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4 results for “World Checklist of Vascular Plants”
Country Compendium of the Global Register of Introduced and Invasive Species: Standardization to Records in World Flora Online or the World Checklist of Vascular Plants
<p>The <strong>Country Compendium of the Global Register of Introduced and Invasive Species (GRIIS)</strong> is a collation of data across 196 individual country checklists of alien species, along with a designation of those species associated with evidence of impact at a country level. This compendium is available via <a href="https://zenodo.org/records/6348164">Zenodo</a> and was described by Pagad et al. <a href="https://www.nature.com/articles/s41597-022-01514-z">2022</a>:</p><ul><li>Shyama Pagad, Stewart Bisset, & Melodie A. McGeoch. (2022). Country Compendium of the Global Register of Introduced and Invasive Species. Dataset. (V1_0) [Data set]. Zenodo. <a href="https://doi.org/10.5281/zenodo.6348164">https://doi.org/10.5281/zenodo.6348164</a></li><li>Pagad, S., Bisset, S., Genovesi, P. <i>et al.</i> Country Compendium of the Global Register of Introduced and Invasive Species. <i>Sci Data</i> <strong>9</strong>, 391 (2022). <a href="https://doi.org/10.1038/s41597-022-01514-z">https://doi.org/10.1038/s41597-022-01514-z</a></li></ul><p> </p><p>Here I provide direct and fuzzy matches for species listed for the Plantae Kingdom in GRIIS with accepted plant names in <strong>World Flora Online</strong> (<a href="https://www.worldfloraonline.org/downloadData">version 2023.03</a>; Borsch et al. <a href="https://doi.org/10.1002/tax.12373">2020</a>) or the <strong>World Checklist of Vascular Plants</strong> (<a href="https://doi.org/10.34885/nswv-8994">version 10</a>; Govaerts et al. <a href="https://www.nature.com/articles/s41597-021-00997-6">2021</a>). Matching was done in <i>R</i> through the <a href="https://cran.r-project.org/package=WorldFlora">WorldFlora</a> package (Kindt <a href="https://bsapubs.onlinelibrary.wiley.com/doi/full/10.1002/aps3.11388">2020</a>). The taxonomic standardization process was similar to the one completed <a href="https://www.worldagroforestry.org/output/agroforestry-species-switchboard-30">during the preparation of the third major release</a> of the <a href="https://apps.worldagroforestry.org/products/switchboard">Agroforestry Species Switchboard</a> and when preparing the <strong>GlobalUsefulNativeTrees database</strong> (GlobUNT; <a href="https://worldagroforestry.org/output/globalusefulnativetrees">https://worldagroforestry.org/output/globalusefulnativetrees</a>) .</p><p>Where a matching species was found in GlobUNT, the species name in the GlobUNT database has been shown. GlobUNT has been described in the following publication: Kindt et al. (<a href="https://www.nature.com/articles/s41598-023-39552-1">2023</a>) <strong>GlobalUsefulNativeTrees, a database of 14,014 tree species, supports synergies between biodiversity recovery and local livelihoods in restoration</strong>. <i>Sci Rep</i> <strong>13</strong>, 12640. <a href="https://doi.org/10.1038/s41598-023-39552-1">https://doi.org/10.1038/s41598-023-39552-1</a>.</p><p>The developments of this dataset and GlobUNT were supported by the Darwin Initiative to project DAREX001 of <a href="https://www.darwininitiative.org.uk/project/DAREX001/"><i>Developing a Global Biodiversity Standard certification for tree-planting and restoration</i></a> and by Norway's International Climate and Forest Initiative through the Royal Norwegian Embassy in Ethiopia to the <a href="https://www.worldagroforestry.org/project/provision-adequate-tree-seed-portfolio-ethiopia"><i>Provision of Adequate Tree Seed Portfolio</i></a> project in Ethiopia. </p>
Trees of India Version 1: Standardization to Records in World Flora Online and the World Checklist of Vascular Plants, with matches in GlobalTreeSearch and GlobalUsefulNativeTrees
<p>The <strong>Trees of India (ToI, Version-I)</strong> includes data on 3708 tree species distributed across 35 states/union territories of India. The database is based on systematic review of 313 literature sources published from 1872-2022.This compendium is available via <a href="https://figshare.com/articles/dataset/ToI_Ver_-I_Trees_of_India_Version-I/23226281">Figshare</a> and was described by Mugal et al. <a href="https://link.springer.com/article/10.1007/s10531-023-02659-y">2023</a>:</p> <ul> <li>Khuroo, Anzar Ahmad; Mugal, Muzamil Ahmad; Wani, Sajad Ahmad (2023). ToI, Ver.-I : Trees of India, Version-I. figshare. Dataset. <a href="https://doi.org/10.6084/m9.figshare.23226281.v1">https://doi.org/10.6084/m9.figshare.23226281.v1</a></li> <li>Mugal, M.A., Wani, S.A., Dar, F.A. <em>et al.</em> Bridging global knowledge gaps in biodiversity databases: a comprehensive data synthesis on tree diversity of India. <em>Biodivers Conserv</em> <strong>32</strong>, 3089–3107 (2023). <a href="https://doi.org/10.1007/s10531-023-02659-y">https://doi.org/10.1007/s10531-023-02659-y</a></li> </ul> <p> </p> <p>Here I provide direct and fuzzy matches for taxa listed with accepted plant names in <strong>World Flora Online</strong> (<a href="https://www.worldfloraonline.org/downloadData">version 2023.03</a>; Borsch et al. <a href="https://doi.org/10.1002/tax.12373">2020</a>) and the <strong>World Checklist of Vascular Plants</strong> (WCVP <a href="https://doi.org/10.34885/nswv-8994">version 10</a>; Govaerts et al. <a href="https://www.nature.com/articles/s41597-021-00997-6">2021</a>). Matching was done in <em>R</em> through the <a href="https://cran.r-project.org/package=WorldFlora">WorldFlora</a> package (Kindt <a href="https://bsapubs.onlinelibrary.wiley.com/doi/full/10.1002/aps3.11388">2020</a>). The taxonomic standardization process was similar to the one completed <a href="https://www.worldagroforestry.org/output/agroforestry-species-switchboard-30">during the preparation of the third major release</a> of the <a href="https://apps.worldagroforestry.org/products/switchboard">Agroforestry Species Switchboard</a> and when preparing the <strong>GlobalUsefulNativeTrees database</strong> (GlobUNT; <a href="https://worldagroforestry.org/output/globalusefulnativetrees">https://worldagroforestry.org/output/globalusefulnativetrees</a>).</p> <p>After matching species with the WCVP, information was compiled on the <strong>native distribution</strong> documented in the WCVP for level-3 units of the <a href="https://github.com/tdwg/wgsrpd">World Geographical Scheme for Recording Plant Distributions</a> that correspond to India, including India (IND), Assam (ASS), West Himalaya (WHM), East Himalaya (EHM), Laccadive Is. (LDV), Andaman Is. (AND) and Nicobar Is. (NCB). Also included after matching with the WCVP is information on the geographic area, lifeform and main biome. Similar information is available when searching for species from <a href="https://powo.science.kew.org/">Plants of the World Online</a>.</p> <p>Where a matching species was found in <strong>GlobalTreeSearch</strong> (Beech et al. <a href="https://www.tandfonline.com/doi/full/10.1080/10549811.2017.1310049">2017</a>; <a href="https://tools.bgci.org/global_tree_search.php">https://tools.bgci.org/global_tree_search.php</a>; accessed on 28th June 2023) filtered for India, the species name in GlobalTreeSearch is shown. Note that GlobalTreeSearch documents the <strong>native country distribution</strong> of tree species.</p> <p>Where a matching species was found in the <strong>GlobalUsefulNativeTrees</strong> database (GlobUNT, version 2023.11) filtered for India, the species name in the GlobUNT database is shown. GlobUNT has been described in the following publication: Kindt et al. (<a href="https://www.nature.com/articles/s41598-023-39552-1">2023</a>) <strong>GlobalUsefulNativeTrees, a database of 14,014 tree species, supports synergies between biodiversity recovery and local livelihoods in restoration</strong>. <em>Sci Rep</em> <strong>13</strong>, 12640. <a href="https://doi.org/10.1038/s41598-023-39552-1">https://doi.org/10.1038/s41598-023-39552-1</a>.</p> <p>See the metadata for information on versions.</p> <p> </p> <ul> <li>Borsch, T., Berendsohn, W., Dalcin, E., Delmas, M., Demissew, S., Elliott, A., Fritsch, P., Fuchs, A., Geltman, D., Güner, A., Haevermans, T., Knapp, S., le Roux, M.M., Loizeau, P.-A., Miller, C., Miller, J., Miller, J.T., Palese, R., Paton, A., Parnell, J., Pendry, C., Qin, H.-N., Sosa, V., Sosef, M., von Raab-Straube, E., Ranwashe, F., Raz, L., Salimov, R., Smets, E., Thiers, B., Thomas, W., Tulig, M., Ulate, W., Ung, V., Watson, M., Jackson, P.W. and Zamora, N. (2020), World Flora Online: Placing taxonomists at the heart of a definitive and comprehensive global resource on the world's plants. TAXON, 69: 1311-1341. <a href="https://doi.org/10.1002/tax.12373">https://doi.org/10.1002/tax.12373</a></li> <li>Govaerts, R., Nic Lughadha, E., Black, N. <em>et al.</em> The World Checklist of Vascular Plants, a continuously updated resource for exploring global plant diversity. <em>Sci Data</em> <strong>8</strong>, 215 (2021). <a href="https://doi.org/10.1038/s41597-021-00997-6">https://doi.org/10.1038/s41597-021-00997-6</a></li> <li>E. Beech, M.Rivers, S. Oldfield & P. P. Smith (2017)GlobalTreeSearch: The first complete global database of tree species and country distributions, Journal of Sustainable Forestry, 36:5, 454-489, DOI: <a href="https://doi.org/10.1080/10549811.2017.1310049">10.1080/10549811.2017.1310049</a></li> <li>Kindt, R. 2020. WorldFlora: An R package for exact and fuzzy matching of plant names against the World Flora Online taxonomic backbone data. <em>Applications in Plant Sciences</em> 8(9): e11388. <a href="https://doi.org/10.1002/aps3.11388">https://doi.org/10.1002/aps3.11388</a></li> </ul> <p> </p> <p>The developments of this dataset and GlobUNT were supported by the Darwin Initiative to project DAREX001 of <a href="https://www.darwininitiative.org.uk/project/DAREX001/"><em>Developing a Global Biodiversity Standard certification for tree-planting and restoration</em></a>.</p>
TreeGOER 2024 Expansion: Expansion with additional tree and bamboo species identified via the World Checklist of Vascular Plants
<p>The database provides globally observed environmental ranges for an additional list of species not included in the <a href="https://zenodo.org/records/7922927"><strong>TreeGOER database</strong></a>. Candidate species were identified via the <a href="https://powo.science.kew.org/about-wcvp"><strong>World Checklist of Vascular Plants</strong> (WCVP) version 11</a>. Many of the additional species were hybrids or bamboo species that were excluded from <strong>GlobalTreeSearch</strong>. Taxonomical details given in a separate file correspond to information provided by the WCVP, as well as information on the life form of each species. Field <em>n</em> in the taxonomical data sets shows the number of records used to provide range information for the expansion of TreeGOER.</p> <p>Tree species were filtered from the WCVP by selecting species records with an empty <em>acceptedNameUsageID</em> field (a field that refers to a current name if not empty) and afterwards filtering for records where the <em>lifeform_description</em> field contained one from the categories of <u>tree</u> (3580 candidate species for the TreeGOER 2024 expansion), shrub or <u>tree</u> (3129), scrambling shrub or <u>tree</u> (138), climbing shrub or <u>tree</u> (58), succulent shrub or <u>tree</u> (40), succulent <u>tree</u> (37), scrambling <u>tree</u> (32), liana or <u>tree</u> (6), , tuberous <u>tree (3)</u>, tuberous shrub or <u>tree</u> (3), semisucculent <u>tree</u> (2), or semisucculent shrub or <u>tree</u> (3)</p> <p>Species that could <strong><u>not</u></strong> be matched with the <a href="https://tools.bgci.org/global_tree_search.php">GlobalTreeSearch database (version 1.7)</a> were candidates for the expansion of species documented in TreeGOER. Standardization to the WCVP was achieved via the <a href="https://bsapubs.onlinelibrary.wiley.com/doi/full/10.1002/aps3.11388">WorldFlora R package</a>, using the same scripts available in this Rpub: . <a href="https://rpubs.com/Roeland-KINDT/1134151">https://rpubs.com/Roeland-KINDT/1134151</a>.</p> <p>Occurrence data were obtained from the <strong>Global Biodiversity Information Facility</strong> via the following downloads. Downloads were facilitated by prior identification of the <strong>GBIF usageKey</strong> via the <a href="https://docs.ropensci.org/rgbif/reference/name_backbone.html">rgbif::name_backbone</a> function, afterwards filtering records that matched with a current species name in the GBIF backbone taxonomy, using package <a href="https://cran.r-project.org/package=rgbif">rgbif</a> version 3.7-9.</p> <ul> <li>batch 1: GBIF.org (27 March 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.upqqve">https://doi.org/10.15468/dl.upqqve</a></li> <li>batch 2: GBIF.org (27 March 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.fhqdpg">https://doi.org/10.15468/dl.fhqdpg</a></li> <li>batch 3: GBIF.org (27 March 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.w3k3n7">https://doi.org/10.15468/dl.w3k3n7</a></li> <li>batch 4: GBIF.org (27 March 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.xqp7qg">https://doi.org/10.15468/dl.xqp7qg</a></li> <li>batch 5: GBIF.org (27 March 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.t92qsg">https://doi.org/10.15468/dl.t92qsg</a></li> <li>batch 6: GBIF.org (27 March 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.7ug5z5">https://doi.org/10.15468/dl.7ug5z5</a></li> <li>batch 7: GBIF.org (27 March 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.8tp9p8">https://doi.org/10.15468/dl.8tp9p8</a></li> <li>batch 8: GBIF.org (27 March 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.ewdj7m">https://doi.org/10.15468/dl.ewdj7m</a></li> <li>batch 9: GBIF.org (27 March 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.gccja8">https://doi.org/10.15468/dl.gccja8</a></li> <li>batch 10: GBIF.org (27 March 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.jg7gzs">https://doi.org/10.15468/dl.jg7gzs</a></li> <li>batch 11: GBIF.org (27 March 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.6gww7b">https://doi.org/10.15468/dl.6gww7b</a></li> <li>batch 12: GBIF.org (27 March 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.9h8axh">https://doi.org/10.15468/dl.9h8axh</a></li> <li>batch 13: GBIF.org (27 March 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.mswf23">https://doi.org/10.15468/dl.mswf23</a></li> </ul> <p> </p> <p>For bamboo species, identified by a similar process as documented above but now filtering in the WCVP for the lifeform of <u>bamboo</u>, occurrence data were obtained from the Global Biodiversity Information Facility via the following downloads:</p> <ul> <li>batch 1: GBIF.org (08 April 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.6xt5qu">https://doi.org/10.15468/dl.6xt5qu</a></li> <li>batch 2: GBIF.org (08 April 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.tdmva4">https://doi.org/10.15468/dl.tdmva4</a></li> <li>batch 3: GBIF.org (08 April 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.u2gpxv">https://doi.org/10.15468/dl.u2gpxv</a></li> </ul> <p> </p> <p>After downloading the GBIF occurrence data sets, the same procedures were used to calculate the globally observed environmental ranges as in the TreeGOER database which have been described by Kindt, R. (2023). <strong>TreeGOER: A database with globally observed environmental ranges for 48,129 tree species</strong>. Global Change Biology, 00, 1–16. <a href="https://onlinelibrary.wiley.com/doi/10.1111/gcb.16914">https://onlinelibrary.wiley.com/doi/10.1111/gcb.16914</a>. </p> <p> </p> <p>A new check for the availability of species observations was made also for species listed in the <a href="https://worldagroforestry.org/output/globalusefulnativetrees"><strong>GlobalUsefulNativeTrees database</strong></a>, but not in TreeGOER. Taxonomical details for these species are given as a 'set 2' in the database.</p> <p>Downloads from the Global Biodiversity Information Facility were:</p> <ul> <li>batch 1: GBIF.org (04 April 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.ajwegx">https://doi.org/10.15468/dl.ajwegx</a></li> <li>batch 2: GBIF.org (04 April 2024) GBIF Occurrence Download <a href="https://doi.org/10.15468/dl.hxk5be">https://doi.org/10.15468/dl.hxk5be</a></li> </ul> <p> </p> <p>Version 2024.06 included a new field in the Tmo10 zones files of 'A18' that flags 717 species that occur in zones where all months have a mininum temperature of 18 degrees or above, using similar methods as the 2024.06 version of TreeGOER.</p> <p> </p> <p>The development of the <strong>TreeGOER 2024 Expansion</strong> was supported by the <strong>Darwin Initiative</strong> to project DAREX001 of <em>Developing a Global Biodiversity Standard certification for tree-planting and restoration</em>, by <strong>Norway’s International Climate and Forest Initiative through the Royal Norwegian Embassy in Ethiopia</strong> to the <em>Provision of Adequate Tree Seed Portfolio</em> project in Ethiopia, by the <strong>Green Climate Fund</strong> through the IUCN-led <em>Transforming the Eastern Province of Rwanda through Adaptation</em> project and through the <em>Readiness proposal on Climate Appropriate Portfolios of Tree Diversity for Burkina Faso</em>, by the <strong>Bezos Earth Fund</strong> to the <em>Bezos Quality Tree Seed for Africa in Kenya and Rwanda</em> project and by the <strong>German International Climate Initiative (IKI)</strong> to the regional tree seed programme on <em>The Right Tree for the Right Place for the Right Purpose in Africa</em>. When using <strong>TreeGOER 2024 Expansion</strong> in your work, cite the publication (Kindt <a href="https://onlinelibrary.wiley.com/doi/10.1111/gcb.16914">2023</a>) as well as this repository using the DOI (<a href="../doi/10.5281/zenodo.11208040">https://zenodo.org/doi/10.5281/zenodo.11208040</a>).</p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p>
African wood density database with matches to the taxonomic backbone data sets of World Flora Online (version 2023.12) and the World Checklist of Vascular Plants (version 11)
<p>The <strong><span>African Wood Density Database </span></strong><span>provides air-dry wood density data for over 750 tree species grown in Africa.</span></p> <p>This archive provides taxonomic matches with recent versions of <strong>World Flora Online</strong> (WFO; <a href="../records/10425161">version 2023.12 downloaded from Zenodo</a>; Borch et al. <a href="https://onlinelibrary.wiley.com/doi/10.1002/tax.12373">2020</a>) and the <strong>World Checklist of Vascular Plants</strong> (WCVP; <a href="https://sftp.kew.org/pub/data-repositories/WCVP/Archive/">version 11 downloaded from the Kew data depository</a>; Govaerts et al. <a href="https://doi.org/10.1038/s41597-021-00997-6">2021</a>). Matching was done via the <strong>WorldFlora</strong> package (<a href="https://cran.r-project.org/package=WorldFlora">version 1.14-3</a>; Kindt <a href="https://bsapubs.onlinelibrary.wiley.com/doi/full/10.1002/aps3.11388">2020</a>), using similar scripts as documented in this Rpub: <a href="https://rpubs.com/Roeland-KINDT/1134151">https://rpubs.com/Roeland-KINDT/1134151</a>.</p> <p> </p> <ul> <li><span>Carsan, S. Orwa, C. Harwood, C. Kindt, R. Stroebel, A. Neufeldt, H. and Jamnadass, R. 2012. African Wood Density Database. World Agroforestry Centre, Nairobi. <a href="https://apps.worldagroforestry.org/treesnmarkets/wood/">https://apps.worldagroforestry.org/treesnmarkets/wood/#</a> </span></li> <li><span>Borsch, T., Berendsohn, W., Dalcin, E., Delmas, M., Demissew, S., Elliott, A., Fritsch, P., Fuchs, A., Geltman, D., Güner, A., Haevermans, T., Knapp, S., le Roux, M.M., Loizeau, P.-A., Miller, C., Miller, J., Miller, J.T., Palese, R., Paton, A., Parnell, J., Pendry, C., Qin, H.-N., Sosa, V., Sosef, M., von Raab-Straube, E., Ranwashe, F., Raz, L., Salimov, R., Smets, E., Thiers, B., Thomas, W., Tulig, M., Ulate, W., Ung, V., Watson, M., Jackson, P.W. and Zamora, N. (2020), World Flora Online: Placing taxonomists at the heart of a definitive and comprehensive global resource on the world's plants. TAXON, 69: 1311-1341. <a href="https://doi.org/10.1002/tax.12373">https://doi.org/10.1002/tax.12373</a></span></li> <li><span>Govaerts, R., Nic Lughadha, E., Black, N. <em>et al.</em> The World Checklist of Vascular Plants, a continuously updated resource for exploring global plant diversity. <em>Sci Data</em> <strong>8</strong>, 215 (2021). <a href="https://doi.org/10.1038/s41597-021-00997-6">https://doi.org/10.1038/s41597-021-00997-6</a></span></li> <li><span>Kindt, R. 2020. WorldFlora: An R package for exact and fuzzy matching of plant names against the World Flora Online taxonomic backbone data. <em>Applications in Plant Sciences</em> 8(9): e11388. <a href="https://doi.org/10.1002/aps3.11388">https://doi.org/10.1002/aps3.11388</a></span></li> </ul> <p> </p> <p>Original funding for the database was provided <span>by the Carbon Benefits Project (CBP) supported by The Global Environment Facility (GEF). Development of the 2024 version </span>was supported by the <strong>Darwin Initiative</strong> to project DAREX001 of <em>Developing a Global Biodiversity Standard certification for tree-planting and restoration</em>, by <strong>Norway’s International Climate and Forest Initiative through the Royal Norwegian Embassy in Ethiopia</strong> to the <em>Provision of Adequate Tree Seed Portfolio</em> project in Ethiopia, by the <strong>Green Climate Fund</strong> through the IUCN-led <em>Transforming the Eastern Province of Rwanda through Adaptation</em> project and through the <em>Readiness proposal on Climate Appropriate Portfolios of Tree Diversity for Burkina Faso</em>, by the <strong>Bezos Earth Fund</strong> to the <em>Bezos Quality Tree Seed for Africa in Kenya and Rwanda</em> project and by the <strong>German International Climate Initiative (IKI)</strong> to the regional tree seed programme on <em>The Right Tree for the Right Place for the Right Purpose in Africa</em>. When using <strong>African Wood Density database</strong> in your work, cite the 2012 version (Carsan et al. <a href="https://apps.worldagroforestry.org/treesnmarkets/wood/">2012</a>) as well as this repository using the DOI.</p>
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
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OpenNeuro
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