<entry xmlns="http://pdbe.org/empiar" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="https://ftp.ebi.ac.uk/pub/databases/emtest/empiar/schema/empiar.xsd" accessionCode="EMPIAR-12250" schemaVersion="0.65" public="true">
    <admin>
        <currentStatus>REL</currentStatus>
        <keyDates>
            <depositionDate>2024-08-27</depositionDate>
            <releaseDate>2024-11-27</releaseDate>
            <updateDate>2024-11-27</updateDate>
        </keyDates>
        <title>In situ cryo-electron tomography of the T. pseudonana diatom PyShell4 Ko and WT</title>
        <correspondingAuthor private="true">
            <authorORCID>0000-0003-4247-4303</authorORCID>
            <firstName>Ricardo</firstName>
            <middleName>Diogo</middleName>
            <lastName>Righetto</lastName>
            <organization type="academic">Biozentrum, University of Basel</organization>
            <street>Spitalstrasse 41</street>
            <townOrCity>Basel</townOrCity>
            <country>Switzerland</country>
            <postOrZipCode>4056</postOrZipCode>
        </correspondingAuthor>
        <principalInvestigator private="true">
            <authorORCID>0000-0002-0941-4387</authorORCID>
            <firstName>Benjamin</firstName>
            <middleName>D</middleName>
            <lastName>Engel</lastName>
            <organization type="academic">Biozentrum, University of Basel</organization>
            <street>Spitalstrasse 41</street>
            <townOrCity>Basel</townOrCity>
            <country>Switzerland</country>
            <postOrZipCode>4056</postOrZipCode>
        </principalInvestigator>
        <authorsList>
            <author>Demulder M</author>
            <author authorORCID="0000-0002-0941-4387">Engel BD</author>
        </authorsList>
        <grantSupport>
            <grantReference>
                <fundingBody>European Research Council (ERC)</fundingBody>
                <code>M822.00045</code>
                <country>Switzerland</country>
            </grantReference>
        </grantSupport>
        <datasetSize units="GB">146.5</datasetSize>
        <entryDOI>10.6019/EMPIAR-12250</entryDOI>
        <experimentType>EMDB</experimentType>
        <scale>cell</scale>
    </admin>
    <crossReferences>
        <relatedEMDBEntries>
            <emdbEntry>EMD-51423</emdbEntry>
        </relatedEMDBEntries>
        <citationList>
            <universalCitation>
                <journalCitation published="true" preprint="true">
                    <author authorORCID="0000-0003-0889-7361" order="1">Nam O</author>
                    <author order="2">McKenzie C</author>
                    <author authorORCID="0000-0002-6501-5444" order="3">Dowle A</author>
                    <author authorORCID="0009-0001-5475-0101" order="4">Dowson M</author>
                    <author authorORCID="0000-0003-2206-2045" order="5">Barrett J</author>
                    <author order="6">Mackinder LCM</author>
                    <title>A Protein Blueprint of the Diatom CO2-Fixing Organelle</title>
                    <journal>bioRxiv</journal>
                    <journalAbbreviation></journalAbbreviation>
                    <country></country>
                    <year>2023</year>
                    <externalReferences type="doi">10.1101/2023.10.26.564148</externalReferences>
                </journalCitation>
            </universalCitation>
        </citationList>
    </crossReferences>
    <imageSet>
        <name>cryo-CARE denoised bin4 tomograms of T. pseudonana PyShell4 KO - Basel session</name>
        <directory>/data/T_pseudonana_Shell4_KO/Basel_session/cryocare</directory>
        <category>reconstructed volumes</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>12</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>SIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>variable</imageWidth>
            <pixelWidth>variable</pixelWidth>
            <imageHeight>variable</imageHeight>
            <pixelHeight>variable</pixelHeight>
        </dimensions>
        <details></details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>cryo-CARE denoised bin4 tomograms of T. pseudonana PyShell4 KO - Munster session</name>
        <directory>/data/T_pseudonana_Shell4_KO/Munster_session/cryocare</directory>
        <category>reconstructed volumes</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>3</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>variable</imageWidth>
            <pixelWidth>variable</pixelWidth>
            <imageHeight>variable</imageHeight>
            <pixelHeight>variable</pixelHeight>
        </dimensions>
        <details></details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>cryo-CARE denoised bin4 tomograms of T. pseudonana PyShell4 KO - Zurich session</name>
        <directory>/data/T_pseudonana_Shell4_KO/Zurich_session/cryocare</directory>
        <category>reconstructed volumes</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>10</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>variable</imageWidth>
            <pixelWidth>variable</pixelWidth>
            <imageHeight>variable</imageHeight>
            <pixelHeight>variable</pixelHeight>
        </dimensions>
        <details></details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>cryo-CARE denoised bin4 tomograms of T. pseudonana PyShell4 WT</name>
        <directory>/data/T_pseudonana_WT/cryocare</directory>
        <category>reconstructed volumes</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>1</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>32 BIT FLOAT</voxelType>
        <dimensions>
            <imageWidth>variable</imageWidth>
            <pixelWidth>variable</pixelWidth>
            <imageHeight>variable</imageHeight>
            <pixelHeight>variable</pixelHeight>
        </dimensions>
        <details></details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Raw frames of T. pseudonana PyShell4 KO tilt series - Basel session</name>
        <directory>/data/T_pseudonana_Shell4_KO/Basel_session/frames</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>EER</headerFormat>
        <dataFormat>EER</dataFormat>
        <numImagesOrTiltSeries>732</numImagesOrTiltSeries>
        <framesPerImage>342</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>variable</imageWidth>
            <pixelWidth>variable</pixelWidth>
            <imageHeight>variable</imageHeight>
            <pixelHeight>variable</pixelHeight>
        </dimensions>
        <details></details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Raw frames of T. pseudonana PyShell4 KO tilt series - Munster session</name>
        <directory>/data/T_pseudonana_Shell4_KO/Munster_session/frames</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>EER</headerFormat>
        <dataFormat>EER</dataFormat>
        <numImagesOrTiltSeries>183</numImagesOrTiltSeries>
        <framesPerImage>324</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>variable</imageWidth>
            <pixelWidth>variable</pixelWidth>
            <imageHeight>variable</imageHeight>
            <pixelHeight>variable</pixelHeight>
        </dimensions>
        <details></details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Raw frames of T. pseudonana PyShell4 KO tilt series - Zurich session</name>
        <directory>/data/T_pseudonana_Shell4_KO/Zurich_session/frames</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>471</numImagesOrTiltSeries>
        <framesPerImage>9</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>variable</imageWidth>
            <pixelWidth>variable</pixelWidth>
            <imageHeight>variable</imageHeight>
            <pixelHeight>variable</pixelHeight>
        </dimensions>
        <details></details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Raw frames of T. pseudonana PyShell4 WT tilt series</name>
        <directory>/data/T_pseudonana_WT/frames</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>57</numImagesOrTiltSeries>
        <framesPerImage>5</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>variable</imageWidth>
            <pixelWidth>variable</pixelWidth>
            <imageHeight>variable</imageHeight>
            <pixelHeight>variable</pixelHeight>
        </dimensions>
        <details></details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
</entry>
