cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.g2pcqw
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Veronica undulata",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 12 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037911-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5vj4jh
title: Occurrence Download

description: A dataset containing 247 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Euproctus platycephalus"
 ]
}

 The dataset includes 247 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037912-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qenehm
title: Occurrence Download

description: A dataset containing 59 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((98 21,102 21,102 24,98 24,98 21))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Siluriformes"
 ]
}

 The dataset includes 59 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037914-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5tt2cb
title: Occurrence Download

description: A dataset containing 28155929 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Norwegian Species Observation Service",
 "ClassKey is Aves"
 ]
}

 The dataset includes 28155929 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037889-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.aqrdcx
title: Occurrence Download

description: A dataset containing 160 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Africa",
 "Country is Ethiopia",
 "OccurrenceStatus is Present",
 "TaxonKey is Vachellia nilotica"
 ]
}

 The dataset includes 160 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037915-251009101135966/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.30393664
title: Supplementary Material for: Continuation of statins after acute intracerebral haemorrhage and survival: the role of inflammation, infection, and indication bias

description: Introduction: Some studies suggest an increased risk of intracerebral haemorrhage (ICH) with HMG-CoA reductase inhibitors (statins). However, other studies focusing on continuation of statins after ICH have shown consistent association with better outcomes. No clear mechanism has been identified, but reduced inflammation and/or infection have been hypothesised. We tested whether statin use, both before and after acute ICH, is associated with risk of death in our cohort. We then investigated potential mediators and tested for indication bias. 
Methods: We conducted a secondary analysis of a prospective spontaneous ICH registry including patients between 22/12/2009 to 23/03/2019. Multifactorial logistic regression was used to test for an association between 30-day case fatality (collected by linkage to national databases) and statin exposure before the index ICH and in the 72 hours after onset. A mediation analysis was conducted including available markers of inflammation and infection, including C-reactive protein, white cell count, lymphocyte count, and red cell distribution width on admission and urinary tract infections and pneumonia in the seven days after arrival. A sensitivity analysis, including only those able to take a statin in the 72 hours after onset (not palliated, enteral access), was also performed. 
Results: 1423 patients were included. Statin continuation after admission (vs. none) was independently associated with lower case fatality (odds ratio [OR] 0.28; 95% confidence interval [CI] 0.16 to 0.49; p&lt;0.001) but statins taken prior to the ICH and not after (vs. none) were not (OR 0.77; 95% CI 0.51 to 1.15; p=0.2). Receiving a statin after the ICH, regardless of whether it was received before, was similarly associated with 30-day case fatality (OR 0.30; 95% CI 0.18 to 0.49; p&lt;0.001). None of the potential mediators tested were significant. The association between statins and mortality was no longer significant in our sensitivity analysis, excluding those unable to take a statin within 72 hours of their ICH (n=1048; OR 0.62; 95% CI 0.37 to 1.05; p = 0.073). 
Conclusion: Exposure to statins (vs. none) after ICH was associated with lower odds of death at 30 days after adjustment for confounders. Available inflammatory markers, urinary tract infections, and pneumonia did not mediate this association. Indication bias is likely to have contributed to the association observed between statins and mortality in prior studies.
DOI: 10.6084/m9.figshare.30393664.v1
title: Supplementary Material for: Continuation of statins after acute intracerebral haemorrhage and survival: the role of inflammation, infection, and indication bias

description: Introduction: Some studies suggest an increased risk of intracerebral haemorrhage (ICH) with HMG-CoA reductase inhibitors (statins). However, other studies focusing on continuation of statins after ICH have shown consistent association with better outcomes. No clear mechanism has been identified, but reduced inflammation and/or infection have been hypothesised. We tested whether statin use, both before and after acute ICH, is associated with risk of death in our cohort. We then investigated potential mediators and tested for indication bias. 
Methods: We conducted a secondary analysis of a prospective spontaneous ICH registry including patients between 22/12/2009 to 23/03/2019. Multifactorial logistic regression was used to test for an association between 30-day case fatality (collected by linkage to national databases) and statin exposure before the index ICH and in the 72 hours after onset. A mediation analysis was conducted including available markers of inflammation and infection, including C-reactive protein, white cell count, lymphocyte count, and red cell distribution width on admission and urinary tract infections and pneumonia in the seven days after arrival. A sensitivity analysis, including only those able to take a statin in the 72 hours after onset (not palliated, enteral access), was also performed. 
Results: 1423 patients were included. Statin continuation after admission (vs. none) was independently associated with lower case fatality (odds ratio [OR] 0.28; 95% confidence interval [CI] 0.16 to 0.49; p&lt;0.001) but statins taken prior to the ICH and not after (vs. none) were not (OR 0.77; 95% CI 0.51 to 1.15; p=0.2). Receiving a statin after the ICH, regardless of whether it was received before, was similarly associated with 30-day case fatality (OR 0.30; 95% CI 0.18 to 0.49; p&lt;0.001). None of the potential mediators tested were significant. The association between statins and mortality was no longer significant in our sensitivity analysis, excluding those unable to take a statin within 72 hours of their ICH (n=1048; OR 0.62; 95% CI 0.37 to 1.05; p = 0.073). 
Conclusion: Exposure to statins (vs. none) after ICH was associated with lower odds of death at 30 days after adjustment for confounders. Available inflammatory markers, urinary tract infections, and pneumonia did not mediate this association. Indication bias is likely to have contributed to the association observed between statins and mortality in prior studies.
DOI: 10.15468/dl.8u874s
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Buddleja officinalis",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 7 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037917-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a9q32c
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Buddleja saligna",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 12 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037919-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hpda7v
title: Occurrence Download

description: A dataset containing 35888229 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is DOF/BirdLife Denmark - Observations from DOFbasen",
 "ClassKey is Aves"
 ]
}

 The dataset includes 35888229 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037891-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p2d8ku
title: Occurrence Download

description: A dataset containing 2456 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Geometry POLYGON((96.02637 8.07034,122.99994 8.07034,122.99994 43.76264,96.02637 43.76264,96.02637 8.07034))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Rosa laevigata"
 ]
}

 The dataset includes 2456 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037920-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uedg58
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Scrophularia umbrosa",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 8 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037921-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17339175
title: Dataset: Exploring novel inducers of phage tail-like particle expression using a fluorescent reporter bacterium

description: This dataset contains the raw and processed fluorescence and optical density (OD) data generated during the high-throughput chemical screening of Pseudomonas protegens CHA0 R-tailocin gene expression. A fluorescent reporter strain was used to monitor R-tailocin cluster activation across more than 1,500 chemical conditions using Biolog Phenotype MicroArray (PM) plates.

1-The Excel file “Biolog_analysis.xlsx” includes:





Raw OD and fluorescence measurements collected over 22 hours for each compound and well.




Normalized data (RFU: Relative Fluorescence Units) representing fluorescence signals adjusted for bacterial growth.



2- Original scan "Original scan_tailocin activity.pdf" of agar plate showing R-tailocin activity following induction with selected compounds (acriflavine, rifampicin, pipemidic acid, hydroxyurea, and mitomycin C).
DOI: 10.5281/zenodo.17339174
title: Dataset: Exploring novel inducers of phage tail-like particle expression using a fluorescent reporter bacterium

description: This dataset contains the raw and processed fluorescence and optical density (OD) data generated during the high-throughput chemical screening of Pseudomonas protegens CHA0 R-tailocin gene expression. A fluorescent reporter strain was used to monitor R-tailocin cluster activation across more than 1,500 chemical conditions using Biolog Phenotype MicroArray (PM) plates.

1-The Excel file “Biolog_analysis.xlsx” includes:





Raw OD and fluorescence measurements collected over 22 hours for each compound and well.




Normalized data (RFU: Relative Fluorescence Units) representing fluorescence signals adjusted for bacterial growth.



2- Original scan "Original scan_tailocin activity.pdf" of agar plate showing R-tailocin activity following induction with selected compounds (acriflavine, rifampicin, pipemidic acid, hydroxyurea, and mitomycin C).
DOI: 10.5281/zenodo.14940279
title: Supplement: Strain-level and phenotypic stability contrasts with plasmid and phage variability in water kefir communities

description: Supplement for the Manuscript: Strain-level and phenotypic stability contrasts with plasmid and phage variability in water kefir communities

Microbial communities can change in response to top-down factors, such as phages, and bottom-up factors, such as nutrient availability. Previous studies have successfully investigated bacterial species-level dynamics, but diversity and interactions beyond the species-level is usually lacking. Traditional fermented foods, such as water kefir, provide ideal systems to study ecological and evolutionary dynamics beyond the species-level, as they are simple and trackable systems that are cultivated in non-sterile, nutrient-rich environments which foster microbial growth and invasion. Despite the central role of only a few lactic acid bacteria for fermentation, little is known about the genomic diversity and dynamics of these community members over time. Within the framework of a graduate course, 35 students propagated water kefir across several generations under different nutrient conditions and in different households to study microbial responses over time. We found that water kefir communities were generally stable at the species-level, with only rare bacterial species replaced over long timescales (more than 2 years). While we observed little strain-level diversity with few strain replacements over long timescales, closely related strains exhibited variation in accessory gene content, often encoded on plasmids, particularly those involved in ecologically meaningful functions such as sugar utilization pathways and phage defense systems. We hypothesise that these genomic variations could reflect the adaptations of strains to different sugars and phages. Consistent with this, we observed a diverse array of phages, many likely originating from the unique household environments. By documenting the genomic landscape of microbial species, strains, plasmids, and phages, this study advances our understanding of the diversity and dynamics of microbial communities in fermented foods. Furthermore, our course material is publicly available and offers a blueprint for bridging the gap between teaching and research, inspiring the next generation of scientists to unravel the complexities of microbial ecosystems.
DOI: 10.5281/zenodo.14940280
title: Supplement: Strain-level and phenotypic stability contrasts with plasmid and phage variability in water kefir communities

description: Supplement for the Manuscript: Strain-level and phenotypic stability contrasts with plasmid and phage variability in water kefir communities

Microbial communities can change in response to top-down factors, such as phages, and bottom-up factors, such as nutrient availability. Previous studies have successfully investigated bacterial species-level dynamics, but diversity and interactions beyond the species-level is usually lacking. Traditional fermented foods, such as water kefir, provide ideal systems to study ecological and evolutionary dynamics beyond the species-level, as they are simple and trackable systems that are cultivated in non-sterile, nutrient-rich environments which foster microbial growth and invasion. Despite the central role of only a few lactic acid bacteria for fermentation, little is known about the genomic diversity and dynamics of these community members over time. Within the framework of a graduate course, 35 students propagated water kefir across several generations under different nutrient conditions and in different households to study microbial responses over time. We found that water kefir communities were generally stable at the species-level, with only rare bacterial species replaced over long timescales (more than 2 years). While we observed little strain-level diversity with few strain replacements over long timescales, closely related strains exhibited variation in accessory gene content, often encoded on plasmids, particularly those involved in ecologically meaningful functions such as sugar utilization pathways and phage defense systems. We hypothesise that these genomic variations could reflect the adaptations of strains to different sugars and phages. Consistent with this, we observed a diverse array of phages, many likely originating from the unique household environments. By documenting the genomic landscape of microbial species, strains, plasmids, and phages, this study advances our understanding of the diversity and dynamics of microbial communities in fermented foods. Furthermore, our course material is publicly available and offers a blueprint for bridging the gap between teaching and research, inspiring the next generation of scientists to unravel the complexities of microbial ecosystems.
DOI: 10.15468/dl.5a88bt
title: Occurrence Download

description: A dataset containing 1157663 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Aves)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON((-60 0,-52.5 0,-52.5 7.5,-60 7.5,-60 0))"
 ]
}

 The dataset includes 1157663 records from 70 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037892-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ntwtp2
title: Occurrence Download

description: A dataset containing 671985 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Aves)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON((-22.5 22.5,-15 22.5,-15 30,-22.5 30,-22.5 22.5))"
 ]
}

 The dataset includes 671985 records from 62 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037894-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2y3m9t
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Philippines",
 "TaxonKey is Tarsius syrichta",
 "Year 2018-2025"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037922-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h76mtx
title: Occurrence Download

description: A dataset containing 339339 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Aves)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON((-67.5 0,-60 0,-60 7.5,-67.5 7.5,-67.5 0))"
 ]
}

 The dataset includes 339339 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037898-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7re5j2
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "GadmGid is CHN.28_1",
 "TaxonKey is Goldbachia pendula"
 ]
}

 The dataset includes 6 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037923-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pbv95p
title: Occurrence Download

description: A dataset containing 142402 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Aves)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON((-52.5 0,-45 0,-45 7.5,-52.5 7.5,-52.5 0))"
 ]
}

 The dataset includes 142402 records from 38 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037886-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jd7tcc
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Verbascum kerneri",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037924-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r25y6q
title: Occurrence Download

description: A dataset containing 465332 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Aves)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON((-15 22.5,-7.5 22.5,-7.5 30,-15 30,-15 22.5))"
 ]
}

 The dataset includes 465332 records from 49 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037895-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c5fc9s
title: Occurrence Download

description: A dataset containing 99150 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Switzerland",
 "Year is 2024",
 "InstitutionCode is iNaturalist"
 ]
}

 The dataset includes 99150 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037907-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.