cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.30096634.v1
title: Data for manuscript: Exploring management strategies for open-country birds: A case study from a rice-dominated landscapes

description: This study presents a Bayesian Belief Network (BBN) approach to identify optimal conservation management strategies for species of conservation concern among grassland and farmland birds in the Central Plains of Thailand. We integrate data from bird surveys conducted at 1,410 locations across an area exceeding 50,000 km², together with expert opinions on the potential consequences of seven proposed management options.The dataset includes: DistanceSamplingAllTargetSpecies.csv -- Distance sampling data for all target speciesSite.Covs1410.csv -- Habitat and observation covariates for 1410 survey locationsCombineResult_BBN_PlottingFigure5.csv -- Output used for plotting Figure 5BBN_model.neta -- Bayesian Belief Network model structure used in the analysis
DOI: 10.15468/dl.9yx6zf
title: Occurrence Download

description: A dataset containing 26 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Mexipedium xerophyticum"
 ]
}

 The dataset includes 26 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038580-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.30634400
title: All data collected from the 6 fish farms

description: Fish parameters collected over-time from six different fish farms (trout, perch, carp)
DOI: 10.6084/m9.figshare.30634400.v1
title: All data collected from the 6 fish farms

description: Fish parameters collected over-time from six different fish farms (trout, perch, carp)
DOI: 10.15468/dl.bnmvdr
title: Occurrence Download

description: A dataset containing 222457 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Kenya",
 "IucnRedListCategory is one of (NT, VU, EN, CR, EW, EX)",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 222457 records from 399 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038546-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tc9cf6
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (, Phoebe kjellbergii, , , , , )",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Living Specimen, Machine Observation, Literature Occurrence)",
 "Geometry POLYGON((-180 -90,180 -90,180 90,-180 90,-180 -90))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038582-251025141854904/datasets/export for details.
DOI: 10.15468/dl.mdy2t6
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Portalia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038583-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17595613
title: Code archive for "A complete and near-perfect rhesus macaque reference genome: lessons from subtelomeric repeats and sequencing bias"

description: This repository contains the custom code associated with the research article titled "A complete and near-perfect rhesus macaque reference genome: lessons from subtelomeric repeats and sequencing bias".

Preprint: Zhang S, Xu N, Lu Y, et al. A complete and near-perfect rhesus macaque reference genome: lessons from subtelomeric repeats and sequencing bias. Preprint. bioRxiv. 2025;2025.08.04.668424. Published 2025 Aug 4. doi:10.1101/2025.08.04.668424.
DOI: 10.15468/dl.z6n6ws
title: Occurrence Download

description: A dataset containing 56272 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Helobdella"
 ]
}

 The dataset includes 56272 records from 293 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038541-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.13140/rg.2.2.13381.92649
title: laser on drone hits target
DOI: 10.34740/kaggle/dsv/13762212
title: World Weather Repository ( Daily Updating )
DOI: 10.15468/dl.565vyu
title: Occurrence Download

description: A dataset containing 70828 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-103.39336 -55.64075,46.08169 -55.64075,46.08169 39.23433,-103.39336 39.23433,-103.39336 -55.64075))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Tyto alba"
 ]
}

 The dataset includes 70828 records from 256 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038530-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.skkezq
title: Occurrence Download

description: A dataset containing 1617 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lindera pulcherrima hemsleyana"
 ]
}

 The dataset includes 1617 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038584-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17627822
title: Questionnaire about Adoption and Perception of Mobile Fintech Services among University Students in Metropolitan Lima
DOI: 10.5281/zenodo.17627821
title: Questionnaire about Adoption and Perception of Mobile Fintech Services among University Students in Metropolitan Lima
DOI: 10.15468/dl.ztuyuj
title: Occurrence Download

description: A dataset containing 19 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pilocintractia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 19 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038586-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sn5pna
title: Occurrence Download

description: A dataset containing 10379 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-123.25458 49.2523,-123.24343 49.2448,-123.23426 49.24817,-123.24469 49.25611,-123.25458 49.2523))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 10379 records from 73 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038585-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.14288/1.0437780
title: Raw data and Matlab code for: Convergence in carnivorous pitcher plants reveals a mechanism for composite trait evolution

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;Composite traits involve multiple components that, only when combined, gain a new synergistic function. Thus, how they evolve remains a puzzle. We combined field experiments, microscopy, chemical analyses and laser Doppler vibrometry with comparative phylogenetic analyses to show that two carnivorous &lt;em&gt;Nepenthes&lt;/em&gt; pitcher plant species convergently evolved identical adaptations in three distinct traits to acquire a new, composite trapping mechanism. Comparative analyses suggest that this new trait arose convergently via ‘spontaneous coincidence’ of the required trait combination, rather than directional selection in the component traits. Our results indicate a plausible mechanism for composite trait evolution and highlight the importance of stochastic phenotypic variation as a facilitator of evolutionary novelty.&lt;/p&gt;
DOI: 10.14288/1.0443957
title: Etiology of hospital mortality in children living in low-and middle-income countries: a systematic review and meta-analysis

description: &lt;br/&gt;&lt;strong&gt;Background:&lt;/strong&gt; In 2019, 80% of the 7.4 million global child deaths occurred in low- and middle-income countries (LMICs). Global and regional estimates of cause of hospital death and admission in LMIC children are needed to guide global and local priority setting and resource allocation but are currently lacking. The study objective was to estimate global and regional prevalence for common causes of pediatric hospital mortality and admission in LMICs.&lt;br /&gt; &lt;br /&gt;&lt;strong&gt;Methods:&lt;/strong&gt; We performed a systematic review and meta-analysis to identify LMIC observational studies published January 1, 2005-February 26, 2021. Eligible studies included: a general pediatric admission population, a cause of admission or death, and total admissions. We excluded studies with data before 2000 or without a full text. Two authors independently screened and extracted data. We performed methodological assessment using domains adapted from the Quality in Prognosis Studies tool. Data were pooled using random-effects models where possible. We reported prevalence as a proportion of cause of death or admission per 1000 admissions with 95% confidence intervals (95%CI).&lt;br /&gt; &lt;br /&gt;&lt;strong&gt;Findings:&lt;/strong&gt; ur search identified 29,637 texts. After duplicate removal and screening, we analyzed 253 studies representing 21.8 million pediatric hospitalizations in 59 LMICs. All-cause pediatric hospital mortality was 4.1% [95%CI 3.4-4.7%]. The most common causes of mortality (deaths/1000 admissions) were infectious (12 [95%CI 9-14]); respiratory (9 [95%CI 5-13]); and gastrointestinal (9 [95%CI 6-11]). Common causes of admission (cases/1000 admissions) were respiratory (255 [95%CI 231-280]); infectious (214 [95%CI193-234]); and gastrointestinal (166 [95%CI 143-190]). We observed regional variation in estimates. Pediatric hospital mortality remains high in LMICs.&lt;br /&gt; &lt;br /&gt;&lt;strong&gt;Implications:&lt;/strong&gt; Global child health efforts must include measures to reduce hospital mortality including basic emergency and critical care services tailored to the local disease burden. Resources are urgently needed to promote equity in child health research, support researchers, and collect high-quality data in LMICs to further guide priority setting and resource allocation.&lt;br /&gt;
DOI: 10.14288/1.0443812
title: Replication Data for: Combining thinning and diverse plantings to adapt to climate-change induced timber supply shortage in British Columbia

description: This data package contains landscape level forest data, growth and yield data, metadata and models for modelling timber supply in the Copper Pine Forest estate within Bulkley Timber Supply Area (TSA),British Columbia, BC, Canada, using a spatially explicit forest management planning software (Patchworks).
DOI: 10.14288/1.0444945
title: Biotic interactions promote local adaptation to soil in plants - Supplementary data

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;Although different ecological factors shape adaptative evolution in natural habitats, we know little about how their interactions impact local adaptation. Here we used eight generations of experimental evolution with outcrossing &lt;em&gt;Brassica rapa&lt;/em&gt; plants as a model system, in eight treatment groups that varied in soil type, herbivory (with/without aphids), and pollination mode (hand- or bumblebee-pollination), to study how biotic interactions affect local adaptation to soil. First, we show that several plant traits evolved in response to biotic interactions in a soil-specific way. Second, using a reciprocal transplant experiment, we demonstrate that significant local adaptation to soil-type evolved in the “number of open flowers”, a trait used as a fitness proxy, but only in plants that evolved with herbivory and bee pollination. Whole genome re-sequencing of experimental lines revealed that biotic interactions caused a 10-fold increase in the number of SNPs across the genome with significant allele frequency change, and that alleles with opposite allele frequency change in different soil types (antagonistic pleiotropy) were most common in plants with an evolutionary history of herbivory and bee pollination. Our results demonstrate that the interaction with mutualists and antagonists can facilitate local adaptation to soil type through antagonistic pleiotropy. &lt;/p&gt;
DOI: 10.14288/1.0443844
title: Top down vs bottom up control on understory plant community structure in the northern Boreal Forest

description: The dataset involved in this project is a compilation of nearly 20 years of data, on an experiment designed to tease apart bottom up vs. top down controls on understory plants in the Yukon. For the first decade of a factorial experiment, fertilizer was added to half the plots, and snowshoe hare herbivory was excluded. After 10 years, each plot was permanently divided in half where treatment was stopped, so researchers could measure recovery of the communities. The data consists of species richness and percent cover data for nearly 80 species of understory plants at two sites, each with 16 plots.
DOI: 10.14288/1.0444941
title: Coronary Circulation Enhances the Aerobic Performance of Wild Pacific Salmon

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;Female Pacific salmon often experience higher mortality than males during their once-in-a-lifetime up-river spawning migration, particularly when exposed to secondary stressors (e.g. high temperatures). However, the underlying mechanisms remain unknown. One hypothesis is that female Pacific salmon hearts are more oxygen-limited than males and are less able to supply oxygen to the body’s tissues during this demanding migration. Notably, female hearts have higher coronary blood flow, which could indicate a greater reliance on this oxygen source. Oxygen limitations can develop from naturally occurring coronary blockages (i.e&lt;em&gt;.&lt;/em&gt;, coronary arteriosclerosis) found in mature salmon hearts. If female hearts rely more heavily on coronary blood flow but experience similar arteriosclerosis levels as males, they will have disproportionately impaired aerobic performance. To test this hypothesis, we measured resting (RMR) and maximum metabolic rate (MMR), aerobic scope (AS) and acute upper thermal tolerance in coho salmon (&lt;em&gt;Oncorhynchus kisutch&lt;/em&gt;) with an intact or artificially blocked coronary oxygen supply. We also assessed venous blood oxygen and chemistry (cortisol, ions, and metabolite concentrations) at different time intervals during recovery from exhaustive exercise. We found that coronary blockage impaired MMR, AS, and the partial pressure of oxygen in venous blood (PvO&lt;sub&gt;2&lt;/sub&gt;) during exercise recovery but did not differ between sexes. Coronary ligation lowered acute upper thermal tolerance by 1.1°C. Though we did not find evidence of enhanced female reliance on coronary supply, our findings highlight the importance of coronary blood supply for mature wild salmon, where migration success may be linked to cardiac performance, particularly during warm water conditions.&lt;/p&gt;
DOI: 10.14288/1.0445208
title: Genomic DNA of clinical M. abscessus strains

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;&lt;strong&gt;Introduction.&lt;/strong&gt; &lt;em&gt;Mycobacterium abscessus&lt;/em&gt; (Mab) is a pathogenic bacterium that can cause severe lung infections, particularly in individuals with cystic fibrosis. Mab colonies can exhibit either a smooth (S) or rough (R) morphotype, influenced by the presence or absence of glycopeptidolipids (GPL) on their surface, respectively. Despite the clinical significance of these morphotypes, the relationship between GPL levels, morphotype, and the pathogenesis of Mab infections remains poorly understood.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Gap Statement.&lt;/strong&gt; The mechanisms and implications of GPL production and morphotypes in clinical Mab infections are unclear. There is a gap in understanding their correlation with infectivity and pathogenicity, particularly in patients with underlying lung disease.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Aim.&lt;/strong&gt; This study aimed to investigate the correlation between Mab morphology, GPL, and infectivity by analysing strains from cystic fibrosis patients' sputum samples.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Methodology.&lt;/strong&gt; Mab was isolated from patient sputum samples and categorised by morphotype, GPL profile, and replication rate in macrophages. A high-content &lt;em&gt;ex vivo&lt;/em&gt; infection model using THP-1 cells assessed the infectivity of both clinical and laboratory strains.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Results.&lt;/strong&gt; Our findings revealed that around 50% of isolates displayed mixed morphologies. GPL analysis confirmed a consistent relationship between GPL content and morphotype was only found only in smooth isolates. Across morphotype groups, no differences were observed &lt;em&gt;in vitro&lt;/em&gt;, yet clinical R strains were observed to replicate at higher levels in the THP-1 infection model. Moreover, the proportion of infected macrophages was notably higher among clinical R strains compared to their S counterparts at 72 hours post-infection. Clinical variants also infected THP-1 cells at significantly higher rates compared to laboratory strains, highlighting the limited translatability of lab strain infection data to clinical contexts.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Conclusion.&lt;/strong&gt; Our study confirmed the general correlation between morphotype and GPL levels in smooth strains yet unveiled more variability within morphotype groups than previously recognised, particularly during intracellular infection. As the rough morphotype is of highest clinical concern, these findings contribute to the expanding knowledge base surrounding Mab infections, offering insights that can steer diagnostic methodologies, and treatment approaches.&lt;/p&gt;
DOI: 10.14288/1.0445250
title: Genomic DNA of clinical M. abscessus strains

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;&lt;strong&gt;Introduction.&lt;/strong&gt; &lt;em&gt;Mycobacterium abscessus&lt;/em&gt; (Mab) is a pathogenic bacterium that can cause severe lung infections, particularly in individuals with cystic fibrosis. Mab colonies can exhibit either a smooth (S) or rough (R) morphotype, influenced by the presence or absence of glycopeptidolipids (GPL) on their surface, respectively. Despite the clinical significance of these morphotypes, the relationship between GPL levels, morphotype, and the pathogenesis of Mab infections remains poorly understood.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Gap Statement.&lt;/strong&gt; The mechanisms and implications of GPL production and morphotypes in clinical Mab infections are unclear. There is a gap in understanding their correlation with infectivity and pathogenicity, particularly in patients with underlying lung disease.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Aim.&lt;/strong&gt; This study aimed to investigate the correlation between Mab morphology, GPL, and infectivity by analysing strains from cystic fibrosis patients' sputum samples.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Methodology.&lt;/strong&gt; Mab was isolated from patient sputum samples and categorised by morphotype, GPL profile, and replication rate in macrophages. A high-content &lt;em&gt;ex vivo&lt;/em&gt; infection model using THP-1 cells assessed the infectivity of both clinical and laboratory strains.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Results.&lt;/strong&gt; Our findings revealed that around 50% of isolates displayed mixed morphologies. GPL analysis confirmed a consistent relationship between GPL content and morphotype was only found only in smooth isolates. Across morphotype groups, no differences were observed &lt;em&gt;in vitro&lt;/em&gt;, yet clinical R strains were observed to replicate at higher levels in the THP-1 infection model. Moreover, the proportion of infected macrophages was notably higher among clinical R strains compared to their S counterparts at 72 hours post-infection. Clinical variants also infected THP-1 cells at significantly higher rates compared to laboratory strains, highlighting the limited translatability of lab strain infection data to clinical contexts.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Conclusion.&lt;/strong&gt; Our study confirmed the general correlation between morphotype and GPL levels in smooth strains yet unveiled more variability within morphotype groups than previously recognised, particularly during intracellular infection. As the rough morphotype is of highest clinical concern, these findings contribute to the expanding knowledge base surrounding Mab infections, offering insights that can steer diagnostic methodologies, and treatment approaches.&lt;/p&gt;
DOI: 10.14288/1.0443958
title: Geographical validation of the Smart Triage Model by age group

description: &lt;br /&gt;&lt;strong&gt;Background:&lt;/strong&gt; Age is an important risk factor among critically ill children with neonates being the most vulnerable. Clinical prediction models need to account for age differences and must be externally validated and updated, if necessary, to enhance reliability, reproducibility, and generalizability. We externally validated the Smart Triage model using a combined prospective baseline cohort from three hospitals in Uganda and two in Kenya using admission, mortality, and readmission. &lt;br/&gt; &lt;br /&gt;&lt;strong&gt;Methods:&lt;/strong&gt; We evaluated model discrimination using area under the receiver-operator curve (AUROC) and visualized calibration plots. In addition, we performed subsetting analysis based on age groups (&lt; 30 days, ≤ 2 months, ≤ 6 months, and &lt; 5 years). We revised the model for neonates (&lt; 1 month) by re-estimating the intercept and coefficients and selected new thresholds to maximize sensitivity and specificity. 11595 participants under the age of five (under-5) were included in the analysis. &lt;br/&gt; &lt;br /&gt;&lt;strong&gt;Results:&lt;/strong&gt; The proportion with an outcome ranged from 8.9% in all children under-5 (including neonates) to 26% in the neonatal subset alone. The model achieved good discrimination for children under-5 with AUROC of 0.81 (95% CI: 0.79-0.82) but poor discrimination for neonates with AUROC of 0.62 (95% CI: 0.55-0.70). Sensitivity at the low-risk thresholds (CI) were 0.85 (0.83-0.87) and 0.68 (0.58-0.76) for children under-5 and neonates, respectively. Specificity at the high-risk thresholds were 0.93 (0.93-0.94) and 0.96 (0.94-0.98) for children under-5 and neonates, respectively. After model revision for neonates, we achieved an AUROC of 0.83 (0.79-0.87) with 13% and 41% as the low- and high-risk thresholds, respectively. &lt;br/&gt; &lt;br /&gt;&lt;strong&gt;Discussion:&lt;/strong&gt; The Smart Triage model showed good discrimination for children under-5. However, a revised model is recommended for neonates due to their uniqueness in disease susceptibly, host response, and underlying physiological reserve. External validation of the neonatal model and additional external validation of the under-5 model in different contexts is required. &lt;br/&gt;