cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.11k3m
title: Data from: Gonadotropin-releasing hormone antagonists versus standard androgen suppression therapy for advanced prostate cancer: a systematic review with meta-analysis

description: Objectives: To evaluate efficacy and safety of gonadotropin-releasing
 hormone (GnRH) antagonists compared to standard androgen suppression
 therapy for advanced prostate cancer. Setting: The international review
 team included methodologists of the German Cochrane Centre and clinical
 experts. Participants: We searched CENTRAL, MEDLINE, Web of Science,
 EMBASE, trial registries and conference books for randomised controlled
 trials (RCT) for effectiveness data analysis, and randomised or
 non-randomised controlled studies (non-RCT) for safety data analysis
 (March 2015). Two authors independently screened identified articles,
 extracted data, evaluated risk of bias and rated quality of evidence
 according to GRADE. Results: 13 studies (10 RCTs, 3 non-RCTs) were
 included. No study reported cancer-specific survival or clinical
 progression. There were no differences in overall mortality (RR 1.35, 95%
 CI 0.63 to 2.93), treatment failure (RR 0.91, 95% CI 0.70 to 1.17) or
 prostate-specific antigen progression (RR 0.83, 95% CI 0.64 to 1.06).
 While there was no difference in quality of life related to urinary
 symptoms, improved quality of life regarding prostate symptoms, measured
 with the International Prostate Symptom Score (IPSS), with the use of GnRH
 antagonists compared with the use of standard androgen suppression therapy
 (mean score difference −0.40, 95% CI −0.94 to 0.14, and −1.84, 95% CI
 −3.00 to −0.69, respectively) was found. Quality of evidence for all
 assessed outcomes was rated low according to GRADE. The risk for
 injection-site events was increased, but cardiovascular events may occur
 less often by using GnRH antagonist. Available evidence is hampered by
 risk of bias, selective reporting and limited follow-up. Conclusions:
 There is currently insufficient evidence to make firm conclusive
 statements on the efficacy of GnRH antagonist compared to standard
 androgen suppression therapy for advanced prostate cancer. There is need
 for further high-quality research on GnRH antagonists with long-term
 follow-up. Trial registration number: CRD42012002751.
description: GnRH antagonist versus
 standard ASTRevMan data file of data
 analysis/meta-analysis. For details on patient characteristics,
 characteristics of included studies, risk of bias assessment and
 evaluation of quality of evidence according to GRADE see published
 manuscript (BMJ Open)
DOI: 10.15468/dl.tptdrd
title: Occurrence Download

description: A dataset containing 132611264 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "DatasetKey is EOD – eBird Observation Dataset",
 "License is CC-BY 4.0",
 "OccurrenceStatus is Present",
 "PublishingOrg is e2e717bf-551a-4917-bdc9-4fa0f342c530",
 "Year is 2024"
 ]
}

 The dataset includes 132611264 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000575-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.9k231
title: Data from: Landscape-level variation in disease susceptibility related to shallow-water hypoxia

description: Diel-cycling hypoxia is widespread in shallow portions of estuaries and
 lagoons, especially in systems with high nutrient loads resulting from
 human activities. Far less is known about the effects of this form of
 hypoxia than deeper-water seasonal or persistent low dissolved oxygen. We
 examined field patterns of diel-cycling hypoxia and used field and
 laboratory experiments to test its effects on acquisition and progression
 of Perkinsus marinus infections in the eastern oyster, Crassostrea
 virginica, as well as on oyster growth and filtration. P. marinus
 infections cause the disease known as Dermo, have been responsible for
 declines in oyster populations, and have limited success of oyster
 restoration efforts. The severity of diel-cycling hypoxia varied among
 shallow monitored sites in Chesapeake Bay, and average daily minimum
 dissolved oxygen was positively correlated with average daily minimum pH.
 In both field and laboratory experiments, diel-cycling hypoxia increased
 acquisition and progression of infections, with stronger results found for
 younger (1-year-old) than older (2-3-year-old) oysters, and more
 pronounced effects on both infections and growth found in the field than
 in the laboratory. Filtration by oysters was reduced during brief periods
 of exposure to severe hypoxia. This should have reduced exposure to
 waterborne P. marinus, and contributed to the negative relationship found
 between hypoxia frequency and oyster growth. Negative effects of hypoxia
 on the host immune response is, therefore, the likely mechanism leading to
 elevated infections in oysters exposed to hypoxia relative to control
 treatments. Because there is considerable spatial variation in the
 frequency and severity of hypoxia, diel-cycling hypoxia may contribute to
 landscape-level spatial variation in disease dynamics within and among
 estuarine systems.
description: Breitburg et al field
 and laboratory data - effects of hypoxia on P marinus infections in
 oystersdata used for analysis
 of field and laboratory experimentsS1 Data
 file.xls
DOI: 10.5061/dryad.9qh7t9t
title: Data from: Modeling the growth and decline of pathogen effective population size provides insight into epidemic dynamics and drivers of antimicrobial resistance

description: Non-parametric population genetic modeling provides a simple and flexible
 approach for studying demographic history and epidemic dynamics using
 pathogen sequence data. Existing Bayesian approaches are premised on
 stochastic processes with stationary increments which may provide an
 unrealistic prior for epidemic histories which feature extended period of
 exponential growth or decline. We show that non-parametric models defined
 in terms of the growth rate of the effective population size can provide a
 more realistic prior for epidemic history. We propose a non-parametric
 autoregressive model on the growth rate as a prior for effective
 population size, which corresponds to the dynamics expected under many
 epidemic situations. We demonstrate the use of this model within a
 Bayesian phylodynamic inference framework. Our method correctly
 reconstructs trends of epidemic growth and decline from pathogen
 genealogies even when genealogical data is sparse and conventional skyline
 estimators erroneously predict stable population size. We also propose a
 regression approach for relating growth rates of pathogen effective
 population size and time-varying variables that may impact the replicative
 fitness of a pathogen. The model is applied to real data from rabies virus
 and Staphylococcus aureus epidemics. We find a close correspondence
 between the estimated growth rates of a lineage of methicillin-resistant
 S. aureus and population-level prescription rates of beta-lactam
 antibiotics. The new models are implemented in an open source R package
 called skygrowth which is available at
 https://github.com/mrc-ide/skygrowth.
description: Supporting
 figuressuppFigs.pdf
DOI: 10.5061/dryad.3231b
title: Data from: A juvenile turtle (Testudines, Eucryptodira) from the Upper Jurassic of the Langenberg Quarry, Oker, Northern Germany

description: Turtles are frequently found in fluviatile to lagoonal and shallow marine
 sediments in the Upper Jurassic of Western Europe. These turtles usually
 show a mixture of basal and derived characters, but phylogenetic
 relationships are still largely unresolved. This is mainly due to the
 incompleteness of fossils and the lack of taxonomically unambiguous
 characters and is also related to the presence of different ontogenetic
 stages, which are not easy to compare. The morphological description of a
 new turtle from the Upper Jurassic of Langenberg Quarry (Oker, Lower
 Saxony, Germany) gives further insights into the ontogeny of basal
 eucryptodire turtles as well as into aquatic adaptation of Upper Jurassic
 turtles. The specimen is herein left in open nomenclature, due to the fact
 that it represents a juvenile individual. Several characters define the
 specimen as juvenile: its small size (7.28 cm carapace length); lateral
 carapacial fontanelles; enlarged vertebral scutes; a radial striation
 pattern covering the entire carapace; and the grade of ossification of
 preserved skull and limb elements. A clear aquatic adaptation of the
 individual is the elongated manus, a feature that is independent of
 ontogenetic age. The elongated manus may indicate a marine lifestyle and
 the individual possibly inhabited nearshore to offshore areas around the
 former Jurassic islands, which today form the Saxony Basin. The
 ossification pattern of the carapace of this eucryptodire turtle resembles
 that of known Jurassic paracryptodires and thus provides new insights to
 the ontogeny of Jurassic turtles.
description: supplementary file
 1Table of per cent Limb
 ratios of various extant cryptodire and extinct eucryptodire turtles.
 Higher aquatic adaptation to the right.supplementary
 2List
 of taxa used for forelimb ratios according to supplementary data of Joyce
 and Gauthier (2004) with added taxa.
DOI: 10.5061/dryad.kr13g
title: Data from: Niche construction by growth forms is as strong a predictor of species diversity as environmental gradients

description: We present a conceptual framework that describes how species belonging to
 a growth form collectively can be niche constructors (i.e. modify niches)
 and affect species diversity in plant communities. We use an empirical
 assessment of tundra plant communities to illustrate the framework's
 utility. In doing so, we make a first investigation of collective niche
 construction in ecological communities. In tundra plant communities,
 growth forms differently affect ecosystem process rates and cause
 environmental modifications; thus, growth forms are strong candidates for
 being niche constructors. To assess the impact of growth form niche
 construction on plant species diversity, we excluded the species of the
 growth form applied as niche constructor when estimating the community
 species diversity. We assessed niche construction in 70 tundra meadow
 communities and 1450 randomly selected tundra plant communities that are
 distributed along ecological gradients in temperature, resource
 availability, competitive interference and herbivory. These gradients
 allowed us to concomitantly assess to what extent the niche construction
 is independent of environmental conditions. Growth forms varied from
 strong positive to neutral predictors of both species richness and Simpson
 index in the order of forbs, grasses, sedges, deciduous shrubs and
 evergreen shrubs, suggesting that growth forms have important roles as
 niche constructors in tundra plant communities. Also, the environmental
 conditions were strong predictors of species diversity, but they did not
 interact with or confound the effects of growth forms. Forbs and grasses
 were the least abundant growth forms, yet they were the strongest positive
 predictors of species diversity. Therefore, our results suggest a
 particular niche-constructing role of these growth forms for enhancing
 species diversity in tundra plant communities. Synthesis. In this study,
 we provide conceptual and empirical evidence for collective niche
 construction as a powerful ecological process that affects species
 diversity and that can act independently of environmental conditions.
 Species sharing a single trait or species belonging to a growth form can
 act as collective niche constructors, and as exemplified for growth forms
 in this study, be important predictors of species diversity in ecological
 communities.
description: Bråthen & Ravolainen
 DataTwo sheets in a xls file
 with the data from both study designs: the tundra design and the tundra
 meadow design. Variable names are the same as those described in the text
 of the paper. Note the hierarchical, nested designs as depicted in Figure
 3.
DOI: 10.5061/dryad.642
title: Data from: Analysis of Character Correlations Among Wood Decay Mechanisms, Mating Systems, and Substrate Ranges in Homobasidiomycetes

description: Homobasidiomycetes include the majority of wood-decaying fungi. Two basic
 forms of wood decay are known in homobasidiomycetes: white rot, in which
 lignin and cellulose are degraded, and brown rot, in which lignin is not
 appreciably degraded. An apparent correlation has been noted between
 production of a brown rot, decay of conifer substrates, and possession of
 a bipolar mating system (which has a single mating type locus, vs.
 tetrapolar systems, which have two mating type loci). The goals of this
 study were to infer the historical pattern of transformations in decay
 mode, mating type, and substrate range characters, and to determine if a
 causal relationship exists among them. We performed a phylogenetic
 analysis of 130 species of homobasidiomycetes using nuclear and
 mitochondrial rDNA sequences, and performed ancestral state
 reconstructions using parsimony on a range of trees, with various
 loss:gain cost ratios. We evaluated pairwise character correlations using
 the concentrated changes test (CCT) of Maddison and the maximum likelihood
 (ML) method of Pagel. White rot, tetrapolar mating systems, and the
 ability to decay conifers and hardwoods appear to be plesiomorphic in
 homobasidiomycetes, whereas brown rot, bipolar mating systems, and
 exclusive decay of conifers appear to have evolved repeatedly. The only
 significant correlation among characters was that between brown rot (as
 the independent character) and exclusive decay of conifer substrates. This
 correlation was supported by the CCT on a range of plausible trees,
 although not with every reconstruction of ancestral states, and the ML
 test. Our findings suggest that the evolution of brown rot has promoted
 repeated shifts to specialization for conifer substrates.
description: Hibbett and Donoghue
 Data Setthis is "Wood Decay
 matrix D", edited March 22, 1999Hibbett.nexus
DOI: 10.5061/dryad.hf03913
title: Data from: Impact of uniaxial tensile fatigue on the evolution of microscopic and mesoscopic structure of carbon black filled natural rubber

description: This investigation addresses the evolution of the microscopic and
 mesoscopic structures distribution, and micro-defects of carbon black (CB)
 filled natural rubber (NR) under uniaxial tensile condition during the
 fatigue process. NR was filled with three different grades CB
 respectively, in order to understand the impact of the structural degree
 and specific surface areas of CB and fatigue degree on the Payne effect.
 It was found that Payne effect was initially suppressed and then enhanced
 with increasing the degree of fatigue. The decrease of the storage modulus
 in the low strain area was attributed to the CB network destruction and
 the breakdown of the matrix cross-linking network in the early fatigue
 stage. However, with further increasing the degree of fatigue, the spatial
 rearrangement of CB aggregates with the orientation of molecular chains
 between adjacent CB aggregates will result in the mechanical reinforcement
 before the appearance of micro-defects. Moreover, it has been demonstrated
 that the structural degree of CB has a stronger impact on the mesoscopic
 structures than the specific surface area of CB during tensile fatigue
 process.
description: Chong Sun original
 data
DOI: 10.5061/dryad.365dr
title: Data from: Temperate grassland songbird species accumulate incrementally along a gradient of primary productivity

description: Global analyses of bird communities along elevation gradients suggest that
 bird diversity on arid mountains is primarily limited by water
 availability, not temperature or altitude. However, the mechanism by which
 water availability, and subsequently primary productivity, increases bird
 diversity is still unclear. Here we evaluate two possible mechanisms from
 species-energy theory. The more individuals hypothesis proposes that a
 higher availability of resources increases the total number of individuals
 that can be supported, and therefore the greater number of species that
 will be sampled. By contrast, the more specialization hypothesis proposes
 that increasing resource availability will permit specialists to exploit
 otherwise rare resources, thus increasing total diversity. We used 5 years
 of surveys of grassland songbird communities along an elevational gradient
 in British Columbia, Canada, to distinguish between these hypotheses.
 Vegetation changed markedly in composition along the gradient and contrary
 to the expectations of the more specialization hypothesis, bird community
 composition was remarkably constant. However, both total abundance and
 species richness of birds increased with increasing water availability to
 plants. When we used rarefaction to correct species richness for
 differences in total abundance, much of the increase in bird diversity was
 lost, consistent with the expectations of the more individuals hypothesis.
 Furthermore, high species richness was associated with reductions in
 territory size of common bird species, rather than the fine-scale spatial
 partitioning of the landscape. This suggests that bird diversity increases
 when greater resource availability allows higher densities rather than
 greater habitat specialization. These results help explain a pervasive
 global pattern in bird diversity on arid mountains, and suggest that in
 such landscapes conservation of grassland birds is strongly linked to
 climate and hydrology.
description: bird_dataThese data describe the abundance of grassland songbirds identified during point count surveys in Lac du Bois Grasslands Protected Area near Kamloops British Columbia Canada between 2008 and 2012.envr_dataThese data describe the environmental data associate with bird point count locations performed in Lac du Bois Protected Area near Kamloops British Columbia Canada between 2008 - 2012.
DOI: 10.5061/dryad.36r69
title: Data from: Imbalance in individual researcher’s peer review activities quantified for four British Ecological Society Journals, 2003-2010

description: Researchers contribute to the scientific peer review system by providing
 reviews, and “withdraw” from it by submitting manuscripts that are
 subsequently reviewed. So far as we are aware, there has been no
 quantification of the balance of individual's contributions and
 withdrawals. We compared the number of reviews provided by individual
 researchers (i.e., their contribution) to the number required by their
 submissions (i.e. their withdrawals) in a large and anonymised database
 provided by the British Ecological Society. The database covered the
 Journal of Ecology, Journal of Animal Ecology, Journal of Applied Ecology,
 and Functional Ecology from 2003–2010. The majority of researchers (64%)
 did not have balanced contributions and withdrawals. Depending on
 assumptions, 12% to 44% contributed more than twice as much as required;
 20% to 52% contributed less than half as much as required. Balance, or
 lack thereof, varied little in relation to the number of years a
 researcher had been active (reviewing or submitting). Researchers who
 contributed less than required did not lack the opportunity to review.
 Researchers who submitted more were more likely to accept invitations to
 review. These finding suggest overall that peer review of the four
 analysed journals is not in crisis, but only due to the favourable balance
 of over- and under-contributing researchers. These findings are limited to
 the four journals analysed, and therefore cannot include researcher's
 other peer review activities, which if included might change the
 proportions reported. Relatively low effort was required to assemble,
 check, and analyse the data. Broader analyses of individual
 researcher's peer review activities would contribute to greater
 quality, efficiency, and fairness in the peer review system.
description: All data
 filesAll the data files. See
 readme file for details.alldatafiles.zip
DOI: 10.5061/dryad.1759h94
title: Data from: Molecular and cytogenetic study of East African Highland Banana

description: East African highland bananas (EAHB) are staple food crop in Uganda,
 Tanzania, Burundi and other countries in the African Great Lakes region.
 Even though several morphologically different types exist, all EAHB are
 triploid and display minimal genetic variation. To provide more insights
 into the genetic variation within EAHB, genotyping using simple sequence
 repeat (SSR) markers, molecular analysis of ITS1-5.8S-ITS2 region of
 ribosomal DNA locus and the analysis of chromosomal distribution of
 ribosomal DNA sequences was done. A total of 40 triploid EAHB accessions
 available in the Musa germplasm collection (International Transit Centre,
 Leuven, Belgium) were characterized. Six diploid accessions of Musa
 acuminata ssp. zebrina, ssp. banksii and ssp. malaccensis representing
 putative parents of EAHB were included in the study. Flow cytometric
 estimation of 2C nuclear DNA content revealed small differences (max ~ 6.5
 %) in genome size among the EAHB clones. While no differences in the
 number of 45S and 5S rDNA loci were found, genotyping using 19 SSR markers
 resulted in grouping the EAHB accessions into four clusters. DNA sequence
 analysis of the ITS region indicated a relation of EAHB clones with M.
 acuminata and, surprisingly, also with M. schizocarpa. The results suggest
 that EAHB cultivars originated from a single hybrid clone with M.
 acuminata ssp. zebrina and ssp. banksii being its most probable parents.
 However, M. schizocarpa seems to have contributed to the formation of this
 group of banana.
description: SSR_data_EAHB_bananasBinary matrix of allele sizes obtained after SSR genotyping in selected diploid and triploid banana species, including East African Highland Bananas.Nemeckova_et_al_EAHB_SSR.odsMultiple alignment of ITS1-ITS2 concatenated sequencesMultiple alignment of ITS1-ITS2 concatenated sequences of selected diploid and triploid banana accessions, including Ensete ventricosum (used as an outgroup in the study).ITS1_ITS2_AA_BB_SS_EAHB_allPseudo_.mafft