cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh1128667.10fu
title: SH1128667.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1128669.10fu
title: SH1128669.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1128672.10fu
title: SH1128672.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1128673.10fu
title: SH1128673.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1128675.10fu
title: SH1128675.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1128676.10fu
title: SH1128676.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15468/dl.2bv4gf
title: Occurrence Download

description: A dataset containing 2577 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Spain",
 "Geometry POLYGON((-10.98122 41.04739,-4.67307 41.04739,-4.67307 44.43594,-10.98122 44.43594,-10.98122 41.04739))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Laurus nobilis"
 ]
}

 The dataset includes 2577 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004605-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11113845
title: Metabolic enzymes moonlight as selective autophagy receptors to protect plants against viral-induced cellular damage

description: The dataset contains all the original raw files for the following study:

Metabolic enzymes moonlight as selective autophagy receptors to protect plants against viral-induced cellular damage

Marion Clavel1,2,*, Anita Bianchi1, Roksolana Kobylinska1, Roan Groh1,3, Juncai Ma4, Ranjith K. Papareddy1, Nenad Grujic1, Lorenzo Picchianti1,3, Ethan Stewart5, Michael Schutzbier1, Karel Stejskal1, Juan Carlos de la Concepcion1, Victor Sanchez de Medina Hernandez1,3, Yoav Voichek1, Pieter Clauw1, Joanna Gunis1, Gerhard Durnberger1, Jens Christian Muelders2,  Annett Grimm2, Arthur Sedivy5, Mathieu Erhardt6, Victoria Vyboishchikov1, Peng Gao1, Esther Lechner6, Emilie Vantard6, Jakub Jez5, Elisabeth Roitinger1, Pascal Genschik6, Byung-Ho Kang4, Yasin Dagdas1,*

 

Affiliations

1Gregor Mendel Institute, Austrian Academy of Sciences, Vienna BioCenter, Vienna, Austria.

2Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, Germany

3Vienna BioCenter PhD Program, Doctoral School of the University at Vienna and Medical University of Vienna, Vienna, Austria

4School of Life Sciences, Centre for Cell & Developmental Biology and State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong, China

5Vienna Biocenter Core Facilities (VBCF), Vienna, Austria

6Institut de Biologie Moléculaire des Plantes, CNRS, Université de Strasbourg, 12, rue du Général Zimmer, 67084 Strasbourg, France

 

*Correspondence:           Marion Clavel (marion.clavel@mpimp-golm.mpg.de),

                                        Yasin Dagdas (yasin.dagdas@gmi.oeaw.ac.at)

 

Abstract

RNA viruses co-opt the host endomembrane system and organelles to build replication complexes for infection. How the host responds to these membrane perturbations is poorly understood. Here, we explore the autophagic response of Arabidopsis thaliana to three viruses that hijack different cellular compartments. Autophagy is significantly induced within systemically infected tissues, its disruption rendering plants highly sensitive to infection. Contrary to being an antiviral defense mechanism as previously suggested, quantitative analyses of the viral loads established autophagy as a tolerance pathway. Further analysis of one of these viruses, the Turnip Crinkle Virus (TCV) that hijack mitochondria, showed that despite perturbing mitochondrial integrity, TCV does not trigger a typical mitophagy response.  Instead, TCV and Turnip yellow mosaic virus (TYMV) infection activates a distinct selective autophagy mechanism, where oligomeric metabolic enzymes moonlight as selective autophagy receptors and degrade key executors of defense and cell death such as EDS1. Altogether, our study reveals an autophagy-regulated metabolic rheostat that gauges cellular integrity during viral infection and degrades cell death executors to avoid catastrophic amplification of immune signaling.

 

One archive corresponds to one main or supplemental figure.
DOI: 10.5281/zenodo.14210828
title: GWAS Summary Statistics for Publication: Identifying novel genetic and phenotypic associations to genomic features by leveraging off-target reads in exome sequencing data

description: This dataset contains summary statistics for genome-wide association studies (GWAS) conducted on genomic features derived from off-target reads in whole-exome sequencing (WES) data. The study utilized tools like Seeing Beyond the Target (SBT) and ImReP to construct novel phenotypic features from unmapped reads in ~50,000 participants in the UK Biobank. Features include mitochondrial DNA (mtDNA) copy number, ribosomal DNA (rDNA) copy number (5S, 18S, 28S), immune repertoire metrics (e.g., T-cell receptor alpha diversity), and microvial genome load (viral and fungal).

Summary statistics can be used for replication studies, meta-analyses, or further exploration of these phenotypes.
DOI: 10.5281/zenodo.8252242
title: Characterization of dairy processing waste in the north of France

description: Dataset containing the characterization of dairy processing waste from 10 different dairy factories in the north of France.
DOI: 10.5281/zenodo.8252243
title: Characterization of dairy processing waste in the north of France

description: Dataset containing the characterization of dairy processing waste from 10 different dairy factories in the north of France.
DOI: 10.5281/zenodo.14159917
title: Data for "SOS1-dependent vacuolar sodium accumulation revealed by elemental cryo-imaging"

description: Raw data associated with the publication "SOS1-dependent vacuolar sodium accumulation revealed by elemental cryo-imaging". Files contain raw images of SOS1-GFP and SOS1-mCitrine protein localization data used for quantifications under control, salt stress conditions, as well as the chemical treatments for localization assessment. Folders named according to line, conditions and treatment. The folder `Ramakrishna_et_al_CryoSEM-NanoSIMS` contains the correlative CryoSEM image as well as the CryoNanoSIMS image files for all treatments and conditions for both rice and Arabidopsis. For analysis of the CryoNanoSIMS images please refer to the materials and methods of the manuscript. For any further details please contact the corresponding authors.
DOI: 10.15468/dl.hn3wxt
title: Occurrence Download

description: A dataset containing 27742 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Congo",
 "Year 1978-2023"
 ]
}

 The dataset includes 27742 records from 184 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034669-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g82kv7
title: Occurrence Download

description: A dataset containing 18487 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Cook Islands",
 "Year 1978-2023"
 ]
}

 The dataset includes 18487 records from 121 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034670-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.w7stjt
title: Occurrence Download

description: A dataset containing 12174400 species occurrences available in GBIF matching the query:
{
 "and" : [
 "PhylumKey is one of (Tracheophyta)",
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Country is one of (Canada, United States of America, Mexico)"
 ]
}

 The dataset includes 12174400 records from 892 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034671-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.77pyzm
title: Occurrence Download

description: A dataset containing 4785393 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Costa Rica",
 "Year 1978-2023"
 ]
}

 The dataset includes 4785393 records from 759 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034672-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fuqf95
title: Occurrence Download

description: A dataset containing 1437 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Obama nungara Carbayo, Alvarez-Presas, Jones & Riutort, 2016"
 ]
}

 The dataset includes 1437 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012991-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2pnen2
title: Occurrence Download

description: A dataset containing 6629 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "RecordedBy is Sherwin Carlquist"
 ]
}

 The dataset includes 6629 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044537-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.n5mqn9
title: Occurrence Download

description: A dataset containing 824769 species occurrences available in GBIF matching the query:
{
 "Country" : [
 "is Ghana"
 ]
}

 The dataset includes 824769 records from 836 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0081102-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8bflkn
title: Occurrence Download

description: A dataset containing 286483 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "Year 1000-1950"
 ]
}

 The dataset includes 286483 records from 471 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044919-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.akdy3f
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Asplenium ×poscharskyanum (H.Hofm.) Dörfl."
 ]
}

 The dataset includes 13 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0144787-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hqecsk
title: Occurrence Download

description: A dataset containing 49 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Bulgaria, Türkiye, Georgia, Russian Federation)",
 "DatasetKey is one of (Moscow University Herbarium (MW), Local floras of Russia: records from literature)",
 "Geometry POLYGON((20.09832 34.13604,51.90168 34.13604,51.90168 46.86396,20.09832 46.86396,20.09832 34.13604))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Ilex colchica Pojark."
 ]
}

 The dataset includes 49 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0080944-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wsz6yh
title: Occurrence Download

description: A dataset containing 2331631 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Observation",
 "BasisOfRecord is Machine Observation",
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Material sample",
 "BasisOfRecord is Literature Occurrence",
 "BasisOfRecord is Specimen",
 "BasisOfRecord is Unknown evidence"
 ]
 },
 "Geometry POLYGON((-110.74493 31.28906,-110.74493 33.39294,-114.60114 33.39294,-115.30426 32.34375,-115.30426 31.65161,-113.20038 30.95398,-111.091 30.94299,-110.74493 31.28906))",
 "HasCoordinate is true",
 "TaxonKey is Passeriformes",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 2331631 records from 55 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044921-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g6bwy6
title: Occurrence Download

description: A dataset containing 1206 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Solanum bonariense L.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1206 records from 75 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0080945-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.my92n3
title: Occurrence Download

description: A dataset containing 30 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Normania nava (Webb & Berthel.) Franc.-Ort. & Lester"
 ]
}

 The dataset includes 30 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0113312-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7psmt5
title: Occurrence Download

description: A dataset containing 333 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Ceratostoma nuttalli (Conrad, 1837)",
 "Year 1901-2021"
 ]
}

 The dataset includes 333 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0255571-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tjdge1
title: Occurrence Download

description: A dataset containing 152 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anthophorula consobrina (Timberlake, 1980)"
 ]
}

 The dataset includes 152 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044922-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f3f6vp
title: Occurrence Download

description: A dataset containing 23609 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Solanum americanum Mill.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 23609 records from 619 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0080950-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4gqf9m
title: Occurrence Download

description: A dataset containing 114 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "HasCoordinate is true",
 "TaxonKey is Psychotria brachyceras Müll.Arg.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 114 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019784-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ktrxjv
title: Occurrence Download

description: A dataset containing 2943 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Psidium guajava L."
 ]
}

 The dataset includes 2943 records from 116 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003083-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2bg249
title: Occurrence Download

description: A dataset containing 395 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "TaxonKey is Cenchrus pauciflorus Benth."
 ]
}

 The dataset includes 395 records from 73 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0178625-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.