor performance_csvFile 3 - Critical
 temperatures minimumFile 4 - Critical
 temperatures maximumFile 5 - Thermal
 preferenceRead me_Files
 contents
DOI: 10.5061/dryad.c6214
title: Data from: Uncovering the genetic signature of quantitative trait evolution with replicated time series data

description: The genetic architecture of adaptation in natural populations has not yet
 been resolved: it is not clear to what extent the spread of beneficial
 mutations (selective sweeps) or the response of many quantitative trait
 loci drive adaptation to environmental changes. Although much attention
 has been given to the genomic footprint of selective sweeps, the
 importance of selection on quantitative traits is still not well studied,
 as the associated genomic signature is extremely difficult to detect. We
 propose ‘Evolve and Resequence’ as a promising tool, to study polygenic
 adaptation of quantitative traits in evolving populations. Simulating
 replicated time series data we show that adaptation to a new intermediate
 trait optimum has three characteristic phases that are reflected on the
 genomic level: (1) directional frequency changes towards the new trait
 optimum, (2) plateauing of allele frequencies when the new trait optimum
 has been reached and (3) subsequent divergence between replicated
 trajectories ultimately leading to the loss or fixation of alleles while
 the trait value does not change. We explore these 3 phase characteristics
 for relevant population genetic parameters to provide expectations for
 various experimental evolution designs. Remarkably, over a broad range of
 parameters the trajectories of selected alleles display a pattern across
 replicates, which differs both from neutrality and directional selection.
 We conclude that replicated time series data from experimental evolution
 studies provide a promising framework to study polygenic adaptation from
 whole-genome population genetics data.
description: Quantitative trait
 simulatorProvided python scripts
 enable simulations of quantitative trait evolution to a new fitness
 optimum using forward simulations in diploids assuming random mating and
 free recombination between loci. For further details see associated
 publication.python_qt_simulator.zip
DOI: 10.5061/dryad.7f7d1
title: Data from: Comparison of cerebral blood volume and plasma volume in untreated intracranial tumors

description: Purpose: Plasma volume and blood volume are imaging-derived parameters
 that are often used to evaluation intracranial tumors. Physiologically,
 these parameters are directly related, but their two different methods of
 measurements, T1-dynamic contrast enhanced (DCE)- and T2-dynamic
 susceptibility contrast (DSC)-MR utilize different model assumptions and
 approaches. This poses the question of whether the interchangeable use of
 T1-DCE-MRI derived fractionated plasma volume (vp) and relative cerebral
 blood volume (rCBV) assessed using DSC-MRI, particularly in glioblastoma,
 is reliable, and if this relationship can be generalized to other types of
 brain tumors. Our goal was to examine the hypothetical correlation between
 these parameters in three most common intracranial tumor types. Methods:
 Twenty-four newly diagnosed, treatment naïve brain tumor patients, who had
 undergone DCE- and DSC-MRI, were classified in three histologically proven
 groups: glioblastoma (n=7), meningioma (n=9), and intraparenchymal
 metastases (n=8). The rCBV was obtained from DSC after normalization with
 the normal-appearing anatomically symmetrical contralateral white matter.
 Correlations between these parameters were evaluated using Pearson (r),
 Spearman's (ρ) and Kendall’s tau-b (τB) rank correlation coefficient.
 Results: The Pearson, Spearman and Kendall’s correlation between vp with
 rCBV were r=0.193, ρ=0.253 and τB=0.33 (p-Pearson=0.326, p-Spearman=0.814
 and p-Kendall=0.823) in glioblastoma, r=-0.007, ρ=0.051 and τB=0.135
 (p-Pearson=0.970, p-Spearman=0.765 and p-Kendall=0.358) in meningiomas,
 and r= 0.289, ρ=0.228 and τB= 0.239 (p-Pearson=0.109, p-Spearman=0.210 and
 p-Kendall=0.095) in metastasis. Conclusion: Results indicate that no
 correlation exists between vp with rCBV in glioblastomas, meningiomas and
 intraparenchymal metastatic lesions. Consequently, these parameters, as
 calculated in this study, should not be used interchangeably in either
 research or clinical practice.
description: Plos_one_SB_dataThe age column is deleted.
DOI: 10.5061/dryad.2nd65
title: Data from: Large brains and groups associated with high rates of agonism in primates

description: Animals living in social groups will almost inevitably experience
 competition for limited resources. One consequence of competition can be
 agonism, an activity that is not only costly to participate in at the
 individual level but potentially also at the group level due the
 detrimental effects that agonism can have on group stability and cohesion.
 Agonism rates across primate species have previously been associated with
 group size and terrestriality; therefore primates, particularly those in
 large groups, should develop strategies to mitigate or counter-act
 agonism. Here, we use phylogenetically controlled analyses to evaluate
 whether the known relationship between brain size and group size may
 partially reflect an association between agonism and brain size in large
 groups. We find strong positive associations between group level agonism
 and 2 measures of brain size (endocranial volume and neocortex ratio) in
 45 separate populations across 23 different primate species. In contrast,
 dyadic (pair-wise) rates of agonism are inversely associated with group
 size and not with brain size. Moreover, we find a distinct absence of
 relationships between agonism and the prevalence of prosocial, cooperative
 behaviors. That overall rates of agonism increase but dyadic rates
 decrease with group size suggests that individuals in larger groups either
 can buffer aggression better or only species with low levels of dyadic
 conflict can maintain large groups.
description: Cowl Female population
 agonismThe CSV file contains
 all of the data used in the manuscript. All capitalised brain and body
 values belong to the same dataset. The same for lowercase brain and body
 values.Cowl_2017_Female_population_agonism_data.csv
DOI: 10.15468/dl.ufv8ca
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CoordinateUncertaintyInMeters 0.0-5000.0",
 "TaxonKey is Dendrocalamus membranaceus"
 ]
}

 The dataset includes 32 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001315-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.