cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/j2yjt-ynn53
title: Hpylori_dfliG

description: These are H. pylori cells that don't have a complete FliP. In addition, FliG was knocked out in  .  these cells. The aim is to study the assembly of the flagellar motor and the core complex.
description: <strong>Tilt Series Date:</strong> 2019-11-23</p>
<strong>Data Taken By:</strong> Mohammed Kaplan</p>
<strong>Species / Specimen:</strong> Helicobacter pylori</p>
<strong>Strain:</strong> 26695</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 3°, constant angular increment, dosage: 120.0 eV/Å²,  defocus: -8.0 μm,  magnification: 19500x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> Serial EM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> I received these cells from Carrie Schaffer from the university of Kentucky. These are wild type cells but they don't express complete FliP protein. Therefore, they don't assemble full . flagella. We knocked out FliG protein of the flagellar motor to study the early assembly states of flagellar motor.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> I grew the cells on blood agar plates from -80 stock at 37C with 5% CO2. the cells were grown . for 48 hours and then spread on a new plate with a cotton swab and left to grow for 24 hours. . The grids were prepared from both batches (48 hours, and 24 hours, separately).</p>
<strong>Sample Preparation:</strong> The samples were prepared with Vitrobot IV. Blotting conditions were either: blot force 6, blot . time 3, drain time 1 OR blot force -3, blot time 4, drain time 1. 100% humidity. Cu grids. 10 nm . gold.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2019-11-23-19/rawdata/</p>Hpylori_dfliG_012_af.mrc,  Tilt Series (Pixel Size 0.449 nm), 1.9 GB  
        
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        Hpylori_dfliG_012_af_full.rec,  Reconstruction (Pixel Size 1.796 nm), 737.3 MB  
        
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DOI: 10.15468/dl.rpe7n5
title: Occurrence Download

description: A dataset containing 1643 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nissolia vincentina"
 ]
}

 The dataset includes 1643 records from 155 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006380-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.16965141
title: Literary content in Staffrider Magazine

description: Staffrider magazine was a South African literary and cultural magazaine that ran from 1978 to 1993. 37 issues of the magazine were published in total. The magazine was an anti-apartheid platform and included writing from across South Africa as well as from other Southern African countries. Most of the content was in English, but examples of other South African languages were included.

This dataset was compiled manually from the digitized versions of Staffrider magazine that are available by Digital Innovation South Africa at the University of Kwa-Zulu Natal, South Africa (https://disa.ukzn.ac.za/st). All links to PDF versions of the magazine included in this dataset are from this online digital archive.
DOI: 10.5281/zenodo.16965140
title: Literary content in Staffrider Magazine

description: Staffrider magazine was a South African literary and cultural magazaine that ran from 1978 to 1993. 37 issues of the magazine were published in total. The magazine was an anti-apartheid platform and included writing from across South Africa as well as from other Southern African countries. Most of the content was in English, but examples of other South African languages were included.

This dataset was compiled manually from the digitized versions of Staffrider magazine that are available by Digital Innovation South Africa at the University of Kwa-Zulu Natal, South Africa (https://disa.ukzn.ac.za/st). All links to PDF versions of the magazine included in this dataset are from this online digital archive.
DOI: 10.15468/dl.umbvmd
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Medicago arabica",
 "Country is Armenia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050088-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s4vz6r
title: Occurrence Download

description: A dataset containing 260 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-48.51689 -1.07371,-48.51791 -0.98428,-48.60835 -0.92737,-48.95793 -0.79018,-49.20996 -0.68043,-49.41422 -0.63165,-49.56158 -0.60929,-49.9027 -0.44635,-50.05825 -0.39921,-50.18552 -0.41807,-50.14781 -0.66317,-49.78014 -0.92714,-49.44548 -1.11568,-49.21922 -1.12982,-48.90341 -1.16282,-48.67244 -1.25238,-48.5169 -1.18167,-48.51689 -1.07371))",
 "OccurrenceStatus is Present",
 "TaxonKey is Mammalia"
 ]
}

 The dataset includes 260 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050087-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5pg3vp
title: Occurrence Download

description: A dataset containing 35 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Uzbekistan, Kyrgyzstan, Kazakhstan, Turkmenistan, Tajikistan)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Elymus caninus"
 ]
}

 The dataset includes 35 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050092-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.1594/pangaea.915094
title: AMS radiocarbon (14C) dates obtained from cold-water coral fragments collected from coral mounds of the Belgica coral mound province

description: Table 3. AMS radiocarbon (14C) dates obtained from cold-water coral fragments collected from coral mounds of the Belgica coral mound province. The AMS 14C ages were corrected for 13C and calibrated using the CALIB7.1 software (Stuiver and Reimer, 1993). For the calibration, we have applied the MARINE13 calibration curve (Reimer et al., 2013) with a local reservoir age correction ΔR of 100±100 years accounting for the observation of a Holocene thermocline reservoir age of R=480±120 years by Frank et al. (2004, 2005).
DOI: 10.1594/pangaea.969397
title: Calibrated stable water isotope and temperature profiles above the snow-covered tundra by Ny-Ålesund, Svalbard during February and March 2020

description: During a 5-week measurement campaign (ISLAS2020) in February and March 2020, we collected measurements of the stable isotope composition in atmospheric water in Svalbard and along the Norwegian coast. This included discrete collecting of precipitation at Ny-Ålesund, Longyearbyen, Tromsø, Andenes, Ålesund, and Bergen. Additionally, Ny-Ålesund hosted the primary field experiment of the campaign, with a cavity ring-down spectrometer (CRDS) installation, measuring the in-situ stable isotope composition of the ambient air at three deployment sites. At two of these sites, we performed near-surface vertical profiling of stable water isotopes, to quantify the isotopic gradients above the snow-covered tundra and the open fjord water. These profiles were collocated with high-resolution temperature measurements from fiber-optic distributed sensing methods. At each of the three CRDS deployment sites, automated weather stations logged the ambient meteorological conditions. In addition to the precipitation collected at Ny- Ålesund, we took multiple samples of local snowpack and fjord water (Kongsfjorden). All stable water isotope measurements have been calibrated onto the VSMOW-SLAP scale. Vapor measurements from Ny- Ålesund have also been corrected for mixing ratio - isotope ratio dependency. The data from the ISLAS2020 measurement campaign can facilitate studies on phase changes in the atmospheric water cycle using stable water isotopes as a constraint.This dataset contains observational data from the Snow deployment site at Ny-Ålesund, Svalbard, Norway, during the ISLAS2020 field experiment. The primary purpose for the collection of this dataset was to obtain near-surface (&lt; 2 m) profiles of in-situ stable water isotope measurements in atmospheric water vapor. These profiles were obtained with a cavity ring-down spectrometer installed inside a custom-built profiling system (Seidl et al., 2023). In addition, temperature profiles with high spatial resolution are observed with fiber-optic distributed sensing instrumentation (Zeller et al., 2021). The ambient meteorological conditions associated with these isotopic measurements are provided by an automated weather station. The observational period lasts 90.2 hours (about 4 days), from 2020-02-24 20:00:00 to 2020-02-28 14:15:00 UTC. During this period, 6 near-surface isotopic profiles were conducted over the snow-covered tundra.
DOI: 10.1594/pangaea.969395
title: Meteorological observations from the eddy covariance station at the Fjord site by Ny-Ålesund, Svalbard during February and March 2020

description: During a 5-week measurement campaign (ISLAS2020) in February and March 2020, we collected measurements of the stable isotope composition in atmospheric water in Svalbard and along the Norwegian coast. This included discrete collecting of precipitation at Ny-Ålesund, Longyearbyen, Tromsø, Andenes, Ålesund, and Bergen. Additionally, Ny-Ålesund hosted the primary field experiment of the campaign, with a cavity ring-down spectrometer (CRDS) installation, measuring the in-situ stable isotope composition of the ambient air at three deployment sites. At two of these sites, we performed near-surface vertical profiling of stable water isotopes, to quantify the isotopic gradients above the snow-covered tundra and the open fjord water. These profiles were collocated with high-resolution temperature measurements from fiber-optic distributed sensing methods. At each of the three CRDS deployment sites, automated weather stations logged the ambient meteorological conditions. In addition to the precipitation collected at Ny- Ålesund, we took multiple samples of local snowpack and fjord water (Kongsfjorden). All stable water isotope measurements have been calibrated onto the VSMOW-SLAP scale. Vapor measurements from Ny- Ålesund have also been corrected for mixing ratio - isotope ratio dependency. The data from the ISLAS2020 measurement campaign can facilitate studies on phase changes in the atmospheric water cycle using stable water isotopes as a constraint.This dataset contains observational data from the eddy covariance station at the Fjord deployment site in Ny-Ålesund, Svalbard, Norway, during the ISLAS2020 field experiment. Sonic anemometer and open path gas analyzer measurements logged at 20 Hz. Trace gas observations were of questionable quality and have not been included. The observational period lasts 175.7 hours (about 1 week), from 2020-03-07 12:04:37.45 to 2020-03-14 19:47:48.40 UTC.
DOI: 10.1594/pangaea.969400
title: Calibrated stable water isotope measurements of liquid and solid collections from Svalbard and coastal Norway during February and March 2020

description: During a 5-week measurement campaign (ISLAS2020) in February and March 2020, we collected measurements of the stable isotope composition in atmospheric water in Svalbard and along the Norwegian coast. This included discrete collecting of precipitation at Ny-Ålesund, Longyearbyen, Tromsø, Andenes, Ålesund, and Bergen. Additionally, Ny-Ålesund hosted the primary field experiment of the campaign, with a cavity ring-down spectrometer (CRDS) installation, measuring the in-situ stable isotope composition of the ambient air at three deployment sites. At two of these sites, we performed near-surface vertical profiling of stable water isotopes, to quantify the isotopic gradients above the snow-covered tundra and the open fjord water. These profiles were collocated with high-resolution temperature measurements from fiber-optic distributed sensing methods. At each of the three CRDS deployment sites, automated weather stations logged the ambient meteorological conditions. In addition to the precipitation collected at Ny- Ålesund, we took multiple samples of local snowpack and fjord water (Kongsfjorden). All stable water isotope measurements have been calibrated onto the VSMOW-SLAP scale. Vapor measurements from Ny- Ålesund have also been corrected for mixing ratio - isotope ratio dependency. The data from the ISLAS2020 measurement campaign can facilitate studies on phase changes in the atmospheric water cycle using stable water isotopes as a constraint.This dataset contains the stable water isotopic composition of precipitation, snowpack, and fjord water collected in Svalbard and coastal Norway during the ISLAS2020 measurement campaign. We collected precipitation samples at Ny-Ålesund, Longyearbyen, Tromsø, Andenes, Ålesund, and Bergen, on a daily or twice-daily basis. More frequent sampling was conducted across two intense observational periods from 29 February to 3 March and from 12 to 15 March. Surface snow, hoar frost, and fjord water samples were also collected in Ny-Ålesund, to characterize the surfaces with which atmospheric vapor could interact/exchange during profiling efforts. Additionally, we collected snowpack samples up at Zeppelin observatory, as well as snow pit samples from Gruvebadet. Analysis of collected samples was performed at FARLAB, University of Bergen, in Bergen, Norway, via cavity ring-down spectrometers. The collections span 34.67 days, from 2020-02-20 2:00 to 2020-03-25 18:00 UTC.
DOI: 10.1594/pangaea.942771
title: Larval stages of the deep-sea octocoral Dentomuricea aff. meteor from the Azores under two temperature regimes

description: Contains data on larval behaviour.
DOI: 10.22002/myj4k-d8826
title: V. cholerae RT4236 (stationary)

description: Classical strain with ctxA deletion.Cell harbors pMT5 plasmid (inducible toxT).
description: <strong>Tilt Series Date:</strong> 2015-05-11</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Vibrio cholerae</p>
<strong>Strain:</strong> O395-N1</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 180.0 eV/Å²,  defocus: -6.0 μm,  magnification: 27500x. </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> Strain from Ronald K. Taylor</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Overnight cultures of Vibrio cholerae O395 NI pMT5 grown in LB pH 6.5, 1 mM IPTG and 100 ug/mL ampicilin</p>
<strong>Sample Preparation:</strong> Vitrobot (MK iv) settings: 100% humidity, 3µl sample, 10 mg/ml BSA treated gold. Blot force 6, blot time 2.5 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 finder.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2015-05-11-65/rawdata/</p>20150511_AK07_10065.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
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        20150511_AK07_10065_full.rec,  Reconstruction (Pixel Size 1.56 nm), 534.5 MB  
        
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DOI: 10.1594/pangaea.942773
title: Swimming behaviour of the deep-sea octocoral Dentomuricea aff. meteor from the Azores under two temperature regimes

description: Contains data on swimming velocity and behaviour.
DOI: 10.1594/pangaea.942752
title: Survival of the deep-sea octocoral Dentomuricea aff. meteor from the Azores under two temperature regimes

description: Includes data estimate of survival.
description: Survival, censored = 1 LastDayAlive refers to the last date that the larva was seen alive but death was not confirmed. Survival, censored = 0 The death of the larva was confirmed by a subsequent monitoring event.
DOI: 10.1594/pangaea.973957
title: Biometric traits of Lophelia pertusa corallites across a broad Atlantic and Mediterranean range - Part 2

description: Vegetative and morphometric corallite traits were quantified on skeletal samples of the cold-water coral Lophelia pertusa (syn. Desmophyllum pertusum). The aim was to characterize the morphological diversity of this species at the level of corallites. Morphometric measurements were taken with caliper and tape measure in two replicates, in order to be averaged to reduce measurement error. The analyzed skeletal samples had been collected from various locations in the Atlantic Ocean and the Mediterranean Sea during multiple cruises, and are kept at the Senckenberg am Meer (SaM) institute in Wilhelmshaven, Germany.
description: Individual corallites are identified in the data table by the number of their generation (starting from 1, i.e. the oldest generation in the sample). Different corallites of the same generation cohort are distinguished by letters, which are cumulative (i.e. inherited from parent generations) to allow distinction between different branches. Non-reproductive corallites (i.e. with number of buds = 0) are not measured, to limit the effect of ontogenetic variation.
DOI: 10.22002/trdwd-tv394
title: Coxiella_ Verocells_28dpi

description: Coxiella burnetii Nine Mile phase II clone 4 (NMIIC4) strain. Coxiella cells purified from infected Vero cells.
description: <strong>Tilt Series Date:</strong> 2017-09-25</p>
<strong>Data Taken By:</strong> Debnath Ghosal</p>
<strong>Species / Specimen:</strong> Coxiella burnetii</p>
<strong>Strain:</strong> Nine Mile phase II clone 4</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 130.0 eV/Å²,  defocus: -7.0 μm,  magnification: 27500x. </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> Strain sent to us by Robert Heinzen. Data collected and processed by Debnath Ghosal using Caltech tomography pipeline.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Refer to Heinzen lab.</p>
<strong>Sample Preparation:</strong> Freezing: 100% humidity, 4µl sample, Blot force 6, blot time 4 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200. Add gold to cells prior to freezing: 1ul of gold to 4 ul of cells, freeze.T</p>
  dga2017-09-25-69_slicer19010.jpg: a double membrane tube-like strucutre traversing the whole cell width
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2017-09-25-69/rawdata/</p>Cb_vero_201709250069.mrc,  Tilt Series (Pixel Size 0.39 nm), 1.7 GB  
        
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        Cb_vero_201709250069_part61_28.rec,  Reconstruction (Pixel Size 1.56 nm), 445.4 MB  
        
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DOI: 10.1594/pangaea.942677
title: Embryo development of the deep-sea octocoral Dentomuricea aff. meteor from the Azores under two temperature regimes

description: Includes data on the embryo development of the species. Embryos/larvae were monitored (counted) and classified to developmental stages every 3-4 hours until the planula stage and every 2-3 days afterwards.
DOI: 10.1594/pangaea.963704
title: Presence-absence records for four cold-water coral taxa on the seamounts of Cabo Verde (NW Africa)

description: Presence-absence records for four cold-water coral (CWC) taxa (Enallopsammia rostrata, Acanella arbuscula, Metallogorgia spp. and Paramuricea spp.) were gathered to conduct distribution models on seamounts (Cadamosto, Nola, Senghor and Cabo Verde) of the Cabo Verde archipelago (NW Africa), covering a bathymetric range from 2100 to 750 m water depth. Data were extracted from video footage collected with Remotely Operated Vehicles during the M80/3 Meteor (2010) and the iMirabilis2 (2021) research expeditions. Video data from the iMirabilis2 expedition was analysed, quantitively, using the open-source software BIIGLE (Langenkämper et al. 2017). Observations from five continuous 1 to 2 km-long video transects between 2000 and 1400 m depth at Cadamosto Seamount were converted into presence-absence data points. Similar data were not available for the seamounts explored during M80/3 Meteor. However, all the available images and short video clips from that expedition were analysed to identify presence and absence points for each of the four target CWC taxa. All the available presence/absence data from the two expeditions was transformed into one point per grid cell of a 100 m resolution bathymetry grid, with the prevalence of the presence records over the absence records, in grid cells where both categories overlapped.
DOI: 10.1594/pangaea.940730
title: RockEval analysis of three on-mound cold-water coral mound cores (East Melilla Coral Province, Mediterranean Sea)
DOI: 10.1594/pangaea.956090
title: Cold-water coral mounds peaks off on the northern Namibia shelf

description: An exceptionally large cold-water coral mound province (CMP) was recently discovered extending over 80 km along the Namibian shelf (offshore southwestern Africa) in water depths of 160–270 m. This hitherto unknown CMP comprises &gt;2000 mounds with heights of up to 20 m and constitutes the largest CMP known from the southeastern Atlantic Ocean. Here, the position of the peaks of the Namibian coral mounds is reported.