cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.595mjj
title: Occurrence Download

description: A dataset containing 212 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Priacanthus macracanthus Cuvier, 1829",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 212 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035756-241126133413365/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.c.3863149_d7
title: Additional file 4: Table S4. of Genome-wide association studies dissect the genetic networks underlying agronomical traits in soybean

description: The SNPs getting from before imputation, after imputation, and Sanger sequencing validation. (XLSX 55Â kb)
DOI: 10.6084/m9.figshare.c.3863149_d7.v1
title: Additional file 4: Table S4. of Genome-wide association studies dissect the genetic networks underlying agronomical traits in soybean

description: The SNPs getting from before imputation, after imputation, and Sanger sequencing validation. (XLSX 55Â kb)
DOI: 10.15468/dl.s56cdp
title: Occurrence Download

description: A dataset containing 769 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cajanus cinereus (F.Muell. ex Benth.) F.Muell."
 ]
}

 The dataset includes 769 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035755-241126133413365/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.c.3863149_d6
title: Additional file 3: Table S3. of Genome-wide association studies dissect the genetic networks underlying agronomical traits in soybean

description: Primers used for SNP validation. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3863149_d6.v1
title: Additional file 3: Table S3. of Genome-wide association studies dissect the genetic networks underlying agronomical traits in soybean

description: Primers used for SNP validation. (XLSX 11Â kb)
DOI: 10.15468/dl.dnzgn5
title: Occurrence Download

description: A dataset containing 312 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Philippines",
 "TaxonKey is Tectaria crenata Cav."
 ]
}

 The dataset includes 312 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035757-241126133413365/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.c.3861694_d1.v1
title: Additional file 1: of Evaluation of three read-depth based CNV detection tools using whole-exome sequencing data

description: Details and quality control information of sequenďťżcing data. (XLS 32Â kb)
DOI: 10.6084/m9.figshare.c.3861694_d1
title: Additional file 1: of Evaluation of three read-depth based CNV detection tools using whole-exome sequencing data

description: Details and quality control information of sequenďťżcing data. (XLS 32Â kb)
DOI: 10.6084/m9.figshare.24799548
title: Animal-sourced model of human norovirus infection predicted using environmental DNA metabarcoding analysis

description: Human noroviruses (HNVs) are one of the major causes of food poisoning and severe gastroenteritis. However, prevention and medical treatment of HNV disease is underdeveloped due to the lack of ecological understanding of the HNVs including their host organisms. We address the potential source animals of HNVs based on the environmental DNA metabarcoding analysis. By focusing on the HNV-epidemic area in Japan, we found several bird species of ducks, pochards, carrion crow, and swan showing significant cross-correlation with the HNV detection from cultured oysters. Humans and livestock mammals do not exhibit correlation with HNVs. These results suggest an avian-sourced, non-human- or sewage-mediated model of HNV infection. Unraveling the unknown host animals of pathogens like HNV facilitates artificial propagation of the pathogen, leading to vaccine and small molecule drug development.
DOI: 10.6084/m9.figshare.24799548.v1
title: Animal-sourced model of human norovirus infection predicted using environmental DNA metabarcoding analysis

description: Human noroviruses (HNVs) are one of the major causes of food poisoning and severe gastroenteritis. However, prevention and medical treatment of HNV disease is underdeveloped due to the lack of ecological understanding of the HNVs including their host organisms. We address the potential source animals of HNVs based on the environmental DNA metabarcoding analysis. By focusing on the HNV-epidemic area in Japan, we found several bird species of ducks, pochards, carrion crow, and swan showing significant cross-correlation with the HNV detection from cultured oysters. Humans and livestock mammals do not exhibit correlation with HNVs. These results suggest an avian-sourced, non-human- or sewage-mediated model of HNV infection. Unraveling the unknown host animals of pathogens like HNV facilitates artificial propagation of the pathogen, leading to vaccine and small molecule drug development.
DOI: 10.6084/m9.figshare.26418878
title: Environmental DNA metabarcoding for whole community inventories of vertebrates in rivers of the midwestern United States

description: The application of environmental DNA (eDNA) methods to simultaneously study vertebrate diversity holds promise to accelerate conservation efforts, especially in freshwater systems which are among the most imperiled in the world. Here, using eDNA sampling, we identify patterns of vertebrate biodiversity across different habitats of the Kankakee River watershed, one of the most diverse lotic systems in Illinois, USA. Our eDNA metabarcoding analyses identified 147 different taxa, including 77 fishes, 38 birds, 24 mammals, five amphibians and three reptiles at 11 locations in the watershed, including tributaries and mainstem stretches upstream and within the Kankakee River State Park protected area. When compared to seining, eDNA sampling consistently detected more fish species, including non-native and imperiled species. We also found that vertebrate communities among the different habitats significantly varied in taxonomic composition, showing an upstream-downstream shift along the mainstem river as well as tributary-specific assemblages. Our study demonstrates the ability of single-marker eDNA metabarcoding to simultaneously document aquatic and terrestrial communities across large temperate lotic ecosystems and to monitor diversity patterns across protected areas.
DOI: 10.6084/m9.figshare.26418878.v1
title: Environmental DNA metabarcoding for whole community inventories of vertebrates in rivers of the midwestern United States

description: The application of environmental DNA (eDNA) methods to simultaneously study vertebrate diversity holds promise to accelerate conservation efforts, especially in freshwater systems which are among the most imperiled in the world. Here, using eDNA sampling, we identify patterns of vertebrate biodiversity across different habitats of the Kankakee River watershed, one of the most diverse lotic systems in Illinois, USA. Our eDNA metabarcoding analyses identified 147 different taxa, including 77 fishes, 38 birds, 24 mammals, five amphibians and three reptiles at 11 locations in the watershed, including tributaries and mainstem stretches upstream and within the Kankakee River State Park protected area. When compared to seining, eDNA sampling consistently detected more fish species, including non-native and imperiled species. We also found that vertebrate communities among the different habitats significantly varied in taxonomic composition, showing an upstream-downstream shift along the mainstem river as well as tributary-specific assemblages. Our study demonstrates the ability of single-marker eDNA metabarcoding to simultaneously document aquatic and terrestrial communities across large temperate lotic ecosystems and to monitor diversity patterns across protected areas.
DOI: 10.6084/m9.figshare.26077226.v1
title: Study on the biodiversity of macroinvertebrate in the Dayang River Basin during summer based on environmental DNA and morphological analysis

description: The health of the Dayang River ecosystem, critical freshwater resource for Dandong City, is intertwined with local water management and coastal development. In June 2023, we conducted a biodiversity survey in the Dayang River basin using a combined morphological and environmental DNA (eDNA) approach. We assessed both species and functional diversity of summer macroinvertebrates. A total of 81 macroinvertebrates species were identified, with some overlap in species detection between the methods. The trunk stream exhibited lower species diversity with uneven distribution across sites, whereas the tributaries displayed a more stable species composition. Functional diversity analysis mirrored this pattern, revealing lower functional diversity in the trunk stream, indicative of intense competition and niche occupation. Conversely, the tributaries displayed more uniform and complete functional diversity. This study highlights the differential influence of hydrological environments on macroinvertebrate communities during the summer season, with the trunk stream favoring certain species with specific habitat preferences and adaptations. Furthermore, it underscores the value of combining traditional morphological surveys and eDNA techniques for comprehensive biodiversity assessments.
DOI: 10.6084/m9.figshare.26077226
title: Study on the biodiversity of macroinvertebrate in the Dayang River Basin during summer based on environmental DNA and morphological analysis

description: The health of the Dayang River ecosystem, critical freshwater resource for Dandong City, is intertwined with local water management and coastal development. In June 2023, we conducted a biodiversity survey in the Dayang River basin using a combined morphological and environmental DNA (eDNA) approach. We assessed both species and functional diversity of summer macroinvertebrates. A total of 81 macroinvertebrates species were identified, with some overlap in species detection between the methods. The trunk stream exhibited lower species diversity with uneven distribution across sites, whereas the tributaries displayed a more stable species composition. Functional diversity analysis mirrored this pattern, revealing lower functional diversity in the trunk stream, indicative of intense competition and niche occupation. Conversely, the tributaries displayed more uniform and complete functional diversity. This study highlights the differential influence of hydrological environments on macroinvertebrate communities during the summer season, with the trunk stream favoring certain species with specific habitat preferences and adaptations. Furthermore, it underscores the value of combining traditional morphological surveys and eDNA techniques for comprehensive biodiversity assessments.
DOI: 10.6084/m9.figshare.25596710
title: Environmental DNA based biomonitoring for hatchery-raised fish in riverine habitats before and after recordable flood event

description: It is reported that the magnitudes of flood events in riverine systems have been increasing due to global climate change. Because flood events could displace fish species downstream and/or increase the mortality of fish, it is important to know how the increased floods can affect fish in river networks. In this study, we focused a hatchery-raised amphidromous fish, Ayu <i>Plecoglossus altivelis altivelis</i> in a mainstem-tributary network in Japan and examined the relative fish abundance changes before and after the recordable massive flood using the environmental DNA (eDNA) analysis. We also examined the spatiotemporal patterns of the Ayu eDNA concentrations and the relationships with tributary discharge, width, and depth to examine if the relative abundance changes could be related to tributary size. Our results indicated that Ayu tended to inhabit large, deep tributaries more than small, shallow tributaries even after the flood event. Further, the eDNA concentrations of Ayu have decreased in most study sites after the flood; however, the eDNA concentrations in certain tributaries with lower tributary size have increased during the study period. These results suggest that (1) the habitat conditions could be important for the maintenance of Ayu populations before and after flood events, (2) increase in flood magnitude along climate changes could have impacts on Ayu populations, and (3) not only large tributary, but also small tributaries could be important habitats for the target species to avoid flood disturbances.
DOI: 10.6084/m9.figshare.25596710.v1
title: Environmental DNA based biomonitoring for hatchery-raised fish in riverine habitats before and after recordable flood event

description: It is reported that the magnitudes of flood events in riverine systems have been increasing due to global climate change. Because flood events could displace fish species downstream and/or increase the mortality of fish, it is important to know how the increased floods can affect fish in river networks. In this study, we focused a hatchery-raised amphidromous fish, Ayu <i>Plecoglossus altivelis altivelis</i> in a mainstem-tributary network in Japan and examined the relative fish abundance changes before and after the recordable massive flood using the environmental DNA (eDNA) analysis. We also examined the spatiotemporal patterns of the Ayu eDNA concentrations and the relationships with tributary discharge, width, and depth to examine if the relative abundance changes could be related to tributary size. Our results indicated that Ayu tended to inhabit large, deep tributaries more than small, shallow tributaries even after the flood event. Further, the eDNA concentrations of Ayu have decreased in most study sites after the flood; however, the eDNA concentrations in certain tributaries with lower tributary size have increased during the study period. These results suggest that (1) the habitat conditions could be important for the maintenance of Ayu populations before and after flood events, (2) increase in flood magnitude along climate changes could have impacts on Ayu populations, and (3) not only large tributary, but also small tributaries could be important habitats for the target species to avoid flood disturbances.
DOI: 10.15468/dl.k87yfs
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Priacanthus meeki Jenkins, 1903",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035758-241126133413365/datasets/export for details.
DOI: 10.15468/dl.zzc49n
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is IDN.32.14_1",
 "IucnRedListCategory is EN",
 "TaxonKey is Chordata"
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035760-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u22kuy
title: Occurrence Download

description: A dataset containing 143 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Philippines",
 "TaxonKey is Nephrolepis hirsutula (G.Forst.) C.Presl"
 ]
}

 The dataset includes 143 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035759-241126133413365/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.c.3860458_d5
title: Additional file 5: Table S3. of Physiological and de novo transcriptome analysis of the fermentation mechanism of Cerasus sachalinensis roots in response to short-term waterlogging

description: Primers for RT-qPCR of all tested genes. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3860458_d5.v1
title: Additional file 5: Table S3. of Physiological and de novo transcriptome analysis of the fermentation mechanism of Cerasus sachalinensis roots in response to short-term waterlogging

description: Primers for RT-qPCR of all tested genes. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3860458_d4.v1
title: Additional file 4: Table S2. of Physiological and de novo transcriptome analysis of the fermentation mechanism of Cerasus sachalinensis roots in response to short-term waterlogging

description: Differentially expressed genes of glycolysis/gluconeogenesis pathway at different waterlogging durations. (XLSX 97Â kb)
DOI: 10.6084/m9.figshare.c.3860458_d3.v1
title: Additional file 3: Table S1. of Physiological and de novo transcriptome analysis of the fermentation mechanism of Cerasus sachalinensis roots in response to short-term waterlogging

description: Significantly enriched metabolic pathways at different waterlogging durations. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3860458_d4
title: Additional file 4: Table S2. of Physiological and de novo transcriptome analysis of the fermentation mechanism of Cerasus sachalinensis roots in response to short-term waterlogging

description: Differentially expressed genes of glycolysis/gluconeogenesis pathway at different waterlogging durations. (XLSX 97Â kb)
DOI: 10.6084/m9.figshare.c.3860458_d3
title: Additional file 3: Table S1. of Physiological and de novo transcriptome analysis of the fermentation mechanism of Cerasus sachalinensis roots in response to short-term waterlogging

description: Significantly enriched metabolic pathways at different waterlogging durations. (XLSX 12Â kb)
DOI: 10.15468/dl.ush47u
title: Occurrence Download

description: A dataset containing 2452 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Machine Observation, Human Observation, Material sample, Material citation, Specimen, Occurrence evidence)",
 "Country is Mexico",
 "TaxonKey is Dasypus novemcinctus Linnaeus, 1758"
 ]
}

 The dataset includes 2452 records from 92 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035761-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9fyrc8
title: Occurrence Download

description: A dataset containing 119 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is one of (Australian Museum provider for OZCAM, NSW DPI Biosecurity Collections, Australian National Insect Collection, Museums Victoria provider for OZCAM, Queensland Museum provider for OZCAM, Waite Insect and Nematode Collection, ALA species sightings and OzAtlas, Earth Guardians Weekly Feed, International Barcode of Life project (iBOL))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Anoplognathus viridiaeneus (Donovan, 1805)"
 ]
}

 The dataset includes 119 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035763-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cwjm5q
title: Occurrence Download

description: A dataset containing 41 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Beryx splendens Lowe, 1834",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 41 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035762-241126133413365/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.c.3859297_d1
title: MOESM1 of Identification of vocal individuality in male cuckoos using different analytical techniques

description: Additional file 1: Table S1. Original measurement data of call features of male Common Cuckoos
DOI: 10.6084/m9.figshare.c.3857950_d1
title: Additional file 1: Table S1 of The whole genomic analysis of orf virus strain HN3/12 isolated from Henan province, central China

description: ORFs of HN3/12 compared with the corresponding of ORFV strains YX, NP, GO, SJ1, NZ2, IA82, NA1/11 and SA00. (XLS 64 kb)
DOI: 10.6084/m9.figshare.c.3857950_d1.v1
title: Additional file 1: Table S1 of The whole genomic analysis of orf virus strain HN3/12 isolated from Henan province, central China

description: ORFs of HN3/12 compared with the corresponding of ORFV strains YX, NP, GO, SJ1, NZ2, IA82, NA1/11 and SA00. (XLS 64 kb)
DOI: 10.6084/m9.figshare.c.3855607_d5
title: Additional file 5: Table S1. of Annexin A2 could enhance multidrug resistance by regulating NF-ÎşB signaling pathway in pediatric neuroblastoma

description: Protein identification and quantificaiton result of the primary and resistant cell lines by Maxquant. (XLSX 1016Â kb)
DOI: 10.6084/m9.figshare.c.3855607_d5.v1
title: Additional file 5: Table S1. of Annexin A2 could enhance multidrug resistance by regulating NF-ÎşB signaling pathway in pediatric neuroblastoma

description: Protein identification and quantificaiton result of the primary and resistant cell lines by Maxquant. (XLSX 1016Â kb)
DOI: 10.15468/dl.qm945x
title: Occurrence Download

description: A dataset containing 16 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Beryx decadactylus Cuvier, 1829",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 16 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035764-241126133413365/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.c.3854254_d3.v1
title: MOESM2 of Protein signatures of molecular pathways in non-small cell lung carcinoma (NSCLC): comparison of glycoproteomics and global proteomics

description: Additional file 2. Â Raw data for glycopeptides from LC-MS.
DOI: 10.6084/m9.figshare.c.3854254_d3
title: MOESM2 of Protein signatures of molecular pathways in non-small cell lung carcinoma (NSCLC): comparison of glycoproteomics and global proteomics

description: Additional file 2. Â Raw data for glycopeptides from LC-MS.
DOI: 10.6084/m9.figshare.c.3854263_d1.v1
title: Additional file 1: of Understanding the cluster randomised crossover design: a graphical illustraton of the components of variation and a sample size tutorial

description: Continuous outcomes sample size Stata do file. Stata do file to perform sample size calculations for continuous outcomes using formulae presented in the ‘Performing a sample size calculation’ section, for a given set of sample size parameters. (DO 1 kb)
DOI: 10.6084/m9.figshare.c.3854263_d1
title: Additional file 1: of Understanding the cluster randomised crossover design: a graphical illustration of the components of variation and a sample size tutorial

description: Continuous outcomes sample size Stata do file. Stata do file to perform sample size calculations for continuous outcomes using formulae presented in the ‘Performing a sample size calculation’ section, for a given set of sample size parameters. (DO 1 kb)
DOI: 10.6084/m9.figshare.c.3854263_d1.v2
title: Additional file 1: of Understanding the cluster randomised crossover design: a graphical illustration of the components of variation and a sample size tutorial

description: Continuous outcomes sample size Stata do file. Stata do file to perform sample size calculations for continuous outcomes using formulae presented in the ‘Performing a sample size calculation’ section, for a given set of sample size parameters. (DO 1 kb)