cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.3v8s5
title: Data from: Fluctuating seawater pH/ p CO 2 regimes are more energetically expensive than static pH/ p CO 2 levels in the mussel Mytilus edulis

description: Ocean acidification (OA) studies typically use stable open-ocean pH or CO2
 values. However, species living within dynamic coastal environments can
 naturally experience wide fluctuations in abiotic factors, suggesting
 their responses to stable pH conditions may not be reflective of either
 present or near-future conditions. Here we investigate the physiological
 responses of the mussel Mytilus edulis to variable seawater pH conditions
 over short- (6 h) and medium-term (2 weeks) exposures under both current
 and near-future OA scenarios. Mussel haemolymph pH closely mirrored that
 of seawater pH over short-term changes of 1 pH unit with acidosis or
 recovery accordingly, highlighting a limited capacity for acid–base
 regulation. After 2 weeks, mussels under variable pH conditions had
 significantly higher metabolic rates, antioxidant enzyme activities and
 lipid peroxidation than those exposed to static pH under both current and
 near-future OA scenarios. Static near-future pH conditions induced
 significant acid–base disturbances and lipid peroxidation compared with
 the static present-day conditions but did not affect the metabolic rate.
 These results clearly demonstrate that living in naturally variable
 environments is energetically more expensive than living in static
 seawater conditions, which has consequences for how we extrapolate future
 OA responses in coastal species.
description: Mangan_et_al_ProcRoyalB_2017_RawDataThis file contains all raw data used to produce the figures and tables within the article. Supplementary data is within a separate file.Mangan_et_al_Supplementary_ProcRoyalB_2017_RawDataThis file contains all the data used to produce the supplementary material for this article.
DOI: 10.5061/dryad.23d13
title: Data from: Positive selection of deleterious alleles through interaction with a sex-ratio suppressor gene in African buffalo: a plausible new mechanism for a high frequency anomaly

description: Although generally rare, deleterious alleles can become common through
 genetic drift, hitchhiking or reductions in selective constraints. Here we
 present a possible new mechanism that explains the attainment of high
 frequencies of deleterious alleles in the African buffalo (Syncerus
 caffer) population of Kruger National Park, through positive selection of
 these alleles that is ultimately driven by a sex-ratio suppressor. We have
 previously shown that one in four Kruger buffalo has a Y-chromosome
 profile that, despite being associated with low body condition, appears to
 impart a relative reproductive advantage, and which is stably maintained
 through a sex-ratio suppressor. Apparently, this sex-ratio suppressor
 prevents fertility reduction that generally accompanies sex-ratio
 distortion. We hypothesize that this body-condition-associated
 reproductive advantage increases the fitness of alleles that negatively
 affect male body condition, causing genome-wide positive selection of
 these alleles. To investigate this we genotyped 459 buffalo using 17
 autosomal microsatellites. By correlating heterozygosity with body
 condition (heterozygosity-fitness correlations), we found that most
 microsatellites were associated with one of two gene types: one with
 elevated frequencies of deleterious alleles that have a negative effect on
 body condition, irrespective of sex; the other with elevated frequencies
 of sexually antagonistic alleles that are negative for male body condition
 but positive for female body condition. Positive selection and a direct
 association with a Y-chromosomal sex-ratio suppressor are indicated,
 respectively, by allele clines and by relatively high numbers of
 homozygous deleterious alleles among sex-ratio suppressor carriers. This
 study, which employs novel statistical techniques to analyse
 heterozygosity-fitness correlations, is the first to demonstrate the
 abundance of sexually-antagonistic genes in a natural mammal population.
 It also has important implications for our understanding not only of the
 evolutionary and ecological dynamics of sex-ratio distorters and
 suppressors, but also of the functioning of deleterious and
 sexually-antagonistic alleles, and their impact on population viability.
description: Genetic data Kruger Van
 Hooft et al. 2014Autosomal
 microsatellites data (17 loci), Y-chromosomal microsatellite data
 (haplotypes)Genetic data East Africa
 Van Hooft et al. 2014Autosomal microsatellite
 data (5 loci with a majority allele)Ecological data Van
 Hooft et al. 2014Ecological data Kruger
 NP. Data on herd size, herd coordinates, sex, age, BTB status and body
 condition.Rainfall data Van Hooft
 et al. 2014Annual rainfall data
 Kruger NP. Data were obtained from the South African Weather
 Service.
DOI: 10.5061/dryad.cf225bk
title: Data from: The role of plasticity in the evolution of cryptic pigmentation in a freshwater isopod

description: 1. Cryptic pigmentation of prey is often thought to evolve in response to
 predator-mediated selection, but pigmentation traits can also be plastic,
 and change with respect to both abiotic and biotic environmental
 conditions. In such cases, identifying the presence of, and drivers of,
 trait plasticity is useful for understanding the evolution of crypsis. 2.
 Previous work suggests that cryptic pigmentation of freshwater isopods
 (Asellus aquaticus) has evolved in response to predation pressure by fish
 in habitats with varying macrophyte cover and coloration. However,
 macrophytes can potentially influence the distribution of pigmentation by
 altering not only habitat-specific predation susceptibility, but also
 dietary resources and abiotic conditions. The goals of this study were to
 experimentally test how two putative agents of selection, namely
 macrophytes and fish, affect the pigmentation of A. aquaticus, and to
 assess whether pigmentation is plastic, using a diet manipulation in a
 common garden. 3. We performed two experiments: i) In an outdoor mesocosm
 experiment, we investigated how different densities of predatory fish (0 /
 30 / 60 threespine stickleback [Gasterosteus aculeatus] per mesocosm) and
 macrophytes (presence / absence) affected the abundance, pigmentation and
 body size structure of isopod populations. ii) In a subsequent laboratory
 experiment we reared isopods in a common garden experiment on two
 different food sources (high / low protein content) to test whether
 variation in pigmentation of isopods can be explained by diet-based
 developmental plasticity. 4. We found that fish presence strongly reduced
 isopod densities, particularly in the absence of macrophytes, but had no
 effect on pigmentation or size structure of the populations. However, we
 found that isopods showed consistently higher pigmentation in the presence
 of macrophytes, regardless of fish presence or absence. Our laboratory
 experiment, in which we manipulated the protein content of the isopods’
 diet, revealed strong plasticity of pigmentation and weak plasticity of
 growth rate. 5. The combined results of both experiments suggest that
 pigmentation of A. aquaticus is a developmentally plastic trait, and that
 multiple environmental factors (e.g. macrophytes, diet, and predation)
 might jointly influence the evolution of cryptic pigmentation of A.
 aquaticus in nature on relatively short timescales.
description: phenotypic
 dataraw textfiles of asellus
 phenotypes, abundance and plant biomassasellus_data.rar
DOI: 10.5061/dryad.gg273
title: Data from: Speciation by genome duplication: repeated origins and genomic composition of the recently formed allopolyploid species Mimulus peregrinus

description: Whole genome duplication (polyploidisation) is a mechanism of
 “instantaneous” species formation that has played a major role in the
 evolutionary history of plants. Much of what we know about the early
 evolution of polyploids is based upon studies of a handful of recently
 formed species. A new polyploid hybrid (allopolyploid) species Mimulus
 peregrinus, formed within the last 140 years, was recently discovered on
 the Scottish mainland and corroborated by chromosome counts. Here, using
 targeted, high-depth sequencing of 1200 genic regions, we confirm the
 parental origins of this new species from M. x robertsii, a sterile
 triploid hybrid between the two introduced species M. guttatus and M.
 luteus that are naturalised and widespread in the United Kingdom. We also
 report a new population of M. peregrinus on the Orkney Islands and
 demonstrate that populations on the Scottish mainland and Orkney Islands
 arose independently via genome duplication from local populations of M. x
 robertsii. Our data raise the possibility that some alleles are already
 being lost in the evolving M. peregrinus genomes. The recent origins of a
 new species of the ecological model genus Mimulus via allopolyploidisation
 provide a powerful opportunity to explore the early stages of
 hybridisation and genome duplication in naturally evolved lineages.
description: gut-1gut-2gut-4lut-1gut-3lut-2lut-4lut-3per-2per-3per-4per-1rob-1rob-2rob-3rob-4
DOI: 10.5061/dryad.fb923
title: Data from: The best of both worlds: a combined approach for analyzing microalgal diversity via metabarcoding and morphology-based methods

description: An increasing number of studies use next generation sequencing (NGS) to
 analyze complex communities, but is the method sensitive enough when it
 comes to identification and quantification of species? We compared NGS
 with morphology-based identification methods in an analysis of microalgal
 (periphyton) communities. We conducted a mesocosm experiment in which we
 allowed two benthic grazer species to feed upon benthic biofilms, which
 resulted in altered periphyton communities. Morphology-based
 identification and 454 (Roche) pyrosequencing of the V4 region in the
 small ribosomal unit (18S) rDNA gene were used to investigate the
 community change caused by grazing. Both the NGS-based data and the
 morphology-based method detected a marked shift in the biofilm
 composition, though the two methods varied strongly in their abilities to
 detect and quantify specific taxa, and neither method was able to detect
 all species in the biofilms. For quantitative analysis, we therefore
 recommend using both metabarcoding and microscopic identification when
 assessing the community composition of eukaryotic microorganisms.
description: Algal dry
 massThis csv file contains
 the algal dry mass (mg/ml).Algal cell
 numberThis csv file contains
 the algal cell number (cells/cm3) obtained with morphology-based
 approach.Algal
 biovolumeThis csv file contains
 the algal biovolume (µm/cm3) obtained with morphology-based
 approach.Sequence
 abundanceThis csv file contains
 the sequence abundances obtained with the DNA metabarcoding
 approach.Sequence
 dataThis csv file contains
 the sequences used to construct the phylogenetic tree, pairwise identity
 and taxonomic identity.
DOI: 10.5061/dryad.105cb
title: Data from: Placebo effects in trials evaluating 12 selected minimally invasive interventions: a systematic review and meta-analysis

description: Objectives: To analyse the impact of placebo effects on outcome in trials
 of selected minimally invasive procedures and to assess reported adverse
 events in both trial arms. Design: A systematic review and meta-analysis.
 Data sources and study selection: We searched MEDLINE and Cochrane library
 to identify systematic reviews of musculoskeletal, neurological and
 cardiac conditions published between January 2009 and January 2014
 comparing selected minimally invasive with placebo (sham) procedures. We
 searched MEDLINE for additional randomised controlled trials published
 between January 2000 and January 2014. Data synthesis: Effect sizes (ES)
 in the active and placebo arms in the trials’ primary and pooled secondary
 end points were calculated. Linear regression was used to analyse the
 association between end points in the active and sham groups. Reported
 adverse events in both trial arms were registered. Results: We included 21
 trials involving 2519 adult participants. For primary end points, there
 was a large clinical effect (ES≥0.8) after active treatment in 12 trials
 and after sham procedures in 11 trials. For secondary end points, 7 and 5
 trials showed a large clinical effect. Three trials showed a moderate
 difference in ES between active treatment and sham on primary end points
 (ES ≥0.5) but no trials reported a large difference. No trials showed
 large or moderate differences in ES on pooled secondary end points.
 Regression analysis of end points in active treatment and sham arms
 estimated an R2 of 0.78 for primary and 0.84 for secondary end points.
 Adverse events after sham were in most cases minor and of short duration.
 Conclusions: The generally small differences in ES between active
 treatment and sham suggest that non-specific mechanisms, including
 placebo, are major predictors of the observed effects. Adverse events
 related to sham procedures were mainly minor and short-lived. Ethical
 arguments frequently raised against sham-controlled trials were generally
 not substantiated.
description: Effect
 sizesThe spreadsheet includes
 standard deviations (in some cases converted from SE or confidence
 interval) at baseline and at last follow-up, both in active treatment and
 sham group in the included 21 trials. Cohen's effect size
 (standardised mean difference between baseline and last follow-up) was
 calculated for primary and pooled secondary endpoints. The values were
 adjusted for variable number of participants (see ref.
 14).ES.xls
DOI: 10.5061/dryad.s2948
title: Data from: The devil is in the details: genetic variation in introduced populations and its contributions to invasion

description: The influence of genetic variation on invasion success has captivated
 researchers since the start of the field of invasion genetics 50 years
 ago. We review the history of work on this question and conclude that
 genetic variation—as surveyed with molecular markers—appears to shape
 invasion rarely. Instead, there is a significant disconnect between marker
 assays and ecologically relevant genetic variation in introductions. We
 argue that the potential for adaptation to facilitate invasion will be
 shaped by the details of genotypes affecting phenotypes, and we highlight
 three areas in which we see opportunities to make powerful new insights.
 (i) The genetic architecture of adaptive variation. Traits shaped by
 large-effect alleles may be strongly impacted by founder events yet more
 likely to respond to selection when genetic drift is strong. Large-effect
 loci may be especially relevant for traits involved in biotic
 interactions. (ii) Cryptic genetic variation exposed during invasion.
 Introductions have strong potential to uncover masked variation due to
 alterations in genetic and ecological environments. (iii) Genetic
 interactions during admixture of multiple source populations. As
 divergence among sources increases, positive followed by increasingly
 negative effects of admixture should be expected. Although generally
 hypothesized to be beneficial during invasion, admixture is most often
 reported among sources of intermediate divergence, supporting the
 possibility that incompatibilities among divergent source populations
 might be limiting their introgression. Finally, we note that these details
 of invasion genetics can be coupled with comparative demographic analyses
 to link genetic changes to the evolution of invasiveness itself.
description: Admixture and Fst among
 sources of species introductionsA spreadsheet listing
 studies reporting FST and related population divergence metrics among
 native populations in the source region of species invasions, and evidence
 for admixture among these source populations. Data are from studies
 published in July 2014 and earlier.Dlugosch_etal_2015_ME_AdmixtureFst.xls
DOI: 10.5061/dryad.66f6m
title: Data from: One fly to rule them all—muscid flies are the key pollinators in the Arctic

description: Global change is causing drastic changes in the pollinator communities of
 the Arctic. While arctic flowers are visited by a wide range of insects,
 flies in family Muscidae have been proposed as a pollinator group of
 particular importance. To understand the functional outcome of current
 changes in pollinator community composition, we examined the role of
 muscids in the pollination of a key plant species, the mountain avens
 (Dryas). We monitored the seed set of Dryas across 15 sites at Zackenberg,
 northeast Greenland, and used sticky flower mimics and DNA barcoding to
 describe the flower-visiting community at each site. To evaluate the
 consequences of shifts in pollinator phenology under climate change, we
 compared the flower visitors between the early and the late season. Our
 approach revealed a diverse community of insects visiting Dryas, including
 two-thirds of all insect species known from the area. Even against this
 diverse background, the abundance of muscid flies emerged as a key
 predictor for seed set in Dryas, whereas overall insect abundance and
 species richness had little or no effect. With muscid flies as the main
 drivers of the pollinating function in the High Arctic, a recently
 observed decline in their abundances offers cause for concern.
description: One fly to rule them
 all: all data behind analysesOne fly to rule them
 all.xlsx
DOI: 10.5061/dryad.04f8c
title: Data from: Seedling recruitment in subalpine grassland forbs: predicting field regeneration behaviour from lab germination responses

description: Environmental cueing that restricts seed germination onto times and places
 where mortality risk is relatively low may have considerable selective
 advantage. The predictive power of lab germination responses for field
 regeneration behaviour is rarely tested. We screened 11 alpine grassland
 forbs for germination behaviours predictive of microsite and seasonal
 selectivity, and seed carry-over across years. The predictions were tested
 in a field experiment. Germination in the lab ranged from 0.05% to 67.9%,
 and was affected by light (5 species), temperature (6), fluctuating
 temperatures (4), moist chilling prior to germination
 (cold-stratification) (6), and dormancy-breaking by means of gibberellic
 acid (8). Seedling emergence in the field varied from 0.1% to 14.1%, and
 increased in low-competition microsites (bare-ground gaps and cut
 vegetation; 7 species), and showed seasonal timing (1 in autumn and 1 in
 spring), and seed carry-over across years (7). Lab germination responses
 successfully predicted microsite selectivity in the field and to some
 extent seed carry-over across years but not seasonal timing of
 germination. Gap-detecting species were generally small-seeded,
 low-growing, and found in unproductive habitats. Larger-seeded species
 germinated in all microsites but experienced increased mortality in
 high-competition microsites. Seed carry-over across years was lower in
 alpine specialists than in more widely-distributed species.
description: Vandvik_germinationData from for lab germination experiments and a field regeneration experiment of 11 alpine grassland forbs in Norway in 1998-2000.
DOI: 10.5061/dryad.8657
title: Data from: Local adaptation, phenotypic differentiation and hybrid fitness in diverged natural populations of Arabidopsis lyrata

description: Selection for local adaptation results in genetic differentiation in
 ecologically important traits. In a perennial, outcrossing model plant
 Arabidopsis lyrata, several differentiated phenotypic traits contribute to
 local adaptation, as demonstrated by fitness advantage of the local
 population at each site in reciprocal transplant experiments. Here we
 compared fitness components, hierarchical total fitness and
 differentiation in putatively ecologically important traits of plants from
 two diverged parental populations from different continents in the native
 climate conditions of the populations in Norway and in North Carolina
 (NC), USA. Survival and number of fruits per inflorescence indicated local
 advantage at both sites and aster life-history models provided additional
 evidence for local adaptation also at the level of hierarchical total
 fitness. Populations were also differentiated in flowering start date and
 floral display. We also included reciprocal experimental F1 and F2 hybrids
 to examine the genetic basis of adaptation. Surprisingly, the F2 hybrids
 showed heterosis at the study site in Norway, likely because of a
 combination of beneficial dominance effects from different traits. At the
 NC site, hybrid fitness was mostly intermediate relative to the parental
 populations. Local cytoplasmic origin was associated with higher fitness,
 indicating that cytoplasmic genomes also may contribute to the evolution
 of local adaptation.
description: Alyrata_NCAlyrata_Norway1Alyrata_Norway2
DOI: 10.57760/sciencedb.36239
title: TMIP_MD: Tibetan Medical Classics Entity Term Dataset
title: TMIP_MD：藏医药古籍实体术语数据集

description: We proposes a Hybrid Adaptive Word Segmentation (HAWS) method based on a previously constructed Tibetan Medicine entity dictionary, to extract entity terms from ancient Tibetan medical texts and to build and release a Tibetan Medicine entity dataset (TMIP_ETD). Specifically, First, the 100 ancient books (333 volumes) included in the “Collection of Classical Tibetan Medicine Literature” were digitized, resulting in a text dataset of 13.8 million syllables. Then, the HAWS method was used for tokenization, and potential entities with a frequency of at least 12 were extracted. After manual verification, a dataset of Tibetan medicine classics entity terms containing 34,601 entries was obtained. This Dataset providing data foundation for knowledge mining and digital inheritance of Tibetan medicine ancient classics.
description: We proposes a Hybrid Adaptive Word Segmentation (HAWS) method based on a previously constructed Tibetan Medicine entity dictionary, to extract entity terms from ancient Tibetan medical texts and to build and release a Tibetan Medicine entity dataset (TMIP_ETD). Specifically, First, the 100 ancient books (333 volumes) included in the “Collection of Classical Tibetan Medicine Literature” were digitized, resulting in a text dataset of 13.8 million syllables. Then, the HAWS method was used for tokenization, and potential entities with a frequency of at least 12 were extracted. After manual verification, a dataset of Tibetan medicine classics entity terms containing 34,601 entries was obtained. This Dataset providing data foundation for knowledge mining and digital inheritance of Tibetan medicine ancient classics.
DOI: 10.15468/dl.kdph3m
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Remirema bracteata",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000785-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.