AtlantECO-KER-DK-3 Dataset for the Article "Nitrogen fixation rates increase with diazotroph richness in the global ocean" KER category Digital knowledge KER topic ecosystem structure & functions Target user science
AtlantECO-KER-DK-3 Data and code for publication "Drivers of Surface Ocean Acidity Extremes in an Earth System Model" KER category Digital knowledge KER topic ecosystem stressors & drivers Target user science
AtlantECO-KER-DK-3 Data and code for "Extreme and compound ocean events are key drivers of projected low pelagic fish biomass" KER category Digital knowledge KER topic ecosystem stressors & drivers Target user science
AtlantECO-KER-DK-3 Efficient biological carbon export to the mesopelagic ocean induced by submesoscale fronts KER category Digital knowledge KER topic ecosystem structure & functions Target user science
AtlantECO-KER-DK-3 Dataset originating from various imaging devices used during the Tara Ocean Cruise and associated with the manuscript "Ubiquity of inverted 'gelatinous' ecosystem pyramids in the global ocean" KER category Digital knowledge KER topic ecosystem structure & functions Target user science
AtlantECO-KER-DK-3 Linking satellites to genes with machine learning to estimate phytoplankton community structure from space KER category Digital knowledge KER topic ecosystem structure & functions Target user science
AtlantECO-KER-DK-3 MGnify Catalogue of marine genomes This latest release (v2.0) of the marine catalogue contains data from 1628 studies, including genomes from major sampling expeditions such as Tara Oceans, Malaspina, GO-Ship, and Geotraces, amongst others. An important advancement in this version of the catalogue is that it is representative of the marine genomes available in the public archives at the time of generation. It includes not only those generated and submitted by MGnify, but also MAGs generated by other groups and submitted to the INSDC, as well as isolate genomes (and MAGs) from marine data as curated by MarDB. All genomes undergo the same filtering for a quality score of QS50 (QS, quality score, defined as completeness - 5 x contamination) resulting in a total of 50,866 genomes (50,634 MAGs and 232 isolates) included in v2.0 of the MGnify Genomes marine catalogue. This catalogue was generated using v2.3.0 of the MGnify Genomes catalogue pipeline which is available on GitHub and WorkflowHub. Genomes are clustered into 13,223 species-level clusters, with a cluster representative genome defined for each. GTDB-Tk (Genome Taxonomy DataBase Toolkit) is used to assign a taxonomic rank to the clusters, allowing us to also understand the proportion of genomes within the catalogue which can be considered novel with respect to the current release of GTDB. As with all MGnify Genomes catalogues, the data is available to access and query both through the MGnify website as well as via the MGnify API. The catalogue can be browsed as a list of genomes, with the ability to filter on metadata fields, or a taxonomic tree providing access to individual cluster representative genome records. Within the individual genome records there are comprehensive genome statistics, summaries of annotations, and an interactive genome browser allowing interrogation of the various annotation tracks and their genomic context. All results files can be downloaded via HTTP or FTP from the catalogue directory. There are also two sequence-based search options that can be carried out via the website or API. The first is a COBS (COmpact Bit-sliced Signature index)-based query for searching gene sequences against the catalogues. The second is a kmer-based search using Sourmash to allow querying of whole genomes or sets of genomes against the catalogues. KER category Digital knowledge KER topic ecosystem structure & functions Target user science • industry
AtlantECO-KER-DK-3 Separation timescales of vertically migrating zooplankton and other (a)biotic materials in the Benguela system KER category Digital knowledge KER topic ecosystem structure & functions Target user science