cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.14288/1.0444944
title: Data from: Forecasting animal distribution through individual habitat selection: Insights for population inference and transferable predictions

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;Habitat selection models frequently use data collected from a small geographic area over a short window of time to extrapolate patterns of relative abundance to unobserved areas or periods of time. However, these types of models often poorly predict how animals will use habitat beyond the place and time of data collection because space-use behaviors vary between individuals and are context-dependent. Here, we present a modelling workflow to advance predictive distribution performance by explicitly accounting for individual variability in habitat selection behavior and dependence on environmental context. Using global positioning system (GPS) data collected from 238 individual pronghorn, (&lt;em&gt;Antilocapra americana&lt;/em&gt;), across 3 years in Utah, we combine individual-year-season-specific exponential habitat-selection models with weighted mixed-effects regressions to both draw inference about the drivers of habitat selection and predict space-use in areas/times where/when pronghorn were not monitored. We found a tremendous amount of variation in both the magnitude and direction of habitat selection behavior across seasons, but also across individuals, geographic regions, and years. We were able to attribute portions of this variation to season, movement strategy, sex, and regional variability in resources, conditions, and risks. We were also able to partition residual variation into inter- and intra-individual components. We then used the results to predict population-level, spatially and temporally dynamic, habitat-selection coefficients across Utah, resulting in a temporally dynamic map of pronghorn distribution at a 30x30m resolution but an extent of 220,000km2. We believe our transferable workflow can provide managers and researchers alike a way to turn limitations of traditional habitat selection models - variability in habitat selection - into a tool to understand and predict species-habitat associations across space and time.&lt;/p&gt;
DOI: 10.14288/1.0444006
title: Qualitative social and human scientific literature focusing on actors in and around dairy farming: A narrative review

description: This is a narrative review data set. It includes information from 117 articles that used qualitative research methods and were related to humans, dairy cows, calves, and farming. The articles were published in selected journals not directly targeting dairy science audiences.These materials are organized by review topic: Animal welfare, human-animal bond, human lives around dairy cattle, technology in dairy farming, dairy farming in ecological landscapes, dairy farming in human society, and dairy farming in food landscapes. In each section and sub-section (where applicable), we included a summarized/paraphrased research aim as expressed by the authors, methods, and study location.
DOI: 10.14288/1.0444185
title: Smart Discharges to improve post-discharge health outcomes in children in Rwanda

description: &lt;p&gt;&lt;strong&gt;Background:&lt;/strong&gt; The Smart Discharges studies in Uganda have enrolled over 10,000 children under-five with sepsis and have shown that death after hospital discharge occurs in 5-8% of patients, which is as common as death during the primary admission. The Smart Discharges evidence-based risk-prediction tool guides clinical interventions focused on education and post-discharge follow-up and improves healthcare-seeking behaviors and essential medical interventions among vulnerable children. Most importantly, these studies have preliminarily demonstrated that the prediction tool paired with these clinical interventions may substantially reduce post-discharge mortality up to 20-30%; however, these findings have not been validated outside of Uganda. The Smart Discharges project is now ready to expand the project borders and begin external validation research of the prediction tool in Rwanda. &lt;br&gt; &lt;br&gt;&lt;strong&gt;Objective(s):&lt;/strong&gt; This study aims to: (1) characterize the epidemiology of post-discharge mortality among a representative cohort of 1000 children under 5 years of age from two hospitals in Rwanda; and (2) externally validate the Smart Discharges risk-prediction tool in a representative cohort of children from Rwanda. &lt;br&gt; &lt;br&gt;&lt;strong&gt;Methods:&lt;/strong&gt; This study is a prospective observational cohort study that will be conducted between February 2022 and May 2023 at 2 hospitals in Northern and Central Rwanda, the University Teaching Hospital of Kigali (CHUK) in Nyarugenge District and Ruhengeri Referral Hospital in Musanze District. The study will enroll 1,000 children under 5 years of age between the two study sites. Following enrollment a research nurse will obtain and record clinical and demographic variables required for model validation including vital signs, oxygen saturation, anthropometric data, prior care seeking, co-morbidities and diagnoses. A rapid diagnostic test using blood, which will require a finger prick to collect &lt; 0.5ml of blood, will be conducted to assess the patient's HIV status, malaria parasitemia, lactate, and hemoglobin (hemocue). All enrolled children will receive phone follow-up from study staff at 2-, 4- and 6 months following hospital discharge for research purposes. Verbal autopsies, often used in this context to determine cause of death, will be conducted for all children who die following discharge.&lt;br&gt; &lt;br&gt;&lt;strong&gt;Ethics Declaration:&lt;/strong&gt; Institutional review boards at the University of British Columbia (H21-02795), the University of California San Francisco (21-34663), the University Teaching Hospital of Kigali (EC/CHUK/1/005/2022), and the University of Uganda (No 573/CMHS IRB/2022) approved the study.&lt;/p&gt;
DOI: 10.14288/1.0428829
title: Data from: Climatic water availability mainly drives context-dependency of tree functional diversity effects on soil organic carbon storage in European forests

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;The interplay of forest stand and environmental factors shape soil organic C (SOC) storage in forest ecosystems but little is known about their relative impacts in different soil layers. Moreover, how environmental factors modulate the impact of stand factors, particularly species mixing, on SOC storage, is largely unexplored.  In this study conducted in 21 forest triplets (two-species mixed stand and respective monocultures nearby) distributed in Europe, we tested the hypothesis that stand factors (functional identity and diversity) have stronger effects on topsoil (FF+0-10 cm) C storage than environmental factors (climatic water availability, clay+silt content, oxalate-extractable Al - Al&lt;sub&gt;ox&lt;/sub&gt;) but that the opposite occurs in the subsoil (10-40 cm). We also tested the hypothesis that functional diversity improves SOC storage under high climatic water availability, clay+silt contents, Al&lt;sub&gt;ox&lt;/sub&gt;. We characterized functional identity as the proportion of broadleaved species (beech and/or oak), and functional diversity as the product of broadleaved and conifer (pine) proportions. The results show that functional identity was the main driver of topsoil C storage while climatic water availability had the largest control on subsoil C storage. Contrary to expectations, functional diversity decreased topsoil C storage under increasing climatic water availability but the opposite was observed in the subsoil. Functional diversity effects on topsoil C increased with increasing clay+silt content, while its effects on subsoil C was negative at increasing Al&lt;sub&gt;ox&lt;/sub&gt; content. This suggests that functional diversity effect on SOC storage along environmental gradients depends on the specific environmental factor and the soil depth under consideration.&lt;/p&gt;
DOI: 10.14288/1.0444030
title: Gradual transitions in genetics and songs between coastal and inland populations of Setophaga townsendi

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;&lt;em&gt;Setophaga townsendi &lt;/em&gt;is a species of wood-warbler (family Parulidae) in northwestern North America that has a geographic structure in the mitochondrial and nuclear genomes: while interior populations have differentiated mitonuclear ancestry from the sister species &lt;em&gt;S. occidentalis&lt;/em&gt;, coastal populations have a mix of inland and &lt;em&gt;S. occidentalis &lt;/em&gt;mitonuclear ancestries. This coastal-to-inland transition in genomic ancestry raises the possibility of similar geographic structure in phenotypic traits, especially those involved in mate choice. Using qualitative and multivariate approaches, we investigated whether there is a sharp transition between coastal and inland populations in both songs and nuclear DNA. We find there is a shallow geographic cline in the Type I song but not in the Type II song. Nuclear DNA shows a gradient between the coast and inland. There is little correlation between variation in song and the isolation-by-distance pattern in the nuclear DNA. The learned songbird song is shaped by both genetic and cultural processes. There has been a debate on whether song learning promotes or slows down population differentiation. By comparing the within-species variation in song and genetic structures, we can expand our understanding of the dynamic interplay between mating signals and population differentiation.&lt;/p&gt;
DOI: 10.14288/1.0445253
title: Gradual transitions in genetics and songs between coastal and inland populations of Setophaga townsendi

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;&lt;em&gt;Setophaga townsendi &lt;/em&gt;is a species of wood-warbler (family Parulidae) in northwestern North America that has a geographic structure in the mitochondrial and nuclear genomes: while interior populations have differentiated mitonuclear ancestry from the sister species &lt;em&gt;S. occidentalis&lt;/em&gt;, coastal populations have a mix of inland and &lt;em&gt;S. occidentalis &lt;/em&gt;mitonuclear ancestries. This coastal-to-inland transition in genomic ancestry raises the possibility of similar geographic structure in phenotypic traits, especially those involved in mate choice. Using qualitative and multivariate approaches, we investigated whether there is a sharp transition between coastal and inland populations in both songs and nuclear DNA. We find there is a shallow geographic cline in the Type I song but not in the Type II song. Nuclear DNA shows a gradient between the coast and inland. There is little correlation between variation in song and the isolation-by-distance pattern in the nuclear DNA. The learned songbird song is shaped by both genetic and cultural processes. There has been a debate on whether song learning promotes or slows down population differentiation. By comparing the within-species variation in song and genetic structures, we can expand our understanding of the dynamic interplay between mating signals and population differentiation.&lt;/p&gt;
DOI: 10.14288/1.0444131
title: Models, Model Outputs and Processed Data for "Climate Change Alters Social-Ecological Trade-offs in Achieving Ocean Futures’ Targets"

description: This dataset contains the model output results from the article "Climate Change Alters Social-Ecological Trade-offs in Achieving Ocean Futures’ Targets." The results feature data from the East China Sea (ECS) and the Northern South China Sea (NSCS) under various climate scenarios—including no climate change, the RCP2.6 low-emission scenario, and the RCP8.5 high-emission scenario—and diverse policy objectives. These include outcomes from different economic and ecological strategies. For detailed information, please refer to the README file.
DOI: 10.14288/1.0444078
title: Phylogenomic analyses of ochrophytes (stramenopiles) with an emphasis on neglected lineages

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;Ochrophyta is a photosynthetic lineage that crowns the phylogenetic tree of stramenopiles, one of the major eukaryotic supergroups. Due to their ecological impact as a major primary producer, ochrophytes are relatively well-studied compared to the rest of the stramenopiles, yet their evolutionary relationships remain poorly understood. This is in part due to a number of missing lineages in large-scale multigene analyses, and an apparently rapid radiation leading to many short internodes between ochrophyte subgroups in the tree. These short internodes are also found across deep-branching lineages of stramenopiles with limited phylogenetic signal, leaving many relationships controversial overall. We have addressed this issue with other deep-branching stramenopiles recently, and now examine whether contentious relationships within the ochrophytes may be resolved with the help of filling in missing lineages in an updated phylogenomic dataset of ochrophytes, along with exploring various gene filtering criteria to identify the most phylogenetically informative genes. We generated ten new transcriptomes from various culture collections and single-cell isolation from an environmental sample, added these to an existing phylogenomic dataset, and examined the effects of selecting genes with high phylogenetic signal or low phylogenetic noise. For some previously contentious relationships, we find a variety of analyses and gene filtering criteria consistently unite previously unstable grouping with strong statistical support. For example, we recovered a robust grouping of Eustigmatophyceae with Raphidophyceae-Phaeophyceae-Xanthophyceae while Olisthodiscophyceae formed a sister lineage to Pinguiophyceae. Selecting genes with high phylogenetic signal or data quality recovered more stable topologies. Overall, we find that adding under-represented groups across different lineages is still crucial in resolving phylogenomic relationships, and discrete gene properties affect lineages of stramenopiles differently which may be further explored to better understand the molecular evolution of stramenopiles.&lt;/p&gt;
DOI: 10.14288/1.0444186
title: Smart Discharges Program for children with sepsis in Uganda: a qualitative program evaluation

description: &lt;br /&gt;&lt;strong&gt;Background:&lt;/strong&gt; Pediatric sepsis continues to be a significant burden in low- and middle-income countries. Studies have shown that in-hospital mortality is equal to, and sometimes exceeds, mortality during the post-discharge period. These facts call for a concerted action to improve childhood survival following discharge from sepsis. The Smart Discharges Program uses a mobile health platform for risk stratification of children admitted with sepsis to target at-risk children and their caregivers for educational counseling at discharge and referrals and follow-up care during the vulnerable post-discharge period. Since 2017, this program has been enrolling children at four hospitals in Uganda (Mbarara, Masaka and Jinja Regional Referral Hospitals and Holy Innocents Children’s Hospital). However, the perceptions of the caregivers with regard to the SD Program are poorly understood. &lt;br /&gt; &lt;br /&gt;&lt;strong&gt;Objectives:&lt;/strong&gt; The purpose of the study is to explore the parents’/caregivers’ perceptions of the Smart Discharges Program in regard to its contribution to improved care post-discharge of children who have suffered from severe infections. Specific objectives include i) to describe parents'/caregivers' experiences receiving and using Smart Discharges care package; ii) to explore parents'/caregivers' perception of the barriers to access the care provided by Smart Discharges; and iii) to document the lessons learned and opportunities for improvement of Smart Discharges Program to improve discharge care for children who have suffered from sepsis. &lt;br /&gt; &lt;br /&gt;&lt;strong&gt;Methods:&lt;/strong&gt; A qualitative design using different approaches and methods will be adopted. We will enrol 64 parents/caregivers of children who have received care through the Smart Discharges Program and 8 implementation nurses involved in providing the care in this program at the four program sites. Seventy-two participants (64 parents/caregivers and 8 nurses) will take part in the study. Eight Focus Group Discussions (8 participants per FGD), and 8 interviews with program implementation nurses will be conducted. Audio files will be transcribed verbatim, translated into English and analyzed using Nvivo. Findings will contribute to improvement of post-discharge care in Uganda.&lt;br /&gt; &lt;br /&gt;&lt;strong&gt;Ethics Declaration:&lt;/strong&gt; We will obtain ethics approval from the University of British Columbia Children’s & Women’s Research Ethics Board in Canada as well as the relevant institutional review boards in Uganda. Administrative clearance will also be obtained from the respective hospitals. &lt;br /&gt;
DOI: 10.14288/1.0445255
title: Phylogenomic analyses of ochrophytes (stramenopiles) with an emphasis on neglected lineages

description: &lt;b&gt;Abstract&lt;/b&gt;&lt;br/&gt;&lt;p&gt;Ochrophyta is a photosynthetic lineage that crowns the phylogenetic tree of stramenopiles, one of the major eukaryotic supergroups. Due to their ecological impact as a major primary producer, ochrophytes are relatively well-studied compared to the rest of the stramenopiles, yet their evolutionary relationships remain poorly understood. This is in part due to a number of missing lineages in large-scale multigene analyses, and an apparently rapid radiation leading to many short internodes between ochrophyte subgroups in the tree. These short internodes are also found across deep-branching lineages of stramenopiles with limited phylogenetic signal, leaving many relationships controversial overall. We have addressed this issue with other deep-branching stramenopiles recently, and now examine whether contentious relationships within the ochrophytes may be resolved with the help of filling in missing lineages in an updated phylogenomic dataset of ochrophytes, along with exploring various gene filtering criteria to identify the most phylogenetically informative genes. We generated ten new transcriptomes from various culture collections and single-cell isolation from an environmental sample, added these to an existing phylogenomic dataset, and examined the effects of selecting genes with high phylogenetic signal or low phylogenetic noise. For some previously contentious relationships, we find a variety of analyses and gene filtering criteria consistently unite previously unstable grouping with strong statistical support. For example, we recovered a robust grouping of Eustigmatophyceae with Raphidophyceae-Phaeophyceae-Xanthophyceae while Olisthodiscophyceae formed a sister lineage to Pinguiophyceae. Selecting genes with high phylogenetic signal or data quality recovered more stable topologies. Overall, we find that adding under-represented groups across different lineages is still crucial in resolving phylogenomic relationships, and discrete gene properties affect lineages of stramenopiles differently which may be further explored to better understand the molecular evolution of stramenopiles.&lt;/p&gt;
DOI: 10.15468/dl.23v6ny
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-86.91466 -6.13811,-65.52759 -6.13811,-65.52759 2.42115,-86.91466 2.42115,-86.91466 -6.13811))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Dracula vampira (Luer) Luer",
 "Year 1977-2025"
 ]
}

 The dataset includes 12 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013032-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.njz39x
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Osmeriformes",
 "Geometry POLYGON ((35.2593 -20.2058, 35.9648 -19.5556, 35.9648 -16.1504, 26.9648 -16.1504, 26.9648 -25.1504, 35.1352 -25.1504, 35.2524 -25.1064, 35.8302 -24.5319, 35.9648 -24.1383, 35.9648 -21.4413, 35.6073 -21.0389, 35.2593 -20.2058))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is Human Observation"
 ]
}

 The dataset includes 4 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008308-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5vyabc
title: Occurrence Download

description: A dataset containing 9745 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is one of (CHN.2.1.6_1, CHN.2.1.4_1)",
 "OccurrenceStatus is Present",
 "TaxonKey is Aves",
 "Year 2023-2025"
 ]
}

 The dataset includes 9745 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008307-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7h5h45
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Squalus margaretsmithae Viana, Lisher & Carvalho, 2017"
 ]
}

 The dataset includes 13 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002618-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r9fdq6
title: Occurrence Download

description: A dataset containing 471 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Observation, Human Observation, Machine Observation, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Eutolmus rufibarbis (Meigen, 1820)"
 ]
}

 The dataset includes 471 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002619-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uwxecf
title: Occurrence Download

description: A dataset containing 676097 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Danaus plexippus (Linnaeus, 1758)"
 ]
}

 The dataset includes 676097 records from 363 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002615-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3ejbcb
title: Occurrence Download

description: A dataset containing 18044 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Chloris truncata R.Br."
 ]
}

 The dataset includes 18044 records from 140 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014744-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/12032088
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.6084/m9.figshare.27100996
title: Data and code for Johansson et al. 2025 - Low cross-taxon congruence and weak stand-age effects on biodiversity in Swedish oak forests

description: Data and code for Johansson et al. 2025 - Low cross-taxon congruence and weak stand-age effects on biodiversity in Swedish oak forests