cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/mrecwt
title: Actualización de la base de datos de la Colección Regional Durango (Tejido)

description: La Colección Regional Durango (Mammalia) (CRD) del CIIDIR-IPN Unidad Durango es una de las más importantes en el noroeste de México ya que alberga el mayor número de ejemplares de mamíferos procedentes de los estados de Durango y Chihuahua depositados en el país, además de muestras menores de otros estados. Actualmente esta colección se encuentra en una etapa de crecimiento, tanto en número de ejemplares como en cobertura geográfica; como resultado de apoyo recibido por CONABIO en el Proyecto DC015 se realizó la computarización de total de la Colección hasta esa fecha (Diciembre 2006) sin embargo, dado el crecimiento que ha tenido, tanto en número de ejemplares, como en la colección anexa de tejidos es importante realizar una actualización de dicha base de datos. Los objetivos de este proyecto son: 1) actualizar la base de datos con el acervo disponible hasta el momento, 2) integrar la base de datos de la colección anexa de tejidos para su incorporación al Sistema de Información de la CONABIO. Con esto se continuará mejorando la calidad de la información contenida en el acervo, y permitirá ponerla a disposición de investigadores e instituciones interesados en la Biodiversidad del noroeste de nuestro país. 
Se entregarán dos bases de datos, generadas en el sistema BIOTICA 5.0, una actualizando la información del proyecto DC015 y adicionando 1300 registros nuevos, la otra contendrá la información referente a la Colección de Tejidos asociada, esta base contendrá 1950 registros, de esta colección, 875 muestras corresponden a ejemplares voucher, y 1075 son muestras de ejemplares de los que no se tiene voucher, de esta colección, 1075 registros no se habían incluido en algún proyecto anterior. 
Reino: 1
Filo: 1
Clase: 1
Orden: 5
Familia: 13
Género: 41
Especie: 24
Epitetoinfraespecifico: 63
DOI: 10.15468/2ggv81
title: Donación de la base de datos resultado del diagnóstico de la diversidad de maíces nativos, su agroecosistema y sus parientes silvestres presentes en Papigochic y su zona de influencia.

description: Base de datos de 82 registros de maíces nativos presentes en el Área Natural Protegida "Papigochic" y su zona de influencia.Reino: 1
Filo: 1
Clase: 1
Orden: 1
Familia: 1
Género: 1
Epitetoinfraespecifico: 6
DOI: 10.15468/dl.yh9uzk
title: Occurrence Download

description: A dataset containing 122 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Ismene amancaes (Ruiz & Pav.) Herb."
 ]
}

 The dataset includes 122 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000567-250402121839773/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.24573067
title: Evolution and biological characterization of H5N1 influenza viruses bearing the clade 2.3.2.1 hemagglutinin gene

description: H5N1 avian influenza viruses bearing the clade 2.3.2.1 hemagglutinin (HA) gene have been widely detected in birds and poultry in several countries. During our routine surveillance, we isolated 28 H5N1 viruses between January 2017 and October 2020. To investigate the genetic relationship of the globally circulating H5N1 viruses and the biological properties of those detected in China, we performed a detailed phylogenic analysis of 274 representative H5N1 strains and analyzed the antigenic properties, receptor-binding preference, and virulence in mice of the H5N1 viruses isolated in China. The phylogenic analysis indicated that the HA genes of the 274 viruses belonged to six subclades, namely clades 2.3.2.1a to 2.3.2.1f; these viruses acquired gene mutations and underwent complicated reassortment to form 58 genotypes, with G43 being the dominant genotype detected in eight Asian and African countries. The 28 H5N1 viruses detected in this study carried the HA of clade 2.3.2.1c (two strains), 2.3.2.1d (three strains), or 2.3.2.1f (23 strains), and formed eight genotypes. These viruses were antigenically well-matched with the H5-Re12 vaccine strain used in China. Animal studies showed that the pathogenicity of the H5N1 viruses ranged from non-lethal to highly lethal in mice. Moreover, the viruses exclusively bound to avian-type receptors and have not acquired the ability to bind to human-type receptors. Our study reveals the overall picture of the evolution of clade 2.3.2.1 H5N1 viruses and provides insights into the control of these viruses.
DOI: 10.6084/m9.figshare.24573067.v2
title: Evolution and biological characterization of H5N1 influenza viruses bearing the clade 2.3.2.1 hemagglutinin gene

description: H5N1 avian influenza viruses bearing the clade 2.3.2.1 hemagglutinin (HA) gene have been widely detected in birds and poultry in several countries. During our routine surveillance, we isolated 28 H5N1 viruses between January 2017 and October 2020. To investigate the genetic relationship of the globally circulating H5N1 viruses and the biological properties of those detected in China, we performed a detailed phylogenic analysis of 274 representative H5N1 strains and analyzed the antigenic properties, receptor-binding preference, and virulence in mice of the H5N1 viruses isolated in China. The phylogenic analysis indicated that the HA genes of the 274 viruses belonged to six subclades, namely clades 2.3.2.1a to 2.3.2.1f; these viruses acquired gene mutations and underwent complicated reassortment to form 58 genotypes, with G43 being the dominant genotype detected in eight Asian and African countries. The 28 H5N1 viruses detected in this study carried the HA of clade 2.3.2.1c (two strains), 2.3.2.1d (three strains), or 2.3.2.1f (23 strains), and formed eight genotypes. These viruses were antigenically well-matched with the H5-Re12 vaccine strain used in China. Animal studies showed that the pathogenicity of the H5N1 viruses ranged from non-lethal to highly lethal in mice. Moreover, the viruses exclusively bound to avian-type receptors and have not acquired the ability to bind to human-type receptors. Our study reveals the overall picture of the evolution of clade 2.3.2.1 H5N1 viruses and provides insights into the control of these viruses.
DOI: 10.6084/m9.figshare.26893353
title: Spatial patterns of influenza A virus spread across compartments in commercial swine farms in the United States

description: Multiple genetic variants of H1 and H3 influenza A viruses (IAVs) circulate concurrently in US swine farms. Understanding the spatial transmission patterns of IAVs among these farms is crucial for developing effective control strategies and mitigating the emergence of novel IAVs. In this study, we analysed 1909 IAV genomic sequences from 785 US swine farms, representing 33 farming systems across 12 states, primarily in the Midwest from 2004 to 2023. Bayesian phylogeographic analyses were performed to identify the dispersal patterns of both H1 and H3 virus genetic lineages and to elucidate their spatial migration patterns within and between different systems. Our results showed that both intra-system and inter-system migrations occurred between the swine farms, with intra-system migrations being more frequent. However, migration rates for H1 and H3 IAVs were similar between intra-system and inter-system migration events. Spatial migration patterns aligned with expected pig movement across different compartments of swine farming systems. Sow-Farms were identified as key sources of viruses, with bi-directional migration observed between these farms and other parts of the system, including Wean-to-Finish and Gilt-Development-Units. High intra-system migration was detected across farms in the same region, while spread to geographically distant intra- and inter-system farms was less frequent. These findings suggest that prioritizing resources towards systems frequently confronting influenza problems and targeting pivotal source farms, such as sow farms, could be an effective strategy for controlling influenza in US commercial swine operations.
DOI: 10.6084/m9.figshare.26893353.v1
title: Spatial patterns of influenza A virus spread across compartments in commercial swine farms in the United States

description: Multiple genetic variants of H1 and H3 influenza A viruses (IAVs) circulate concurrently in US swine farms. Understanding the spatial transmission patterns of IAVs among these farms is crucial for developing effective control strategies and mitigating the emergence of novel IAVs. In this study, we analysed 1909 IAV genomic sequences from 785 US swine farms, representing 33 farming systems across 12 states, primarily in the Midwest from 2004 to 2023. Bayesian phylogeographic analyses were performed to identify the dispersal patterns of both H1 and H3 virus genetic lineages and to elucidate their spatial migration patterns within and between different systems. Our results showed that both intra-system and inter-system migrations occurred between the swine farms, with intra-system migrations being more frequent. However, migration rates for H1 and H3 IAVs were similar between intra-system and inter-system migration events. Spatial migration patterns aligned with expected pig movement across different compartments of swine farming systems. Sow-Farms were identified as key sources of viruses, with bi-directional migration observed between these farms and other parts of the system, including Wean-to-Finish and Gilt-Development-Units. High intra-system migration was detected across farms in the same region, while spread to geographically distant intra- and inter-system farms was less frequent. These findings suggest that prioritizing resources towards systems frequently confronting influenza problems and targeting pivotal source farms, such as sow farms, could be an effective strategy for controlling influenza in US commercial swine operations.
DOI: 10.6084/m9.figshare.27122338
title: A platform for the rapid screening of equine immunoglobins F (ab)2 derived from single equine memory B cells able to cross-neutralize to influenza virus

description: Single B cells-based antibody platforms offer an effective approach for the discovery of useful antibodies for therapeutic or research purposes. Here we present a method for screening equine immunoglobins F(ab)2, which offers the potential advantage of reacting with multiple epitopes on the virus. Using equine influenza virus (EIV) as model, a hemagglutinin (HA) trimer was constructed to bait B cells in vaccinated horses. We screened 370 HA-specific B cells from 1 × 10<sup>6</sup> PBMCs and identified a diverse set of equine variable region gene sequences of heavy and light chains and then recombined with humanized Ig Fc. Recombinant equine Ig was then self-assembled in co-transfected 293 T cells, and subsequently optimized to obtain HA binding B-cell receptor (s). The recombinant antibodies exhibited a high binding affinity to the HA protein. Antibody H81 exhibited the highest cross neutralizing activities against EIV strains <i>in vitro</i>. Furthermore, it effectively protected EIV-challenged mice, resulting in significantly improved survival, reduced pulmonary inflammation and decreased viral titers. <i>In silico</i> predication identified a functional region of H81 comprising 27 key amino acids cross the main circulating EIV strains. The 12 amino acid residues in this region with the highest binding affinities were screened. Notably, the predicted epitopes of H81 encompassed the documented equine HA receptor binding site, validating its cross-neutralization. In summary, a rapid platform was successfully established to investigate the profiling of equine antigen-recognizing receptors (BCRs) following infection. This platform has the potential to optimize the screening of virus-neutralizing antibodies and aid in vaccine design.
DOI: 10.6084/m9.figshare.27122338.v1
title: A platform for the rapid screening of equine immunoglobins F (ab)2 derived from single equine memory B cells able to cross-neutralize to influenza virus

description: Single B cells-based antibody platforms offer an effective approach for the discovery of useful antibodies for therapeutic or research purposes. Here we present a method for screening equine immunoglobins F(ab)2, which offers the potential advantage of reacting with multiple epitopes on the virus. Using equine influenza virus (EIV) as model, a hemagglutinin (HA) trimer was constructed to bait B cells in vaccinated horses. We screened 370 HA-specific B cells from 1 × 10<sup>6</sup> PBMCs and identified a diverse set of equine variable region gene sequences of heavy and light chains and then recombined with humanized Ig Fc. Recombinant equine Ig was then self-assembled in co-transfected 293 T cells, and subsequently optimized to obtain HA binding B-cell receptor (s). The recombinant antibodies exhibited a high binding affinity to the HA protein. Antibody H81 exhibited the highest cross neutralizing activities against EIV strains <i>in vitro</i>. Furthermore, it effectively protected EIV-challenged mice, resulting in significantly improved survival, reduced pulmonary inflammation and decreased viral titers. <i>In silico</i> predication identified a functional region of H81 comprising 27 key amino acids cross the main circulating EIV strains. The 12 amino acid residues in this region with the highest binding affinities were screened. Notably, the predicted epitopes of H81 encompassed the documented equine HA receptor binding site, validating its cross-neutralization. In summary, a rapid platform was successfully established to investigate the profiling of equine antigen-recognizing receptors (BCRs) following infection. This platform has the potential to optimize the screening of virus-neutralizing antibodies and aid in vaccine design.
DOI: 10.6084/m9.figshare.27248031
title: Epidemiology and biological characteristics of influenza A (H4N6) viruses from wild birds

description: During the active surveillance, we isolated nine H4N6 subtype influenza A viruses from wild birds in China. To reveal the epidemiology and biology characteristics of H4 subtype influenza A virus from wild birds, we investigated H4 subtype viruses available in the public source, and found that the H4 viruses have been detected in at least 37 countries to date, and more than 73.6% of the viruses were from wild Anseriformes. Bayesian phylogeographic analysis showed that Mongolia worked as the important transmission centre for Eurasian lineage H4 viruses spreading. Phylogenetic analysis of HA genes indicated that global H4 influenza A viruses were divided into Eurasian and North American lineage, our nine H4N6 isolates fell into the Eurasian lineage. Recombination analysis suggested that nine H4N6 isolates underwent complex gene recombination with various subtypes of influenza A viruses and formed two genotypes. Notably, nine H4N6 isolates acquired mammalian virulence-increasing residues. Two representative H4N6 viruses possessed dual receptor binding specificity, they could efficiently replicate in MDCK and 293 T cells in vitro infection, also could cross the species barrier to infect mice directly without prior adaption in vivo experiments. These findings emphasize the public health issues represented by H4 viruses, and highlight the need to strengthen the active surveillance of H4 viruses from wild birds.
DOI: 10.6084/m9.figshare.27248031.v2
title: Epidemiology and biological characteristics of influenza A (H4N6) viruses from wild birds

description: During the active surveillance, we isolated nine H4N6 subtype influenza A viruses from wild birds in China. To reveal the epidemiology and biology characteristics of H4 subtype influenza A virus from wild birds, we investigated H4 subtype viruses available in the public source, and found that the H4 viruses have been detected in at least 37 countries to date, and more than 73.6% of the viruses were from wild Anseriformes. Bayesian phylogeographic analysis showed that Mongolia worked as the important transmission centre for Eurasian lineage H4 viruses spreading. Phylogenetic analysis of HA genes indicated that global H4 influenza A viruses were divided into Eurasian and North American lineage, our nine H4N6 isolates fell into the Eurasian lineage. Recombination analysis suggested that nine H4N6 isolates underwent complex gene recombination with various subtypes of influenza A viruses and formed two genotypes. Notably, nine H4N6 isolates acquired mammalian virulence-increasing residues. Two representative H4N6 viruses possessed dual receptor binding specificity, they could efficiently replicate in MDCK and 293 T cells in vitro infection, also could cross the species barrier to infect mice directly without prior adaption in vivo experiments. These findings emphasize the public health issues represented by H4 viruses, and highlight the need to strengthen the active surveillance of H4 viruses from wild birds.
DOI: 10.6084/m9.figshare.27248031.v1
title: Epidemiology and Biological Characteristics of Influenza A (H4N6) Viruses from Wild Birds

description: During the active surveillance, we isolated nine H4N6 subtype influenza A viruses from wild birds in China. To reveal the epidemiology and biology characteristics of H4 subtype influenza A virus from wild birds, we investigated H4 subtype viruses available in the public source, and found that the H4 viruses have been detected in at least 37 countries to date, and more than 73.6% of the viruses were from wild Anseriformes. Bayesian phylogeographic analysis showed that Mongolia worked as the important transmission center for Eurasian lineage H4 viruses spreading. Phylogenetic analysis of HA genes indicated that global H4 influenza A viruses were divided into Eurasian and North American lineage, our nine H4N6 isolates fell into the Eurasian lineage. Recombination analysis suggested that nine H4N6 isolates underwent complex gene recombination with various subtypes of influenza A viruses and formed two genotypes. Notably, nine H4N6 isolates acquired mammalian virulence-increasing residues. Two representative H4N6 viruses possessed dual receptor binding specificity, they could efficiently replicate in MDCK and 293 T cells in vitro infection, also could cross the species barrier to infect mice directly without prior adaption in vivo experiments. These findings emphasize the public health issues represented by H4 viruses, and highlight the need to strengthen the active surveillance of H4 viruses from wild birds.
DOI: 10.15468/dl.srsxxa
title: Occurrence Download

description: A dataset containing 778 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Poa pratensis L.",
 "Geometry POLYGON((-105 34, -94 34, -94 43, -105 43, -105 34))"
 ]
}

 The dataset includes 778 records from 42 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000568-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ppvnb6
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Panama",
 "TaxonKey is Incilius karenlipsae Mendelson & Mulcahy, 2010"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000570-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15126668
title: Amundsenisen Glacial System – Changes to the front positions of outlet glaciers

description: Description

This dataset contains a record of glacier front positions for four outlet glaciers of the Amundsenisen glacial system in southern Spitsbergen:Paierlbreen, Austre Torellbreen, Vestre Torellbreen, and Recherchebreen.

Each glacier front is represented as a LineString geometry corresponding to its observed position on a specific date. The dataset spans from April 9, 1975 to December 21, 2022, and includes 1,299 glacier front lines.



Key Information





Region: Southern Spitsbergen, Svalbard – Amundsenisen glacial system




Glaciers included:





Paierlbreen




Austre Torellbreen




Vestre Torellbreen




Recherchebreen






Temporal coverage: 1975-04-09 to 2022-12-21




Number of features: 1,299 front lines




Geometry type: LineString




Coordinate Reference System (CRS): WGS 84 / UTM Zone 33N (EPSG:32633)




Coordinate units: Meters (projected)





Field Descriptions






Field
Description




GLACIER
Name of the glacier


DATE_YY
Year of the observed terminus position


DATE_MM
Month of the observation


DATE_DD
Day of the observation


DIR
Indicates the relative position of the glacier in relation to its front line (e.g., N = glacier lies north of the front)


Shape_Leng
Length of the glacier front line (in meters)







Data Sources

The glacier fronts were delineated based on satellite remote sensing imagery from both optical and synthetic aperture radar (SAR) sensors:

Optical sensors:





ASTER




AVNIR-2




Landsat series: 2, 5, 7, 8




Sentinel-2



SAR sensors:





ERS




ENVISAT




PALSAR




RADARSAT-2




Sentinel-1




TerraSAR-X



Images were selected based on spatial resolution, cloud cover, and temporal coverage. Manual interpretation and georeferencing were applied where necessary to ensure spatial accuracy.
DOI: 10.5281/zenodo.15126669
title: Amundsenisen Glacial System – Changes to the front positions of outlet glaciers

description: Description

This dataset contains a record of glacier front positions for four outlet glaciers of the Amundsenisen glacial system in southern Spitsbergen:Paierlbreen, Austre Torellbreen, Vestre Torellbreen, and Recherchebreen.

Each glacier front is represented as a LineString geometry corresponding to its observed position on a specific date. The dataset spans from April 9, 1975 to December 21, 2022, and includes 1,299 glacier front lines.



Key Information





Region: Southern Spitsbergen, Svalbard – Amundsenisen glacial system




Glaciers included:





Paierlbreen




Austre Torellbreen




Vestre Torellbreen




Recherchebreen






Temporal coverage: 1975-04-09 to 2022-12-21




Number of features: 1,299 front lines




Geometry type: LineString




Coordinate Reference System (CRS): WGS 84 / UTM Zone 33N (EPSG:32633)




Coordinate units: Meters (projected)





Field Descriptions






Field
Description




GLACIER
Name of the glacier


DATE_YY
Year of the observed terminus position


DATE_MM
Month of the observation


DATE_DD
Day of the observation


DIR
Indicates the relative position of the glacier in relation to its front line (e.g., N = glacier lies north of the front)


Shape_Leng
Length of the glacier front line (in meters)







Data Sources

The glacier fronts were delineated based on satellite remote sensing imagery from both optical and synthetic aperture radar (SAR) sensors:

Optical sensors:





ASTER




AVNIR-2




Landsat series: 2, 5, 7, 8




Sentinel-2



SAR sensors:





ERS




ENVISAT




PALSAR




RADARSAT-2




Sentinel-1




TerraSAR-X



Images were selected based on spatial resolution, cloud cover, and temporal coverage. Manual interpretation and georeferencing were applied where necessary to ensure spatial accuracy.