cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.qf0ft85
title: Data from: Diatoms do radiate: evidence for a freshwater species flock

description: Due to the ubiquity and high dispersal capacity of unicellular eukaryotes,
 their often extraordinary diversity found in isolated and long-lived
 ecosystems such as ancient lakes is typically attributed to multiple
 colonization events rather than to in situ speciation. However, respective
 evolutionary studies are very scarce and the often high number of species
 flocks in ancient lakes across multicellular taxa raises the question
 whether unicellular species, such as diatoms, may radiate as well. Here,
 we use an integrative approach that includes molecular data from benthic
 diatom species of the genus Aneumastus endemic to ancient Lake Ohrid,
 fossil data obtained from the sediment record of a recent deep-drilling
 project and biogeographical information to test if this group, indeed,
 constitutes a species flock. Molecular-clock and phylogenetic analyses
 indicate a young monophyletic group of several endemic species. Molecular,
 fossil and biogeographical data strongly suggest a rapid intra-lacustrine
 diversification, which was possibly triggered by the emergence of novel
 habitats. This finding is the first evidence for a species flock in
 diatoms and suggests that in situ speciation is also a relevant
 evolutionary process for unicellular eukaryotes in isolated ecosystems.
description: SSU-Align input and
 output filesInput and output files
 for the 18S aligment using the software SSU-ALIGNSSU_input_output_files.zipPhylogenetic tree filesThis file contains RAxML and MrBayes tree files for the 'raphid' and 'Aneumastus' datasets as well as BEAST MCC tree files for both the relaxed- and strict-clock analysesPhylogenetic_tree_files.zip
DOI: 10.5061/dryad.3t758
title: Data from: Spatial and seasonal influences on culturable endophytic mycobiota associated with different tissues of Eugenia jambolana Lam. and their antibacterial activity against MDR strains

description: Background: Present study focuses on diversity and distribution analysis
 of endophytic fungi associated with different tissues of Eugenia
 jambolana. The influence of season and geographical location on diversity
 and distribution of endophytic fungi has been analyzed. Antibacterial
 activity of isolated fungal species has also been investigated against MDR
 bacterial strains. Result: A total of 1896 endophytic fungal isolates were
 obtained from healthy, surface sterilized tissues of leaf, stem and
 petiole tissues during summer, monsoon and winter season. Out of 24 fungal
 species isolated, 20 species belong to class Ascomycetes, 2 to
 Basidiomycetes and 2 to Zygomycetes. Maximum species diversity was in
 rainy season whereas colonization frequency was in winter. All the
 diversity indices showed maximum species diversity at site 5
 (Yamunanager), rainy among the seasons and leaf among the tissues studied.
 Aspergillus genus was most frequently isolated. Aspergillus niger and
 Alternaria alternata were most dominant species. Three way ANOVA results
 showed that effect of season was highly significant on species diversity
 in relation to sites and tissues. 60% endophytic fungal extracts showed
 significant antibacterial activity against one or more than one MDR
 bacterial strain. Conclusion: Different fungal species were recovered from
 different sites but the inter-site comparisons were not significant
 according to Jaccard similarity coefficient. Diversity of such fungal
 endophytes indicates that Eugenia jambolana plant acts as an ecosystem
 facilitating survival of many microbes with impressive antibacterial
 potential.
description: Phylogenic analysis of
 endophytic fungi isolated from the leaf, stem and petiole of E.
 jambolana.Phylogenic analysis of
 endophytic fungi isolated from 3 different tissues the leaf, stem and
 petiole of E. jambolana. The phylogenic tree was constructed using
 Neighbor- Joining method. Bootstrap values above 50% from 1000 replicates
 are indicated at each node.fig
 1.tiffsequence
DOI: 10.5061/dryad.5t689
title: Data from: Female reproductive competition in Eulemur rufifrons: eviction and reproductive restraint in a plurally breeding Malagasy primate

description: In mammals with female philopatry, co-resident females inevitably compete
 with each other for resources or reproductive opportunities, thereby
 reducing the kin-selected benefits of altruism towards relatives. These
 counteracting forces of cooperation and competition among kin should be
 particularly pronounced in plurally breeding species with limited
 alternative breeding opportunities outside the natal group. However,
 little is still known about the costs of reproductive competition on
 females’ fitness and the victims’ potential counter-strategies. Here we
 summarize long-term behavioral, demographic and genetic data collected on
 a plurally breeding primate from Madagascar to illuminate mechanisms and
 effects of female reproductive competition, focusing on forcible eviction
 and potential reproductive restraint. The main results of our study
 indicate that females in groups of redfronted lemurs (Eulemur rufifrons)
 above a critical size suffer from competition from their close relatives:
 females in larger groups face an increased probability of not giving birth
 as well as a higher probability of being evicted, especially during the
 annual mating and birth seasons. Eviction is not predicted by the number
 of adult females, the number of close female relatives, female age or
 inter-annual variation in rainfall but only by total group size. Thus,
 eviction in this species is clearly linked with reproductive competition,
 it cannot be forestalled by reproductive restraint or having many
 relatives in the group, and it occurs in the absence of a clear dominance
 hierarchy. Our study therefore also underscores the notion that potential
 inclusive fitness benefits from living with relatives may have been
 generally over-rated and should not be taken for granted.
description: Kappeler_FichtelThe file contains demographic data on Eulemur rufifrons collected in Kirindy forest, Madagascar.
DOI: 10.5061/dryad.4nm5sh4
title: Data from: High gut microbiota diversity provides lower resistance against infection by an intestinal parasite in bumblebees

description: The microbiome, especially the gut flora, is known to affect the
 interaction between parasites and their hosts. In this context, a
 parasitic infection can be viewed as an invasion into the pre-existing
 microbial ecological community. Hence, in addition to the intrinsic
 defense mechanisms of the host itself, infection success depends on the
 colonization resistance of the microbiota. In the bumblebee, Bombus
 terrestris, the microbiota provides resistance to the intestinal parasite,
 Crithidia bombi, yet which properties actually provide protection remains
 largely unknown. Here, we show that the community structure of the gut
 microbiota - in terms of bacterial operational taxonomic units (OTUs) of
 16S rRNA gene sequences - prior to parasite exposure can be informative of
 the eventual infection outcome. Specifically, higher microbiota OTU
 diversity and evenness are associated with less resistance. However, the
 microbial community structure does not differ between infected and
 non-infected individuals, or between infected individuals of varying
 susceptibility. This suggests that parasite infection success depends on
 microbiota composition but subsequent changes occur, although the exact
 alteration that occur remain elusive. In fact, the bumblebee microbiota is
 surprisingly unaffected by parasite exposure and infection. Rather, the
 microbiota-host interactions prior to parasite exposure seems a key
 mechanism regulating resistance to infection.
description: D1_Metadata_SamplesSample informationD2_OTUcountsOTU count table for all samples after amplicon processing prior data cleaning.D3_OTUreferenceSequencesCentroid reference sequence for each OTU.D4_OTUTaxonomyTaxonomic classification of OTUs based on RDP and SILVA database and closest hit to bee 16S sequences.
DOI: 10.15482/usda.adc/29620973
title: Data from: Enzyme-treated microalgal co-product diets for rainbow trout aquaculture: Supporting fish growth, phosphorus digestibility, and reducing phosphorus waste emission

description: Aquaculture is one of the fastest-growing food sectors, producing almost 50% of fish for human consumption worldwide. However, relying on fish meal and oil for aquaculture diets is not sustainable economically or environmentally. Aquaculture feeds also contain terrestrial plant ingredients with indigestible forms of phosphorus (P), of which 70%–80% can be released into aquatic environments. This P influx contributes to eutrophication of freshwater ecosystems that can lead to anoxic conditions. This study explores a more sustainable diet for salmonids, an important and valuable seafood. Our aim was to test ingredients with highly digestible forms of P in nutritionally balanced portions to support fish growth and reduce P loading. We determined the digestibility of three feeds containing raw, extruded, and enzymatically processed microalgal co-product of <i>Nannochloropsis oculata</i> compared to a conventional diet. We also quantified how much P was retained and excreted. We detected highest growth in trout fed enzymatically processed co-product feed, though it was not statistically different (p = 0.846) from growth of fish fed the reference or other co-product diets. The enzyme-treated, microalgal co-product ingredient and diet had comparable values for P digestibility and solid P excretion to the reference diet, but the lowest average solid P excretion of all test diets. Trout fed the enzyme-treated diet had the highest P retention, while the reference diet had the lowest (p = 0.0429). Trout fed the enzyme-treated diet had the lowest (p = 0.0174) and negative dissolved P excretion, while those fed the reference diet had the highest. Results showed that enzyme-treated <i>N. oculata</i> co-product maintains digestibility, increases P retention, and reduces dissolved P excretion compared to the reference diet in rainbow trout. These findings encourage follow-up research to design and test growth performance of diets containing enzyme-treated microalgal co-product as sustainable trout aquafeed.<br>The following dataset contains the growth metrics, phosphorus budget, and nitrogen budget.
DOI: 10.15482/usda.adc/29620973.v1
title: Data from: Enzyme-treated microalgal co-product diets for rainbow trout aquaculture: Supporting fish growth, phosphorus digestibility, and reducing phosphorus waste emission

description: Aquaculture is one of the fastest-growing food sectors, producing almost 50% of fish for human consumption worldwide. However, relying on fish meal and oil for aquaculture diets is not sustainable economically or environmentally. Aquaculture feeds also contain terrestrial plant ingredients with indigestible forms of phosphorus (P), of which 70%–80% can be released into aquatic environments. This P influx contributes to eutrophication of freshwater ecosystems that can lead to anoxic conditions. This study explores a more sustainable diet for salmonids, an important and valuable seafood. Our aim was to test ingredients with highly digestible forms of P in nutritionally balanced portions to support fish growth and reduce P loading. We determined the digestibility of three feeds containing raw, extruded, and enzymatically processed microalgal co-product of <i>Nannochloropsis oculata</i> compared to a conventional diet. We also quantified how much P was retained and excreted. We detected highest growth in trout fed enzymatically processed co-product feed, though it was not statistically different (p = 0.846) from growth of fish fed the reference or other co-product diets. The enzyme-treated, microalgal co-product ingredient and diet had comparable values for P digestibility and solid P excretion to the reference diet, but the lowest average solid P excretion of all test diets. Trout fed the enzyme-treated diet had the highest P retention, while the reference diet had the lowest (p = 0.0429). Trout fed the enzyme-treated diet had the lowest (p = 0.0174) and negative dissolved P excretion, while those fed the reference diet had the highest. Results showed that enzyme-treated <i>N. oculata</i> co-product maintains digestibility, increases P retention, and reduces dissolved P excretion compared to the reference diet in rainbow trout. These findings encourage follow-up research to design and test growth performance of diets containing enzyme-treated microalgal co-product as sustainable trout aquafeed.<br>The following dataset contains the growth metrics, phosphorus budget, and nitrogen budget.
DOI: 10.5061/dryad.g3gj1
title: Data from: Umbilical vein oxytocin for the treatment of retained placenta (Release Study): a double-blind, randomised controlled trial.

description: BACKGROUND: Retained placenta is associated with post-partum haemorrhage.
 Meta-analysis has suggested that umbilical injection of oxytocin could
 increase placental expulsion without the need for a surgeon or
 anaesthetic. We assessed the effect of high-dose umbilical vein oxytocin
 as a treatment for retained placenta. METHODS: In this double-blind,
 placebo-controlled trial, haemodynamically stable women with a retained
 placenta for more than 30 min were recruited from 13 sites in the UK,
 Uganda, and Pakistan. 577 women were randomly assigned by a
 computer-generated randomisation list stratified by centre to 30 mL saline
 containing either 50 IU oxytocin (n=292) or 5 mL water (n=285), which was
 injected into the placenta through an umbilical vein catheter. All trial
 participants, study workers, and data handlers were masked to individual
 allocations. The primary outcome was the need for manual removal of the
 placenta. Analysis was by intention to treat. This study is registered,
 number ISRCTN 13204258. FINDINGS: The primary outcome was recorded for all
 participants. We detected no difference between the groups in the need for
 manual removal of placenta (oxytocin 179/292 [61.3%] vs placebo 177/285
 [62.1%]; relative risk 0.98, 95% CI 0.87-1.12; p=0.84). The need for
 manual removal was higher in the UK (overall 250/361 [69%]) than in Uganda
 (90/190 [47%]) or Pakistan (16/26 [62%]). Adverse events did not differ
 between the two groups. INTERPRETATION: Umbilical oxytocin has no
 clinically significant effect on the need for manual removal for women
 with retained placenta. FUNDING: WHO, WellBeing of Women, Pakistan Higher
 Education Commission.
description: Data from: Umbilical
 vein oxytocin for the treatment of retained placenta (Release
 Study).This is a fully labelled
 SPSS dataset from the clinical trial of umbilical oxytocin for the
 treatment of human retained placentas. Ethical approval for its
 publication was obtained from the Central NRES Committee (London) on 24th
 March 2015. All except 2 indirect identifiers have been removed so as to
 fully anonymise it in line with recommendations from Hrynaszkiewicz et al
 (BMJ 2010;340:c181).Release final checked 17Mar2015
 open.sav
DOI: 10.5061/dryad.701q8
title: Data from: On the link between functional traits and growth rate: meta-analysis shows effects change with plant size, as predicted

description: A plant's growth rate is seen as a central element of its ecological
 strategy, and as determined by its traits.Yet the literature is
 inconsistent about the empirical correlation between functional traits and
 growth, casting doubt on the capacity of some prominent traits to
 influence growth rate. We propose that traits should influence growth in a
 way that depends on the size of individual plants. We outline mechanisms
 and hypotheses based on new theoretical work, and test these predictions
 in tree species using a meta-analysis of 103 studies (&gt; 500
 correlations) for five traits (specific leaf area, wood density, maximum
 height, seed mass and maximum assimilation rate).We also recorded data for
 14 other traits commonly used in the trait literature.To capture the
 effects of plant size, we tested for a shift in the direction of
 correlation between growth rates and each trait across three ontogenetic
 stages: seedling,sapling and adult. Results were consistent with
 predictions, although there were some limitations arising from unequal
 numbers of observation across ontogenetic stages.Specific leaf area was
 correlated with relative growth rate in seedlings but not in adult
 plants.Correlations of growth with wood density were not affected by
 ontogenetic stage. Seed mass, assimilation rate and maximum height were
 correlated with relative growth rate only in one ontogenetic stage
 category: seedlings,seedlings and adults,respectively. Although we were
 able to confirm several of our theoretical predictions,major knowledge
 gaps still exist in the trait literature.For example,for one third of the
 traits considered,the majority (&gt; 75%) of reported correlations
 with growth came from the same ontogenetic stage. Synthesis: We show for
 some traits, how trait-growth correlations change in a predictable way
 with plant size.Our understanding of plant strategies should shift away
 from describing species as having a fixed growth strategy throughout their
 life (on a continuous axis from slow to fast growth), in favour of a
 size-dependent growth trajectories.
description: raw data for
 meta-analysis of Gibert et alDataset reporting
 correlation coefficients between growth and traits from 103 articles
 published between 1983 and 2014. In total, 551 correlations relations
 linking growth rate to any of a list of 19 traits across a range of
 ontogenetic were reported here. Data are variable in multiple ways.
 Climate zones spanned from temperate regions to tropics. Different
 experiment types (laboratory, field, plantation or greenhouse), growth
 measurements and growth form (tree, woody or across growth form) were
 included. The number of species used for each correlation ranged from 2 to
 300 species, with an average of 31.CompileData.csv
DOI: 10.5061/dryad.32q9q5d
title: Data from: Revised Airlie House consensus guidelines for design and implementation of ALS clinical trials

description: Objective: To revise the 1999 Airlie House consensus guidelines for the
 design and implementation of preclinical therapeutic studies and clinical
 trials in amyotrophic lateral sclerosis (ALS). Methods: A consensus
 committee comprising 140 key members of the international ALS community
 (ALS researchers, clinicians, patient representatives, research funding
 representatives, industry and regulatory agencies) addressed nine areas of
 need within ALS research: 1. Pre-clinical studies; 2. Biological and
 phenotypic heterogeneity; 3. Outcome measures; 4. Disease-modifying and
 symptomatic interventions; 5. Recruitment and retention; 6. Biomarkers; 7.
 Clinical trial phases; 8. Beyond traditional trial designs; and 9.
 Statistical considerations. Assigned to one of eight sections, committee
 members generated a draft set of recommendations based on a “background”
 of developing a (pre)clinical question and a “rationale” outlining the
 evidence and expert opinion. Following a two-day, face-to-face workshop at
 the Airlie House Conference Center, a modified Delphi process was used to
 develop draft consensus guidelines, which were subsequently reviewed and
 modified based on comments from the public. Statistical experts drafted a
 separate document of statistical considerations (section 9). Results: In
 this paper we summarize 112 recommendations and their associated
 backgrounds and rationales. The full list of recommendations on all main
 topics as well as on statistical considerations are available (Appendices
 e-3 and e-4). The authors prioritized 15 recommendations with the greatest
 potential to improve ALS clinical research. Conclusion: The revised Airlie
 House ALS Clinical Trials Consensus Guidelines should serve to improve
 clinical trial design and accelerate the development of effective
 treatments for patients with ALS.
description: Appendix e-3 Glossary of
 TermsAppendix e-4 Full ALS
 Clinical Trial GuidelinesAppendix e-5 Statistical
 Considerations
DOI: 10.15468/dl.szxnhf
title: Occurrence Download

description: A dataset containing 60727 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Machine Observation, Observation)",
 "Continent is Europe",
 "Issue is one of (Zero coordinate, Coordinate out of range, Coordinate rounded, Geodetic datum invalid, Geodetic datum assumed WGS84, Coordinate reprojected, Coordinate reprojection failed, Coordinate reprojection suspicious, Coordinate accuracy invalid, Coordinate uncertainty meters invalid, Coordinate precision/uncertainty mismatch, Footprint SRS invalid, Footprint WKT mismatch, Footprint WKT invalid, Country coordinate mismatch, Country mismatch, Country invalid, Country derived from coordinates, Continent coordinate mismatch, Continent country mismatch, Continent invalid, Continent derived from country, Continent derived from coordinates, Presumed negated longitude, Presumed negated latitude, Recorded date mismatch, Recorded date invalid, Recorded date unlikely, Taxon match fuzzy, Taxon match aggregate, The scientific name ID was not used in backbone matching, The taxon concept ID was not used in backbone matching, The taxon ID was not used in backbone matching, The scientific name ID was not found in the checklist, The taxon concept ID was not found in the checklist, The taxon ID was not found in the checklist, The scientific name differs on the record from that found in the checklist, Taxon match none, The backbone match found using the taxon IDs differs from what would be found if using the scientific names, Depth not metric, Depth unlikely, Depth min max swapped, Depth non numeric, Elevation unlikely, Elevation min max swapped, Elevation not metric, Elevation non numeric, Modified date invalid, Modified date unlikely, Identified date unlikely, Identified date invalid, Basis of record invalid, Type status invalid, Multimedia date invalid, Multimedia URI invalid, References URI invalid, Error during interpretation, Individual count invalid, Individual count conflicts with occurrence status, Occurrence status inferred from individual count, Occurrence status inferred from basis of record, Georeferenced date unlikely, Georeferenced date invalid, Ambiguous institution, Ambiguous collection, Institution match none, Collection match none, Institution match fuzzy, Collection match fuzzy, Institution collection mismatch, Possibly on loan, Different owner institution)",
 "OccurrenceStatus is Present",
 "TaxonKey is Orchis militaris",
 "Year 2000-2026"
 ]
}

 The dataset includes 60727 records from 444 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000514-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.