{ "type": "genome", "identifier": "GCA_902797635.1", "organism": "uncultured Spirochaetaceae bacterium", "title": "uncultured Spirochaetaceae bacterium", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "THE ROSLIN INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCA_902797635.1", "bioproject": "PRJEB31266", "biosample": "SAMEA6152429", "wgs_master": "CADBTP000000000.1", "refseq_category": "na", "taxid": "201186", "species_taxid": "201186", "organism_name": "uncultured Spirochaetaceae bacterium", "infraspecific_name": "", "isolate": "RUG14291", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/17", "asm_name": "Rumen uncultured genome RUG14291", "submitter": "THE ROSLIN INSTITUTE", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/797/635/GCA_902797635.1_Rumen_uncultured_genome_RUG14291", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-02-17", "dateModified": "2020-02-17", "datePublished": "2020-02-17", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Spirochaetaceae bacterium" ], "sample_taxid": [ "201186" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom" ], "sample_host_location_id": [], "data_size": "0.759 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.98, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2721139", "Number of Sequences": "130", "Longest Sequences (bp)": "117082", "N50 (bp)": "33209", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "55.4", "Number of CDSs": "2167", "Average Protein Length": "359.8", "Coding Ratio (%)": "86.0", "Number of rRNAs": "0", "Number of tRNAs": "56", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Treponema saccharophilum", "strain": "strain=DSM 2985", "accession": "GCA_000255555.2", "taxid": 165, "species_taxid": 165, "relation_to_type": "type", "validated": true, "ani": 98.9503, "matched_fragments": 810, "total_fragments": 838, "ani_threshold": 95, "status": "conclusive" } ], "cc_result": { "completeness": 95.98, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000255555.1", "gtdb_species": "s__Treponema_D saccharophilum", "ani": 98.9503, "matched_fragments": 810, "total_fragments": 838, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.00", "min_intra_species_ani": "98.95", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCA_017934745.1", "gtdb_species": "s__Treponema_D sp017934745", "ani": 78.9628, "matched_fragments": 329, "total_fragments": 838, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.63", "min_intra_species_ani": "96.63", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.83", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_017525605.1", "gtdb_species": "s__Treponema_D sp017525605", "ani": 78.0825, "matched_fragments": 294, "total_fragments": 838, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.48", "min_intra_species_ani": "98.48", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_017412405.1", "gtdb_species": "s__Treponema_D sp017412405", "ani": 76.8199, "matched_fragments": 111, "total_fragments": 838, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_002404895.1", "gtdb_species": "s__Treponema_D sp002404895", "ani": 76.7488, "matched_fragments": 83, "total_fragments": 838, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_017450845.1", "gtdb_species": "s__Treponema_D sp017450845", "ani": 76.3213, "matched_fragments": 63, "total_fragments": 838, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.578, "cell_length": 0.836, "doubling_h": 0.838, "growth_tmp": 34.012, "optimum_tmp": 35.246, "optimum_ph": 8.037, "genome_size": 3224817.721, "gc_content": 49.081, "coding_genes": 2851.672, "rRNA16S_genes": 2.333, "tRNA_genes": 45.545, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.933, "range_salinity": 1.0, "facultative_respiration": 0.046, "anaerobic_respiration": 0.953, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 0.916, "thermophilic_range_tmp": 0.083, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 0.107, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.035, "spiral_cell_shape": 0.857 }, "_gtdb_taxon": [ "d__Bacteria", "p__Spirochaetota", "c__Spirochaetia", "o__Treponematales", "f__Treponemataceae", "g__Treponema_D", "s__Treponema_D saccharophilum" ], "_genome_taxon": [ "uncultured", "Spirochaetaceae", "bacterium", "d__Bacteria", "p__Spirochaetota", "c__Spirochaetia", "o__Treponematales", "f__Treponemataceae", "g__Treponema_D", "s__Treponema_D saccharophilum", "Bacteria", "Spirochaetota", "Spirochaetia", "Treponematales", "Treponemataceae", "Treponema", "D", "Treponema", "D", "saccharophilum" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }