{"links":{"first":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues?page=1","last":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues?page=1","next":null,"prev":null},"data":[{"type":"genome-catalogues","id":"barley-rhizosphere-v2-0","attributes":{"name":"Barley Rhizosphere v2.0","description":"The catalogue comprises MAGs and isolate genomes from six studies, including genomes from the [Genome-Annotated Bacterial Collection of the Barley Rhizosphere Microbiota](https://journals.asm.org/doi/10.1128/mra.01064-21) and MAGs generated from [Alegria Terrazas et al., 2022](https://doi.org/10.1128/msystems.00934-22). For a complete list of studies, please see the [README](https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/barley-rhizosphere/v2.0/README_v2.0.txt).","protein-catalogue-name":"Barley Rhizosphere protein catalogue v2.0","protein-catalogue-description":"Protein genome sequences from genomes in the barley rhizosphere catalogue v2.0 are available on [the FTP site](https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/barley-rhizosphere/v2.0/protein_catalogue/).","genome-count":86,"unclustered-genome-count":103,"version":"2.0","last-update":"2025-12-12T16:04:34","pipeline-version-tag":"v3.0.0","ftp-url":"https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/barley-rhizosphere/v2.0/","catalogue-type":"prokaryotes","catalogue-biome-label":"Barley Rhizosphere","other-stats":{"Total proteins":"430,545","Clusters with pan-genomes":10,"Clusters with isolate genomes":29,"Proteins clustered at 90% amino acid identity":"311,385"}},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Plants:Rhizosphere"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Plants:Rhizosphere"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/barley-rhizosphere-v2-0/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/barley-rhizosphere-v2-0/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/barley-rhizosphere-v2-0"}},{"type":"genome-catalogues","id":"chicken-gut-v1-0-1","attributes":{"name":"Chicken Gut v1.0.1","description":"","protein-catalogue-name":"Chicken Gut v1.0.1","protein-catalogue-description":"Protein coding sequences from genomes in the chicken gut catalogue v1.0.1 are available on the [FTP site](https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/chicken-gut/v1.0.1/protein_catalogue/)\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":1322,"unclustered-genome-count":13386,"version":"1.0.1","last-update":"2024-01-23T13:45:00","pipeline-version-tag":"v2.0.0","ftp-url":"https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/chicken-gut/v1.0.1","catalogue-type":"prokaryotes","catalogue-biome-label":"Chicken Gut","other-stats":null},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Birds:Digestive system"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Birds:Digestive%20system"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/chicken-gut-v1-0-1/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/chicken-gut-v1-0-1/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/chicken-gut-v1-0-1"}},{"type":"genome-catalogues","id":"cow-rumen-v1-0-1","attributes":{"name":"Cow Rumen v1.0.1","description":"","protein-catalogue-name":"Cow rumen protein catalogue v1.0.1","protein-catalogue-description":"Protein coding sequences from genomes in the cow rumen catalogue v1.0.1 are available on [the FTP site](https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/cow-rumen/v1.0.1/protein_catalogue/).\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":2729,"unclustered-genome-count":5578,"version":"1.0.1","last-update":"2024-01-23T13:48:00","pipeline-version-tag":"v1.2.1","ftp-url":"https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/cow-rumen/v1.0.1","catalogue-type":"prokaryotes","catalogue-biome-label":"Cow Rumen","other-stats":null},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Mammals:Digestive system:Stomach:Rumen"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Mammals:Digestive%20system:Stomach:Rumen"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/cow-rumen-v1-0-1/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/cow-rumen-v1-0-1/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/cow-rumen-v1-0-1"}},{"type":"genome-catalogues","id":"honeybee-gut-v1-0-1","attributes":{"name":"Honeybee gut v1.0.1","description":"Genomes catalogue for honeybee gut biome","protein-catalogue-name":"Honeybee gut protein catalogue v1.0.1","protein-catalogue-description":"Protein coding sequences from genomes in the honeybee gut catalogue v1.0.1 are available on [the FTP site](https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/honeybee-gut/v1.0.1/protein_catalogue/).\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":154,"unclustered-genome-count":627,"version":"1.0.1","last-update":"2024-01-23T13:44:00","pipeline-version-tag":"v2.1.1","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/honeybee-gut/v1.0.1/","catalogue-type":"prokaryotes","catalogue-biome-label":"Honeybee Gut","other-stats":null},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Insecta:Digestive system"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Insecta:Digestive%20system"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/honeybee-gut-v1-0-1/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/honeybee-gut-v1-0-1/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/honeybee-gut-v1-0-1"}},{"type":"genome-catalogues","id":"human-gut-v2-0-2","attributes":{"name":"Unified Human Gastrointestinal Genome (UHGG) v2.0.2","description":"This is an update to the UHGG1.0 catalogue described by [Almeida et al., Nature Biotechnol (2021)](https://www.nature.com/articles/s41587-020-0603-3).","protein-catalogue-name":"UHGP v2.0.2","protein-catalogue-description":"Protein coding sequences from genomes in the UHGG2.0.2 are available on [the FTP](https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/human-gut/v2.0.2/protein_catalogue/) as the UHGP v2.0.2 protein catalogue.\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":4744,"unclustered-genome-count":289232,"version":"2.0.2","last-update":"2024-01-23T13:48:00","pipeline-version-tag":"v1.2.1","ftp-url":"https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/human-gut/v2.0.2","catalogue-type":"prokaryotes","catalogue-biome-label":"Human Gut","other-stats":null},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Human:Digestive system:Large intestine"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Human:Digestive%20system:Large%20intestine"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/human-gut-v2-0-2/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/human-gut-v2-0-2/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/human-gut-v2-0-2"}},{"type":"genome-catalogues","id":"human-oral-v1-0-1","attributes":{"name":"Human Oral v1.0.1","description":"","protein-catalogue-name":"Human oral protein catalogue v1.0.1","protein-catalogue-description":"Protein coding sequences from genomes in the Human Oral catalogue v1.0.1 are available on [the FTP site](https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/human-oral/v1.0.1/protein_catalogue/).\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":452,"unclustered-genome-count":1225,"version":"1.0.1","last-update":"2024-01-23T13:46:00","pipeline-version-tag":"v1.2.1","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/human-oral/v1.0.1","catalogue-type":"prokaryotes","catalogue-biome-label":"Human Oral","other-stats":null},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Human:Digestive system:Oral"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Human:Digestive%20system:Oral"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/human-oral-v1-0-1/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/human-oral-v1-0-1/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/human-oral-v1-0-1"}},{"type":"genome-catalogues","id":"human-skin-v1-0","attributes":{"name":"Human Skin v1.0","description":"Human Skin v1.0 catalogue includes 4,361 MAGs and 250 isolate genomes generated as part of the Skin Microbial Genome Collection project ([Saheb Kashaf et al., 2022](https://pubmed.ncbi.nlm.nih.gov/34952941/)). Together, these genomes form 579 species-level clusters. For more information, please refer to the [README](http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/human-skin/v1.0/README_v1.0.txt).","protein-catalogue-name":"Human skin protein catalogue v1.0","protein-catalogue-description":"Protein genome sequences from genomes in the Human Skin catalogue v1.0 are available on the [FTP site](https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/human-skin/v1.0/protein_catalogue/).\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":579,"unclustered-genome-count":4611,"version":"1.0","last-update":"2025-07-25T15:03:37","pipeline-version-tag":"v2.5.0","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/human-skin/v1.0/","catalogue-type":"prokaryotes","catalogue-biome-label":"Human Skin","other-stats":{"Total proteins":"9,654,691","Clusters with pan-genomes":399,"Clusters with isolate genomes":77}},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Human:Skin"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Human:Skin"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/human-skin-v1-0/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/human-skin-v1-0/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/human-skin-v1-0"}},{"type":"genome-catalogues","id":"human-vaginal-v1-0","attributes":{"name":"Human Vaginal v1.0","description":null,"protein-catalogue-name":"Human vaginal protein catalogue v1.0","protein-catalogue-description":"Protein coding sequences from genomes in the human vaginal catalogue v1.0 are available on [the FTP site](http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/human-vaginal/v1.0/).\n\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":280,"unclustered-genome-count":618,"version":"1.0","last-update":"2023-08-15T15:16:02.611734","pipeline-version-tag":"v2.1.0","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/human-vaginal/v1.0","catalogue-type":"prokaryotes","catalogue-biome-label":"Human Vaginal","other-stats":null},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Human:Reproductive system:Vagina"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Human:Reproductive%20system:Vagina"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/human-vaginal-v1-0/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/human-vaginal-v1-0/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/human-vaginal-v1-0"}},{"type":"genome-catalogues","id":"maize-rhizosphere-v1-0","attributes":{"name":"Maize Rhizosphere v1.0","description":"The catalogue comprises MAGs and isolate genomes from 84 studies, including genomes from [Grubbs et al., 2017](https://journals.asm.org/doi/10.1128/msystems.00040-17) and MAGs generated from [Wang et al., 2022](https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2021.798476/full) and [Zhang et al., 2024](https://nph.onlinelibrary.wiley.com/doi/full/10.1111/nph.19653). For a complete list of studies, please see the [README](http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/maize-rhizosphere/v1.0/README_v1.0.txt).","protein-catalogue-name":"Maize Rhizosphere protein catalogue v1.0","protein-catalogue-description":"Protein genome sequences from genomes in the maize rhizosphere catalogue v1.0 are available on [the FTP site](https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/maize-rhizosphere/v1.0/protein_catalogue/).\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":336,"unclustered-genome-count":431,"version":"1.0","last-update":"2025-08-29T11:02:36","pipeline-version-tag":"v2.5.0","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/maize-rhizosphere/v1.0","catalogue-type":"prokaryotes","catalogue-biome-label":"Maize Rhizosphere","other-stats":{"Total proteins":"1,777,215","Clusters with pan-genomes":43,"Clusters with isolate genomes":20}},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Plants:Rhizosphere"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Plants:Rhizosphere"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/maize-rhizosphere-v1-0/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/maize-rhizosphere-v1-0/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/maize-rhizosphere-v1-0"}},{"type":"genome-catalogues","id":"marine-eukaryotes-vbeta","attributes":{"name":"Marine Eukaryotes vbeta","description":"This is a beta release of a eukaryotic component of the Marine catalogue.","protein-catalogue-name":"Marine Eukaryotes Protein Catalogue (Beta)","protein-catalogue-description":"Protein genome sequences from genomes in the marine eukaryotes beta catalogue are available on the FTP site.\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":16,"unclustered-genome-count":249,"version":"beta","last-update":"2025-03-24T12:39:38","pipeline-version-tag":"v3.0.0dev","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/marine-eukaryotes/vbeta/","catalogue-type":"eukaryotes","catalogue-biome-label":"Marine","other-stats":{"Total proteins":"1,895,558","Clusters with isolate genomes":0,"Clusters with multiple genomes":16}},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Environmental:Aquatic:Marine"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Environmental:Aquatic:Marine"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/marine-eukaryotes-vbeta/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/marine-eukaryotes-vbeta/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/marine-eukaryotes-vbeta"}},{"type":"genome-catalogues","id":"marine-sediment-v1-0","attributes":{"name":"Marine Sediment v1.0","description":"The Marine Sediment v1.0 catalogue includes 6,158 species level clusters of which 5,310 are bacterial and 848 are archaeal. The catalogue contains MAGs and isolates form 820 public studies collected from ENA and NCBI (including [MarDB](https://sfb.mmp2.sigma2.no/mardb/)).","protein-catalogue-name":"Marine Sediment protein catalogue v1.0","protein-catalogue-description":"Protein genome sequences from genomes in the marine sediment catalogue v1.0 are available on [the FTP site](https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/marine_sediment/v1.0/protein_catalogue/).\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":6158,"unclustered-genome-count":10126,"version":"1.0","last-update":"2025-11-19T16:32:26","pipeline-version-tag":"v2.5.0","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/marine_sediment/v1.0","catalogue-type":"prokaryotes","catalogue-biome-label":"Marine Sediment","other-stats":{"Total proteins":"26,544,089","Clusters with pan-genomes":1380,"Clusters with isolate genomes":306}},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Environmental:Aquatic:Marine:Sediment"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Environmental:Aquatic:Marine:Sediment"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/marine-sediment-v1-0/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/marine-sediment-v1-0/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/marine-sediment-v1-0"}},{"type":"genome-catalogues","id":"marine-v2-0","attributes":{"name":"Marine v2.0","description":"The Marine v2.0 catalogue includes 13,223 species level clusters of which 12,133 are bacterial, 1,087 are archaeal, and three are taxonomically unclassified.","protein-catalogue-name":"Marine protein catalogue v2.0","protein-catalogue-description":"Protein genome sequences from genomes in the marine catalogue v2.0 are available on [the FTP site](http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/marine/v2.0/protein_catalogue).\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":13223,"unclustered-genome-count":50866,"version":"2.0","last-update":"2024-05-12T16:57:52","pipeline-version-tag":"v2.3.0","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/marine/v2.0/","catalogue-type":"prokaryotes","catalogue-biome-label":"Marine","other-stats":null},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Environmental:Aquatic:Marine"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Environmental:Aquatic:Marine"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/marine-v2-0/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/marine-v2-0/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/marine-v2-0"}},{"type":"genome-catalogues","id":"mouse-gut-v1-0","attributes":{"name":"Mouse Gut v1.0","description":"","protein-catalogue-name":"Mouse gut protein catalogue v1.0","protein-catalogue-description":"Protein coding sequences from genomes in the mouse gut catalogue v1.0 are available on [the FTP site](http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/mouse_gut/v1.0/).\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":2847,"unclustered-genome-count":112951,"version":"1.0","last-update":"2023-12-08T14:42:52","pipeline-version-tag":"v2.2.1","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/mouse-gut/v1.0","catalogue-type":"prokaryotes","catalogue-biome-label":"Mouse Gut","other-stats":null},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Mammals:Gastrointestinal 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50% amino acid identity.","genome-count":178,"unclustered-genome-count":254,"version":"2.0","last-update":"2023-04-26T13:32:05","pipeline-version-tag":"v2.0.0","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/non-model-fish-gut/v2.0/","catalogue-type":"prokaryotes","catalogue-biome-label":"Non Model Fish Gut","other-stats":null},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Fish:Digestive system"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Fish:Digestive%20system"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/non-model-fish-gut-v2-0/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/non-model-fish-gut-v2-0/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/non-model-fish-gut-v2-0"}},{"type":"genome-catalogues","id":"pig-gut-v1-0","attributes":{"name":"Pig Gut v1.0","description":"","protein-catalogue-name":"Pig gut protein catalogue v1.0","protein-catalogue-description":"Protein coding sequences from genomes in the pig gut catalogue v1.0 are available on [the FTP site](http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/pig-gut/v1.0/protein_catalogue).\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":1376,"unclustered-genome-count":3972,"version":"1.0","last-update":"2022-11-29T09:36:43","pipeline-version-tag":"v1.3.1","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/pig-gut/v1.0","catalogue-type":"prokaryotes","catalogue-biome-label":"Pig Gut","other-stats":null},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Mammals:Gastrointestinal tract"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Mammals:Gastrointestinal%20tract"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/pig-gut-v1-0/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/pig-gut-v1-0/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/pig-gut-v1-0"}},{"type":"genome-catalogues","id":"sheep-rumen-v1-0","attributes":{"name":"Sheep rumen v1.0","description":"","protein-catalogue-name":"Sheep rumen protein catalogue v1.0","protein-catalogue-description":"Protein genome sequences from genomes in the sheep rumen catalogue v1.0 are available on [the FTP site](http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/sheep-rumen/v1.0/protein_catalogue).\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":2172,"unclustered-genome-count":2904,"version":"1.0","last-update":"2024-08-16T10:46:15","pipeline-version-tag":"v2.4.0","ftp-url":"https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/sheep-rumen/v1.0/","catalogue-type":"prokaryotes","catalogue-biome-label":"Sheep Rumen","other-stats":null},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Mammals:Digestive system:Stomach:Rumen"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Mammals:Digestive%20system:Stomach:Rumen"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/sheep-rumen-v1-0/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/sheep-rumen-v1-0/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/sheep-rumen-v1-0"}},{"type":"genome-catalogues","id":"soil-v1-0","attributes":{"name":"Soil v1.0","description":"The catalogue comprises MAGs and isolate genomes from 21 studies, including [the SMAG catalogue](https://www.nature.com/articles/s41467-023-43000-z) and the genomes from [the Microflora Danica project](https://www.biorxiv.org/content/10.1101/2024.12.19.629313v1.full). For a complete list of studies, please see the [README](http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/soil/v1.0/README_v1.0.txt).","protein-catalogue-name":"Soil protein catalogue v1.0","protein-catalogue-description":"Protein genome sequences from genomes in the soil catalogue v1.0 are available on [the FTP site](https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/soil/v1.0/protein_catalogue/).\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":19472,"unclustered-genome-count":20908,"version":"1.0","last-update":"2025-07-16T15:09:19","pipeline-version-tag":"v2.5.0","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/soil/v1.0","catalogue-type":"prokaryotes","catalogue-biome-label":"Soil","other-stats":{"Total proteins":"78,181,047","Clusters with pan-genomes":671,"Clusters with isolate genomes":188}},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Environmental:Terrestrial:Soil"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Environmental:Terrestrial:Soil"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/soil-v1-0/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/soil-v1-0/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/soil-v1-0"}},{"type":"genome-catalogues","id":"tomato-rhizosphere-v1-0","attributes":{"name":"Tomato Rhizosphere v1.0","description":"The catalogue comprises MAGs and isolate genomes from 89 studies, including MAGs generated from [Yin et al., 2022](https://microbiomejournal.biomedcentral.com/articles/10.1186/s40168-022-01413-w), [Oyserman et al., 2022](https://www.nature.com/articles/s41467-022-30849-9) and [Wang et al., 2022](https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2021.798476/full). For a complete list of studies, please see the [README](http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/tomato-rhizosphere/v1.0/README_v1.0.txt).","protein-catalogue-name":"Tomato Rhizosphere protein catalogue v1.0","protein-catalogue-description":"Protein genome sequences from genomes in the tomato rhizosphere catalogue v1.0 are available on [the FTP site](https://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/tomato-rhizosphere/v1.0/protein_catalogue/).\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":579,"unclustered-genome-count":666,"version":"1.0","last-update":"2025-08-29T12:31:09","pipeline-version-tag":"v2.5.0","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/tomato-rhizosphere/v1.0","catalogue-type":"prokaryotes","catalogue-biome-label":"Tomato Rhizosphere","other-stats":{"Total proteins":"2,568,128","Clusters with pan-genomes":47,"Clusters with isolate genomes":33}},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Plants:Rhizosphere"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Plants:Rhizosphere"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/tomato-rhizosphere-v1-0/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/tomato-rhizosphere-v1-0/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/tomato-rhizosphere-v1-0"}},{"type":"genome-catalogues","id":"zebrafish-fecal-v1-0","attributes":{"name":"Zebrafish Fecal v1.0","description":"","protein-catalogue-name":"Zebrafish fecal protein catalogue v1.0","protein-catalogue-description":"Protein coding sequences from genomes in the Zebrafish fecal catalogue v1.0 are available on [the FTP site](http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/zebrafish-fecal/v1.0/protein_catalogue).\r\n\r\nThe sequences are available clustered at 100%, 95%, 90% and 50% amino acid identity.","genome-count":79,"unclustered-genome-count":101,"version":"1.0","last-update":"2022-11-28T15:52:24","pipeline-version-tag":"v1.3.1","ftp-url":"http://ftp.ebi.ac.uk/pub/databases/metagenomics/mgnify_genomes/zebrafish-fecal/v1.0","catalogue-type":"prokaryotes","catalogue-biome-label":"Zebrafish Fecal","other-stats":null},"relationships":{"biome":{"data":{"type":"biomes","id":"root:Host-associated:Fish:Digestive system:Intestine"},"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Fish:Digestive%20system:Intestine"}},"genomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/zebrafish-fecal-v1-0/genomes"}},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/zebrafish-fecal-v1-0/downloads"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/genome-catalogues/zebrafish-fecal-v1-0"}}],"meta":{"pagination":{"page":1,"pages":1,"count":19}}}