cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/x3w3d-30y28
title: S. acidocaldarius

description: Raw data files of S. acidocaldarius
description: <strong>Tilt Series Date:</strong> 2017-11-22</p>
<strong>Data Taken By:</strong> Shrawan kumar Mageswaran</p>
<strong>Species / Specimen:</strong> Sulfolobus acidocaldarius</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 140.0 eV/Å²,  defocus: -10.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> IMOD</p>
<strong>Collaborators and Roles:</strong> Megan's cell stock</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Grew cells in ATCC 1723 medium at 76 C to late log or stationary phase, constantly shaking at >220 rpm and topping up H2O that evaporates (every 12-16 hrs).</p>
<strong>Sample Preparation:</strong> Resuspend cells to ~5-10 OD in the same medium. Freeze 3.5 µL of cells in Cu finder grids by blotting manually from behind. A very aggressive blotting technique leads to dry cells. Some frozen grids were FIB milled after Pt coating (2 mA for 10 sec) and some frozen grids were coated with 3-5 nm Au beads in 2-methyl butane (washed later with Ethane/Propane)</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/smk2017-11-22-6/rawdata/</p>TS11.mrc,  Tilt Series (Pixel Size 0.39 nm), 1.1 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/smk2017-11-22-6/rawdata/TS11.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/hgk9g-1vk87
title: HeLa (Myo1a KD) - PM damaged

description: HeLa (Kyoto line stably expressing CHMP4B-EGFP at low levels;courtesy MPI) knocked down for Myo1a (double transfection) and laser damaged. Grid - WY46_grid1 and WY46_grid2 (TS1-19 from grid2 and TS20-42 from grid1)
description: <strong>Tilt Series Date:</strong> 2018-06-16</p>
<strong>Data Taken By:</strong> Shrawan kumar Mageswaran</p>
<strong>Species / Specimen:</strong> HeLa cells</p>
<strong>Strain:</strong> ATCC</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -8.0 μm,  magnification: 26000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> IMOD and tomo3D</p>
<strong>Collaborators and Roles:</strong> HeLa cell line courtesy of Max Planck Institute (MPI). Wei Yang grew cells on grids, transfected with siRNA and caused plasma membrane damage using Laser before freezing. Shrawan performed CLEM and ECT.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells grown on R2/2 quantifoil gold grids treated with 0.1 mg/mL fibronectin.</p>
<strong>Sample Preparation:</strong> Cells were knocked down for Myo1a with SMART pool siRNA for 48 hr (2 x 24 hr). Laser - 640nm, 100%, 35 cycles, speed 7, Damaged area - 1.5umx1.5um. Cells were treated with 1.3uM AlPcS3a ~10 min before damage.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/smk2018-06-16-31/rawdata/</p>TS41.mrc,  Tilt Series (Pixel Size 0.541 nm), 1.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/smk2018-06-16-31/rawdata/TS41.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/30j8s-6rs03
title: Hpylori_dFliF_FISE

description: These are H_pylori cells that are lacking FliP protein. In these cells, FliF protein was knocked out  .  to examine its relation to the hat-like complex.
description: <strong>Tilt Series Date:</strong> 2020-10-08</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> None</p>
<strong>Collaborators and Roles:</strong> The cells were prepared and sent by Carrie Schaffer from the university of Kentucky.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> The cells were grown at 37C with 5% CO2 on sheep blood agar plates for 2 days from a -80C . stock. No growth was seen on the plates after 24 hr therefore the plates were kept in the . incubator for another 24Hr.</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. 20 nm . gold.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2020-10-08-81/rawdata/</p>Hpylori_DFliF_FISE_087.mrc,  Tilt Series (Pixel Size 0.452 nm), 1.9 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2020-10-08-81/rawdata/Hpylori_DFliF_FISE_087.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/y1927-7z379
title: Shewanella MR1_Iron cores_Chemos

description: Raw data files of Shewanella MR1_Iron cores_Chemos
description: <strong>Tilt Series Date:</strong> 2018-08-09</p>
<strong>Data Taken By:</strong> Mohammed Kaplan</p>
<strong>Species / Specimen:</strong> Shewanella oneidensis</p>
<strong>Strain:</strong> MR-1</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-50.0°, 50.0°), step: 2°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -9.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</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> These are Shewanella oneidensis MR1 prepared by Sahand (USC) by Chemostat method grown for 2 days and chemically fixed. I (Mohammed) imaged these cells on the Polara to see if the have the iron cores in order to send them to Israel (Sharon Wolf) to perform EDX and confirm the components of the iron cores.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Chemostat 2 days growth and chemically fixed. The samples were prepared by Sahand (USC).</p>
<strong>Sample Preparation:</strong> I prepared these samples by blot force 6, blot time 3s and drain time 1. I also used the Bdellovibrio conditions (force -5, time 4 s). 10 nm Gold nanoparticles were added.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-08-09-86/rawdata/</p>Square1MapGrid2.mrc,  Tilt Series (Pixel Size 0.39 nm), 576.1 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-08-09-86/rawdata/Square1MapGrid2.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/pge5b-tng51
title: Shewanella MR1_Iron cores_Chemos

description: Raw data files of Shewanella MR1_Iron cores_Chemos
description: <strong>Tilt Series Date:</strong> 2018-08-09</p>
<strong>Data Taken By:</strong> Mohammed Kaplan</p>
<strong>Species / Specimen:</strong> Shewanella oneidensis</p>
<strong>Strain:</strong> MR-1</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-50.0°, 50.0°), step: 2°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -9.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</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> These are Shewanella oneidensis MR1 prepared by Sahand (USC) by Chemostat method grown for 2 days and chemically fixed. I (Mohammed) imaged these cells on the Polara to see if the have the iron cores in order to send them to Israel (Sharon Wolf) to perform EDX and confirm the components of the iron cores.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Chemostat 2 days growth and chemically fixed. The samples were prepared by Sahand (USC).</p>
<strong>Sample Preparation:</strong> I prepared these samples by blot force 6, blot time 3s and drain time 1. I also used the Bdellovibrio conditions (force -5, time 4 s). 10 nm Gold nanoparticles were added.</p>
description: Files available via S3 at ps://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-08-09-10/rawdata/</p>SheweTilt105.mrc,  Tilt Series (Pixel Size 0.39 nm), 1.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-08-09-10/rawdata/SheweTilt105.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/v12zx-c0936
title: Hpylori_dFliF_FISE

description: These are H_pylori cells that are lacking FliP protein. In these cells, FliF protein was knocked out  .  to examine its relation to the hat-like complex.
description: <strong>Tilt Series Date:</strong> 2020-10-08</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> None</p>
<strong>Collaborators and Roles:</strong> The cells were prepared and sent by Carrie Schaffer from the university of Kentucky.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> The cells were grown at 37C with 5% CO2 on sheep blood agar plates for 2 days from a -80C . stock. No growth was seen on the plates after 24 hr therefore the plates were kept in the . incubator for another 24Hr.</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. 20 nm . gold.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2020-10-08-61/rawdata/</p>Hpylori_DFliF_FISE_077.mrc,  Tilt Series (Pixel Size 0.452 nm), 1.9 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2020-10-08-61/rawdata/Hpylori_DFliF_FISE_077.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/zaxcx-9dc77
title: HeLa (Myo1a KD) - PM damaged

description: HeLa (Kyoto line stably expressing CHMP4B-EGFP at low levels;courtesy MPI) knocked down for Myo1a (double transfection) and laser damaged. Grid - WY46_grid1 and WY46_grid2 (TS1-19 from grid2 and TS20-42 from grid1)
description: <strong>Tilt Series Date:</strong> 2018-06-16</p>
<strong>Data Taken By:</strong> Shrawan kumar Mageswaran</p>
<strong>Species / Specimen:</strong> HeLa cells</p>
<strong>Strain:</strong> ATCC</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -8.0 μm,  magnification: 26000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> IMOD and tomo3D</p>
<strong>Collaborators and Roles:</strong> HeLa cell line courtesy of Max Planck Institute (MPI). Wei Yang grew cells on grids, transfected with siRNA and caused plasma membrane damage using Laser before freezing. Shrawan performed CLEM and ECT.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells grown on R2/2 quantifoil gold grids treated with 0.1 mg/mL fibronectin.</p>
<strong>Sample Preparation:</strong> Cells were knocked down for Myo1a with SMART pool siRNA for 48 hr (2 x 24 hr). Laser - 640nm, 100%, 35 cycles, speed 7, Damaged area - 1.5umx1.5um. Cells were treated with 1.3uM AlPcS3a ~10 min before damage.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/smk2018-06-16-12/rawdata/</p>TS14.mrc,  Tilt Series (Pixel Size 0.541 nm), 1.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/smk2018-06-16-12/rawdata/TS14.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/xeb3z-ym589
title: Shewanella MR1_Iron cores_Chemos

description: Raw data files of Shewanella MR1_Iron cores_Chemos
description: <strong>Tilt Series Date:</strong> 2018-08-09</p>
<strong>Data Taken By:</strong> Mohammed Kaplan</p>
<strong>Species / Specimen:</strong> Shewanella oneidensis</p>
<strong>Strain:</strong> MR-1</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-50.0°, 50.0°), step: 2°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -9.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</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> These are Shewanella oneidensis MR1 prepared by Sahand (USC) by Chemostat method grown for 2 days and chemically fixed. I (Mohammed) imaged these cells on the Polara to see if the have the iron cores in order to send them to Israel (Sharon Wolf) to perform EDX and confirm the components of the iron cores.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Chemostat 2 days growth and chemically fixed. The samples were prepared by Sahand (USC).</p>
<strong>Sample Preparation:</strong> I prepared these samples by blot force 6, blot time 3s and drain time 1. I also used the Bdellovibrio conditions (force -5, time 4 s). 10 nm Gold nanoparticles were added.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-08-09-88/rawdata/</p>Square3Map.mrc,  Tilt Series (Pixel Size 0.39 nm), 576.1 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-08-09-88/rawdata/Square3Map.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/re3r1-1dc26
title: Ecoli JM109 Metabolosome

description: Bifurcating tubules/fibres in the periphery of the cells, Pentameric structures, carboxysomes, metabolosomes, pdu enzymes, Periplasmic cone
description: <strong>Tilt Series Date:</strong> 2009-07-09</p>
<strong>Data Taken By:</strong> Alasdair McDowall</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (60.0°, 60.0°), step: °, constant angular increment, dosage: 0.0 eV/Å²,  defocus: 10.0 μm,  magnification: 0x. </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> PI of visitor on short term fellowship Science foundation Ireland Eur 6,673Michael B PrenticeProfessor of Medical MicrobiologyDepartment of MicrobiologyUniversity College CorkCork, IrelandTel +353 214901420Fax +353 214903101m.prentice@ucc.ieMingzhi Liang, PhDDepartment of MicrobiologyUniversity College CorkCork Ireland"Liang, Mingzhi" </p>
<strong>Purification / Growth Conditions / Treatment:</strong> Single colony of E.coliJM109:pAR3114 was picked up and inoculate in NCE minimal medium supplemented with 1% (w/v) succinate, 5 g/litre of yeast extract, 50 mM 1,2-propanediol, 20 ?g/ml of tetracycline, 30 ?g/ml of cefsulodin. Cells were grown at 37oC with shaking for 24 hours. The culture at an OD600 of 0.5 was mixed with 10 nm colloidal gold and applied to holey carbon grids. </p>
<strong>Sample Preparation:</strong>  Vitrobot 100r/h 1 blot 1 sec drain, 10 nm colloidal gold and applied to 2/2 holey carbon grids.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/amw2009-07-09-23/3dimage_6812/</p>035.rec,  Reconstruction (Pixel Size 1.922 nm), 240.0 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/amw2009-07-09-23/3dimage_6812/035.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.xwuezf
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Phyllostachys nigra",
 "Country is Italy",
 "HasCoordinate is true"
 ]
}

 The dataset includes 5 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013804-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/227vt-6n460
title: S. acidocaldarius

description: Raw data files of S. acidocaldarius
description: <strong>Tilt Series Date:</strong> 2017-11-22</p>
<strong>Data Taken By:</strong> Shrawan kumar Mageswaran</p>
<strong>Species / Specimen:</strong> Sulfolobus acidocaldarius</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 140.0 eV/Å²,  defocus: -10.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> IMOD</p>
<strong>Collaborators and Roles:</strong> Megan's cell stock</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Grew cells in ATCC 1723 medium at 76 C to late log or stationary phase, constantly shaking at >220 rpm and topping up H2O that evaporates (every 12-16 hrs).</p>
<strong>Sample Preparation:</strong> Resuspend cells to ~5-10 OD in the same medium. Freeze 3.5 µL of cells in Cu finder grids by blotting manually from behind. A very aggressive blotting technique leads to dry cells. Some frozen grids were FIB milled after Pt coating (2 mA for 10 sec) and some frozen grids were coated with 3-5 nm Au beads in 2-methyl butane (washed later with Ethane/Propane)</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/smk2017-11-22-10/rawdata/</p>TS2comb.mrc,  Tilt Series (Pixel Size 0.39 nm), 1.1 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/smk2017-11-22-10/rawdata/TS2comb.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.45h6hm
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Phyllostachys nigra",
 "Country is Cook Islands",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013803-250827131500795/datasets/export for details.
DOI: 10.15468/dl.rhjjyu
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Phyllostachys nigra",
 "Country is Kenya",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013805-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.w4d2j5
title: Occurrence Download

description: A dataset containing 15198 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Toona ciliata, Toona sinensis, Toona calantas, Cedrela odorata, Cedrela fissilis, Cedrela angustifolia, Cedrela montana)"
 ]
}

 The dataset includes 15198 records from 464 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013802-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15156/bio/sh399224.07fu
title: SH399224.07FU

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/sh399225.07fu
title: SH399225.07FU

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.