cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.29371855.v1
title: <i>Agaricus</i> section <i>Minores</i>: a new species to science, and six species recorded for the first time in Greece

description: <i>Agaricus</i> sect. <i>Minores</i> is characterized by the production of small to medium-sized basidiomata, high species diversity (including several cryptic taxa), and occurrence in a large variety of habitats. A new species to science, i.e. <i>Agaricus draconis</i>, is formally described by adopting an integrative approach based on morphological features, molecular criteria, and habitat characteristics. The multilocus phylogenetic analysis performed through the use of the internal transcribed spacer (ITS), the partial nuc 28S rDNA (28S), and the translation elongation factor 1-alpha (<i>TEF1-α</i>) gene clearly demonstrates that <i>A. draconis</i> is a sister species to <i>A. brunneolus</i> and <i>A. dulcidulus</i>. In addition, <i>A. draconis</i> exhibits distinct morphological features, including a predominantly white, smooth pileus with occasional tinges of gray, orange, violet, or yellowish colors lacking appressed scales and a single, solid rhizomorph at the stipe base. Furthermore, the presence of another 12 species of the <i>A</i>. sect. <i>Minores</i> was assessed in Greece, six of which constitute first national records, i.e. <i>A. edmondoi, A. gemlii, A. heinemannianus, A. jacobi, A. kerriganii</i>, and <i>A. marisae</i>. The most notable morphological features of these six species are presented, and their distribution in Mediterranean Europe is discussed.
DOI: 10.6084/m9.figshare.29545845
title: <i>Cystinarius</i>: phylogeny and species diversity in China

description: <i>Cystinarius</i> is a small genus belonging to the family Cortinariaceae, distinguished by its distinctive combination of small basidiospores and presence of both cheilo- and pleurocystidia, a combination that is rarely found in other genera within the Cortinariaceae. To date, this genus consists of only two subgenera and includes seven recognized species. Previously, only a single specimen of <i>Cy. crassus</i> was reported from China. Based on the analysis of 17 newly collected specimens, supported by morphological evidence and two-locus phylogenetic inference, five species, namely, <i>Cy. fulvellus, Cy. longipes, Cy. shennongensis, Cy. crassus</i>, and <i>Cy. paurigarhwalensis</i>, were recognized. Among them, the former three species are new to science, whereas the last one is new to China. This study provides comprehensive taxonomic descriptions and a detailed identification key to the <i>Cystinarius</i> species discovered in China.
DOI: 10.6084/m9.figshare.29545845.v1
title: <i>Cystinarius</i>: phylogeny and species diversity in China

description: <i>Cystinarius</i> is a small genus belonging to the family Cortinariaceae, distinguished by its distinctive combination of small basidiospores and presence of both cheilo- and pleurocystidia, a combination that is rarely found in other genera within the Cortinariaceae. To date, this genus consists of only two subgenera and includes seven recognized species. Previously, only a single specimen of <i>Cy. crassus</i> was reported from China. Based on the analysis of 17 newly collected specimens, supported by morphological evidence and two-locus phylogenetic inference, five species, namely, <i>Cy. fulvellus, Cy. longipes, Cy. shennongensis, Cy. crassus</i>, and <i>Cy. paurigarhwalensis</i>, were recognized. Among them, the former three species are new to science, whereas the last one is new to China. This study provides comprehensive taxonomic descriptions and a detailed identification key to the <i>Cystinarius</i> species discovered in China.
DOI: 10.6084/m9.figshare.29627796
title: Effect of climate change on truffle (<i>Tuber</i> species) distribution and host plant interactions in Thailand

description: Climate change is an important driver of shifts in species’ geographic distributions, including those of several truffle species. Understanding these shifts is essential for effective conservation and sustainable ecosystem management. This study aimed to identify suitable habitats for three <i>Tuber</i> species discovered in Thailand—<i>Tuber lannaense, T. thailandicum</i>, and <i>T. magnatum—</i>and project their future distributions under climate change scenarios. Using MaxEnt modeling and presence-only occurrence data, we predicted current and future suitable habitats under two climate scenarios: SSP1-2.6 (low emissions) and SSP5-8.5 (high emissions) for the year 2050. Annual precipitation (bio12) and mean diurnal range (bio02) were the most influential environmental variables for three <i>Tuber</i> species and their host plants. Currently, suitable habitats for <i>Tuber</i> species and their host trees (<i>Betula alnoides</i> and <i>Carpinus londoniana</i>) are concentrated in mountainous areas of northern and northeastern Thailand, covering approximately 6000 km<sup>2</sup>. By 2050, under both SSP1-2.6 and SSP5-8.5 scenarios, the shared suitable habitat between truffles and their host plants is projected to be completely lost (100%). <i>Carpinus londoniana</i> is expected to lose nearly 100% of its suitable habitat under SSP1-2.6 and retain only 37 km<sup>2</sup> under SSP5-8.5, whereas <i>B. alnoides</i> shows potential for southward range expansion despite some habitat loss. These findings underscore the urgent need for targeted conservation strategies to preserve Thai <i>Tuber</i> species and their symbiotic hosts under changing climatic conditions.
DOI: 10.6084/m9.figshare.29627796.v1
title: Effect of climate change on truffle (<i>Tuber</i> species) distribution and host plant interactions in Thailand

description: Climate change is an important driver of shifts in species’ geographic distributions, including those of several truffle species. Understanding these shifts is essential for effective conservation and sustainable ecosystem management. This study aimed to identify suitable habitats for three <i>Tuber</i> species discovered in Thailand—<i>Tuber lannaense, T. thailandicum</i>, and <i>T. magnatum—</i>and project their future distributions under climate change scenarios. Using MaxEnt modeling and presence-only occurrence data, we predicted current and future suitable habitats under two climate scenarios: SSP1-2.6 (low emissions) and SSP5-8.5 (high emissions) for the year 2050. Annual precipitation (bio12) and mean diurnal range (bio02) were the most influential environmental variables for three <i>Tuber</i> species and their host plants. Currently, suitable habitats for <i>Tuber</i> species and their host trees (<i>Betula alnoides</i> and <i>Carpinus londoniana</i>) are concentrated in mountainous areas of northern and northeastern Thailand, covering approximately 6000 km<sup>2</sup>. By 2050, under both SSP1-2.6 and SSP5-8.5 scenarios, the shared suitable habitat between truffles and their host plants is projected to be completely lost (100%). <i>Carpinus londoniana</i> is expected to lose nearly 100% of its suitable habitat under SSP1-2.6 and retain only 37 km<sup>2</sup> under SSP5-8.5, whereas <i>B. alnoides</i> shows potential for southward range expansion despite some habitat loss. These findings underscore the urgent need for targeted conservation strategies to preserve Thai <i>Tuber</i> species and their symbiotic hosts under changing climatic conditions.
DOI: 10.6084/m9.figshare.29825123
title: Novel genera of Parmulariaceae on Arecaceae from Brazil

description: The ascomycetes placed in Parmulariaceae represent a diverse assemblage of biotrophic plant parasites. They usually produce discoid/scutellinioid stromata that are external to erumpent on living leaves of plants in the tropics. Disease symptoms are usually mild, and fungal structures are often cryptic on their hosts. These fungi are poorly known to science, and their classification has relied mostly on morphological features. There was a general lack of molecular data for taxa placed in this family, until recently, and morphological descriptions of many genera and species were brief and incomplete. Morphology remains the main source of information for taxonomic delimitation within the family. Here we follow a polyphasic approach, combining morphological, molecular, and host association information in order to elucidate the identity of three members of the Parmulariaceae found on samples of three neotropical palm species (Arecaceae), namely, (i) <i>Acrocomia aculeata</i> (macaw palm), (ii) <i>Astrocaryum aculeatissimum</i> (brejaúva), and (iii) <i>Syagrus romanzoffiana</i> (queen palm). Each palm species is a host for a novel species, each belonging to a new genus. The following names are proposed: (i) <i>Concertinularia acrocomiae</i>, sp. et gen. nov.—on macaw palm; (ii) <i>Amphistromularia astrocaryi</i>, sp. et gen. nov.—on brejaúva, and (iii) <i>Labyrinthularia syagri</i>, sp. et gen. nov.—on queen palm.
DOI: 10.6084/m9.figshare.29825123.v1
title: Novel genera of Parmulariaceae on Arecaceae from Brazil

description: The ascomycetes placed in Parmulariaceae represent a diverse assemblage of biotrophic plant parasites. They usually produce discoid/scutellinioid stromata that are external to erumpent on living leaves of plants in the tropics. Disease symptoms are usually mild, and fungal structures are often cryptic on their hosts. These fungi are poorly known to science, and their classification has relied mostly on morphological features. There was a general lack of molecular data for taxa placed in this family, until recently, and morphological descriptions of many genera and species were brief and incomplete. Morphology remains the main source of information for taxonomic delimitation within the family. Here we follow a polyphasic approach, combining morphological, molecular, and host association information in order to elucidate the identity of three members of the Parmulariaceae found on samples of three neotropical palm species (Arecaceae), namely, (i) <i>Acrocomia aculeata</i> (macaw palm), (ii) <i>Astrocaryum aculeatissimum</i> (brejaúva), and (iii) <i>Syagrus romanzoffiana</i> (queen palm). Each palm species is a host for a novel species, each belonging to a new genus. The following names are proposed: (i) <i>Concertinularia acrocomiae</i>, sp. et gen. nov.—on macaw palm; (ii) <i>Amphistromularia astrocaryi</i>, sp. et gen. nov.—on brejaúva, and (iii) <i>Labyrinthularia syagri</i>, sp. et gen. nov.—on queen palm.
DOI: 10.22002/zch9j-ha332
title: MT310_xyl+_aurothioglucose(50um)

description: Raw data files of MT310_xyl+_aurothioglucose(50um)
description: <strong>Tilt Series Date:</strong> 2009-10-21</p>
<strong>Data Taken By:</strong> Zhuo Li</p>
<strong>Species / Specimen:</strong> Caulobacter crescentus</p>
<strong>Strain:</strong> NA1000</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-63.0°, 63.0°), step: 1°, constant angular increment, dosage: 180.0 eV/Å²,  defocus: -12.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> webload</p>
<strong>Processing Software Used:</strong> RAPTOR, Peach</p>
<strong>Collaborators and Roles:</strong> The MT310 strain was constructed by Martin Thanbichler; cells were cultured and treated by Zhuo Li; data were collected and processed by Zhuo Li.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> The cells were induced by xylose for ? hours and treated by aurothioglucose for ? hours</p>
<strong>Sample Preparation:</strong> 10 nm gold. </p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/zla2009-10-21-24/rawdata/</p>09oct21a_MT310Auglu50_024.mrc,  Tilt Series (Pixel Size 1.192 nm), 1.1 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        09oct21a_MT310Auglu50_024_full.rec,  Reconstruction (Pixel Size 2.384 nm), 471.9 MB  
        
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DOI: 10.5067/aloft/cossir/data101
title: Configurable Scanning Submillimeter-wave Instrument/Radiometer (CoSSIR) ALOFT
DOI: 10.22002/fdn33-dwf36
title: Rhodobacter 1558 cryosections

description: Cryosections by MArk Ladinsky
description: <strong>Tilt Series Date:</strong> 2010-10-07</p>
<strong>Data Taken By:</strong> Ariane Briegel</p>
<strong>Species / Specimen:</strong> Rhodobacter sphaeroides</p>
<strong>Strain:</strong> ATCC 17023</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-61.0°, 64.0°), step: 2°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -10.0 μm,  magnification: 34000x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> webload</p>
<strong>Processing Software Used:</strong> IMOD</p>
<strong>Collaborators and Roles:</strong> Judy Armitage</p>
<strong>Purification / Growth Conditions / Treatment:</strong> grown in SUX media</p>
<strong>Sample Preparation:</strong> prepared for cryosectioning (gold prep see JWIKI)</p>
description: Files available via S3 at ps://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2010-10-07-12/rawdata/</p>10oct07a_rhcryosections_1_012.st,  Tilt Series (Pixel Size 0.0 nm), 528.5 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        10oct07a_rhcryosections_1_012.rec,  Reconstruction (Pixel Size 0.0 nm), 196.1 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2010-10-07-12/3dimage_14952/10oct07a_rhcryosections_1_012.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.c5qu8u
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ictalurus punctatus",
 "Country is Moldova, Republic of",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047523-250811113504898/datasets/export for details.
DOI: 10.22002/hh8x7-1vx16
title: Pva 121509 MP37

description: Prosthecobacter vanneervenii, 10jan13b_MP37_Pva-stat_002, putative btub structure (1 tube),
description: <strong>Tilt Series Date:</strong> 2010-01-13</p>
<strong>Data Taken By:</strong> Martin Pilhofer</p>
<strong>Species / Specimen:</strong> Prosthecobacter vanneervenii</p>
<strong>Strain:</strong> None</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 180.0 eV/Å²,  defocus: -10.0 μm,  magnification: 22500x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> raptor</p>
<strong>Collaborators and Roles:</strong> cultured by Martin Pilhofer; data collected by Martin Pilhofer; processed by Martin Pilhofer</p>
<strong>Sample Preparation:</strong> quantifoil grid, 10nm gold, 100% humidity, blotting 1/-2/2/0/1/4/200</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mpa2010-01-13-1/rawdata/</p>10jan13b_MP37_Pva-stat_002.mrc,  Tilt Series (Pixel Size 0.95 nm), 1.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        10jan13b_MP37_Pva-stat_002_full.rec,  Reconstruction (Pixel Size 1.9 nm), 838.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.pb9h9m
title: Occurrence Download

description: A dataset containing 31000 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is The cnidarians collection (IK) of the Muséum national d'Histoire naturelle (MNHN - Paris)"
 ]
}

 The dataset includes 31000 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047521-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/rjdza-2dw34
title: B. subtilis 3267

description: Raw data files of B. subtilis 3267
description: <strong>Tilt Series Date:</strong> 2011-12-17</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Bacillus subtilis </p>
<strong>Strain:</strong> AD3267, ponA null, Alp7A-GFP</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 200.0 eV/Å²,  defocus: -10.0 μm,  magnification: 22500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Joe Pogliano</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Grow in LB</p>
<strong>Sample Preparation:</strong> Polara</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2011-12-17-17/rawdata/</p>3267a0002.mrc,  Tilt Series (Pixel Size 1.9 nm), 1.0 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2011-12-17-17/rawdata/3267a0002.mrc"
        > <i class="download icon"></i> Download </a></p>

        3267a0002_part.rec,  Reconstruction (Pixel Size 3.8 nm), 929.0 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2011-12-17-17/3dimage_16246/3267a0002_part.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.cnvj6e
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tropicoperdix charltonii",
 "Country is China",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047522-250811113504898/datasets/export for details.
DOI: 10.22002/h25sv-nts85
title: Pfl 121509 MP30

description: Prosthecobacter fluviatilis, EtBr, 09dec18a_MP30_PflEtBr_039,
description: <strong>Tilt Series Date:</strong> 2009-12-18</p>
<strong>Data Taken By:</strong> Martin Pilhofer</p>
<strong>Species / Specimen:</strong> Prosthecobacter fluviatilis</p>
<strong>Strain:</strong> None</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 180.0 eV/Å²,  defocus: -10.0 μm,  magnification: 22500x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> raptor</p>
<strong>Collaborators and Roles:</strong> cultured by Martin Pilhofer; data collected by Martin Pilhofer; processed by Martin Pilhofer</p>
<strong>Sample Preparation:</strong> quantifoil grid, 10nm gold, 100% humidity, blotting 1/-2/2/0/1/4/200</p>
  mpa2009-12-18-37_slicer9796.jpg: Prosthecobacter fluviatilis .  Ribosome exclusion zone
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mpa2009-12-18-37/rawdata/</p>09dec18a_MP30_PflEtBr_039.mrc,  Tilt Series (Pixel Size 0.95 nm), 1.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        09dec18a_MP30_PflEtBr_039_full.rec,  Reconstruction (Pixel Size 1.9 nm), 838.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/n5ga0-eyn45
title: Bsubtilis_3267

description: Bsubtilis_Alp7A
description: <strong>Tilt Series Date:</strong> 2011-12-07</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Bacillus subtilis </p>
<strong>Strain:</strong> AD3267, ponA null, Alp7A-GFP</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 200.0 eV/Å²,  defocus: -10.0 μm,  magnification: 22500x. </p>
<strong>Acquisition Software:</strong> UCSF tomo</p>
<strong>Upload Method:</strong> uploadraptor</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> strain from Joe Pogliano at UCSD</p>
<strong>Purification / Growth Conditions / Treatment:</strong> sporulation media</p>
<strong>Sample Preparation:</strong> quantifoil grid R2/2, 20nm gold, 100% humidity</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2011-12-07-17/rawdata/</p>32670010.mrc,  Tilt Series (Pixel Size 0.95 nm), 1.0 GB  
        
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        32670010_part122_25.rec,  Reconstruction (Pixel Size 1.9 nm), 877.4 MB  
        
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DOI: 10.22002/89vqv-m8064
title: Ote 090409 MP22

description: Opitutus terrae, 09sep10b_090409MP22_035,
description: <strong>Tilt Series Date:</strong> 2009-09-10</p>
<strong>Data Taken By:</strong> Martin Pilhofer</p>
<strong>Species / Specimen:</strong> Opitutus terrae</p>
<strong>Strain:</strong> DSM 11246</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 180.0 eV/Å²,  defocus: -10.0 μm,  magnification: 22500x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> raptor</p>
<strong>Collaborators and Roles:</strong> cultured by Martin Pilhofer; data collected by Martin Pilhofer; processed by Martin Pilhofer</p>
<strong>Sample Preparation:</strong> quantifoil grid, 10nm gold, 100% humidity, blotting 1/-2/2/0/1/4/200</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mpa2009-09-10-66/rawdata/</p>09sep10b_090409MP22_035.mrc,  Tilt Series (Pixel Size 0.95 nm), 1.0 GB  
        
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        09sep10b_090409MP22_035_full.rec,  Reconstruction (Pixel Size 1.9 nm), 838.9 MB  
        
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